2021-07-15T12:50:05,590 Created temporary directory: /tmp/pip-ephem-wheel-cache-qnqcvd_f 2021-07-15T12:50:05,593 Created temporary directory: /tmp/pip-req-tracker-rjb5tnz1 2021-07-15T12:50:05,593 Initialized build tracking at /tmp/pip-req-tracker-rjb5tnz1 2021-07-15T12:50:05,594 Created build tracker: /tmp/pip-req-tracker-rjb5tnz1 2021-07-15T12:50:05,594 Entered build tracker: /tmp/pip-req-tracker-rjb5tnz1 2021-07-15T12:50:05,595 Created temporary directory: /tmp/pip-wheel-ealg8x57 2021-07-15T12:50:05,626 1 location(s) to search for versions of sella: 2021-07-15T12:50:05,626 * https://pypi.org/simple/sella/ 2021-07-15T12:50:05,626 Fetching project page and analyzing links: https://pypi.org/simple/sella/ 2021-07-15T12:50:05,627 Getting page https://pypi.org/simple/sella/ 2021-07-15T12:50:05,629 Found index url https://pypi.org/simple 2021-07-15T12:50:05,726 Found link https://files.pythonhosted.org/packages/07/d7/b8cac4f2014a777cba9d7c030ce7df4fe72c52e144d7905df2e30d071f67/Sella-0.1.0.tar.gz#sha256=94f8f5e96bcd3b100de2d1f5a5b58f5e0fbcb856e44dfc43aebec4fc125d9613 (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 0.1.0 2021-07-15T12:50:05,727 Found link https://files.pythonhosted.org/packages/5f/c6/b186fd27c6eda8157bd453fc749c574420b7b3da8e425105a979a4751da8/Sella-0.1.1.tar.gz#sha256=a28b4efba00f0d158b9045bac5804636e3467b16d3bf2531ed1faaf00d993b00 (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 0.1.1 2021-07-15T12:50:05,727 Found link https://files.pythonhosted.org/packages/67/22/3f973084ce70e6522920dc0b63747c8fd28b26f8b25e4882a919a201b3d6/Sella-1.0.0.tar.gz#sha256=c4d7bc34efecfd6375ae33a666d16181f7aefc23ac1489ff50361d1e63e7f19a (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 1.0.0 2021-07-15T12:50:05,728 Found link https://files.pythonhosted.org/packages/14/d2/b1f6956ad3671d6fd2bee7309ca18bd31e40533fd88de3fdc79b236578b6/Sella-1.0.1.linux-x86_64.tar.gz#sha256=2365c1defa7801c22ea59adbbeada3546fa0eb12e255d86cfc4edc0f68fda671 (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 1.0.1.linux-x86_64 2021-07-15T12:50:05,729 Found link https://files.pythonhosted.org/packages/40/b2/fb171a30f83713fc2a74d17933d9b3939c46e6e4e9388d193adca295e879/Sella-1.0.2.linux-x86_64.tar.gz#sha256=adb7a7d5d5bac99d4330cc97258735b356d565da3abad0336b6941c7c35cf6b0 (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 1.0.2.linux-x86_64 2021-07-15T12:50:05,730 Found link https://files.pythonhosted.org/packages/30/c3/259660e33e390e0c47245c9e0fc467aaca6bb4f6820e5ea376499a77f699/Sella-1.0.3.linux-x86_64.tar.gz#sha256=f140d6e7f132756fd1132b9c4a2ed942de34152cfe5b92ec5b8590b7d6e82bbb (from https://pypi.org/simple/sella/) (requires-python:>=3.5), version: 1.0.3.linux-x86_64 2021-07-15T12:50:05,731 Found link https://files.pythonhosted.org/packages/cf/d3/8ca0910b72c65b5fdef1429e593eb7b9c481f45fc172d7445a6e4c72ebb9/Sella-2.0.0.tar.gz#sha256=6993e97c80cf6957223e2b316fb6cc91edf49798531974db75f204118d364a1a (from https://pypi.org/simple/sella/) (requires-python:>=3.6), version: 2.0.0 2021-07-15T12:50:05,732 Found link https://files.pythonhosted.org/packages/7a/58/693473370066f6ce728c2855063511b091011094d209660821399c782ed2/Sella-2.0.1.tar.gz#sha256=3e5bfa2f992fb4d3936a3f0b2d4874f75497b63a8b72b3d78214d01215abfacc (from https://pypi.org/simple/sella/) (requires-python:>=3.6), version: 2.0.1 2021-07-15T12:50:05,732 Found link https://files.pythonhosted.org/packages/aa/7f/c33567bd66442cb313428bc245af2e16cb72f3f231372a96af6d02d41c4f/Sella-2.0.2.tar.gz#sha256=f87b904fb8390570025ee0b83abacd24fdb5dc8504572103c956018b1b002448 (from https://pypi.org/simple/sella/) (requires-python:>=3.6), version: 2.0.2 2021-07-15T12:50:05,733 Skipping link: not a file: https://pypi.org/simple/sella/ 2021-07-15T12:50:05,753 Given no hashes to check 1 links for project 'sella': discarding no candidates 2021-07-15T12:50:05,773 Collecting sella==1.0.0 2021-07-15T12:50:05,775 Created temporary directory: /tmp/pip-unpack-9ny1tfx8 2021-07-15T12:50:06,447 Downloading Sella-1.0.0.tar.gz (855 kB) 2021-07-15T12:50:06,909 Added sella==1.0.0 from https://files.pythonhosted.org/packages/67/22/3f973084ce70e6522920dc0b63747c8fd28b26f8b25e4882a919a201b3d6/Sella-1.0.0.tar.gz#sha256=c4d7bc34efecfd6375ae33a666d16181f7aefc23ac1489ff50361d1e63e7f19a to build tracker '/tmp/pip-req-tracker-rjb5tnz1' 2021-07-15T12:50:06,910 Running setup.py (path:/tmp/pip-wheel-ealg8x57/sella_cdc506934cea4c408cca5cd6bc76cce1/setup.py) egg_info for package sella 2021-07-15T12:50:06,911 Created temporary directory: /tmp/pip-pip-egg-info-s17xqyve 2021-07-15T12:50:06,911 Running command python setup.py egg_info 2021-07-15T12:50:28,786 Error compiling Cython file: 2021-07-15T12:50:28,786 ------------------------------------------------------------ 2021-07-15T12:50:28,786 ... 2021-07-15T12:50:28,787 from libc.string cimport memset 2021-07-15T12:50:28,787 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,787 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,787 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,788 ^ 2021-07-15T12:50:28,788 ------------------------------------------------------------ 2021-07-15T12:50:28,788 sella/internal/int_classes.pyx:9:0: 'sella/utilities/blas.pxd' not found 2021-07-15T12:50:28,789 Error compiling Cython file: 2021-07-15T12:50:28,789 ------------------------------------------------------------ 2021-07-15T12:50:28,789 ... 2021-07-15T12:50:28,789 from libc.string cimport memset 2021-07-15T12:50:28,789 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,790 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,790 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,790 ^ 2021-07-15T12:50:28,790 ------------------------------------------------------------ 2021-07-15T12:50:28,791 sella/internal/int_classes.pyx:9:0: 'sella/utilities/blas/my_ddot.pxd' not found 2021-07-15T12:50:28,792 Error compiling Cython file: 2021-07-15T12:50:28,792 ------------------------------------------------------------ 2021-07-15T12:50:28,792 ... 2021-07-15T12:50:28,792 from libc.string cimport memset 2021-07-15T12:50:28,792 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,793 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,793 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,793 ^ 2021-07-15T12:50:28,793 ------------------------------------------------------------ 2021-07-15T12:50:28,794 sella/internal/int_classes.pyx:9:0: 'sella/utilities/blas/my_daxpy.pxd' not found 2021-07-15T12:50:28,795 Error compiling Cython file: 2021-07-15T12:50:28,795 ------------------------------------------------------------ 2021-07-15T12:50:28,795 ... 2021-07-15T12:50:28,795 from libc.string cimport memset 2021-07-15T12:50:28,795 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,796 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,796 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,796 ^ 2021-07-15T12:50:28,796 ------------------------------------------------------------ 2021-07-15T12:50:28,797 sella/internal/int_classes.pyx:9:0: 'sella/utilities/blas/my_dgemv.pxd' not found 2021-07-15T12:50:28,797 Error compiling Cython file: 2021-07-15T12:50:28,797 ------------------------------------------------------------ 2021-07-15T12:50:28,797 ... 2021-07-15T12:50:28,798 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,798 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,799 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,800 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,800 ^ 2021-07-15T12:50:28,800 ------------------------------------------------------------ 2021-07-15T12:50:28,800 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math.pxd' not found 2021-07-15T12:50:28,803 Error compiling Cython file: 2021-07-15T12:50:28,803 ------------------------------------------------------------ 2021-07-15T12:50:28,803 ... 2021-07-15T12:50:28,803 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,803 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,804 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,804 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,804 ^ 2021-07-15T12:50:28,804 ------------------------------------------------------------ 2021-07-15T12:50:28,804 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math/vec_sum.pxd' not found 2021-07-15T12:50:28,807 Error compiling Cython file: 2021-07-15T12:50:28,808 ------------------------------------------------------------ 2021-07-15T12:50:28,810 ... 2021-07-15T12:50:28,811 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,811 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,812 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,813 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,813 ^ 2021-07-15T12:50:28,813 ------------------------------------------------------------ 2021-07-15T12:50:28,813 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math/mgs.pxd' not found 2021-07-15T12:50:28,813 Error compiling Cython file: 2021-07-15T12:50:28,814 ------------------------------------------------------------ 2021-07-15T12:50:28,816 ... 2021-07-15T12:50:28,817 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,819 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,819 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,819 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,819 ^ 2021-07-15T12:50:28,819 ------------------------------------------------------------ 2021-07-15T12:50:28,820 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math/cross.pxd' not found 2021-07-15T12:50:28,820 Error compiling Cython file: 2021-07-15T12:50:28,820 ------------------------------------------------------------ 2021-07-15T12:50:28,820 ... 2021-07-15T12:50:28,820 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,820 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,821 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,821 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,821 ^ 2021-07-15T12:50:28,821 ------------------------------------------------------------ 2021-07-15T12:50:28,821 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math/normalize.pxd' not found 2021-07-15T12:50:28,821 Error compiling Cython file: 2021-07-15T12:50:28,821 ------------------------------------------------------------ 2021-07-15T12:50:28,822 ... 2021-07-15T12:50:28,822 from libc.stdint cimport uint8_t 2021-07-15T12:50:28,822 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,822 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,822 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,822 ^ 2021-07-15T12:50:28,822 ------------------------------------------------------------ 2021-07-15T12:50:28,823 sella/internal/int_classes.pyx:10:0: 'sella/utilities/math/mppi.pxd' not found 2021-07-15T12:50:28,823 Error compiling Cython file: 2021-07-15T12:50:28,823 ------------------------------------------------------------ 2021-07-15T12:50:28,823 ... 2021-07-15T12:50:28,823 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,823 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,823 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,824 normalize, mppi) 2021-07-15T12:50:28,824 from sella.internal.int_eval cimport (cart_to_bond, cart_to_angle, 2021-07-15T12:50:28,824 ^ 2021-07-15T12:50:28,824 ------------------------------------------------------------ 2021-07-15T12:50:28,824 sella/internal/int_classes.pyx:12:0: 'sella/internal/int_eval.pxd' not found 2021-07-15T12:50:28,828 Error compiling Cython file: 2021-07-15T12:50:28,829 ------------------------------------------------------------ 2021-07-15T12:50:28,831 ... 2021-07-15T12:50:28,832 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,835 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,837 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,838 normalize, mppi) 2021-07-15T12:50:28,839 from sella.internal.int_eval cimport (cart_to_bond, cart_to_angle, 2021-07-15T12:50:28,840 ^ 2021-07-15T12:50:28,842 ------------------------------------------------------------ 2021-07-15T12:50:28,842 sella/internal/int_classes.pyx:12:0: 'sella/internal/int_eval/cart_to_bond.pxd' not found 2021-07-15T12:50:28,842 Error compiling Cython file: 2021-07-15T12:50:28,842 ------------------------------------------------------------ 2021-07-15T12:50:28,843 ... 2021-07-15T12:50:28,843 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,843 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,843 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,843 normalize, mppi) 2021-07-15T12:50:28,843 from sella.internal.int_eval cimport (cart_to_bond, cart_to_angle, 2021-07-15T12:50:28,843 ^ 2021-07-15T12:50:28,843 ------------------------------------------------------------ 2021-07-15T12:50:28,844 sella/internal/int_classes.pyx:12:0: 'sella/internal/int_eval/cart_to_angle.pxd' not found 2021-07-15T12:50:28,844 Error compiling Cython file: 2021-07-15T12:50:28,844 ------------------------------------------------------------ 2021-07-15T12:50:28,844 ... 2021-07-15T12:50:28,844 from scipy.linalg.cython_blas cimport daxpy, ddot, dnrm2, dgemv, dcopy 2021-07-15T12:50:28,844 from sella.utilities.blas cimport my_ddot, my_daxpy, my_dgemv 2021-07-15T12:50:28,845 from sella.utilities.math cimport (vec_sum, mgs, cross, 2021-07-15T12:50:28,845 normalize, mppi) 2021-07-15T12:50:28,845 from sella.internal.int_eval cimport (cart_to_bond, cart_to_angle, 2021-07-15T12:50:28,845 ^ 2021-07-15T12:50:28,845 ------------------------------------------------------------ 2021-07-15T12:50:28,846 sella/internal/int_classes.pyx:12:0: 'sella/internal/int_eval/cart_to_dihedral.pxd' not found 2021-07-15T12:50:32,476 Error compiling Cython file: 2021-07-15T12:50:32,476 ------------------------------------------------------------ 2021-07-15T12:50:32,477 ... 2021-07-15T12:50:32,477 # comparison with ==. 2021-07-15T12:50:32,477 if not self.calc_required and not force: 2021-07-15T12:50:32,477 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:32,477 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:32,478 return 0 2021-07-15T12:50:32,478 self.calc_required = True 2021-07-15T12:50:32,478 ^ 2021-07-15T12:50:32,478 ------------------------------------------------------------ 2021-07-15T12:50:32,479 sella/internal/int_classes.pyx:273:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,479 Error compiling Cython file: 2021-07-15T12:50:32,479 ------------------------------------------------------------ 2021-07-15T12:50:32,479 ... 2021-07-15T12:50:32,479 if not self.calc_required and not force: 2021-07-15T12:50:32,480 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:32,480 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:32,480 return 0 2021-07-15T12:50:32,480 self.calc_required = True 2021-07-15T12:50:32,480 self.grad = grad or curv 2021-07-15T12:50:32,480 ^ 2021-07-15T12:50:32,481 ------------------------------------------------------------ 2021-07-15T12:50:32,481 sella/internal/int_classes.pyx:274:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,482 Error compiling Cython file: 2021-07-15T12:50:32,482 ------------------------------------------------------------ 2021-07-15T12:50:32,482 ... 2021-07-15T12:50:32,482 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:32,482 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:32,482 return 0 2021-07-15T12:50:32,483 self.calc_required = True 2021-07-15T12:50:32,483 self.grad = grad or curv 2021-07-15T12:50:32,483 self.curv = curv 2021-07-15T12:50:32,483 ^ 2021-07-15T12:50:32,483 ------------------------------------------------------------ 2021-07-15T12:50:32,484 sella/internal/int_classes.pyx:275:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,484 Error compiling Cython file: 2021-07-15T12:50:32,484 ------------------------------------------------------------ 2021-07-15T12:50:32,485 ... 2021-07-15T12:50:32,485 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:32,485 cdef int info, err 2021-07-15T12:50:32,485 cdef size_t sd = sizeof(double) 2021-07-15T12:50:32,486 # Zero out our arrays 2021-07-15T12:50:32,486 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:32,486 ^ 2021-07-15T12:50:32,486 ------------------------------------------------------------ 2021-07-15T12:50:32,487 sella/internal/int_classes.pyx:281:15: Cannot take address of Python object 2021-07-15T12:50:32,490 Error compiling Cython file: 2021-07-15T12:50:32,490 ------------------------------------------------------------ 2021-07-15T12:50:32,490 ... 2021-07-15T12:50:32,491 cdef int info, err 2021-07-15T12:50:32,491 cdef size_t sd = sizeof(double) 2021-07-15T12:50:32,491 # Zero out our arrays 2021-07-15T12:50:32,491 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:32,492 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:32,492 ^ 2021-07-15T12:50:32,492 ------------------------------------------------------------ 2021-07-15T12:50:32,492 sella/internal/int_classes.pyx:282:15: Cannot take address of Python object 2021-07-15T12:50:32,493 Error compiling Cython file: 2021-07-15T12:50:32,493 ------------------------------------------------------------ 2021-07-15T12:50:32,493 ... 2021-07-15T12:50:32,494 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:32,494 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:32,494 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:32,494 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:32,494 if self.nbonds > 0: 2021-07-15T12:50:32,495 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,495 ^ 2021-07-15T12:50:32,495 ------------------------------------------------------------ 2021-07-15T12:50:32,495 sella/internal/int_classes.pyx:289:19: Cannot take address of Python object 2021-07-15T12:50:32,496 Error compiling Cython file: 2021-07-15T12:50:32,496 ------------------------------------------------------------ 2021-07-15T12:50:32,496 ... 2021-07-15T12:50:32,497 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:32,497 if self.nbonds > 0: 2021-07-15T12:50:32,497 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,497 self.nbonds * 36 * sd) 2021-07-15T12:50:32,497 if self.nangles > 0: 2021-07-15T12:50:32,498 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,498 ^ 2021-07-15T12:50:32,498 ------------------------------------------------------------ 2021-07-15T12:50:32,498 sella/internal/int_classes.pyx:292:19: Cannot take address of Python object 2021-07-15T12:50:32,499 Error compiling Cython file: 2021-07-15T12:50:32,499 ------------------------------------------------------------ 2021-07-15T12:50:32,499 ... 2021-07-15T12:50:32,500 self.nbonds * 36 * sd) 2021-07-15T12:50:32,500 if self.nangles > 0: 2021-07-15T12:50:32,500 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,500 self.nangles * 81 * sd) 2021-07-15T12:50:32,500 if self.ndihedrals > 0: 2021-07-15T12:50:32,501 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,501 ^ 2021-07-15T12:50:32,501 ------------------------------------------------------------ 2021-07-15T12:50:32,502 sella/internal/int_classes.pyx:295:19: Cannot take address of Python object 2021-07-15T12:50:32,502 Error compiling Cython file: 2021-07-15T12:50:32,502 ------------------------------------------------------------ 2021-07-15T12:50:32,502 ... 2021-07-15T12:50:32,503 self.nangles * 81 * sd) 2021-07-15T12:50:32,503 if self.ndihedrals > 0: 2021-07-15T12:50:32,503 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,503 self.ndihedrals * 144 * sd) 2021-07-15T12:50:32,503 if self.nangle_sums > 0: 2021-07-15T12:50:32,504 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,504 ^ 2021-07-15T12:50:32,504 ------------------------------------------------------------ 2021-07-15T12:50:32,504 sella/internal/int_classes.pyx:298:19: Cannot take address of Python object 2021-07-15T12:50:32,505 Error compiling Cython file: 2021-07-15T12:50:32,505 ------------------------------------------------------------ 2021-07-15T12:50:32,505 ... 2021-07-15T12:50:32,506 self.ndihedrals * 144 * sd) 2021-07-15T12:50:32,506 if self.nangle_sums > 0: 2021-07-15T12:50:32,506 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,506 self.nangle_sums * 144 * sd) 2021-07-15T12:50:32,506 if self.nangle_diffs > 0: 2021-07-15T12:50:32,507 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,507 ^ 2021-07-15T12:50:32,507 ------------------------------------------------------------ 2021-07-15T12:50:32,507 sella/internal/int_classes.pyx:301:19: Cannot take address of Python object 2021-07-15T12:50:32,508 Error compiling Cython file: 2021-07-15T12:50:32,508 ------------------------------------------------------------ 2021-07-15T12:50:32,508 ... 2021-07-15T12:50:32,509 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,509 self.nangle_sums * 144 * sd) 2021-07-15T12:50:32,509 if self.nangle_diffs > 0: 2021-07-15T12:50:32,509 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,509 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:32,510 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,510 ^ 2021-07-15T12:50:32,510 ------------------------------------------------------------ 2021-07-15T12:50:32,510 sella/internal/int_classes.pyx:303:15: Cannot take address of Python object 2021-07-15T12:50:32,511 Error compiling Cython file: 2021-07-15T12:50:32,511 ------------------------------------------------------------ 2021-07-15T12:50:32,511 ... 2021-07-15T12:50:32,511 self.nangle_sums * 144 * sd) 2021-07-15T12:50:32,512 if self.nangle_diffs > 0: 2021-07-15T12:50:32,512 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,512 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:32,512 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,513 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:32,513 ^ 2021-07-15T12:50:32,513 ------------------------------------------------------------ 2021-07-15T12:50:32,513 sella/internal/int_classes.pyx:304:15: Cannot take address of Python object 2021-07-15T12:50:32,514 Error compiling Cython file: 2021-07-15T12:50:32,514 ------------------------------------------------------------ 2021-07-15T12:50:32,514 ... 2021-07-15T12:50:32,514 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:32,515 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:32,515 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,515 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:32,516 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:32,516 ^ 2021-07-15T12:50:32,516 ------------------------------------------------------------ 2021-07-15T12:50:32,516 sella/internal/int_classes.pyx:306:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,517 Error compiling Cython file: 2021-07-15T12:50:32,517 ------------------------------------------------------------ 2021-07-15T12:50:32,517 ... 2021-07-15T12:50:32,517 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,518 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:32,518 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:32,518 if dummypos is not None: 2021-07-15T12:50:32,518 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:32,519 ^ 2021-07-15T12:50:32,519 ------------------------------------------------------------ 2021-07-15T12:50:32,519 sella/internal/int_classes.pyx:308:20: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,520 Error compiling Cython file: 2021-07-15T12:50:32,520 ------------------------------------------------------------ 2021-07-15T12:50:32,520 ... 2021-07-15T12:50:32,520 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:32,521 for n in range(self.ncart): 2021-07-15T12:50:32,521 i = self.cart[n, 0] 2021-07-15T12:50:32,521 j = self.cart[n, 1] 2021-07-15T12:50:32,521 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:32,522 ^ 2021-07-15T12:50:32,522 ------------------------------------------------------------ 2021-07-15T12:50:32,522 sella/internal/int_classes.pyx:313:19: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,523 Error compiling Cython file: 2021-07-15T12:50:32,523 ------------------------------------------------------------ 2021-07-15T12:50:32,523 ... 2021-07-15T12:50:32,524 for n in range(self.ncart): 2021-07-15T12:50:32,524 i = self.cart[n, 0] 2021-07-15T12:50:32,524 j = self.cart[n, 1] 2021-07-15T12:50:32,524 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:32,524 self.dq[n, i, j] = 1. 2021-07-15T12:50:32,525 ^ 2021-07-15T12:50:32,525 ------------------------------------------------------------ 2021-07-15T12:50:32,525 sella/internal/int_classes.pyx:314:19: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,525 Error compiling Cython file: 2021-07-15T12:50:32,526 ------------------------------------------------------------ 2021-07-15T12:50:32,526 ... 2021-07-15T12:50:32,526 m = self.ncart 2021-07-15T12:50:32,526 for n in range(self.nbonds): 2021-07-15T12:50:32,527 i = self.bonds[n, 0] 2021-07-15T12:50:32,527 j = self.bonds[n, 1] 2021-07-15T12:50:32,527 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,527 ^ 2021-07-15T12:50:32,527 ------------------------------------------------------------ 2021-07-15T12:50:32,528 sella/internal/int_classes.pyx:321:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,528 Error compiling Cython file: 2021-07-15T12:50:32,529 ------------------------------------------------------------ 2021-07-15T12:50:32,529 ... 2021-07-15T12:50:32,529 for n in range(self.nbonds): 2021-07-15T12:50:32,529 i = self.bonds[n, 0] 2021-07-15T12:50:32,529 j = self.bonds[n, 1] 2021-07-15T12:50:32,530 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,530 if err != 0: return err 2021-07-15T12:50:32,530 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:32,530 ^ 2021-07-15T12:50:32,530 ------------------------------------------------------------ 2021-07-15T12:50:32,531 sella/internal/int_classes.pyx:323:19: 'cart_to_bond' is not a constant, variable or function identifier 2021-07-15T12:50:32,531 Error compiling Cython file: 2021-07-15T12:50:32,531 ------------------------------------------------------------ 2021-07-15T12:50:32,531 ... 2021-07-15T12:50:32,532 for n in range(self.nbonds): 2021-07-15T12:50:32,532 i = self.bonds[n, 0] 2021-07-15T12:50:32,532 j = self.bonds[n, 1] 2021-07-15T12:50:32,532 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,532 if err != 0: return err 2021-07-15T12:50:32,533 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:32,533 ^ 2021-07-15T12:50:32,533 ------------------------------------------------------------ 2021-07-15T12:50:32,533 sella/internal/int_classes.pyx:323:48: Cannot take address of Python object 2021-07-15T12:50:32,534 Error compiling Cython file: 2021-07-15T12:50:32,534 ------------------------------------------------------------ 2021-07-15T12:50:32,534 ... 2021-07-15T12:50:32,534 m += self.nbonds 2021-07-15T12:50:32,534 for n in range(self.nangles): 2021-07-15T12:50:32,534 i = self.angles[n, 0] 2021-07-15T12:50:32,535 j = self.angles[n, 1] 2021-07-15T12:50:32,535 k = self.angles[n, 2] 2021-07-15T12:50:32,535 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,535 ^ 2021-07-15T12:50:32,535 ------------------------------------------------------------ 2021-07-15T12:50:32,536 sella/internal/int_classes.pyx:332:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,536 Error compiling Cython file: 2021-07-15T12:50:32,536 ------------------------------------------------------------ 2021-07-15T12:50:32,536 ... 2021-07-15T12:50:32,537 i = self.angles[n, 0] 2021-07-15T12:50:32,537 j = self.angles[n, 1] 2021-07-15T12:50:32,537 k = self.angles[n, 2] 2021-07-15T12:50:32,537 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,537 if err != 0: return err 2021-07-15T12:50:32,537 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,538 ^ 2021-07-15T12:50:32,538 ------------------------------------------------------------ 2021-07-15T12:50:32,538 sella/internal/int_classes.pyx:334:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,539 Error compiling Cython file: 2021-07-15T12:50:32,539 ------------------------------------------------------------ 2021-07-15T12:50:32,539 ... 2021-07-15T12:50:32,539 k = self.angles[n, 2] 2021-07-15T12:50:32,540 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,540 if err != 0: return err 2021-07-15T12:50:32,540 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,540 if err != 0: return err 2021-07-15T12:50:32,540 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:32,541 ^ 2021-07-15T12:50:32,541 ------------------------------------------------------------ 2021-07-15T12:50:32,541 sella/internal/int_classes.pyx:336:19: 'cart_to_angle' is not a constant, variable or function identifier 2021-07-15T12:50:32,542 Error compiling Cython file: 2021-07-15T12:50:32,542 ------------------------------------------------------------ 2021-07-15T12:50:32,542 ... 2021-07-15T12:50:32,542 k = self.angles[n, 2] 2021-07-15T12:50:32,542 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,543 if err != 0: return err 2021-07-15T12:50:32,543 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,543 if err != 0: return err 2021-07-15T12:50:32,543 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:32,544 ^ 2021-07-15T12:50:32,544 ------------------------------------------------------------ 2021-07-15T12:50:32,544 sella/internal/int_classes.pyx:336:62: Cannot take address of Python object 2021-07-15T12:50:32,545 Error compiling Cython file: 2021-07-15T12:50:32,545 ------------------------------------------------------------ 2021-07-15T12:50:32,545 ... 2021-07-15T12:50:32,545 for n in range(self.ndihedrals): 2021-07-15T12:50:32,545 i = self.dihedrals[n, 0] 2021-07-15T12:50:32,546 j = self.dihedrals[n, 1] 2021-07-15T12:50:32,546 k = self.dihedrals[n, 2] 2021-07-15T12:50:32,546 l = self.dihedrals[n, 3] 2021-07-15T12:50:32,546 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:32,546 ^ 2021-07-15T12:50:32,547 ------------------------------------------------------------ 2021-07-15T12:50:32,547 sella/internal/int_classes.pyx:347:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,547 Error compiling Cython file: 2021-07-15T12:50:32,548 ------------------------------------------------------------ 2021-07-15T12:50:32,548 ... 2021-07-15T12:50:32,548 j = self.dihedrals[n, 1] 2021-07-15T12:50:32,548 k = self.dihedrals[n, 2] 2021-07-15T12:50:32,548 l = self.dihedrals[n, 3] 2021-07-15T12:50:32,549 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:32,549 if err != 0: return err 2021-07-15T12:50:32,549 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,549 ^ 2021-07-15T12:50:32,549 ------------------------------------------------------------ 2021-07-15T12:50:32,550 sella/internal/int_classes.pyx:349:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,550 Error compiling Cython file: 2021-07-15T12:50:32,550 ------------------------------------------------------------ 2021-07-15T12:50:32,551 ... 2021-07-15T12:50:32,551 l = self.dihedrals[n, 3] 2021-07-15T12:50:32,551 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:32,551 if err != 0: return err 2021-07-15T12:50:32,552 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,552 if err != 0: return err 2021-07-15T12:50:32,552 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,552 ^ 2021-07-15T12:50:32,552 ------------------------------------------------------------ 2021-07-15T12:50:32,553 sella/internal/int_classes.pyx:351:18: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,553 Error compiling Cython file: 2021-07-15T12:50:32,553 ------------------------------------------------------------ 2021-07-15T12:50:32,554 ... 2021-07-15T12:50:32,554 if err != 0: return err 2021-07-15T12:50:32,554 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,554 if err != 0: return err 2021-07-15T12:50:32,555 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,555 if err != 0: return err 2021-07-15T12:50:32,555 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:32,555 ^ 2021-07-15T12:50:32,555 ------------------------------------------------------------ 2021-07-15T12:50:32,556 sella/internal/int_classes.pyx:353:19: 'cart_to_dihedral' is not a constant, variable or function identifier 2021-07-15T12:50:32,556 Error compiling Cython file: 2021-07-15T12:50:32,557 ------------------------------------------------------------ 2021-07-15T12:50:32,557 ... 2021-07-15T12:50:32,557 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,557 if err != 0: return err 2021-07-15T12:50:32,557 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,558 if err != 0: return err 2021-07-15T12:50:32,558 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:32,558 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:32,558 ^ 2021-07-15T12:50:32,558 ------------------------------------------------------------ 2021-07-15T12:50:32,559 sella/internal/int_classes.pyx:354:36: Cannot take address of Python object 2021-07-15T12:50:32,559 Error compiling Cython file: 2021-07-15T12:50:32,560 ------------------------------------------------------------ 2021-07-15T12:50:32,560 ... 2021-07-15T12:50:32,560 return info 2021-07-15T12:50:32,560 m += self.ndihedrals 2021-07-15T12:50:32,561 for n in range(self.nangle_sums): 2021-07-15T12:50:32,561 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:32,561 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:32,561 ^ 2021-07-15T12:50:32,561 ------------------------------------------------------------ 2021-07-15T12:50:32,562 sella/internal/int_classes.pyx:363:40: Cannot take address of Python object 2021-07-15T12:50:32,562 Error compiling Cython file: 2021-07-15T12:50:32,562 ------------------------------------------------------------ 2021-07-15T12:50:32,563 ... 2021-07-15T12:50:32,563 return info 2021-07-15T12:50:32,563 m += self.nangle_sums 2021-07-15T12:50:32,563 for n in range(self.nangle_diffs): 2021-07-15T12:50:32,564 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:32,564 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:32,564 ^ 2021-07-15T12:50:32,564 ------------------------------------------------------------ 2021-07-15T12:50:32,565 sella/internal/int_classes.pyx:371:40: Cannot take address of Python object 2021-07-15T12:50:32,565 Error compiling Cython file: 2021-07-15T12:50:32,565 ------------------------------------------------------------ 2021-07-15T12:50:32,566 ... 2021-07-15T12:50:32,566 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:32,566 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:32,566 if info < 0: 2021-07-15T12:50:32,566 return info 2021-07-15T12:50:32,567 self.calc_required = False 2021-07-15T12:50:32,567 ^ 2021-07-15T12:50:32,567 ------------------------------------------------------------ 2021-07-15T12:50:32,568 sella/internal/int_classes.pyx:376:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,568 Error compiling Cython file: 2021-07-15T12:50:32,568 ------------------------------------------------------------ 2021-07-15T12:50:32,568 ... 2021-07-15T12:50:32,569 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:32,569 if info < 0: 2021-07-15T12:50:32,569 return info 2021-07-15T12:50:32,569 self.calc_required = False 2021-07-15T12:50:32,570 self.nint = -1 2021-07-15T12:50:32,570 ^ 2021-07-15T12:50:32,570 ------------------------------------------------------------ 2021-07-15T12:50:32,570 sella/internal/int_classes.pyx:377:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,571 Error compiling Cython file: 2021-07-15T12:50:32,571 ------------------------------------------------------------ 2021-07-15T12:50:32,571 ... 2021-07-15T12:50:32,571 if self.nint > 0: 2021-07-15T12:50:32,572 return 0 2021-07-15T12:50:32,572 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:32,572 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:32,572 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:32,573 ^ 2021-07-15T12:50:32,573 ------------------------------------------------------------ 2021-07-15T12:50:32,573 sella/internal/int_classes.pyx:393:15: Cannot take address of Python object 2021-07-15T12:50:32,574 Error compiling Cython file: 2021-07-15T12:50:32,574 ------------------------------------------------------------ 2021-07-15T12:50:32,574 ... 2021-07-15T12:50:32,574 return 0 2021-07-15T12:50:32,575 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:32,575 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:32,575 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:32,575 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:32,576 ^ 2021-07-15T12:50:32,576 ------------------------------------------------------------ 2021-07-15T12:50:32,576 sella/internal/int_classes.pyx:394:15: Cannot take address of Python object 2021-07-15T12:50:32,577 Error compiling Cython file: 2021-07-15T12:50:32,577 ------------------------------------------------------------ 2021-07-15T12:50:32,577 ... 2021-07-15T12:50:32,577 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:32,578 cdef int i 2021-07-15T12:50:32,578 if self.nq == 0: 2021-07-15T12:50:32,578 for i in range(self.nx): 2021-07-15T12:50:32,578 self.Uext[i, i] = 1. 2021-07-15T12:50:32,579 ^ 2021-07-15T12:50:32,579 ------------------------------------------------------------ 2021-07-15T12:50:32,579 sella/internal/int_classes.pyx:399:25: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,580 Error compiling Cython file: 2021-07-15T12:50:32,580 ------------------------------------------------------------ 2021-07-15T12:50:32,580 ... 2021-07-15T12:50:32,580 cdef int i 2021-07-15T12:50:32,581 if self.nq == 0: 2021-07-15T12:50:32,581 for i in range(self.nx): 2021-07-15T12:50:32,581 self.Uext[i, i] = 1. 2021-07-15T12:50:32,581 self.nint = 0 2021-07-15T12:50:32,581 ^ 2021-07-15T12:50:32,582 ------------------------------------------------------------ 2021-07-15T12:50:32,582 sella/internal/int_classes.pyx:400:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,582 Error compiling Cython file: 2021-07-15T12:50:32,583 ------------------------------------------------------------ 2021-07-15T12:50:32,583 ... 2021-07-15T12:50:32,583 cdef int i 2021-07-15T12:50:32,583 if self.nq == 0: 2021-07-15T12:50:32,584 for i in range(self.nx): 2021-07-15T12:50:32,584 self.Uext[i, i] = 1. 2021-07-15T12:50:32,584 self.nint = 0 2021-07-15T12:50:32,584 self.next = self.nx 2021-07-15T12:50:32,584 ^ 2021-07-15T12:50:32,585 ------------------------------------------------------------ 2021-07-15T12:50:32,585 sella/internal/int_classes.pyx:401:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,585 Error compiling Cython file: 2021-07-15T12:50:32,585 ------------------------------------------------------------ 2021-07-15T12:50:32,586 ... 2021-07-15T12:50:32,586 self.nint = 0 2021-07-15T12:50:32,586 self.next = self.nx 2021-07-15T12:50:32,586 return 0 2021-07-15T12:50:32,587 for n in range(self.nq): 2021-07-15T12:50:32,587 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:32,587 ^ 2021-07-15T12:50:32,587 ------------------------------------------------------------ 2021-07-15T12:50:32,587 sella/internal/int_classes.pyx:405:18: Cannot take address of Python object attribute 'nx' 2021-07-15T12:50:32,588 Error compiling Cython file: 2021-07-15T12:50:32,588 ------------------------------------------------------------ 2021-07-15T12:50:32,588 ... 2021-07-15T12:50:32,588 self.nint = 0 2021-07-15T12:50:32,588 self.next = self.nx 2021-07-15T12:50:32,589 return 0 2021-07-15T12:50:32,589 for n in range(self.nq): 2021-07-15T12:50:32,589 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:32,589 ^ 2021-07-15T12:50:32,589 ------------------------------------------------------------ 2021-07-15T12:50:32,590 sella/internal/int_classes.pyx:405:28: Cannot take address of Python object 2021-07-15T12:50:32,590 Error compiling Cython file: 2021-07-15T12:50:32,590 ------------------------------------------------------------ 2021-07-15T12:50:32,590 ... 2021-07-15T12:50:32,591 self.nint = 0 2021-07-15T12:50:32,591 self.next = self.nx 2021-07-15T12:50:32,591 return 0 2021-07-15T12:50:32,591 for n in range(self.nq): 2021-07-15T12:50:32,592 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:32,592 ^ 2021-07-15T12:50:32,592 ------------------------------------------------------------ 2021-07-15T12:50:32,592 sella/internal/int_classes.pyx:405:54: Cannot take address of Python object 2021-07-15T12:50:32,593 Error compiling Cython file: 2021-07-15T12:50:32,593 ------------------------------------------------------------ 2021-07-15T12:50:32,593 ... 2021-07-15T12:50:32,593 return 0 2021-07-15T12:50:32,594 for n in range(self.nq): 2021-07-15T12:50:32,594 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:32,594 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:32,595 ^ 2021-07-15T12:50:32,595 ------------------------------------------------------------ 2021-07-15T12:50:32,595 sella/internal/int_classes.pyx:407:20: 'mppi' is not a constant, variable or function identifier 2021-07-15T12:50:32,596 Error compiling Cython file: 2021-07-15T12:50:32,596 ------------------------------------------------------------ 2021-07-15T12:50:32,596 ... 2021-07-15T12:50:32,596 return 0 2021-07-15T12:50:32,597 for n in range(self.nq): 2021-07-15T12:50:32,597 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:32,597 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:32,598 ^ 2021-07-15T12:50:32,598 ------------------------------------------------------------ 2021-07-15T12:50:32,598 sella/internal/int_classes.pyx:407:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,599 Error compiling Cython file: 2021-07-15T12:50:32,599 ------------------------------------------------------------ 2021-07-15T12:50:32,599 ... 2021-07-15T12:50:32,599 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:32,600 self.sing, self.Binv, self.work3) 2021-07-15T12:50:32,600 if self.nint < 0: 2021-07-15T12:50:32,600 return self.nint 2021-07-15T12:50:32,601 self.next = self.nx - self.nint 2021-07-15T12:50:32,601 ^ 2021-07-15T12:50:32,601 ------------------------------------------------------------ 2021-07-15T12:50:32,601 sella/internal/int_classes.pyx:412:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,602 Error compiling Cython file: 2021-07-15T12:50:32,602 ------------------------------------------------------------ 2021-07-15T12:50:32,602 ... 2021-07-15T12:50:32,603 if self.nint < 0: 2021-07-15T12:50:32,603 return self.nint 2021-07-15T12:50:32,603 self.next = self.nx - self.nint 2021-07-15T12:50:32,604 self.calc_required = False 2021-07-15T12:50:32,604 ^ 2021-07-15T12:50:32,604 ------------------------------------------------------------ 2021-07-15T12:50:32,604 sella/internal/int_classes.pyx:414:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,605 Error compiling Cython file: 2021-07-15T12:50:32,605 ------------------------------------------------------------ 2021-07-15T12:50:32,605 ... 2021-07-15T12:50:32,605 bint grad, 2021-07-15T12:50:32,606 bint curv) nogil: 2021-07-15T12:50:32,606 cdef int err 2021-07-15T12:50:32,606 cdef size_t i, j, k, l, m 2021-07-15T12:50:32,606 cdef size_t sd = sizeof(double) 2021-07-15T12:50:32,606 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,607 ^ 2021-07-15T12:50:32,607 ------------------------------------------------------------ 2021-07-15T12:50:32,607 sella/internal/int_classes.pyx:429:15: Cannot take address of Python object 2021-07-15T12:50:32,608 Error compiling Cython file: 2021-07-15T12:50:32,608 ------------------------------------------------------------ 2021-07-15T12:50:32,608 ... 2021-07-15T12:50:32,608 bint curv) nogil: 2021-07-15T12:50:32,609 cdef int err 2021-07-15T12:50:32,609 cdef size_t i, j, k, l, m 2021-07-15T12:50:32,609 cdef size_t sd = sizeof(double) 2021-07-15T12:50:32,610 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:32,610 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:32,610 ^ 2021-07-15T12:50:32,610 ------------------------------------------------------------ 2021-07-15T12:50:32,611 sella/internal/int_classes.pyx:430:15: Cannot take address of Python object 2021-07-15T12:50:32,611 Error compiling Cython file: 2021-07-15T12:50:32,611 ------------------------------------------------------------ 2021-07-15T12:50:32,612 ... 2021-07-15T12:50:32,612 j = indices[1] 2021-07-15T12:50:32,612 k = indices[2] 2021-07-15T12:50:32,612 l = indices[3] 2021-07-15T12:50:32,613 # First part of the angle sum/diff 2021-07-15T12:50:32,613 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,613 ^ 2021-07-15T12:50:32,613 ------------------------------------------------------------ 2021-07-15T12:50:32,614 sella/internal/int_classes.pyx:437:14: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,614 Error compiling Cython file: 2021-07-15T12:50:32,614 ------------------------------------------------------------ 2021-07-15T12:50:32,614 ... 2021-07-15T12:50:32,615 l = indices[3] 2021-07-15T12:50:32,615 # First part of the angle sum/diff 2021-07-15T12:50:32,615 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,615 if err != 0: return err 2021-07-15T12:50:32,616 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,616 ^ 2021-07-15T12:50:32,616 ------------------------------------------------------------ 2021-07-15T12:50:32,616 sella/internal/int_classes.pyx:439:14: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,617 Error compiling Cython file: 2021-07-15T12:50:32,617 ------------------------------------------------------------ 2021-07-15T12:50:32,617 ... 2021-07-15T12:50:32,618 # First part of the angle sum/diff 2021-07-15T12:50:32,618 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,618 if err != 0: return err 2021-07-15T12:50:32,618 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,618 if err != 0: return err 2021-07-15T12:50:32,619 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,619 ^ 2021-07-15T12:50:32,619 ------------------------------------------------------------ 2021-07-15T12:50:32,619 sella/internal/int_classes.pyx:441:15: 'cart_to_angle' is not a constant, variable or function identifier 2021-07-15T12:50:32,620 Error compiling Cython file: 2021-07-15T12:50:32,620 ------------------------------------------------------------ 2021-07-15T12:50:32,620 ... 2021-07-15T12:50:32,620 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,621 if err != 0: return err 2021-07-15T12:50:32,621 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,621 if err != 0: return err 2021-07-15T12:50:32,621 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,621 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:32,621 ^ 2021-07-15T12:50:32,622 ------------------------------------------------------------ 2021-07-15T12:50:32,622 sella/internal/int_classes.pyx:442:29: Cannot convert 'double *' to Python object 2021-07-15T12:50:32,622 Error compiling Cython file: 2021-07-15T12:50:32,622 ------------------------------------------------------------ 2021-07-15T12:50:32,623 ... 2021-07-15T12:50:32,623 # First part of the angle sum/diff 2021-07-15T12:50:32,623 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:32,623 if err != 0: return err 2021-07-15T12:50:32,623 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:32,624 if err != 0: return err 2021-07-15T12:50:32,624 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,624 ^ 2021-07-15T12:50:32,624 ------------------------------------------------------------ 2021-07-15T12:50:32,624 sella/internal/int_classes.pyx:441:8: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,625 Error compiling Cython file: 2021-07-15T12:50:32,625 ------------------------------------------------------------ 2021-07-15T12:50:32,625 ... 2021-07-15T12:50:32,625 if err != 0: return err 2021-07-15T12:50:32,625 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,626 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:32,626 grad, curv) 2021-07-15T12:50:32,626 # Second part 2021-07-15T12:50:32,626 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:32,626 ^ 2021-07-15T12:50:32,627 ------------------------------------------------------------ 2021-07-15T12:50:32,627 sella/internal/int_classes.pyx:445:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,627 Error compiling Cython file: 2021-07-15T12:50:32,628 ------------------------------------------------------------ 2021-07-15T12:50:32,628 ... 2021-07-15T12:50:32,628 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,628 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:32,628 grad, curv) 2021-07-15T12:50:32,629 # Second part 2021-07-15T12:50:32,629 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:32,629 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:32,629 ^ 2021-07-15T12:50:32,629 ------------------------------------------------------------ 2021-07-15T12:50:32,630 sella/internal/int_classes.pyx:446:32: Cannot take address of Python object 2021-07-15T12:50:32,630 Error compiling Cython file: 2021-07-15T12:50:32,630 ------------------------------------------------------------ 2021-07-15T12:50:32,630 ... 2021-07-15T12:50:32,631 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,631 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:32,631 grad, curv) 2021-07-15T12:50:32,631 # Second part 2021-07-15T12:50:32,631 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:32,632 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:32,632 ^ 2021-07-15T12:50:32,632 ------------------------------------------------------------ 2021-07-15T12:50:32,632 sella/internal/int_classes.pyx:446:57: Cannot take address of Python object 2021-07-15T12:50:32,633 Error compiling Cython file: 2021-07-15T12:50:32,633 ------------------------------------------------------------ 2021-07-15T12:50:32,633 ... 2021-07-15T12:50:32,633 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:32,634 grad, curv) 2021-07-15T12:50:32,634 # Second part 2021-07-15T12:50:32,634 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:32,634 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:32,634 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,635 ^ 2021-07-15T12:50:32,635 ------------------------------------------------------------ 2021-07-15T12:50:32,635 sella/internal/int_classes.pyx:447:14: 'cart_to_angle' is not a constant, variable or function identifier 2021-07-15T12:50:32,636 Error compiling Cython file: 2021-07-15T12:50:32,636 ------------------------------------------------------------ 2021-07-15T12:50:32,636 ... 2021-07-15T12:50:32,636 grad, curv) 2021-07-15T12:50:32,637 # Second part 2021-07-15T12:50:32,637 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:32,637 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:32,637 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:32,637 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:32,638 ^ 2021-07-15T12:50:32,638 ------------------------------------------------------------ 2021-07-15T12:50:32,638 sella/internal/int_classes.pyx:448:28: Cannot take address of Python object 2021-07-15T12:50:32,639 Error compiling Cython file: 2021-07-15T12:50:32,639 ------------------------------------------------------------ 2021-07-15T12:50:32,639 ... 2021-07-15T12:50:32,639 if err != 0: return err 2021-07-15T12:50:32,640 # Combine results 2021-07-15T12:50:32,640 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:32,640 if grad or curv: 2021-07-15T12:50:32,640 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:32,640 ^ 2021-07-15T12:50:32,641 ------------------------------------------------------------ 2021-07-15T12:50:32,641 sella/internal/int_classes.pyx:456:18: Cannot take address of Python object attribute 'nx' 2021-07-15T12:50:32,642 Error compiling Cython file: 2021-07-15T12:50:32,642 ------------------------------------------------------------ 2021-07-15T12:50:32,642 ... 2021-07-15T12:50:32,642 if err != 0: return err 2021-07-15T12:50:32,643 # Combine results 2021-07-15T12:50:32,643 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:32,643 if grad or curv: 2021-07-15T12:50:32,643 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:32,643 ^ 2021-07-15T12:50:32,644 ------------------------------------------------------------ 2021-07-15T12:50:32,644 sella/internal/int_classes.pyx:456:35: Cannot take address of Python object 2021-07-15T12:50:32,644 Error compiling Cython file: 2021-07-15T12:50:32,645 ------------------------------------------------------------ 2021-07-15T12:50:32,645 ... 2021-07-15T12:50:32,645 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:32,645 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:32,645 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:32,646 for i in range(3): 2021-07-15T12:50:32,646 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:32,646 ^ 2021-07-15T12:50:32,646 ------------------------------------------------------------ 2021-07-15T12:50:32,647 sella/internal/int_classes.pyx:474:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,647 Error compiling Cython file: 2021-07-15T12:50:32,647 ------------------------------------------------------------ 2021-07-15T12:50:32,648 ... 2021-07-15T12:50:32,648 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:32,648 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:32,648 for i in range(3): 2021-07-15T12:50:32,649 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:32,649 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:32,649 ^ 2021-07-15T12:50:32,649 ------------------------------------------------------------ 2021-07-15T12:50:32,650 sella/internal/int_classes.pyx:475:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,650 Error compiling Cython file: 2021-07-15T12:50:32,651 ------------------------------------------------------------ 2021-07-15T12:50:32,651 ... 2021-07-15T12:50:32,651 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:32,651 for i in range(3): 2021-07-15T12:50:32,652 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:32,652 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:32,652 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:32,652 ^ 2021-07-15T12:50:32,652 ------------------------------------------------------------ 2021-07-15T12:50:32,653 sella/internal/int_classes.pyx:476:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,653 Error compiling Cython file: 2021-07-15T12:50:32,654 ------------------------------------------------------------ 2021-07-15T12:50:32,654 ... 2021-07-15T12:50:32,654 for i in range(3): 2021-07-15T12:50:32,654 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:32,654 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:32,655 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:32,655 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:32,655 ^ 2021-07-15T12:50:32,655 ------------------------------------------------------------ 2021-07-15T12:50:32,656 sella/internal/int_classes.pyx:478:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,656 Error compiling Cython file: 2021-07-15T12:50:32,656 ------------------------------------------------------------ 2021-07-15T12:50:32,657 ... 2021-07-15T12:50:32,657 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:32,657 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:32,657 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:32,658 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:32,658 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:32,658 ^ 2021-07-15T12:50:32,658 ------------------------------------------------------------ 2021-07-15T12:50:32,659 sella/internal/int_classes.pyx:479:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,659 Error compiling Cython file: 2021-07-15T12:50:32,659 ------------------------------------------------------------ 2021-07-15T12:50:32,659 ... 2021-07-15T12:50:32,659 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:32,660 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:32,660 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:32,660 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:32,661 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:32,661 ^ 2021-07-15T12:50:32,661 ------------------------------------------------------------ 2021-07-15T12:50:32,661 sella/internal/int_classes.pyx:480:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,662 Error compiling Cython file: 2021-07-15T12:50:32,662 ------------------------------------------------------------ 2021-07-15T12:50:32,662 ... 2021-07-15T12:50:32,662 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:32,663 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:32,663 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:32,663 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:32,663 ^ 2021-07-15T12:50:32,664 ------------------------------------------------------------ 2021-07-15T12:50:32,664 sella/internal/int_classes.pyx:482:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,664 Error compiling Cython file: 2021-07-15T12:50:32,664 ------------------------------------------------------------ 2021-07-15T12:50:32,665 ... 2021-07-15T12:50:32,665 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:32,665 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:32,665 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:32,666 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:32,666 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:32,666 ^ 2021-07-15T12:50:32,666 ------------------------------------------------------------ 2021-07-15T12:50:32,667 sella/internal/int_classes.pyx:483:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,667 Error compiling Cython file: 2021-07-15T12:50:32,667 ------------------------------------------------------------ 2021-07-15T12:50:32,667 ... 2021-07-15T12:50:32,667 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:32,668 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:32,668 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:32,668 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:32,668 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:32,668 ^ 2021-07-15T12:50:32,669 ------------------------------------------------------------ 2021-07-15T12:50:32,669 sella/internal/int_classes.pyx:484:12: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,669 warning: sella/internal/int_classes.pyx:523:33: Index should be typed for more efficient access 2021-07-15T12:50:32,670 Error compiling Cython file: 2021-07-15T12:50:32,670 ------------------------------------------------------------ 2021-07-15T12:50:32,670 ... 2021-07-15T12:50:32,670 for j in range(i + 1, self.nreal): 2021-07-15T12:50:32,670 if self.bmat[i, j]: 2021-07-15T12:50:32,670 factr = 0.5 2021-07-15T12:50:32,671 else: 2021-07-15T12:50:32,671 factr = 1.25 2021-07-15T12:50:32,671 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:32,671 ^ 2021-07-15T12:50:32,671 ------------------------------------------------------------ 2021-07-15T12:50:32,672 sella/internal/int_classes.pyx:701:31: 'vec_sum' is not a constant, variable or function identifier 2021-07-15T12:50:32,672 Error compiling Cython file: 2021-07-15T12:50:32,672 ------------------------------------------------------------ 2021-07-15T12:50:32,673 ... 2021-07-15T12:50:32,673 elif npbc == 1: 2021-07-15T12:50:32,673 self.nrot = 1 2021-07-15T12:50:32,673 for i, dim in enumerate(atoms.pbc): 2021-07-15T12:50:32,673 if dim: 2021-07-15T12:50:32,674 self.rot_axes[0, :] = atoms.cell[dim, :] 2021-07-15T12:50:32,674 normalize(self.rot_axes[0]) 2021-07-15T12:50:32,674 ^ 2021-07-15T12:50:32,674 ------------------------------------------------------------ 2021-07-15T12:50:32,675 sella/internal/int_classes.pyx:754:16: 'normalize' is not a constant, variable or function identifier 2021-07-15T12:50:32,675 Error compiling Cython file: 2021-07-15T12:50:32,675 ------------------------------------------------------------ 2021-07-15T12:50:32,675 ... 2021-07-15T12:50:32,676 cdef int n, j 2021-07-15T12:50:32,676 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:32,676 with nogil: 2021-07-15T12:50:32,676 if self.proj_trans: 2021-07-15T12:50:32,676 for j in range(3): 2021-07-15T12:50:32,677 self.trans_dirs[j] = True 2021-07-15T12:50:32,677 ^ 2021-07-15T12:50:32,677 ------------------------------------------------------------ 2021-07-15T12:50:32,677 sella/internal/int_classes.pyx:783:35: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,678 Error compiling Cython file: 2021-07-15T12:50:32,678 ------------------------------------------------------------ 2021-07-15T12:50:32,678 ... 2021-07-15T12:50:32,678 self.trans_dirs[j] = True 2021-07-15T12:50:32,679 for n in range(self.ncart): 2021-07-15T12:50:32,679 i = self.cart[n, 0] 2021-07-15T12:50:32,679 j = self.cart[n, 1] 2021-07-15T12:50:32,679 fixed[i, j] = True 2021-07-15T12:50:32,679 self.trans_dirs[j] = False 2021-07-15T12:50:32,680 ^ 2021-07-15T12:50:32,680 ------------------------------------------------------------ 2021-07-15T12:50:32,680 sella/internal/int_classes.pyx:788:31: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,681 Error compiling Cython file: 2021-07-15T12:50:32,681 ------------------------------------------------------------ 2021-07-15T12:50:32,681 ... 2021-07-15T12:50:32,681 n = 0 2021-07-15T12:50:32,681 for i in range(self.natoms): 2021-07-15T12:50:32,681 for j in range(3): 2021-07-15T12:50:32,682 if fixed[i, j]: 2021-07-15T12:50:32,682 continue 2021-07-15T12:50:32,682 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:32,682 ^ 2021-07-15T12:50:32,682 ------------------------------------------------------------ 2021-07-15T12:50:32,683 sella/internal/int_classes.pyx:794:29: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,683 Error compiling Cython file: 2021-07-15T12:50:32,683 ------------------------------------------------------------ 2021-07-15T12:50:32,683 ... 2021-07-15T12:50:32,684 if fixed[i, j]: 2021-07-15T12:50:32,684 continue 2021-07-15T12:50:32,684 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:32,684 n += 1 2021-07-15T12:50:32,684 self.ntrans = 0 2021-07-15T12:50:32,685 ^ 2021-07-15T12:50:32,685 ------------------------------------------------------------ 2021-07-15T12:50:32,685 sella/internal/int_classes.pyx:797:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,685 Error compiling Cython file: 2021-07-15T12:50:32,686 ------------------------------------------------------------ 2021-07-15T12:50:32,686 ... 2021-07-15T12:50:32,686 self.ntrans = 0 2021-07-15T12:50:32,686 for j in range(3): 2021-07-15T12:50:32,687 if self.trans_dirs[j]: 2021-07-15T12:50:32,687 for i in range(self.natoms): 2021-07-15T12:50:32,687 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:32,687 ^ 2021-07-15T12:50:32,687 ------------------------------------------------------------ 2021-07-15T12:50:32,688 sella/internal/int_classes.pyx:801:34: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,695 Error compiling Cython file: 2021-07-15T12:50:32,695 ------------------------------------------------------------ 2021-07-15T12:50:32,695 ... 2021-07-15T12:50:32,696 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:32,696 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:32,696 return 0 2021-07-15T12:50:32,696 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:32,697 self.calc_res = False 2021-07-15T12:50:32,697 ^ 2021-07-15T12:50:32,697 ------------------------------------------------------------ 2021-07-15T12:50:32,698 sella/internal/int_classes.pyx:844:12: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,698 Error compiling Cython file: 2021-07-15T12:50:32,698 ------------------------------------------------------------ 2021-07-15T12:50:32,698 ... 2021-07-15T12:50:32,699 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:32,699 self.calc_res = False 2021-07-15T12:50:32,699 if self.nq == 0: 2021-07-15T12:50:32,700 return 0 2021-07-15T12:50:32,700 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:32,700 ^ 2021-07-15T12:50:32,700 ------------------------------------------------------------ 2021-07-15T12:50:32,701 sella/internal/int_classes.pyx:847:15: Cannot take address of Python object 2021-07-15T12:50:32,701 Error compiling Cython file: 2021-07-15T12:50:32,701 ------------------------------------------------------------ 2021-07-15T12:50:32,702 ... 2021-07-15T12:50:32,702 return 0 2021-07-15T12:50:32,702 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:32,702 err = CartToInternal._update(self, pos, dummypos, grad, 2021-07-15T12:50:32,702 curv, True) 2021-07-15T12:50:32,703 if err != 0: 2021-07-15T12:50:32,703 self.calc_required = True 2021-07-15T12:50:32,703 ^ 2021-07-15T12:50:32,703 ------------------------------------------------------------ 2021-07-15T12:50:32,704 sella/internal/int_classes.pyx:851:16: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,704 Error compiling Cython file: 2021-07-15T12:50:32,704 ------------------------------------------------------------ 2021-07-15T12:50:32,704 ... 2021-07-15T12:50:32,705 if self.proj_trans: 2021-07-15T12:50:32,705 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:32,705 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:32,705 ntot = self.ntrans * self.nx 2021-07-15T12:50:32,706 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:32,706 ^ 2021-07-15T12:50:32,706 ------------------------------------------------------------ 2021-07-15T12:50:32,706 sella/internal/int_classes.pyx:861:25: Cannot take address of Python object 2021-07-15T12:50:32,707 Error compiling Cython file: 2021-07-15T12:50:32,707 ------------------------------------------------------------ 2021-07-15T12:50:32,707 ... 2021-07-15T12:50:32,707 if self.proj_trans: 2021-07-15T12:50:32,708 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:32,708 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:32,708 ntot = self.ntrans * self.nx 2021-07-15T12:50:32,708 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:32,708 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:32,709 ^ 2021-07-15T12:50:32,709 ------------------------------------------------------------ 2021-07-15T12:50:32,709 sella/internal/int_classes.pyx:862:18: Cannot take address of Python object 2021-07-15T12:50:32,710 Error compiling Cython file: 2021-07-15T12:50:32,710 ------------------------------------------------------------ 2021-07-15T12:50:32,710 ... 2021-07-15T12:50:32,710 err = self.project_rotation() 2021-07-15T12:50:32,711 if err != 0: return err 2021-07-15T12:50:32,711 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:32,711 ntot = self.nrot * self.nx 2021-07-15T12:50:32,711 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:32,712 ^ 2021-07-15T12:50:32,712 ------------------------------------------------------------ 2021-07-15T12:50:32,712 sella/internal/int_classes.pyx:870:25: Cannot take address of Python object 2021-07-15T12:50:32,713 Error compiling Cython file: 2021-07-15T12:50:32,713 ------------------------------------------------------------ 2021-07-15T12:50:32,713 ... 2021-07-15T12:50:32,713 if err != 0: return err 2021-07-15T12:50:32,714 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:32,714 ntot = self.nrot * self.nx 2021-07-15T12:50:32,714 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:32,714 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:32,715 ^ 2021-07-15T12:50:32,715 ------------------------------------------------------------ 2021-07-15T12:50:32,715 sella/internal/int_classes.pyx:871:18: Cannot take address of Python object 2021-07-15T12:50:32,716 Error compiling Cython file: 2021-07-15T12:50:32,716 ------------------------------------------------------------ 2021-07-15T12:50:32,716 ... 2021-07-15T12:50:32,717 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:32,717 cdef int i, j 2021-07-15T12:50:32,717 for i in range(self.nrot): 2021-07-15T12:50:32,717 for j in range(self.natoms): 2021-07-15T12:50:32,717 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:32,718 ^ 2021-07-15T12:50:32,718 ------------------------------------------------------------ 2021-07-15T12:50:32,718 sella/internal/int_classes.pyx:880:16: 'cross' is not a constant, variable or function identifier 2021-07-15T12:50:32,718 Error compiling Cython file: 2021-07-15T12:50:32,719 ------------------------------------------------------------ 2021-07-15T12:50:32,719 ... 2021-07-15T12:50:32,719 cdef int i, j 2021-07-15T12:50:32,719 for i in range(self.nrot): 2021-07-15T12:50:32,720 for j in range(self.natoms): 2021-07-15T12:50:32,720 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:32,720 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:32,720 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:32,720 ^ 2021-07-15T12:50:32,721 ------------------------------------------------------------ 2021-07-15T12:50:32,721 sella/internal/int_classes.pyx:882:23: 'mgs' is not a constant, variable or function identifier 2021-07-15T12:50:32,721 Error compiling Cython file: 2021-07-15T12:50:32,722 ------------------------------------------------------------ 2021-07-15T12:50:32,722 ... 2021-07-15T12:50:32,722 if self.calc_res: 2021-07-15T12:50:32,722 return np.asarray(self.res) 2021-07-15T12:50:32,722 cdef int i, n 2021-07-15T12:50:32,723 with nogil: 2021-07-15T12:50:32,723 for i in range(self.ninternal): 2021-07-15T12:50:32,723 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:32,723 ^ 2021-07-15T12:50:32,723 ------------------------------------------------------------ 2021-07-15T12:50:32,724 sella/internal/int_classes.pyx:900:24: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,724 Error compiling Cython file: 2021-07-15T12:50:32,725 ------------------------------------------------------------ 2021-07-15T12:50:32,725 ... 2021-07-15T12:50:32,725 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:32,725 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:32,726 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:32,726 for i in range(self.ndihedrals): 2021-07-15T12:50:32,726 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:32,726 ^ 2021-07-15T12:50:32,726 ------------------------------------------------------------ 2021-07-15T12:50:32,727 sella/internal/int_classes.pyx:905:24: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,748 Error compiling Cython file: 2021-07-15T12:50:32,748 ------------------------------------------------------------ 2021-07-15T12:50:32,748 ... 2021-07-15T12:50:32,749 for a in range(nind): 2021-07-15T12:50:32,749 ai = q[n, a] 2021-07-15T12:50:32,749 for b in range(nind): 2021-07-15T12:50:32,749 bi = q[n, b] 2021-07-15T12:50:32,749 for i in range(3): 2021-07-15T12:50:32,749 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:32,750 ^ 2021-07-15T12:50:32,750 ------------------------------------------------------------ 2021-07-15T12:50:32,750 sella/internal/int_classes.pyx:1031:30: 'my_daxpy' is not a constant, variable or function identifier 2021-07-15T12:50:32,763 Error compiling Cython file: 2021-07-15T12:50:32,763 ------------------------------------------------------------ 2021-07-15T12:50:32,763 ... 2021-07-15T12:50:32,763 cdef int dim = 3 * nind 2021-07-15T12:50:32,763 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:32,764 for n in range(nq): 2021-07-15T12:50:32,764 for a in range(nind): 2021-07-15T12:50:32,764 ai = q[n, a] 2021-07-15T12:50:32,764 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,764 ^ 2021-07-15T12:50:32,764 ------------------------------------------------------------ 2021-07-15T12:50:32,765 sella/internal/int_classes.pyx:1075:26: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,765 Error compiling Cython file: 2021-07-15T12:50:32,765 ------------------------------------------------------------ 2021-07-15T12:50:32,765 ... 2021-07-15T12:50:32,766 for n in range(nq): 2021-07-15T12:50:32,766 for a in range(nind): 2021-07-15T12:50:32,766 ai = q[n, a] 2021-07-15T12:50:32,766 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,766 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:32,766 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,766 ^ 2021-07-15T12:50:32,767 ------------------------------------------------------------ 2021-07-15T12:50:32,767 sella/internal/int_classes.pyx:1077:18: Cannot take address of Python object 2021-07-15T12:50:32,767 Error compiling Cython file: 2021-07-15T12:50:32,767 ------------------------------------------------------------ 2021-07-15T12:50:32,768 ... 2021-07-15T12:50:32,768 for n in range(nq): 2021-07-15T12:50:32,768 for a in range(nind): 2021-07-15T12:50:32,768 ai = q[n, a] 2021-07-15T12:50:32,768 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,768 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:32,768 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,768 ^ 2021-07-15T12:50:32,769 ------------------------------------------------------------ 2021-07-15T12:50:32,769 sella/internal/int_classes.pyx:1077:37: Cannot take address of Python object attribute 'sw1' 2021-07-15T12:50:32,769 Error compiling Cython file: 2021-07-15T12:50:32,769 ------------------------------------------------------------ 2021-07-15T12:50:32,769 ... 2021-07-15T12:50:32,769 for a in range(nind): 2021-07-15T12:50:32,770 ai = q[n, a] 2021-07-15T12:50:32,770 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,770 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:32,770 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,770 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:32,770 ^ 2021-07-15T12:50:32,770 ------------------------------------------------------------ 2021-07-15T12:50:32,770 sella/internal/int_classes.pyx:1078:18: Cannot take address of Python object 2021-07-15T12:50:32,771 Error compiling Cython file: 2021-07-15T12:50:32,771 ------------------------------------------------------------ 2021-07-15T12:50:32,771 ... 2021-07-15T12:50:32,771 for a in range(nind): 2021-07-15T12:50:32,771 ai = q[n, a] 2021-07-15T12:50:32,771 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,771 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:32,771 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,772 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:32,772 ^ 2021-07-15T12:50:32,772 ------------------------------------------------------------ 2021-07-15T12:50:32,772 sella/internal/int_classes.pyx:1078:37: Cannot take address of Python object attribute 'sw2' 2021-07-15T12:50:32,780 Error compiling Cython file: 2021-07-15T12:50:32,780 ------------------------------------------------------------ 2021-07-15T12:50:32,780 ... 2021-07-15T12:50:32,781 cdef int dim = 3 * nind 2021-07-15T12:50:32,781 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:32,781 for n in range(nq): 2021-07-15T12:50:32,781 for a in range(nind): 2021-07-15T12:50:32,781 ai = q[n, a] 2021-07-15T12:50:32,781 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,782 ^ 2021-07-15T12:50:32,782 ------------------------------------------------------------ 2021-07-15T12:50:32,782 sella/internal/int_classes.pyx:1124:26: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,782 Error compiling Cython file: 2021-07-15T12:50:32,783 ------------------------------------------------------------ 2021-07-15T12:50:32,783 ... 2021-07-15T12:50:32,783 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:32,783 for n in range(nq): 2021-07-15T12:50:32,783 for a in range(nind): 2021-07-15T12:50:32,783 ai = q[n, a] 2021-07-15T12:50:32,783 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,784 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,784 ^ 2021-07-15T12:50:32,784 ------------------------------------------------------------ 2021-07-15T12:50:32,784 sella/internal/int_classes.pyx:1125:26: Assignment of Python object not allowed without gil 2021-07-15T12:50:32,785 Error compiling Cython file: 2021-07-15T12:50:32,785 ------------------------------------------------------------ 2021-07-15T12:50:32,785 ... 2021-07-15T12:50:32,785 for a in range(nind): 2021-07-15T12:50:32,785 ai = q[n, a] 2021-07-15T12:50:32,785 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,786 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,786 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,786 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,786 ^ 2021-07-15T12:50:32,786 ------------------------------------------------------------ 2021-07-15T12:50:32,787 sella/internal/int_classes.pyx:1127:18: Cannot take address of Python object 2021-07-15T12:50:32,787 Error compiling Cython file: 2021-07-15T12:50:32,787 ------------------------------------------------------------ 2021-07-15T12:50:32,787 ... 2021-07-15T12:50:32,787 for a in range(nind): 2021-07-15T12:50:32,787 ai = q[n, a] 2021-07-15T12:50:32,787 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,788 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,788 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,788 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,788 ^ 2021-07-15T12:50:32,788 ------------------------------------------------------------ 2021-07-15T12:50:32,789 sella/internal/int_classes.pyx:1127:37: Cannot take address of Python object attribute 'sw1' 2021-07-15T12:50:32,789 Error compiling Cython file: 2021-07-15T12:50:32,789 ------------------------------------------------------------ 2021-07-15T12:50:32,789 ... 2021-07-15T12:50:32,789 ai = q[n, a] 2021-07-15T12:50:32,789 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,790 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,790 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,790 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,790 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,790 ^ 2021-07-15T12:50:32,790 ------------------------------------------------------------ 2021-07-15T12:50:32,790 sella/internal/int_classes.pyx:1128:18: Cannot take address of Python object 2021-07-15T12:50:32,791 Error compiling Cython file: 2021-07-15T12:50:32,791 ------------------------------------------------------------ 2021-07-15T12:50:32,791 ... 2021-07-15T12:50:32,791 ai = q[n, a] 2021-07-15T12:50:32,791 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,791 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,792 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,792 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,792 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,792 ^ 2021-07-15T12:50:32,792 ------------------------------------------------------------ 2021-07-15T12:50:32,792 sella/internal/int_classes.pyx:1128:37: Cannot take address of Python object attribute 'sw3' 2021-07-15T12:50:32,793 Error compiling Cython file: 2021-07-15T12:50:32,793 ------------------------------------------------------------ 2021-07-15T12:50:32,793 ... 2021-07-15T12:50:32,793 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,793 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,793 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,793 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,794 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,794 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:32,794 ^ 2021-07-15T12:50:32,794 ------------------------------------------------------------ 2021-07-15T12:50:32,794 sella/internal/int_classes.pyx:1129:40: Cannot take address of Python object 2021-07-15T12:50:32,795 Error compiling Cython file: 2021-07-15T12:50:32,795 ------------------------------------------------------------ 2021-07-15T12:50:32,795 ... 2021-07-15T12:50:32,795 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,795 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,795 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,796 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,796 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,796 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:32,796 ^ 2021-07-15T12:50:32,796 ------------------------------------------------------------ 2021-07-15T12:50:32,796 sella/internal/int_classes.pyx:1129:59: Cannot take address of Python object attribute 'sw2' 2021-07-15T12:50:32,797 Error compiling Cython file: 2021-07-15T12:50:32,797 ------------------------------------------------------------ 2021-07-15T12:50:32,797 ... 2021-07-15T12:50:32,797 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,797 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,797 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,797 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,798 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:32,798 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,798 ^ 2021-07-15T12:50:32,798 ------------------------------------------------------------ 2021-07-15T12:50:32,798 sella/internal/int_classes.pyx:1130:34: Cannot take address of Python object 2021-07-15T12:50:32,799 Error compiling Cython file: 2021-07-15T12:50:32,799 ------------------------------------------------------------ 2021-07-15T12:50:32,799 ... 2021-07-15T12:50:32,799 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:32,799 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:32,799 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:32,799 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,800 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:32,800 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:32,800 ^ 2021-07-15T12:50:32,800 ------------------------------------------------------------ 2021-07-15T12:50:32,800 sella/internal/int_classes.pyx:1130:53: Cannot take address of Python object attribute 'sw3' 2021-07-15T12:50:33,459 Error compiling Cython file: 2021-07-15T12:50:33,459 ------------------------------------------------------------ 2021-07-15T12:50:33,459 ... 2021-07-15T12:50:33,460 if dummypos is not None: 2021-07-15T12:50:33,460 if dummypos.shape[1] != 3: 2021-07-15T12:50:33,460 return False 2021-07-15T12:50:33,460 n_in += dummypos.shape[0] 2021-07-15T12:50:33,460 else: 2021-07-15T12:50:33,460 if self.ndummies > 0: 2021-07-15T12:50:33,461 ^ 2021-07-15T12:50:33,461 ------------------------------------------------------------ 2021-07-15T12:50:33,461 sella/internal/int_classes.pyx:235:29: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,461 Error compiling Cython file: 2021-07-15T12:50:33,462 ------------------------------------------------------------ 2021-07-15T12:50:33,462 ... 2021-07-15T12:50:33,462 if dummypos is not None: 2021-07-15T12:50:33,462 if dummypos.shape[1] != 3: 2021-07-15T12:50:33,462 return False 2021-07-15T12:50:33,462 n_in += dummypos.shape[0] 2021-07-15T12:50:33,463 else: 2021-07-15T12:50:33,463 if self.ndummies > 0: 2021-07-15T12:50:33,463 ^ 2021-07-15T12:50:33,463 ------------------------------------------------------------ 2021-07-15T12:50:33,463 sella/internal/int_classes.pyx:235:29: Operation not allowed without gil 2021-07-15T12:50:33,464 Error compiling Cython file: 2021-07-15T12:50:33,464 ------------------------------------------------------------ 2021-07-15T12:50:33,464 ... 2021-07-15T12:50:33,464 if dummypos is not None: 2021-07-15T12:50:33,464 if dummypos.shape[1] != 3: 2021-07-15T12:50:33,464 return False 2021-07-15T12:50:33,465 n_in += dummypos.shape[0] 2021-07-15T12:50:33,465 else: 2021-07-15T12:50:33,465 if self.ndummies > 0: 2021-07-15T12:50:33,465 ^ 2021-07-15T12:50:33,465 ------------------------------------------------------------ 2021-07-15T12:50:33,465 sella/internal/int_classes.pyx:235:19: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,466 Error compiling Cython file: 2021-07-15T12:50:33,466 ------------------------------------------------------------ 2021-07-15T12:50:33,466 ... 2021-07-15T12:50:33,466 n_in += dummypos.shape[0] 2021-07-15T12:50:33,466 else: 2021-07-15T12:50:33,466 if self.ndummies > 0: 2021-07-15T12:50:33,467 return False 2021-07-15T12:50:33,467 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,467 ^ 2021-07-15T12:50:33,467 ------------------------------------------------------------ 2021-07-15T12:50:33,468 sella/internal/int_classes.pyx:238:16: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,468 Error compiling Cython file: 2021-07-15T12:50:33,468 ------------------------------------------------------------ 2021-07-15T12:50:33,468 ... 2021-07-15T12:50:33,468 n_in += dummypos.shape[0] 2021-07-15T12:50:33,468 else: 2021-07-15T12:50:33,469 if self.ndummies > 0: 2021-07-15T12:50:33,469 return False 2021-07-15T12:50:33,469 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,469 ^ 2021-07-15T12:50:33,469 ------------------------------------------------------------ 2021-07-15T12:50:33,470 sella/internal/int_classes.pyx:238:16: Operation not allowed without gil 2021-07-15T12:50:33,470 Error compiling Cython file: 2021-07-15T12:50:33,470 ------------------------------------------------------------ 2021-07-15T12:50:33,470 ... 2021-07-15T12:50:33,470 n_in += dummypos.shape[0] 2021-07-15T12:50:33,471 else: 2021-07-15T12:50:33,471 if self.ndummies > 0: 2021-07-15T12:50:33,471 return False 2021-07-15T12:50:33,471 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,471 ^ 2021-07-15T12:50:33,471 ------------------------------------------------------------ 2021-07-15T12:50:33,472 sella/internal/int_classes.pyx:238:11: Converting to Python object not allowed without gil 2021-07-15T12:50:33,472 Error compiling Cython file: 2021-07-15T12:50:33,472 ------------------------------------------------------------ 2021-07-15T12:50:33,472 ... 2021-07-15T12:50:33,473 n_in += dummypos.shape[0] 2021-07-15T12:50:33,473 else: 2021-07-15T12:50:33,473 if self.ndummies > 0: 2021-07-15T12:50:33,473 return False 2021-07-15T12:50:33,473 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,473 ^ 2021-07-15T12:50:33,474 ------------------------------------------------------------ 2021-07-15T12:50:33,474 sella/internal/int_classes.pyx:238:33: Indexing Python object not allowed without gil 2021-07-15T12:50:33,474 Error compiling Cython file: 2021-07-15T12:50:33,474 ------------------------------------------------------------ 2021-07-15T12:50:33,475 ... 2021-07-15T12:50:33,475 n_in += dummypos.shape[0] 2021-07-15T12:50:33,475 else: 2021-07-15T12:50:33,475 if self.ndummies > 0: 2021-07-15T12:50:33,475 return False 2021-07-15T12:50:33,476 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,476 ^ 2021-07-15T12:50:33,476 ------------------------------------------------------------ 2021-07-15T12:50:33,476 sella/internal/int_classes.pyx:238:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,476 Error compiling Cython file: 2021-07-15T12:50:33,476 ------------------------------------------------------------ 2021-07-15T12:50:33,477 ... 2021-07-15T12:50:33,477 n_in += dummypos.shape[0] 2021-07-15T12:50:33,477 else: 2021-07-15T12:50:33,477 if self.ndummies > 0: 2021-07-15T12:50:33,477 return False 2021-07-15T12:50:33,477 if n_in != self.pos.shape[0] or pos.shape[1] != 3: 2021-07-15T12:50:33,477 ^ 2021-07-15T12:50:33,478 ------------------------------------------------------------ 2021-07-15T12:50:33,478 sella/internal/int_classes.pyx:238:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,478 Error compiling Cython file: 2021-07-15T12:50:33,478 ------------------------------------------------------------ 2021-07-15T12:50:33,478 ... 2021-07-15T12:50:33,478 return True 2021-07-15T12:50:33,479 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,479 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,479 cdef int i, j 2021-07-15T12:50:33,479 for i in range(self.nreal): 2021-07-15T12:50:33,479 ^ 2021-07-15T12:50:33,479 ------------------------------------------------------------ 2021-07-15T12:50:33,479 sella/internal/int_classes.pyx:245:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,480 Error compiling Cython file: 2021-07-15T12:50:33,480 ------------------------------------------------------------ 2021-07-15T12:50:33,480 ... 2021-07-15T12:50:33,480 return True 2021-07-15T12:50:33,480 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,480 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,480 cdef int i, j 2021-07-15T12:50:33,481 for i in range(self.nreal): 2021-07-15T12:50:33,481 ^ 2021-07-15T12:50:33,481 ------------------------------------------------------------ 2021-07-15T12:50:33,481 sella/internal/int_classes.pyx:245:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,481 Error compiling Cython file: 2021-07-15T12:50:33,481 ------------------------------------------------------------ 2021-07-15T12:50:33,481 ... 2021-07-15T12:50:33,482 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,482 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,482 cdef int i, j 2021-07-15T12:50:33,482 for i in range(self.nreal): 2021-07-15T12:50:33,482 for j in range(3): 2021-07-15T12:50:33,482 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,482 ^ 2021-07-15T12:50:33,482 ------------------------------------------------------------ 2021-07-15T12:50:33,483 sella/internal/int_classes.pyx:247:34: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,483 Error compiling Cython file: 2021-07-15T12:50:33,483 ------------------------------------------------------------ 2021-07-15T12:50:33,483 ... 2021-07-15T12:50:33,483 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,483 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,484 cdef int i, j 2021-07-15T12:50:33,484 for i in range(self.nreal): 2021-07-15T12:50:33,484 for j in range(3): 2021-07-15T12:50:33,484 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,484 ^ 2021-07-15T12:50:33,484 ------------------------------------------------------------ 2021-07-15T12:50:33,484 sella/internal/int_classes.pyx:247:34: Operation not allowed without gil 2021-07-15T12:50:33,485 Error compiling Cython file: 2021-07-15T12:50:33,485 ------------------------------------------------------------ 2021-07-15T12:50:33,485 ... 2021-07-15T12:50:33,485 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,485 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,485 cdef int i, j 2021-07-15T12:50:33,485 for i in range(self.nreal): 2021-07-15T12:50:33,486 for j in range(3): 2021-07-15T12:50:33,486 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,486 ^ 2021-07-15T12:50:33,486 ------------------------------------------------------------ 2021-07-15T12:50:33,486 sella/internal/int_classes.pyx:247:27: Indexing Python object not allowed without gil 2021-07-15T12:50:33,486 Error compiling Cython file: 2021-07-15T12:50:33,486 ------------------------------------------------------------ 2021-07-15T12:50:33,487 ... 2021-07-15T12:50:33,487 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,487 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,487 cdef int i, j 2021-07-15T12:50:33,487 for i in range(self.nreal): 2021-07-15T12:50:33,487 for j in range(3): 2021-07-15T12:50:33,487 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,487 ^ 2021-07-15T12:50:33,488 ------------------------------------------------------------ 2021-07-15T12:50:33,488 sella/internal/int_classes.pyx:247:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,488 Error compiling Cython file: 2021-07-15T12:50:33,488 ------------------------------------------------------------ 2021-07-15T12:50:33,488 ... 2021-07-15T12:50:33,488 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,489 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,489 cdef int i, j 2021-07-15T12:50:33,489 for i in range(self.nreal): 2021-07-15T12:50:33,489 for j in range(3): 2021-07-15T12:50:33,489 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,489 ^ 2021-07-15T12:50:33,489 ------------------------------------------------------------ 2021-07-15T12:50:33,489 sella/internal/int_classes.pyx:247:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,490 Error compiling Cython file: 2021-07-15T12:50:33,490 ------------------------------------------------------------ 2021-07-15T12:50:33,490 ... 2021-07-15T12:50:33,490 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,490 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,491 cdef int i, j 2021-07-15T12:50:33,491 for i in range(self.nreal): 2021-07-15T12:50:33,491 for j in range(3): 2021-07-15T12:50:33,491 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,491 ^ 2021-07-15T12:50:33,491 ------------------------------------------------------------ 2021-07-15T12:50:33,492 sella/internal/int_classes.pyx:247:28: Converting to Python object not allowed without gil 2021-07-15T12:50:33,492 Error compiling Cython file: 2021-07-15T12:50:33,492 ------------------------------------------------------------ 2021-07-15T12:50:33,492 ... 2021-07-15T12:50:33,492 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,492 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,492 cdef int i, j 2021-07-15T12:50:33,493 for i in range(self.nreal): 2021-07-15T12:50:33,493 for j in range(3): 2021-07-15T12:50:33,493 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,493 ^ 2021-07-15T12:50:33,493 ------------------------------------------------------------ 2021-07-15T12:50:33,493 sella/internal/int_classes.pyx:247:31: Converting to Python object not allowed without gil 2021-07-15T12:50:33,494 Error compiling Cython file: 2021-07-15T12:50:33,494 ------------------------------------------------------------ 2021-07-15T12:50:33,494 ... 2021-07-15T12:50:33,494 cdef bint geom_changed(CartToInternal self, double[:, :] pos, 2021-07-15T12:50:33,494 double[:, :] dummypos=None) nogil: 2021-07-15T12:50:33,494 cdef int i, j 2021-07-15T12:50:33,494 for i in range(self.nreal): 2021-07-15T12:50:33,494 for j in range(3): 2021-07-15T12:50:33,495 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,495 ^ 2021-07-15T12:50:33,495 ------------------------------------------------------------ 2021-07-15T12:50:33,495 sella/internal/int_classes.pyx:247:40: Converting to Python object not allowed without gil 2021-07-15T12:50:33,495 Error compiling Cython file: 2021-07-15T12:50:33,495 ------------------------------------------------------------ 2021-07-15T12:50:33,495 ... 2021-07-15T12:50:33,496 for i in range(self.nreal): 2021-07-15T12:50:33,496 for j in range(3): 2021-07-15T12:50:33,496 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,496 return True 2021-07-15T12:50:33,496 for i in range(self.ndummies): 2021-07-15T12:50:33,496 ^ 2021-07-15T12:50:33,496 ------------------------------------------------------------ 2021-07-15T12:50:33,497 sella/internal/int_classes.pyx:250:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,497 Error compiling Cython file: 2021-07-15T12:50:33,497 ------------------------------------------------------------ 2021-07-15T12:50:33,497 ... 2021-07-15T12:50:33,497 for i in range(self.nreal): 2021-07-15T12:50:33,497 for j in range(3): 2021-07-15T12:50:33,497 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,498 return True 2021-07-15T12:50:33,498 for i in range(self.ndummies): 2021-07-15T12:50:33,498 ^ 2021-07-15T12:50:33,498 ------------------------------------------------------------ 2021-07-15T12:50:33,498 sella/internal/int_classes.pyx:250:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,498 Error compiling Cython file: 2021-07-15T12:50:33,499 ------------------------------------------------------------ 2021-07-15T12:50:33,499 ... 2021-07-15T12:50:33,499 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,499 return True 2021-07-15T12:50:33,499 for i in range(self.ndummies): 2021-07-15T12:50:33,499 for j in range(3): 2021-07-15T12:50:33,499 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,500 ^ 2021-07-15T12:50:33,500 ------------------------------------------------------------ 2021-07-15T12:50:33,500 sella/internal/int_classes.pyx:252:47: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,500 Error compiling Cython file: 2021-07-15T12:50:33,500 ------------------------------------------------------------ 2021-07-15T12:50:33,500 ... 2021-07-15T12:50:33,501 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,501 return True 2021-07-15T12:50:33,501 for i in range(self.ndummies): 2021-07-15T12:50:33,501 for j in range(3): 2021-07-15T12:50:33,501 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,501 ^ 2021-07-15T12:50:33,501 ------------------------------------------------------------ 2021-07-15T12:50:33,502 sella/internal/int_classes.pyx:252:47: Operation not allowed without gil 2021-07-15T12:50:33,502 Error compiling Cython file: 2021-07-15T12:50:33,502 ------------------------------------------------------------ 2021-07-15T12:50:33,502 ... 2021-07-15T12:50:33,502 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,502 return True 2021-07-15T12:50:33,503 for i in range(self.ndummies): 2021-07-15T12:50:33,503 for j in range(3): 2021-07-15T12:50:33,503 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,503 ^ 2021-07-15T12:50:33,503 ------------------------------------------------------------ 2021-07-15T12:50:33,503 sella/internal/int_classes.pyx:252:27: Indexing Python object not allowed without gil 2021-07-15T12:50:33,504 Error compiling Cython file: 2021-07-15T12:50:33,504 ------------------------------------------------------------ 2021-07-15T12:50:33,504 ... 2021-07-15T12:50:33,504 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,504 return True 2021-07-15T12:50:33,504 for i in range(self.ndummies): 2021-07-15T12:50:33,504 for j in range(3): 2021-07-15T12:50:33,504 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,505 ^ 2021-07-15T12:50:33,505 ------------------------------------------------------------ 2021-07-15T12:50:33,505 sella/internal/int_classes.pyx:252:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,505 Error compiling Cython file: 2021-07-15T12:50:33,505 ------------------------------------------------------------ 2021-07-15T12:50:33,506 ... 2021-07-15T12:50:33,506 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,506 return True 2021-07-15T12:50:33,506 for i in range(self.ndummies): 2021-07-15T12:50:33,506 for j in range(3): 2021-07-15T12:50:33,506 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,506 ^ 2021-07-15T12:50:33,506 ------------------------------------------------------------ 2021-07-15T12:50:33,507 sella/internal/int_classes.pyx:252:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,507 Error compiling Cython file: 2021-07-15T12:50:33,507 ------------------------------------------------------------ 2021-07-15T12:50:33,507 ... 2021-07-15T12:50:33,507 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,507 return True 2021-07-15T12:50:33,508 for i in range(self.ndummies): 2021-07-15T12:50:33,508 for j in range(3): 2021-07-15T12:50:33,508 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,508 ^ 2021-07-15T12:50:33,508 ------------------------------------------------------------ 2021-07-15T12:50:33,508 sella/internal/int_classes.pyx:252:39: Operation not allowed without gil 2021-07-15T12:50:33,509 Error compiling Cython file: 2021-07-15T12:50:33,509 ------------------------------------------------------------ 2021-07-15T12:50:33,509 ... 2021-07-15T12:50:33,509 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,509 return True 2021-07-15T12:50:33,509 for i in range(self.ndummies): 2021-07-15T12:50:33,509 for j in range(3): 2021-07-15T12:50:33,510 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,510 ^ 2021-07-15T12:50:33,510 ------------------------------------------------------------ 2021-07-15T12:50:33,510 sella/internal/int_classes.pyx:252:32: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,510 Error compiling Cython file: 2021-07-15T12:50:33,510 ------------------------------------------------------------ 2021-07-15T12:50:33,510 ... 2021-07-15T12:50:33,511 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,511 return True 2021-07-15T12:50:33,511 for i in range(self.ndummies): 2021-07-15T12:50:33,511 for j in range(3): 2021-07-15T12:50:33,511 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,511 ^ 2021-07-15T12:50:33,511 ------------------------------------------------------------ 2021-07-15T12:50:33,512 sella/internal/int_classes.pyx:252:41: Converting to Python object not allowed without gil 2021-07-15T12:50:33,512 Error compiling Cython file: 2021-07-15T12:50:33,512 ------------------------------------------------------------ 2021-07-15T12:50:33,512 ... 2021-07-15T12:50:33,512 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,512 return True 2021-07-15T12:50:33,513 for i in range(self.ndummies): 2021-07-15T12:50:33,513 for j in range(3): 2021-07-15T12:50:33,513 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,513 ^ 2021-07-15T12:50:33,513 ------------------------------------------------------------ 2021-07-15T12:50:33,513 sella/internal/int_classes.pyx:252:44: Converting to Python object not allowed without gil 2021-07-15T12:50:33,514 Error compiling Cython file: 2021-07-15T12:50:33,514 ------------------------------------------------------------ 2021-07-15T12:50:33,514 ... 2021-07-15T12:50:33,514 if self.pos[i, j] != pos[i, j]: 2021-07-15T12:50:33,514 return True 2021-07-15T12:50:33,514 for i in range(self.ndummies): 2021-07-15T12:50:33,514 for j in range(3): 2021-07-15T12:50:33,514 if self.pos[self.nreal + i, j] != dummypos[i, j]: 2021-07-15T12:50:33,515 ^ 2021-07-15T12:50:33,515 ------------------------------------------------------------ 2021-07-15T12:50:33,515 sella/internal/int_classes.pyx:252:58: Converting to Python object not allowed without gil 2021-07-15T12:50:33,515 Error compiling Cython file: 2021-07-15T12:50:33,515 ------------------------------------------------------------ 2021-07-15T12:50:33,515 ... 2021-07-15T12:50:33,516 return -1 2021-07-15T12:50:33,516 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,516 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,516 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,516 # comparison with ==. 2021-07-15T12:50:33,516 if not self.calc_required and not force: 2021-07-15T12:50:33,516 ^ 2021-07-15T12:50:33,516 ------------------------------------------------------------ 2021-07-15T12:50:33,517 sella/internal/int_classes.pyx:269:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,517 Error compiling Cython file: 2021-07-15T12:50:33,517 ------------------------------------------------------------ 2021-07-15T12:50:33,517 ... 2021-07-15T12:50:33,517 return -1 2021-07-15T12:50:33,518 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,518 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,518 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,518 # comparison with ==. 2021-07-15T12:50:33,518 if not self.calc_required and not force: 2021-07-15T12:50:33,518 ^ 2021-07-15T12:50:33,518 ------------------------------------------------------------ 2021-07-15T12:50:33,519 sella/internal/int_classes.pyx:269:19: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,519 Error compiling Cython file: 2021-07-15T12:50:33,519 ------------------------------------------------------------ 2021-07-15T12:50:33,519 ... 2021-07-15T12:50:33,519 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,520 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,520 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,520 # comparison with ==. 2021-07-15T12:50:33,520 if not self.calc_required and not force: 2021-07-15T12:50:33,520 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,520 ^ 2021-07-15T12:50:33,520 ------------------------------------------------------------ 2021-07-15T12:50:33,520 sella/internal/int_classes.pyx:270:20: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,521 Error compiling Cython file: 2021-07-15T12:50:33,521 ------------------------------------------------------------ 2021-07-15T12:50:33,521 ... 2021-07-15T12:50:33,521 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,521 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,521 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,521 # comparison with ==. 2021-07-15T12:50:33,522 if not self.calc_required and not force: 2021-07-15T12:50:33,522 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,522 ^ 2021-07-15T12:50:33,522 ------------------------------------------------------------ 2021-07-15T12:50:33,522 sella/internal/int_classes.pyx:270:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,522 Error compiling Cython file: 2021-07-15T12:50:33,522 ------------------------------------------------------------ 2021-07-15T12:50:33,523 ... 2021-07-15T12:50:33,523 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,523 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,523 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,523 # comparison with ==. 2021-07-15T12:50:33,523 if not self.calc_required and not force: 2021-07-15T12:50:33,523 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,523 ^ 2021-07-15T12:50:33,524 ------------------------------------------------------------ 2021-07-15T12:50:33,524 sella/internal/int_classes.pyx:270:48: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,524 Error compiling Cython file: 2021-07-15T12:50:33,524 ------------------------------------------------------------ 2021-07-15T12:50:33,524 ... 2021-07-15T12:50:33,524 # The purpose of this check is to determine whether the positions 2021-07-15T12:50:33,525 # array has been changed at all since the last internal coordinate 2021-07-15T12:50:33,525 # evaluation, which is why we are doing exact floating point 2021-07-15T12:50:33,525 # comparison with ==. 2021-07-15T12:50:33,525 if not self.calc_required and not force: 2021-07-15T12:50:33,525 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,525 ^ 2021-07-15T12:50:33,525 ------------------------------------------------------------ 2021-07-15T12:50:33,526 sella/internal/int_classes.pyx:270:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,526 Error compiling Cython file: 2021-07-15T12:50:33,526 ------------------------------------------------------------ 2021-07-15T12:50:33,526 ... 2021-07-15T12:50:33,526 # comparison with ==. 2021-07-15T12:50:33,526 if not self.calc_required and not force: 2021-07-15T12:50:33,526 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,526 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,527 return 0 2021-07-15T12:50:33,527 self.calc_required = True 2021-07-15T12:50:33,527 ^ 2021-07-15T12:50:33,527 ------------------------------------------------------------ 2021-07-15T12:50:33,527 sella/internal/int_classes.pyx:273:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,527 Error compiling Cython file: 2021-07-15T12:50:33,527 ------------------------------------------------------------ 2021-07-15T12:50:33,528 ... 2021-07-15T12:50:33,528 if not self.calc_required and not force: 2021-07-15T12:50:33,528 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,528 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,528 return 0 2021-07-15T12:50:33,528 self.calc_required = True 2021-07-15T12:50:33,528 self.grad = grad or curv 2021-07-15T12:50:33,528 ^ 2021-07-15T12:50:33,529 ------------------------------------------------------------ 2021-07-15T12:50:33,529 sella/internal/int_classes.pyx:274:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,529 Error compiling Cython file: 2021-07-15T12:50:33,529 ------------------------------------------------------------ 2021-07-15T12:50:33,529 ... 2021-07-15T12:50:33,529 if not self.calc_required and not force: 2021-07-15T12:50:33,529 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,530 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,530 return 0 2021-07-15T12:50:33,530 self.calc_required = True 2021-07-15T12:50:33,530 self.grad = grad or curv 2021-07-15T12:50:33,530 ^ 2021-07-15T12:50:33,530 ------------------------------------------------------------ 2021-07-15T12:50:33,530 sella/internal/int_classes.pyx:274:25: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,531 Error compiling Cython file: 2021-07-15T12:50:33,531 ------------------------------------------------------------ 2021-07-15T12:50:33,531 ... 2021-07-15T12:50:33,531 if not self.calc_required and not force: 2021-07-15T12:50:33,531 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,531 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,531 return 0 2021-07-15T12:50:33,531 self.calc_required = True 2021-07-15T12:50:33,532 self.grad = grad or curv 2021-07-15T12:50:33,532 ^ 2021-07-15T12:50:33,532 ------------------------------------------------------------ 2021-07-15T12:50:33,532 sella/internal/int_classes.pyx:274:20: Converting to Python object not allowed without gil 2021-07-15T12:50:33,532 Error compiling Cython file: 2021-07-15T12:50:33,532 ------------------------------------------------------------ 2021-07-15T12:50:33,533 ... 2021-07-15T12:50:33,533 if not self.calc_required and not force: 2021-07-15T12:50:33,533 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,533 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,533 return 0 2021-07-15T12:50:33,533 self.calc_required = True 2021-07-15T12:50:33,533 self.grad = grad or curv 2021-07-15T12:50:33,533 ^ 2021-07-15T12:50:33,533 ------------------------------------------------------------ 2021-07-15T12:50:33,534 sella/internal/int_classes.pyx:274:28: Converting to Python object not allowed without gil 2021-07-15T12:50:33,534 Error compiling Cython file: 2021-07-15T12:50:33,534 ------------------------------------------------------------ 2021-07-15T12:50:33,534 ... 2021-07-15T12:50:33,534 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,534 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,535 return 0 2021-07-15T12:50:33,535 self.calc_required = True 2021-07-15T12:50:33,535 self.grad = grad or curv 2021-07-15T12:50:33,535 self.curv = curv 2021-07-15T12:50:33,535 ^ 2021-07-15T12:50:33,535 ------------------------------------------------------------ 2021-07-15T12:50:33,535 sella/internal/int_classes.pyx:275:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,536 Error compiling Cython file: 2021-07-15T12:50:33,536 ------------------------------------------------------------ 2021-07-15T12:50:33,536 ... 2021-07-15T12:50:33,536 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:33,536 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:33,536 return 0 2021-07-15T12:50:33,536 self.calc_required = True 2021-07-15T12:50:33,536 self.grad = grad or curv 2021-07-15T12:50:33,537 self.curv = curv 2021-07-15T12:50:33,537 ^ 2021-07-15T12:50:33,537 ------------------------------------------------------------ 2021-07-15T12:50:33,537 sella/internal/int_classes.pyx:275:20: Converting to Python object not allowed without gil 2021-07-15T12:50:33,537 Error compiling Cython file: 2021-07-15T12:50:33,537 ------------------------------------------------------------ 2021-07-15T12:50:33,538 ... 2021-07-15T12:50:33,538 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,538 cdef int info, err 2021-07-15T12:50:33,538 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,538 # Zero out our arrays 2021-07-15T12:50:33,538 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,538 ^ 2021-07-15T12:50:33,538 ------------------------------------------------------------ 2021-07-15T12:50:33,539 sella/internal/int_classes.pyx:281:23: Indexing Python object not allowed without gil 2021-07-15T12:50:33,539 Error compiling Cython file: 2021-07-15T12:50:33,539 ------------------------------------------------------------ 2021-07-15T12:50:33,539 ... 2021-07-15T12:50:33,539 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,539 cdef int info, err 2021-07-15T12:50:33,540 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,540 # Zero out our arrays 2021-07-15T12:50:33,540 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,540 ^ 2021-07-15T12:50:33,540 ------------------------------------------------------------ 2021-07-15T12:50:33,540 sella/internal/int_classes.pyx:281:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,541 Error compiling Cython file: 2021-07-15T12:50:33,541 ------------------------------------------------------------ 2021-07-15T12:50:33,541 ... 2021-07-15T12:50:33,541 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,541 cdef int info, err 2021-07-15T12:50:33,541 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,541 # Zero out our arrays 2021-07-15T12:50:33,542 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,542 ^ 2021-07-15T12:50:33,542 ------------------------------------------------------------ 2021-07-15T12:50:33,542 sella/internal/int_classes.pyx:281:39: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,542 Error compiling Cython file: 2021-07-15T12:50:33,543 ------------------------------------------------------------ 2021-07-15T12:50:33,543 ... 2021-07-15T12:50:33,543 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,543 cdef int info, err 2021-07-15T12:50:33,543 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,544 # Zero out our arrays 2021-07-15T12:50:33,544 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,544 ^ 2021-07-15T12:50:33,544 ------------------------------------------------------------ 2021-07-15T12:50:33,544 sella/internal/int_classes.pyx:281:39: Operation not allowed without gil 2021-07-15T12:50:33,544 Error compiling Cython file: 2021-07-15T12:50:33,545 ------------------------------------------------------------ 2021-07-15T12:50:33,545 ... 2021-07-15T12:50:33,545 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,545 cdef int info, err 2021-07-15T12:50:33,545 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,545 # Zero out our arrays 2021-07-15T12:50:33,545 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,546 ^ 2021-07-15T12:50:33,546 ------------------------------------------------------------ 2021-07-15T12:50:33,546 sella/internal/int_classes.pyx:281:35: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,546 Error compiling Cython file: 2021-07-15T12:50:33,546 ------------------------------------------------------------ 2021-07-15T12:50:33,546 ... 2021-07-15T12:50:33,547 cdef size_t n, m, i, j, k, l 2021-07-15T12:50:33,547 cdef int info, err 2021-07-15T12:50:33,547 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,547 # Zero out our arrays 2021-07-15T12:50:33,547 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,547 ^ 2021-07-15T12:50:33,547 ------------------------------------------------------------ 2021-07-15T12:50:33,548 sella/internal/int_classes.pyx:281:41: Converting to Python object not allowed without gil 2021-07-15T12:50:33,548 Error compiling Cython file: 2021-07-15T12:50:33,548 ------------------------------------------------------------ 2021-07-15T12:50:33,548 ... 2021-07-15T12:50:33,548 cdef int info, err 2021-07-15T12:50:33,548 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,549 # Zero out our arrays 2021-07-15T12:50:33,549 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,549 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,549 ^ 2021-07-15T12:50:33,549 ------------------------------------------------------------ 2021-07-15T12:50:33,549 sella/internal/int_classes.pyx:282:23: Indexing Python object not allowed without gil 2021-07-15T12:50:33,550 Error compiling Cython file: 2021-07-15T12:50:33,550 ------------------------------------------------------------ 2021-07-15T12:50:33,550 ... 2021-07-15T12:50:33,550 cdef int info, err 2021-07-15T12:50:33,550 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,550 # Zero out our arrays 2021-07-15T12:50:33,550 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,550 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,551 ^ 2021-07-15T12:50:33,551 ------------------------------------------------------------ 2021-07-15T12:50:33,551 sella/internal/int_classes.pyx:282:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,551 Error compiling Cython file: 2021-07-15T12:50:33,551 ------------------------------------------------------------ 2021-07-15T12:50:33,551 ... 2021-07-15T12:50:33,552 cdef int info, err 2021-07-15T12:50:33,552 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,552 # Zero out our arrays 2021-07-15T12:50:33,552 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,552 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,552 ^ 2021-07-15T12:50:33,552 ------------------------------------------------------------ 2021-07-15T12:50:33,553 sella/internal/int_classes.pyx:282:23: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,553 Error compiling Cython file: 2021-07-15T12:50:33,553 ------------------------------------------------------------ 2021-07-15T12:50:33,553 ... 2021-07-15T12:50:33,553 cdef int info, err 2021-07-15T12:50:33,553 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,554 # Zero out our arrays 2021-07-15T12:50:33,554 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,554 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,554 ^ 2021-07-15T12:50:33,554 ------------------------------------------------------------ 2021-07-15T12:50:33,554 sella/internal/int_classes.pyx:282:55: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,555 Error compiling Cython file: 2021-07-15T12:50:33,555 ------------------------------------------------------------ 2021-07-15T12:50:33,555 ... 2021-07-15T12:50:33,555 cdef int info, err 2021-07-15T12:50:33,555 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,555 # Zero out our arrays 2021-07-15T12:50:33,555 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,555 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,556 ^ 2021-07-15T12:50:33,556 ------------------------------------------------------------ 2021-07-15T12:50:33,556 sella/internal/int_classes.pyx:282:55: Operation not allowed without gil 2021-07-15T12:50:33,556 Error compiling Cython file: 2021-07-15T12:50:33,556 ------------------------------------------------------------ 2021-07-15T12:50:33,556 ... 2021-07-15T12:50:33,557 cdef int info, err 2021-07-15T12:50:33,557 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,557 # Zero out our arrays 2021-07-15T12:50:33,557 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,557 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,557 ^ 2021-07-15T12:50:33,557 ------------------------------------------------------------ 2021-07-15T12:50:33,558 sella/internal/int_classes.pyx:282:45: Operation not allowed without gil 2021-07-15T12:50:33,558 Error compiling Cython file: 2021-07-15T12:50:33,558 ------------------------------------------------------------ 2021-07-15T12:50:33,558 ... 2021-07-15T12:50:33,558 cdef int info, err 2021-07-15T12:50:33,558 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,559 # Zero out our arrays 2021-07-15T12:50:33,559 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,559 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,559 ^ 2021-07-15T12:50:33,559 ------------------------------------------------------------ 2021-07-15T12:50:33,559 sella/internal/int_classes.pyx:282:41: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,560 Error compiling Cython file: 2021-07-15T12:50:33,560 ------------------------------------------------------------ 2021-07-15T12:50:33,560 ... 2021-07-15T12:50:33,560 cdef int info, err 2021-07-15T12:50:33,560 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,560 # Zero out our arrays 2021-07-15T12:50:33,560 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,560 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,561 ^ 2021-07-15T12:50:33,561 ------------------------------------------------------------ 2021-07-15T12:50:33,561 sella/internal/int_classes.pyx:282:51: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,561 Error compiling Cython file: 2021-07-15T12:50:33,561 ------------------------------------------------------------ 2021-07-15T12:50:33,561 ... 2021-07-15T12:50:33,562 cdef int info, err 2021-07-15T12:50:33,562 cdef size_t sd = sizeof(double) 2021-07-15T12:50:33,562 # Zero out our arrays 2021-07-15T12:50:33,562 memset(&self.q1[0], 0, self.nq * sd) 2021-07-15T12:50:33,562 memset(&self.dq[0, 0, 0], 0, self.nq * self.nx * sd) 2021-07-15T12:50:33,562 ^ 2021-07-15T12:50:33,562 ------------------------------------------------------------ 2021-07-15T12:50:33,563 sella/internal/int_classes.pyx:282:57: Converting to Python object not allowed without gil 2021-07-15T12:50:33,563 Error compiling Cython file: 2021-07-15T12:50:33,563 ------------------------------------------------------------ 2021-07-15T12:50:33,563 ... 2021-07-15T12:50:33,563 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,563 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,564 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,564 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,564 if self.nbonds > 0: 2021-07-15T12:50:33,564 ^ 2021-07-15T12:50:33,564 ------------------------------------------------------------ 2021-07-15T12:50:33,564 sella/internal/int_classes.pyx:288:23: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,564 Error compiling Cython file: 2021-07-15T12:50:33,565 ------------------------------------------------------------ 2021-07-15T12:50:33,565 ... 2021-07-15T12:50:33,565 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,565 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,565 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,565 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,566 if self.nbonds > 0: 2021-07-15T12:50:33,566 ^ 2021-07-15T12:50:33,566 ------------------------------------------------------------ 2021-07-15T12:50:33,566 sella/internal/int_classes.pyx:288:23: Operation not allowed without gil 2021-07-15T12:50:33,566 Error compiling Cython file: 2021-07-15T12:50:33,566 ------------------------------------------------------------ 2021-07-15T12:50:33,566 ... 2021-07-15T12:50:33,567 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,567 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,567 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,567 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,567 if self.nbonds > 0: 2021-07-15T12:50:33,567 ^ 2021-07-15T12:50:33,567 ------------------------------------------------------------ 2021-07-15T12:50:33,568 sella/internal/int_classes.pyx:288:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,568 Error compiling Cython file: 2021-07-15T12:50:33,568 ------------------------------------------------------------ 2021-07-15T12:50:33,568 ... 2021-07-15T12:50:33,568 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,568 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,568 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,569 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,569 if self.nbonds > 0: 2021-07-15T12:50:33,569 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,569 ^ 2021-07-15T12:50:33,569 ------------------------------------------------------------ 2021-07-15T12:50:33,569 sella/internal/int_classes.pyx:289:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,570 Error compiling Cython file: 2021-07-15T12:50:33,570 ------------------------------------------------------------ 2021-07-15T12:50:33,570 ... 2021-07-15T12:50:33,570 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,570 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,570 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,571 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,571 if self.nbonds > 0: 2021-07-15T12:50:33,571 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,571 ^ 2021-07-15T12:50:33,571 ------------------------------------------------------------ 2021-07-15T12:50:33,571 sella/internal/int_classes.pyx:289:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,572 Error compiling Cython file: 2021-07-15T12:50:33,572 ------------------------------------------------------------ 2021-07-15T12:50:33,572 ... 2021-07-15T12:50:33,572 # I'm not sure why these "> 0" checks are necessary; according to the 2021-07-15T12:50:33,572 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,572 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,572 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,572 if self.nbonds > 0: 2021-07-15T12:50:33,573 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,573 ^ 2021-07-15T12:50:33,573 ------------------------------------------------------------ 2021-07-15T12:50:33,573 sella/internal/int_classes.pyx:289:34: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,573 Error compiling Cython file: 2021-07-15T12:50:33,573 ------------------------------------------------------------ 2021-07-15T12:50:33,574 ... 2021-07-15T12:50:33,574 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,574 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,574 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,574 if self.nbonds > 0: 2021-07-15T12:50:33,574 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,574 self.nbonds * 36 * sd) 2021-07-15T12:50:33,574 ^ 2021-07-15T12:50:33,575 ------------------------------------------------------------ 2021-07-15T12:50:33,575 sella/internal/int_classes.pyx:290:36: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,575 Error compiling Cython file: 2021-07-15T12:50:33,575 ------------------------------------------------------------ 2021-07-15T12:50:33,575 ... 2021-07-15T12:50:33,575 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,575 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,576 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,576 if self.nbonds > 0: 2021-07-15T12:50:33,576 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,576 self.nbonds * 36 * sd) 2021-07-15T12:50:33,576 ^ 2021-07-15T12:50:33,576 ------------------------------------------------------------ 2021-07-15T12:50:33,576 sella/internal/int_classes.pyx:290:36: Operation not allowed without gil 2021-07-15T12:50:33,577 Error compiling Cython file: 2021-07-15T12:50:33,577 ------------------------------------------------------------ 2021-07-15T12:50:33,577 ... 2021-07-15T12:50:33,577 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,577 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,577 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,577 if self.nbonds > 0: 2021-07-15T12:50:33,577 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,578 self.nbonds * 36 * sd) 2021-07-15T12:50:33,578 ^ 2021-07-15T12:50:33,578 ------------------------------------------------------------ 2021-07-15T12:50:33,578 sella/internal/int_classes.pyx:290:31: Operation not allowed without gil 2021-07-15T12:50:33,578 Error compiling Cython file: 2021-07-15T12:50:33,578 ------------------------------------------------------------ 2021-07-15T12:50:33,579 ... 2021-07-15T12:50:33,579 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,579 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,579 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,579 if self.nbonds > 0: 2021-07-15T12:50:33,579 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,579 self.nbonds * 36 * sd) 2021-07-15T12:50:33,579 ^ 2021-07-15T12:50:33,580 ------------------------------------------------------------ 2021-07-15T12:50:33,580 sella/internal/int_classes.pyx:290:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,580 Error compiling Cython file: 2021-07-15T12:50:33,580 ------------------------------------------------------------ 2021-07-15T12:50:33,580 ... 2021-07-15T12:50:33,580 # C standard, memset accepts a length of 0 (though it results in a 2021-07-15T12:50:33,580 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,581 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,581 if self.nbonds > 0: 2021-07-15T12:50:33,581 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,581 self.nbonds * 36 * sd) 2021-07-15T12:50:33,581 ^ 2021-07-15T12:50:33,581 ------------------------------------------------------------ 2021-07-15T12:50:33,581 sella/internal/int_classes.pyx:290:38: Converting to Python object not allowed without gil 2021-07-15T12:50:33,582 Error compiling Cython file: 2021-07-15T12:50:33,582 ------------------------------------------------------------ 2021-07-15T12:50:33,582 ... 2021-07-15T12:50:33,582 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,582 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,582 if self.nbonds > 0: 2021-07-15T12:50:33,582 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,583 self.nbonds * 36 * sd) 2021-07-15T12:50:33,583 if self.nangles > 0: 2021-07-15T12:50:33,583 ^ 2021-07-15T12:50:33,583 ------------------------------------------------------------ 2021-07-15T12:50:33,583 sella/internal/int_classes.pyx:291:24: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,583 Error compiling Cython file: 2021-07-15T12:50:33,584 ------------------------------------------------------------ 2021-07-15T12:50:33,584 ... 2021-07-15T12:50:33,584 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,584 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,584 if self.nbonds > 0: 2021-07-15T12:50:33,584 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,584 self.nbonds * 36 * sd) 2021-07-15T12:50:33,584 if self.nangles > 0: 2021-07-15T12:50:33,585 ^ 2021-07-15T12:50:33,585 ------------------------------------------------------------ 2021-07-15T12:50:33,585 sella/internal/int_classes.pyx:291:24: Operation not allowed without gil 2021-07-15T12:50:33,585 Error compiling Cython file: 2021-07-15T12:50:33,585 ------------------------------------------------------------ 2021-07-15T12:50:33,586 ... 2021-07-15T12:50:33,586 # no-op), but Cython keeps giving out-of-bounds errors. Maybe it's 2021-07-15T12:50:33,586 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,586 if self.nbonds > 0: 2021-07-15T12:50:33,586 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,586 self.nbonds * 36 * sd) 2021-07-15T12:50:33,586 if self.nangles > 0: 2021-07-15T12:50:33,586 ^ 2021-07-15T12:50:33,586 ------------------------------------------------------------ 2021-07-15T12:50:33,587 sella/internal/int_classes.pyx:291:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,587 Error compiling Cython file: 2021-07-15T12:50:33,587 ------------------------------------------------------------ 2021-07-15T12:50:33,587 ... 2021-07-15T12:50:33,587 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,587 if self.nbonds > 0: 2021-07-15T12:50:33,588 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,588 self.nbonds * 36 * sd) 2021-07-15T12:50:33,588 if self.nangles > 0: 2021-07-15T12:50:33,588 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,588 ^ 2021-07-15T12:50:33,588 ------------------------------------------------------------ 2021-07-15T12:50:33,588 sella/internal/int_classes.pyx:292:35: Indexing Python object not allowed without gil 2021-07-15T12:50:33,589 Error compiling Cython file: 2021-07-15T12:50:33,589 ------------------------------------------------------------ 2021-07-15T12:50:33,589 ... 2021-07-15T12:50:33,589 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,589 if self.nbonds > 0: 2021-07-15T12:50:33,589 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,589 self.nbonds * 36 * sd) 2021-07-15T12:50:33,589 if self.nangles > 0: 2021-07-15T12:50:33,590 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,590 ^ 2021-07-15T12:50:33,590 ------------------------------------------------------------ 2021-07-15T12:50:33,590 sella/internal/int_classes.pyx:292:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,590 Error compiling Cython file: 2021-07-15T12:50:33,590 ------------------------------------------------------------ 2021-07-15T12:50:33,591 ... 2021-07-15T12:50:33,591 # because indexing memoryviews of size 0 doesn't work? 2021-07-15T12:50:33,591 if self.nbonds > 0: 2021-07-15T12:50:33,591 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,591 self.nbonds * 36 * sd) 2021-07-15T12:50:33,591 if self.nangles > 0: 2021-07-15T12:50:33,591 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,591 ^ 2021-07-15T12:50:33,591 ------------------------------------------------------------ 2021-07-15T12:50:33,592 sella/internal/int_classes.pyx:292:35: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,592 Error compiling Cython file: 2021-07-15T12:50:33,592 ------------------------------------------------------------ 2021-07-15T12:50:33,592 ... 2021-07-15T12:50:33,592 if self.nbonds > 0: 2021-07-15T12:50:33,592 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,593 self.nbonds * 36 * sd) 2021-07-15T12:50:33,593 if self.nangles > 0: 2021-07-15T12:50:33,593 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,593 self.nangles * 81 * sd) 2021-07-15T12:50:33,593 ^ 2021-07-15T12:50:33,593 ------------------------------------------------------------ 2021-07-15T12:50:33,593 sella/internal/int_classes.pyx:293:37: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,594 Error compiling Cython file: 2021-07-15T12:50:33,594 ------------------------------------------------------------ 2021-07-15T12:50:33,594 ... 2021-07-15T12:50:33,594 if self.nbonds > 0: 2021-07-15T12:50:33,594 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,595 self.nbonds * 36 * sd) 2021-07-15T12:50:33,595 if self.nangles > 0: 2021-07-15T12:50:33,595 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,595 self.nangles * 81 * sd) 2021-07-15T12:50:33,595 ^ 2021-07-15T12:50:33,595 ------------------------------------------------------------ 2021-07-15T12:50:33,596 sella/internal/int_classes.pyx:293:37: Operation not allowed without gil 2021-07-15T12:50:33,596 Error compiling Cython file: 2021-07-15T12:50:33,596 ------------------------------------------------------------ 2021-07-15T12:50:33,596 ... 2021-07-15T12:50:33,596 if self.nbonds > 0: 2021-07-15T12:50:33,596 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,596 self.nbonds * 36 * sd) 2021-07-15T12:50:33,597 if self.nangles > 0: 2021-07-15T12:50:33,597 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,597 self.nangles * 81 * sd) 2021-07-15T12:50:33,597 ^ 2021-07-15T12:50:33,597 ------------------------------------------------------------ 2021-07-15T12:50:33,597 sella/internal/int_classes.pyx:293:32: Operation not allowed without gil 2021-07-15T12:50:33,598 Error compiling Cython file: 2021-07-15T12:50:33,598 ------------------------------------------------------------ 2021-07-15T12:50:33,598 ... 2021-07-15T12:50:33,598 if self.nbonds > 0: 2021-07-15T12:50:33,598 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,598 self.nbonds * 36 * sd) 2021-07-15T12:50:33,598 if self.nangles > 0: 2021-07-15T12:50:33,598 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,599 self.nangles * 81 * sd) 2021-07-15T12:50:33,599 ^ 2021-07-15T12:50:33,599 ------------------------------------------------------------ 2021-07-15T12:50:33,599 sella/internal/int_classes.pyx:293:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,599 Error compiling Cython file: 2021-07-15T12:50:33,599 ------------------------------------------------------------ 2021-07-15T12:50:33,599 ... 2021-07-15T12:50:33,600 if self.nbonds > 0: 2021-07-15T12:50:33,600 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,600 self.nbonds * 36 * sd) 2021-07-15T12:50:33,600 if self.nangles > 0: 2021-07-15T12:50:33,600 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,600 self.nangles * 81 * sd) 2021-07-15T12:50:33,600 ^ 2021-07-15T12:50:33,600 ------------------------------------------------------------ 2021-07-15T12:50:33,601 sella/internal/int_classes.pyx:293:39: Converting to Python object not allowed without gil 2021-07-15T12:50:33,601 Error compiling Cython file: 2021-07-15T12:50:33,601 ------------------------------------------------------------ 2021-07-15T12:50:33,601 ... 2021-07-15T12:50:33,601 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,601 self.nbonds * 36 * sd) 2021-07-15T12:50:33,601 if self.nangles > 0: 2021-07-15T12:50:33,602 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,602 self.nangles * 81 * sd) 2021-07-15T12:50:33,602 if self.ndihedrals > 0: 2021-07-15T12:50:33,602 ^ 2021-07-15T12:50:33,602 ------------------------------------------------------------ 2021-07-15T12:50:33,602 sella/internal/int_classes.pyx:294:27: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,603 Error compiling Cython file: 2021-07-15T12:50:33,603 ------------------------------------------------------------ 2021-07-15T12:50:33,603 ... 2021-07-15T12:50:33,603 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,603 self.nbonds * 36 * sd) 2021-07-15T12:50:33,603 if self.nangles > 0: 2021-07-15T12:50:33,603 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,603 self.nangles * 81 * sd) 2021-07-15T12:50:33,604 if self.ndihedrals > 0: 2021-07-15T12:50:33,604 ^ 2021-07-15T12:50:33,604 ------------------------------------------------------------ 2021-07-15T12:50:33,604 sella/internal/int_classes.pyx:294:27: Operation not allowed without gil 2021-07-15T12:50:33,604 Error compiling Cython file: 2021-07-15T12:50:33,604 ------------------------------------------------------------ 2021-07-15T12:50:33,604 ... 2021-07-15T12:50:33,605 memset(&self.d2q_bonds[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,605 self.nbonds * 36 * sd) 2021-07-15T12:50:33,605 if self.nangles > 0: 2021-07-15T12:50:33,605 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,605 self.nangles * 81 * sd) 2021-07-15T12:50:33,605 if self.ndihedrals > 0: 2021-07-15T12:50:33,605 ^ 2021-07-15T12:50:33,606 ------------------------------------------------------------ 2021-07-15T12:50:33,606 sella/internal/int_classes.pyx:294:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,606 Error compiling Cython file: 2021-07-15T12:50:33,606 ------------------------------------------------------------ 2021-07-15T12:50:33,606 ... 2021-07-15T12:50:33,606 self.nbonds * 36 * sd) 2021-07-15T12:50:33,606 if self.nangles > 0: 2021-07-15T12:50:33,607 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,607 self.nangles * 81 * sd) 2021-07-15T12:50:33,607 if self.ndihedrals > 0: 2021-07-15T12:50:33,607 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,607 ^ 2021-07-15T12:50:33,607 ------------------------------------------------------------ 2021-07-15T12:50:33,607 sella/internal/int_classes.pyx:295:38: Indexing Python object not allowed without gil 2021-07-15T12:50:33,608 Error compiling Cython file: 2021-07-15T12:50:33,608 ------------------------------------------------------------ 2021-07-15T12:50:33,608 ... 2021-07-15T12:50:33,608 self.nbonds * 36 * sd) 2021-07-15T12:50:33,608 if self.nangles > 0: 2021-07-15T12:50:33,608 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,608 self.nangles * 81 * sd) 2021-07-15T12:50:33,608 if self.ndihedrals > 0: 2021-07-15T12:50:33,609 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,609 ^ 2021-07-15T12:50:33,609 ------------------------------------------------------------ 2021-07-15T12:50:33,609 sella/internal/int_classes.pyx:295:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,609 Error compiling Cython file: 2021-07-15T12:50:33,609 ------------------------------------------------------------ 2021-07-15T12:50:33,610 ... 2021-07-15T12:50:33,610 self.nbonds * 36 * sd) 2021-07-15T12:50:33,610 if self.nangles > 0: 2021-07-15T12:50:33,610 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,610 self.nangles * 81 * sd) 2021-07-15T12:50:33,610 if self.ndihedrals > 0: 2021-07-15T12:50:33,610 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,610 ^ 2021-07-15T12:50:33,610 ------------------------------------------------------------ 2021-07-15T12:50:33,611 sella/internal/int_classes.pyx:295:38: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,611 Error compiling Cython file: 2021-07-15T12:50:33,611 ------------------------------------------------------------ 2021-07-15T12:50:33,611 ... 2021-07-15T12:50:33,611 if self.nangles > 0: 2021-07-15T12:50:33,611 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,611 self.nangles * 81 * sd) 2021-07-15T12:50:33,612 if self.ndihedrals > 0: 2021-07-15T12:50:33,612 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,612 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,612 ^ 2021-07-15T12:50:33,612 ------------------------------------------------------------ 2021-07-15T12:50:33,612 sella/internal/int_classes.pyx:296:41: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,613 Error compiling Cython file: 2021-07-15T12:50:33,613 ------------------------------------------------------------ 2021-07-15T12:50:33,613 ... 2021-07-15T12:50:33,613 if self.nangles > 0: 2021-07-15T12:50:33,613 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,613 self.nangles * 81 * sd) 2021-07-15T12:50:33,613 if self.ndihedrals > 0: 2021-07-15T12:50:33,613 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,614 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,614 ^ 2021-07-15T12:50:33,614 ------------------------------------------------------------ 2021-07-15T12:50:33,614 sella/internal/int_classes.pyx:296:41: Operation not allowed without gil 2021-07-15T12:50:33,614 Error compiling Cython file: 2021-07-15T12:50:33,614 ------------------------------------------------------------ 2021-07-15T12:50:33,614 ... 2021-07-15T12:50:33,615 if self.nangles > 0: 2021-07-15T12:50:33,615 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,615 self.nangles * 81 * sd) 2021-07-15T12:50:33,615 if self.ndihedrals > 0: 2021-07-15T12:50:33,615 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,615 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,615 ^ 2021-07-15T12:50:33,615 ------------------------------------------------------------ 2021-07-15T12:50:33,616 sella/internal/int_classes.pyx:296:35: Operation not allowed without gil 2021-07-15T12:50:33,616 Error compiling Cython file: 2021-07-15T12:50:33,616 ------------------------------------------------------------ 2021-07-15T12:50:33,616 ... 2021-07-15T12:50:33,616 if self.nangles > 0: 2021-07-15T12:50:33,616 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,616 self.nangles * 81 * sd) 2021-07-15T12:50:33,617 if self.ndihedrals > 0: 2021-07-15T12:50:33,617 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,617 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,617 ^ 2021-07-15T12:50:33,617 ------------------------------------------------------------ 2021-07-15T12:50:33,617 sella/internal/int_classes.pyx:296:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,618 Error compiling Cython file: 2021-07-15T12:50:33,618 ------------------------------------------------------------ 2021-07-15T12:50:33,618 ... 2021-07-15T12:50:33,618 if self.nangles > 0: 2021-07-15T12:50:33,618 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,618 self.nangles * 81 * sd) 2021-07-15T12:50:33,618 if self.ndihedrals > 0: 2021-07-15T12:50:33,618 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,619 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,619 ^ 2021-07-15T12:50:33,619 ------------------------------------------------------------ 2021-07-15T12:50:33,619 sella/internal/int_classes.pyx:296:43: Converting to Python object not allowed without gil 2021-07-15T12:50:33,619 Error compiling Cython file: 2021-07-15T12:50:33,619 ------------------------------------------------------------ 2021-07-15T12:50:33,619 ... 2021-07-15T12:50:33,620 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,620 self.nangles * 81 * sd) 2021-07-15T12:50:33,620 if self.ndihedrals > 0: 2021-07-15T12:50:33,620 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,620 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,620 if self.nangle_sums > 0: 2021-07-15T12:50:33,621 ^ 2021-07-15T12:50:33,621 ------------------------------------------------------------ 2021-07-15T12:50:33,621 sella/internal/int_classes.pyx:297:28: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,621 Error compiling Cython file: 2021-07-15T12:50:33,622 ------------------------------------------------------------ 2021-07-15T12:50:33,622 ... 2021-07-15T12:50:33,622 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,622 self.nangles * 81 * sd) 2021-07-15T12:50:33,622 if self.ndihedrals > 0: 2021-07-15T12:50:33,622 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,622 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,622 if self.nangle_sums > 0: 2021-07-15T12:50:33,623 ^ 2021-07-15T12:50:33,623 ------------------------------------------------------------ 2021-07-15T12:50:33,623 sella/internal/int_classes.pyx:297:28: Operation not allowed without gil 2021-07-15T12:50:33,623 Error compiling Cython file: 2021-07-15T12:50:33,623 ------------------------------------------------------------ 2021-07-15T12:50:33,623 ... 2021-07-15T12:50:33,624 memset(&self.d2q_angles[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,624 self.nangles * 81 * sd) 2021-07-15T12:50:33,624 if self.ndihedrals > 0: 2021-07-15T12:50:33,624 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,624 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,624 if self.nangle_sums > 0: 2021-07-15T12:50:33,624 ^ 2021-07-15T12:50:33,624 ------------------------------------------------------------ 2021-07-15T12:50:33,625 sella/internal/int_classes.pyx:297:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,625 Error compiling Cython file: 2021-07-15T12:50:33,625 ------------------------------------------------------------ 2021-07-15T12:50:33,625 ... 2021-07-15T12:50:33,625 self.nangles * 81 * sd) 2021-07-15T12:50:33,625 if self.ndihedrals > 0: 2021-07-15T12:50:33,625 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,626 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,626 if self.nangle_sums > 0: 2021-07-15T12:50:33,626 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,626 ^ 2021-07-15T12:50:33,626 ------------------------------------------------------------ 2021-07-15T12:50:33,626 sella/internal/int_classes.pyx:298:39: Indexing Python object not allowed without gil 2021-07-15T12:50:33,626 Error compiling Cython file: 2021-07-15T12:50:33,627 ------------------------------------------------------------ 2021-07-15T12:50:33,627 ... 2021-07-15T12:50:33,627 self.nangles * 81 * sd) 2021-07-15T12:50:33,627 if self.ndihedrals > 0: 2021-07-15T12:50:33,627 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,627 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,627 if self.nangle_sums > 0: 2021-07-15T12:50:33,627 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,628 ^ 2021-07-15T12:50:33,628 ------------------------------------------------------------ 2021-07-15T12:50:33,628 sella/internal/int_classes.pyx:298:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,628 Error compiling Cython file: 2021-07-15T12:50:33,628 ------------------------------------------------------------ 2021-07-15T12:50:33,628 ... 2021-07-15T12:50:33,628 self.nangles * 81 * sd) 2021-07-15T12:50:33,629 if self.ndihedrals > 0: 2021-07-15T12:50:33,629 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,629 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,629 if self.nangle_sums > 0: 2021-07-15T12:50:33,629 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,629 ^ 2021-07-15T12:50:33,629 ------------------------------------------------------------ 2021-07-15T12:50:33,630 sella/internal/int_classes.pyx:298:39: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,630 Error compiling Cython file: 2021-07-15T12:50:33,630 ------------------------------------------------------------ 2021-07-15T12:50:33,630 ... 2021-07-15T12:50:33,630 if self.ndihedrals > 0: 2021-07-15T12:50:33,630 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,630 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,631 if self.nangle_sums > 0: 2021-07-15T12:50:33,631 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,631 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,631 ^ 2021-07-15T12:50:33,631 ------------------------------------------------------------ 2021-07-15T12:50:33,631 sella/internal/int_classes.pyx:299:42: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,631 Error compiling Cython file: 2021-07-15T12:50:33,632 ------------------------------------------------------------ 2021-07-15T12:50:33,632 ... 2021-07-15T12:50:33,632 if self.ndihedrals > 0: 2021-07-15T12:50:33,632 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,632 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,632 if self.nangle_sums > 0: 2021-07-15T12:50:33,632 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,632 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,632 ^ 2021-07-15T12:50:33,633 ------------------------------------------------------------ 2021-07-15T12:50:33,633 sella/internal/int_classes.pyx:299:42: Operation not allowed without gil 2021-07-15T12:50:33,633 Error compiling Cython file: 2021-07-15T12:50:33,633 ------------------------------------------------------------ 2021-07-15T12:50:33,633 ... 2021-07-15T12:50:33,633 if self.ndihedrals > 0: 2021-07-15T12:50:33,634 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,634 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,634 if self.nangle_sums > 0: 2021-07-15T12:50:33,634 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,634 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,634 ^ 2021-07-15T12:50:33,634 ------------------------------------------------------------ 2021-07-15T12:50:33,634 sella/internal/int_classes.pyx:299:36: Operation not allowed without gil 2021-07-15T12:50:33,635 Error compiling Cython file: 2021-07-15T12:50:33,635 ------------------------------------------------------------ 2021-07-15T12:50:33,635 ... 2021-07-15T12:50:33,635 if self.ndihedrals > 0: 2021-07-15T12:50:33,635 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,635 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,635 if self.nangle_sums > 0: 2021-07-15T12:50:33,636 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,636 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,636 ^ 2021-07-15T12:50:33,636 ------------------------------------------------------------ 2021-07-15T12:50:33,636 sella/internal/int_classes.pyx:299:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,636 Error compiling Cython file: 2021-07-15T12:50:33,636 ------------------------------------------------------------ 2021-07-15T12:50:33,637 ... 2021-07-15T12:50:33,637 if self.ndihedrals > 0: 2021-07-15T12:50:33,637 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,637 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,637 if self.nangle_sums > 0: 2021-07-15T12:50:33,637 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,637 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,637 ^ 2021-07-15T12:50:33,638 ------------------------------------------------------------ 2021-07-15T12:50:33,638 sella/internal/int_classes.pyx:299:44: Converting to Python object not allowed without gil 2021-07-15T12:50:33,638 Error compiling Cython file: 2021-07-15T12:50:33,638 ------------------------------------------------------------ 2021-07-15T12:50:33,638 ... 2021-07-15T12:50:33,638 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,638 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,639 if self.nangle_sums > 0: 2021-07-15T12:50:33,639 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,639 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,639 if self.nangle_diffs > 0: 2021-07-15T12:50:33,639 ^ 2021-07-15T12:50:33,639 ------------------------------------------------------------ 2021-07-15T12:50:33,639 sella/internal/int_classes.pyx:300:29: Truth-testing Python object not allowed without gil 2021-07-15T12:50:33,640 Error compiling Cython file: 2021-07-15T12:50:33,640 ------------------------------------------------------------ 2021-07-15T12:50:33,640 ... 2021-07-15T12:50:33,640 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,640 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,640 if self.nangle_sums > 0: 2021-07-15T12:50:33,640 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,640 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,641 if self.nangle_diffs > 0: 2021-07-15T12:50:33,641 ^ 2021-07-15T12:50:33,641 ------------------------------------------------------------ 2021-07-15T12:50:33,641 sella/internal/int_classes.pyx:300:29: Operation not allowed without gil 2021-07-15T12:50:33,641 Error compiling Cython file: 2021-07-15T12:50:33,641 ------------------------------------------------------------ 2021-07-15T12:50:33,642 ... 2021-07-15T12:50:33,642 memset(&self.d2q_dihedrals[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,642 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,642 if self.nangle_sums > 0: 2021-07-15T12:50:33,642 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,642 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,642 if self.nangle_diffs > 0: 2021-07-15T12:50:33,642 ^ 2021-07-15T12:50:33,642 ------------------------------------------------------------ 2021-07-15T12:50:33,643 sella/internal/int_classes.pyx:300:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,643 Error compiling Cython file: 2021-07-15T12:50:33,643 ------------------------------------------------------------ 2021-07-15T12:50:33,643 ... 2021-07-15T12:50:33,643 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,643 if self.nangle_sums > 0: 2021-07-15T12:50:33,644 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,644 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,644 if self.nangle_diffs > 0: 2021-07-15T12:50:33,644 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,644 ^ 2021-07-15T12:50:33,644 ------------------------------------------------------------ 2021-07-15T12:50:33,644 sella/internal/int_classes.pyx:301:40: Indexing Python object not allowed without gil 2021-07-15T12:50:33,645 Error compiling Cython file: 2021-07-15T12:50:33,645 ------------------------------------------------------------ 2021-07-15T12:50:33,645 ... 2021-07-15T12:50:33,645 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,645 if self.nangle_sums > 0: 2021-07-15T12:50:33,645 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,646 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,646 if self.nangle_diffs > 0: 2021-07-15T12:50:33,646 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,646 ^ 2021-07-15T12:50:33,646 ------------------------------------------------------------ 2021-07-15T12:50:33,647 sella/internal/int_classes.pyx:301:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,647 Error compiling Cython file: 2021-07-15T12:50:33,647 ------------------------------------------------------------ 2021-07-15T12:50:33,647 ... 2021-07-15T12:50:33,647 self.ndihedrals * 144 * sd) 2021-07-15T12:50:33,647 if self.nangle_sums > 0: 2021-07-15T12:50:33,647 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,648 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,648 if self.nangle_diffs > 0: 2021-07-15T12:50:33,648 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,648 ^ 2021-07-15T12:50:33,648 ------------------------------------------------------------ 2021-07-15T12:50:33,648 sella/internal/int_classes.pyx:301:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,649 Error compiling Cython file: 2021-07-15T12:50:33,649 ------------------------------------------------------------ 2021-07-15T12:50:33,649 ... 2021-07-15T12:50:33,649 if self.nangle_sums > 0: 2021-07-15T12:50:33,649 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,649 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,649 if self.nangle_diffs > 0: 2021-07-15T12:50:33,649 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,649 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,650 ^ 2021-07-15T12:50:33,650 ------------------------------------------------------------ 2021-07-15T12:50:33,650 sella/internal/int_classes.pyx:302:43: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,650 Error compiling Cython file: 2021-07-15T12:50:33,650 ------------------------------------------------------------ 2021-07-15T12:50:33,650 ... 2021-07-15T12:50:33,651 if self.nangle_sums > 0: 2021-07-15T12:50:33,651 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,651 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,651 if self.nangle_diffs > 0: 2021-07-15T12:50:33,651 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,651 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,651 ^ 2021-07-15T12:50:33,651 ------------------------------------------------------------ 2021-07-15T12:50:33,652 sella/internal/int_classes.pyx:302:43: Operation not allowed without gil 2021-07-15T12:50:33,652 Error compiling Cython file: 2021-07-15T12:50:33,652 ------------------------------------------------------------ 2021-07-15T12:50:33,652 ... 2021-07-15T12:50:33,652 if self.nangle_sums > 0: 2021-07-15T12:50:33,652 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,652 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,653 if self.nangle_diffs > 0: 2021-07-15T12:50:33,653 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,653 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,653 ^ 2021-07-15T12:50:33,653 ------------------------------------------------------------ 2021-07-15T12:50:33,653 sella/internal/int_classes.pyx:302:37: Operation not allowed without gil 2021-07-15T12:50:33,653 Error compiling Cython file: 2021-07-15T12:50:33,654 ------------------------------------------------------------ 2021-07-15T12:50:33,654 ... 2021-07-15T12:50:33,654 if self.nangle_sums > 0: 2021-07-15T12:50:33,654 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,654 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,654 if self.nangle_diffs > 0: 2021-07-15T12:50:33,654 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,654 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,655 ^ 2021-07-15T12:50:33,655 ------------------------------------------------------------ 2021-07-15T12:50:33,655 sella/internal/int_classes.pyx:302:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,655 Error compiling Cython file: 2021-07-15T12:50:33,655 ------------------------------------------------------------ 2021-07-15T12:50:33,655 ... 2021-07-15T12:50:33,655 if self.nangle_sums > 0: 2021-07-15T12:50:33,656 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,656 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,656 if self.nangle_diffs > 0: 2021-07-15T12:50:33,656 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,656 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,656 ^ 2021-07-15T12:50:33,656 ------------------------------------------------------------ 2021-07-15T12:50:33,656 sella/internal/int_classes.pyx:302:45: Converting to Python object not allowed without gil 2021-07-15T12:50:33,657 Error compiling Cython file: 2021-07-15T12:50:33,657 ------------------------------------------------------------ 2021-07-15T12:50:33,657 ... 2021-07-15T12:50:33,657 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,657 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,657 if self.nangle_diffs > 0: 2021-07-15T12:50:33,657 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,658 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,658 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,658 ^ 2021-07-15T12:50:33,658 ------------------------------------------------------------ 2021-07-15T12:50:33,658 sella/internal/int_classes.pyx:303:26: Indexing Python object not allowed without gil 2021-07-15T12:50:33,658 Error compiling Cython file: 2021-07-15T12:50:33,658 ------------------------------------------------------------ 2021-07-15T12:50:33,659 ... 2021-07-15T12:50:33,659 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,659 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,659 if self.nangle_diffs > 0: 2021-07-15T12:50:33,659 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,659 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,659 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,659 ^ 2021-07-15T12:50:33,660 ------------------------------------------------------------ 2021-07-15T12:50:33,660 sella/internal/int_classes.pyx:303:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,660 Error compiling Cython file: 2021-07-15T12:50:33,660 ------------------------------------------------------------ 2021-07-15T12:50:33,660 ... 2021-07-15T12:50:33,660 memset(&self.d2q_angle_sums[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,661 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,661 if self.nangle_diffs > 0: 2021-07-15T12:50:33,661 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,661 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,661 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,661 ^ 2021-07-15T12:50:33,661 ------------------------------------------------------------ 2021-07-15T12:50:33,661 sella/internal/int_classes.pyx:303:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,662 Error compiling Cython file: 2021-07-15T12:50:33,662 ------------------------------------------------------------ 2021-07-15T12:50:33,662 ... 2021-07-15T12:50:33,662 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,662 if self.nangle_diffs > 0: 2021-07-15T12:50:33,662 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,662 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,663 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,663 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,663 ^ 2021-07-15T12:50:33,663 ------------------------------------------------------------ 2021-07-15T12:50:33,663 sella/internal/int_classes.pyx:304:26: Indexing Python object not allowed without gil 2021-07-15T12:50:33,663 Error compiling Cython file: 2021-07-15T12:50:33,663 ------------------------------------------------------------ 2021-07-15T12:50:33,664 ... 2021-07-15T12:50:33,664 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,664 if self.nangle_diffs > 0: 2021-07-15T12:50:33,664 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,664 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,664 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,664 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,664 ^ 2021-07-15T12:50:33,665 ------------------------------------------------------------ 2021-07-15T12:50:33,665 sella/internal/int_classes.pyx:304:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,665 Error compiling Cython file: 2021-07-15T12:50:33,665 ------------------------------------------------------------ 2021-07-15T12:50:33,665 ... 2021-07-15T12:50:33,665 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,666 if self.nangle_diffs > 0: 2021-07-15T12:50:33,666 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,666 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,666 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,666 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,666 ^ 2021-07-15T12:50:33,666 ------------------------------------------------------------ 2021-07-15T12:50:33,666 sella/internal/int_classes.pyx:304:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,667 Error compiling Cython file: 2021-07-15T12:50:33,667 ------------------------------------------------------------ 2021-07-15T12:50:33,667 ... 2021-07-15T12:50:33,667 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,667 if self.nangle_diffs > 0: 2021-07-15T12:50:33,667 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,667 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,667 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,668 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,668 ^ 2021-07-15T12:50:33,668 ------------------------------------------------------------ 2021-07-15T12:50:33,668 sella/internal/int_classes.pyx:304:45: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,668 Error compiling Cython file: 2021-07-15T12:50:33,668 ------------------------------------------------------------ 2021-07-15T12:50:33,669 ... 2021-07-15T12:50:33,669 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,669 if self.nangle_diffs > 0: 2021-07-15T12:50:33,669 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,669 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,669 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,669 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,669 ^ 2021-07-15T12:50:33,670 ------------------------------------------------------------ 2021-07-15T12:50:33,670 sella/internal/int_classes.pyx:304:45: Operation not allowed without gil 2021-07-15T12:50:33,670 Error compiling Cython file: 2021-07-15T12:50:33,670 ------------------------------------------------------------ 2021-07-15T12:50:33,670 ... 2021-07-15T12:50:33,671 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,671 if self.nangle_diffs > 0: 2021-07-15T12:50:33,671 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,671 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,671 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,671 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,671 ^ 2021-07-15T12:50:33,671 ------------------------------------------------------------ 2021-07-15T12:50:33,672 sella/internal/int_classes.pyx:304:41: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,672 Error compiling Cython file: 2021-07-15T12:50:33,672 ------------------------------------------------------------ 2021-07-15T12:50:33,672 ... 2021-07-15T12:50:33,672 self.nangle_sums * 144 * sd) 2021-07-15T12:50:33,672 if self.nangle_diffs > 0: 2021-07-15T12:50:33,672 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,673 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,673 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,673 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,673 ^ 2021-07-15T12:50:33,673 ------------------------------------------------------------ 2021-07-15T12:50:33,673 sella/internal/int_classes.pyx:304:47: Converting to Python object not allowed without gil 2021-07-15T12:50:33,673 Error compiling Cython file: 2021-07-15T12:50:33,674 ------------------------------------------------------------ 2021-07-15T12:50:33,674 ... 2021-07-15T12:50:33,674 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,674 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,674 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,674 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,674 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,674 ^ 2021-07-15T12:50:33,675 ------------------------------------------------------------ 2021-07-15T12:50:33,675 sella/internal/int_classes.pyx:306:16: Indexing Python object not allowed without gil 2021-07-15T12:50:33,675 Error compiling Cython file: 2021-07-15T12:50:33,675 ------------------------------------------------------------ 2021-07-15T12:50:33,675 ... 2021-07-15T12:50:33,675 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,676 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,676 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,676 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,676 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,676 ^ 2021-07-15T12:50:33,676 ------------------------------------------------------------ 2021-07-15T12:50:33,676 sella/internal/int_classes.pyx:306:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,677 Error compiling Cython file: 2021-07-15T12:50:33,677 ------------------------------------------------------------ 2021-07-15T12:50:33,677 ... 2021-07-15T12:50:33,677 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,677 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,677 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,677 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,678 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,678 ^ 2021-07-15T12:50:33,678 ------------------------------------------------------------ 2021-07-15T12:50:33,678 sella/internal/int_classes.pyx:306:16: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,678 Error compiling Cython file: 2021-07-15T12:50:33,678 ------------------------------------------------------------ 2021-07-15T12:50:33,678 ... 2021-07-15T12:50:33,679 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,679 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,679 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,679 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,679 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,679 ^ 2021-07-15T12:50:33,679 ------------------------------------------------------------ 2021-07-15T12:50:33,680 sella/internal/int_classes.pyx:306:16: Constructing Python slice object not allowed without gil 2021-07-15T12:50:33,680 Error compiling Cython file: 2021-07-15T12:50:33,680 ------------------------------------------------------------ 2021-07-15T12:50:33,680 ... 2021-07-15T12:50:33,680 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,680 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,680 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,681 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,681 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,681 ^ 2021-07-15T12:50:33,681 ------------------------------------------------------------ 2021-07-15T12:50:33,681 sella/internal/int_classes.pyx:306:22: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,681 Error compiling Cython file: 2021-07-15T12:50:33,682 ------------------------------------------------------------ 2021-07-15T12:50:33,682 ... 2021-07-15T12:50:33,682 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,682 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,682 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,682 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,682 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,683 ^ 2021-07-15T12:50:33,683 ------------------------------------------------------------ 2021-07-15T12:50:33,683 sella/internal/int_classes.pyx:306:16: Constructing Python slice object not allowed without gil 2021-07-15T12:50:33,683 Error compiling Cython file: 2021-07-15T12:50:33,683 ------------------------------------------------------------ 2021-07-15T12:50:33,683 ... 2021-07-15T12:50:33,683 memset(&self.d2q_angle_diffs[0, 0, 0, 0, 0], 0, 2021-07-15T12:50:33,684 self.nangle_diffs * 144 * sd) 2021-07-15T12:50:33,684 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,684 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,684 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,684 ^ 2021-07-15T12:50:33,684 ------------------------------------------------------------ 2021-07-15T12:50:33,684 sella/internal/int_classes.pyx:306:35: Converting to Python object not allowed without gil 2021-07-15T12:50:33,685 Error compiling Cython file: 2021-07-15T12:50:33,685 ------------------------------------------------------------ 2021-07-15T12:50:33,685 ... 2021-07-15T12:50:33,685 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,685 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,685 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,686 if dummypos is not None: 2021-07-15T12:50:33,686 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,686 ^ 2021-07-15T12:50:33,686 ------------------------------------------------------------ 2021-07-15T12:50:33,686 sella/internal/int_classes.pyx:308:20: Indexing Python object not allowed without gil 2021-07-15T12:50:33,686 Error compiling Cython file: 2021-07-15T12:50:33,686 ------------------------------------------------------------ 2021-07-15T12:50:33,687 ... 2021-07-15T12:50:33,687 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,687 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,687 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,687 if dummypos is not None: 2021-07-15T12:50:33,687 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,687 ^ 2021-07-15T12:50:33,687 ------------------------------------------------------------ 2021-07-15T12:50:33,688 sella/internal/int_classes.pyx:308:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,688 Error compiling Cython file: 2021-07-15T12:50:33,688 ------------------------------------------------------------ 2021-07-15T12:50:33,688 ... 2021-07-15T12:50:33,688 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,688 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,689 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,689 if dummypos is not None: 2021-07-15T12:50:33,689 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,689 ^ 2021-07-15T12:50:33,689 ------------------------------------------------------------ 2021-07-15T12:50:33,689 sella/internal/int_classes.pyx:308:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,690 Error compiling Cython file: 2021-07-15T12:50:33,690 ------------------------------------------------------------ 2021-07-15T12:50:33,690 ... 2021-07-15T12:50:33,690 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,690 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,690 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,690 if dummypos is not None: 2021-07-15T12:50:33,690 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,691 ^ 2021-07-15T12:50:33,691 ------------------------------------------------------------ 2021-07-15T12:50:33,691 sella/internal/int_classes.pyx:308:20: Constructing Python slice object not allowed without gil 2021-07-15T12:50:33,691 Error compiling Cython file: 2021-07-15T12:50:33,691 ------------------------------------------------------------ 2021-07-15T12:50:33,691 ... 2021-07-15T12:50:33,691 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,692 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,692 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,692 if dummypos is not None: 2021-07-15T12:50:33,692 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,692 ^ 2021-07-15T12:50:33,692 ------------------------------------------------------------ 2021-07-15T12:50:33,692 sella/internal/int_classes.pyx:308:25: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,693 Error compiling Cython file: 2021-07-15T12:50:33,693 ------------------------------------------------------------ 2021-07-15T12:50:33,693 ... 2021-07-15T12:50:33,693 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,693 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,693 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,693 if dummypos is not None: 2021-07-15T12:50:33,694 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,694 ^ 2021-07-15T12:50:33,694 ------------------------------------------------------------ 2021-07-15T12:50:33,694 sella/internal/int_classes.pyx:308:20: Constructing Python slice object not allowed without gil 2021-07-15T12:50:33,694 Error compiling Cython file: 2021-07-15T12:50:33,694 ------------------------------------------------------------ 2021-07-15T12:50:33,695 ... 2021-07-15T12:50:33,695 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:33,695 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:33,695 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,695 if dummypos is not None: 2021-07-15T12:50:33,695 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,695 ^ 2021-07-15T12:50:33,696 ------------------------------------------------------------ 2021-07-15T12:50:33,696 sella/internal/int_classes.pyx:308:39: Converting to Python object not allowed without gil 2021-07-15T12:50:33,696 Error compiling Cython file: 2021-07-15T12:50:33,696 ------------------------------------------------------------ 2021-07-15T12:50:33,696 ... 2021-07-15T12:50:33,697 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,697 if dummypos is not None: 2021-07-15T12:50:33,697 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,697 for n in range(self.ncart): 2021-07-15T12:50:33,698 ^ 2021-07-15T12:50:33,698 ------------------------------------------------------------ 2021-07-15T12:50:33,698 sella/internal/int_classes.pyx:310:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,698 Error compiling Cython file: 2021-07-15T12:50:33,698 ------------------------------------------------------------ 2021-07-15T12:50:33,698 ... 2021-07-15T12:50:33,699 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,699 if dummypos is not None: 2021-07-15T12:50:33,699 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,699 for n in range(self.ncart): 2021-07-15T12:50:33,699 ^ 2021-07-15T12:50:33,699 ------------------------------------------------------------ 2021-07-15T12:50:33,700 sella/internal/int_classes.pyx:310:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,700 Error compiling Cython file: 2021-07-15T12:50:33,700 ------------------------------------------------------------ 2021-07-15T12:50:33,700 ... 2021-07-15T12:50:33,700 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,700 if dummypos is not None: 2021-07-15T12:50:33,700 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,701 for n in range(self.ncart): 2021-07-15T12:50:33,701 i = self.cart[n, 0] 2021-07-15T12:50:33,701 ^ 2021-07-15T12:50:33,701 ------------------------------------------------------------ 2021-07-15T12:50:33,701 sella/internal/int_classes.pyx:311:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,702 Error compiling Cython file: 2021-07-15T12:50:33,702 ------------------------------------------------------------ 2021-07-15T12:50:33,702 ... 2021-07-15T12:50:33,702 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,702 if dummypos is not None: 2021-07-15T12:50:33,702 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,702 for n in range(self.ncart): 2021-07-15T12:50:33,702 i = self.cart[n, 0] 2021-07-15T12:50:33,703 ^ 2021-07-15T12:50:33,703 ------------------------------------------------------------ 2021-07-15T12:50:33,703 sella/internal/int_classes.pyx:311:25: Indexing Python object not allowed without gil 2021-07-15T12:50:33,703 Error compiling Cython file: 2021-07-15T12:50:33,703 ------------------------------------------------------------ 2021-07-15T12:50:33,703 ... 2021-07-15T12:50:33,703 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,704 if dummypos is not None: 2021-07-15T12:50:33,704 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,704 for n in range(self.ncart): 2021-07-15T12:50:33,704 i = self.cart[n, 0] 2021-07-15T12:50:33,704 ^ 2021-07-15T12:50:33,704 ------------------------------------------------------------ 2021-07-15T12:50:33,705 sella/internal/int_classes.pyx:311:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,705 Error compiling Cython file: 2021-07-15T12:50:33,705 ------------------------------------------------------------ 2021-07-15T12:50:33,705 ... 2021-07-15T12:50:33,705 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,705 if dummypos is not None: 2021-07-15T12:50:33,705 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,706 for n in range(self.ncart): 2021-07-15T12:50:33,706 i = self.cart[n, 0] 2021-07-15T12:50:33,706 ^ 2021-07-15T12:50:33,706 ------------------------------------------------------------ 2021-07-15T12:50:33,706 sella/internal/int_classes.pyx:311:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,706 Error compiling Cython file: 2021-07-15T12:50:33,707 ------------------------------------------------------------ 2021-07-15T12:50:33,707 ... 2021-07-15T12:50:33,707 self.pos[:self.nreal, :] = pos 2021-07-15T12:50:33,707 if dummypos is not None: 2021-07-15T12:50:33,707 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,707 for n in range(self.ncart): 2021-07-15T12:50:33,707 i = self.cart[n, 0] 2021-07-15T12:50:33,707 ^ 2021-07-15T12:50:33,708 ------------------------------------------------------------ 2021-07-15T12:50:33,708 sella/internal/int_classes.pyx:311:26: Converting to Python object not allowed without gil 2021-07-15T12:50:33,708 Error compiling Cython file: 2021-07-15T12:50:33,708 ------------------------------------------------------------ 2021-07-15T12:50:33,708 ... 2021-07-15T12:50:33,708 if dummypos is not None: 2021-07-15T12:50:33,709 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,709 for n in range(self.ncart): 2021-07-15T12:50:33,709 i = self.cart[n, 0] 2021-07-15T12:50:33,709 j = self.cart[n, 1] 2021-07-15T12:50:33,709 ^ 2021-07-15T12:50:33,709 ------------------------------------------------------------ 2021-07-15T12:50:33,709 sella/internal/int_classes.pyx:312:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,710 Error compiling Cython file: 2021-07-15T12:50:33,710 ------------------------------------------------------------ 2021-07-15T12:50:33,710 ... 2021-07-15T12:50:33,710 if dummypos is not None: 2021-07-15T12:50:33,710 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,710 for n in range(self.ncart): 2021-07-15T12:50:33,711 i = self.cart[n, 0] 2021-07-15T12:50:33,711 j = self.cart[n, 1] 2021-07-15T12:50:33,711 ^ 2021-07-15T12:50:33,711 ------------------------------------------------------------ 2021-07-15T12:50:33,711 sella/internal/int_classes.pyx:312:25: Indexing Python object not allowed without gil 2021-07-15T12:50:33,711 Error compiling Cython file: 2021-07-15T12:50:33,711 ------------------------------------------------------------ 2021-07-15T12:50:33,712 ... 2021-07-15T12:50:33,712 if dummypos is not None: 2021-07-15T12:50:33,712 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,712 for n in range(self.ncart): 2021-07-15T12:50:33,712 i = self.cart[n, 0] 2021-07-15T12:50:33,712 j = self.cart[n, 1] 2021-07-15T12:50:33,712 ^ 2021-07-15T12:50:33,712 ------------------------------------------------------------ 2021-07-15T12:50:33,713 sella/internal/int_classes.pyx:312:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,713 Error compiling Cython file: 2021-07-15T12:50:33,713 ------------------------------------------------------------ 2021-07-15T12:50:33,713 ... 2021-07-15T12:50:33,713 if dummypos is not None: 2021-07-15T12:50:33,713 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,714 for n in range(self.ncart): 2021-07-15T12:50:33,714 i = self.cart[n, 0] 2021-07-15T12:50:33,714 j = self.cart[n, 1] 2021-07-15T12:50:33,714 ^ 2021-07-15T12:50:33,714 ------------------------------------------------------------ 2021-07-15T12:50:33,714 sella/internal/int_classes.pyx:312:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,715 Error compiling Cython file: 2021-07-15T12:50:33,715 ------------------------------------------------------------ 2021-07-15T12:50:33,715 ... 2021-07-15T12:50:33,715 if dummypos is not None: 2021-07-15T12:50:33,715 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,715 for n in range(self.ncart): 2021-07-15T12:50:33,715 i = self.cart[n, 0] 2021-07-15T12:50:33,715 j = self.cart[n, 1] 2021-07-15T12:50:33,716 ^ 2021-07-15T12:50:33,716 ------------------------------------------------------------ 2021-07-15T12:50:33,716 sella/internal/int_classes.pyx:312:26: Converting to Python object not allowed without gil 2021-07-15T12:50:33,716 Error compiling Cython file: 2021-07-15T12:50:33,716 ------------------------------------------------------------ 2021-07-15T12:50:33,716 ... 2021-07-15T12:50:33,717 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,717 for n in range(self.ncart): 2021-07-15T12:50:33,717 i = self.cart[n, 0] 2021-07-15T12:50:33,717 j = self.cart[n, 1] 2021-07-15T12:50:33,717 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,717 ^ 2021-07-15T12:50:33,717 ------------------------------------------------------------ 2021-07-15T12:50:33,718 sella/internal/int_classes.pyx:313:19: Indexing Python object not allowed without gil 2021-07-15T12:50:33,718 Error compiling Cython file: 2021-07-15T12:50:33,718 ------------------------------------------------------------ 2021-07-15T12:50:33,718 ... 2021-07-15T12:50:33,718 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,718 for n in range(self.ncart): 2021-07-15T12:50:33,719 i = self.cart[n, 0] 2021-07-15T12:50:33,719 j = self.cart[n, 1] 2021-07-15T12:50:33,719 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,719 ^ 2021-07-15T12:50:33,719 ------------------------------------------------------------ 2021-07-15T12:50:33,719 sella/internal/int_classes.pyx:313:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,720 Error compiling Cython file: 2021-07-15T12:50:33,720 ------------------------------------------------------------ 2021-07-15T12:50:33,720 ... 2021-07-15T12:50:33,720 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,720 for n in range(self.ncart): 2021-07-15T12:50:33,720 i = self.cart[n, 0] 2021-07-15T12:50:33,720 j = self.cart[n, 1] 2021-07-15T12:50:33,720 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,721 ^ 2021-07-15T12:50:33,721 ------------------------------------------------------------ 2021-07-15T12:50:33,721 sella/internal/int_classes.pyx:313:33: Indexing Python object not allowed without gil 2021-07-15T12:50:33,721 Error compiling Cython file: 2021-07-15T12:50:33,721 ------------------------------------------------------------ 2021-07-15T12:50:33,721 ... 2021-07-15T12:50:33,722 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,722 for n in range(self.ncart): 2021-07-15T12:50:33,722 i = self.cart[n, 0] 2021-07-15T12:50:33,722 j = self.cart[n, 1] 2021-07-15T12:50:33,722 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,722 ^ 2021-07-15T12:50:33,722 ------------------------------------------------------------ 2021-07-15T12:50:33,723 sella/internal/int_classes.pyx:313:29: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,723 Error compiling Cython file: 2021-07-15T12:50:33,723 ------------------------------------------------------------ 2021-07-15T12:50:33,723 ... 2021-07-15T12:50:33,723 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,723 for n in range(self.ncart): 2021-07-15T12:50:33,724 i = self.cart[n, 0] 2021-07-15T12:50:33,724 j = self.cart[n, 1] 2021-07-15T12:50:33,724 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,724 ^ 2021-07-15T12:50:33,724 ------------------------------------------------------------ 2021-07-15T12:50:33,724 sella/internal/int_classes.pyx:313:33: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,724 Error compiling Cython file: 2021-07-15T12:50:33,725 ------------------------------------------------------------ 2021-07-15T12:50:33,725 ... 2021-07-15T12:50:33,725 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,725 for n in range(self.ncart): 2021-07-15T12:50:33,725 i = self.cart[n, 0] 2021-07-15T12:50:33,725 j = self.cart[n, 1] 2021-07-15T12:50:33,726 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,726 ^ 2021-07-15T12:50:33,726 ------------------------------------------------------------ 2021-07-15T12:50:33,726 sella/internal/int_classes.pyx:313:34: Converting to Python object not allowed without gil 2021-07-15T12:50:33,727 Error compiling Cython file: 2021-07-15T12:50:33,727 ------------------------------------------------------------ 2021-07-15T12:50:33,727 ... 2021-07-15T12:50:33,727 self.pos[self.nreal:, :] = dummypos 2021-07-15T12:50:33,727 for n in range(self.ncart): 2021-07-15T12:50:33,727 i = self.cart[n, 0] 2021-07-15T12:50:33,728 j = self.cart[n, 1] 2021-07-15T12:50:33,728 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,728 ^ 2021-07-15T12:50:33,728 ------------------------------------------------------------ 2021-07-15T12:50:33,728 sella/internal/int_classes.pyx:313:37: Converting to Python object not allowed without gil 2021-07-15T12:50:33,728 Error compiling Cython file: 2021-07-15T12:50:33,728 ------------------------------------------------------------ 2021-07-15T12:50:33,729 ... 2021-07-15T12:50:33,729 for n in range(self.ncart): 2021-07-15T12:50:33,729 i = self.cart[n, 0] 2021-07-15T12:50:33,729 j = self.cart[n, 1] 2021-07-15T12:50:33,729 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,729 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,729 ^ 2021-07-15T12:50:33,730 ------------------------------------------------------------ 2021-07-15T12:50:33,730 sella/internal/int_classes.pyx:314:19: Indexing Python object not allowed without gil 2021-07-15T12:50:33,730 Error compiling Cython file: 2021-07-15T12:50:33,730 ------------------------------------------------------------ 2021-07-15T12:50:33,730 ... 2021-07-15T12:50:33,730 for n in range(self.ncart): 2021-07-15T12:50:33,731 i = self.cart[n, 0] 2021-07-15T12:50:33,731 j = self.cart[n, 1] 2021-07-15T12:50:33,731 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,731 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,731 ^ 2021-07-15T12:50:33,731 ------------------------------------------------------------ 2021-07-15T12:50:33,731 sella/internal/int_classes.pyx:314:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,732 Error compiling Cython file: 2021-07-15T12:50:33,732 ------------------------------------------------------------ 2021-07-15T12:50:33,732 ... 2021-07-15T12:50:33,732 for n in range(self.ncart): 2021-07-15T12:50:33,732 i = self.cart[n, 0] 2021-07-15T12:50:33,732 j = self.cart[n, 1] 2021-07-15T12:50:33,732 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,733 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,733 ^ 2021-07-15T12:50:33,733 ------------------------------------------------------------ 2021-07-15T12:50:33,733 sella/internal/int_classes.pyx:314:19: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,733 Error compiling Cython file: 2021-07-15T12:50:33,733 ------------------------------------------------------------ 2021-07-15T12:50:33,733 ... 2021-07-15T12:50:33,734 for n in range(self.ncart): 2021-07-15T12:50:33,734 i = self.cart[n, 0] 2021-07-15T12:50:33,734 j = self.cart[n, 1] 2021-07-15T12:50:33,734 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,734 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,734 ^ 2021-07-15T12:50:33,734 ------------------------------------------------------------ 2021-07-15T12:50:33,735 sella/internal/int_classes.pyx:314:20: Converting to Python object not allowed without gil 2021-07-15T12:50:33,735 Error compiling Cython file: 2021-07-15T12:50:33,735 ------------------------------------------------------------ 2021-07-15T12:50:33,735 ... 2021-07-15T12:50:33,735 for n in range(self.ncart): 2021-07-15T12:50:33,736 i = self.cart[n, 0] 2021-07-15T12:50:33,736 j = self.cart[n, 1] 2021-07-15T12:50:33,736 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,736 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,736 ^ 2021-07-15T12:50:33,736 ------------------------------------------------------------ 2021-07-15T12:50:33,736 sella/internal/int_classes.pyx:314:23: Converting to Python object not allowed without gil 2021-07-15T12:50:33,737 Error compiling Cython file: 2021-07-15T12:50:33,737 ------------------------------------------------------------ 2021-07-15T12:50:33,737 ... 2021-07-15T12:50:33,737 for n in range(self.ncart): 2021-07-15T12:50:33,737 i = self.cart[n, 0] 2021-07-15T12:50:33,737 j = self.cart[n, 1] 2021-07-15T12:50:33,737 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,738 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,738 ^ 2021-07-15T12:50:33,738 ------------------------------------------------------------ 2021-07-15T12:50:33,738 sella/internal/int_classes.pyx:314:26: Converting to Python object not allowed without gil 2021-07-15T12:50:33,738 Error compiling Cython file: 2021-07-15T12:50:33,738 ------------------------------------------------------------ 2021-07-15T12:50:33,738 ... 2021-07-15T12:50:33,739 j = self.cart[n, 1] 2021-07-15T12:50:33,739 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,739 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,739 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,739 m = self.ncart 2021-07-15T12:50:33,739 ^ 2021-07-15T12:50:33,739 ------------------------------------------------------------ 2021-07-15T12:50:33,740 sella/internal/int_classes.pyx:317:16: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,740 Error compiling Cython file: 2021-07-15T12:50:33,740 ------------------------------------------------------------ 2021-07-15T12:50:33,740 ... 2021-07-15T12:50:33,740 j = self.cart[n, 1] 2021-07-15T12:50:33,740 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,740 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,741 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,741 m = self.ncart 2021-07-15T12:50:33,741 ^ 2021-07-15T12:50:33,741 ------------------------------------------------------------ 2021-07-15T12:50:33,741 sella/internal/int_classes.pyx:317:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,741 Error compiling Cython file: 2021-07-15T12:50:33,742 ------------------------------------------------------------ 2021-07-15T12:50:33,742 ... 2021-07-15T12:50:33,742 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,742 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,742 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,742 m = self.ncart 2021-07-15T12:50:33,742 for n in range(self.nbonds): 2021-07-15T12:50:33,742 ^ 2021-07-15T12:50:33,743 ------------------------------------------------------------ 2021-07-15T12:50:33,743 sella/internal/int_classes.pyx:318:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,743 Error compiling Cython file: 2021-07-15T12:50:33,743 ------------------------------------------------------------ 2021-07-15T12:50:33,743 ... 2021-07-15T12:50:33,743 self.q1[n] = self.pos[i, j] 2021-07-15T12:50:33,744 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,744 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,744 m = self.ncart 2021-07-15T12:50:33,744 for n in range(self.nbonds): 2021-07-15T12:50:33,744 ^ 2021-07-15T12:50:33,744 ------------------------------------------------------------ 2021-07-15T12:50:33,744 sella/internal/int_classes.pyx:318:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,745 Error compiling Cython file: 2021-07-15T12:50:33,745 ------------------------------------------------------------ 2021-07-15T12:50:33,745 ... 2021-07-15T12:50:33,745 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,745 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,745 m = self.ncart 2021-07-15T12:50:33,746 for n in range(self.nbonds): 2021-07-15T12:50:33,746 i = self.bonds[n, 0] 2021-07-15T12:50:33,746 ^ 2021-07-15T12:50:33,746 ------------------------------------------------------------ 2021-07-15T12:50:33,746 sella/internal/int_classes.pyx:319:26: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,746 Error compiling Cython file: 2021-07-15T12:50:33,747 ------------------------------------------------------------ 2021-07-15T12:50:33,747 ... 2021-07-15T12:50:33,747 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,747 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,747 m = self.ncart 2021-07-15T12:50:33,747 for n in range(self.nbonds): 2021-07-15T12:50:33,747 i = self.bonds[n, 0] 2021-07-15T12:50:33,747 ^ 2021-07-15T12:50:33,748 ------------------------------------------------------------ 2021-07-15T12:50:33,748 sella/internal/int_classes.pyx:319:26: Indexing Python object not allowed without gil 2021-07-15T12:50:33,748 Error compiling Cython file: 2021-07-15T12:50:33,748 ------------------------------------------------------------ 2021-07-15T12:50:33,748 ... 2021-07-15T12:50:33,748 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,748 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,749 m = self.ncart 2021-07-15T12:50:33,749 for n in range(self.nbonds): 2021-07-15T12:50:33,749 i = self.bonds[n, 0] 2021-07-15T12:50:33,749 ^ 2021-07-15T12:50:33,749 ------------------------------------------------------------ 2021-07-15T12:50:33,749 sella/internal/int_classes.pyx:319:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,750 Error compiling Cython file: 2021-07-15T12:50:33,750 ------------------------------------------------------------ 2021-07-15T12:50:33,750 ... 2021-07-15T12:50:33,750 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,750 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,750 m = self.ncart 2021-07-15T12:50:33,750 for n in range(self.nbonds): 2021-07-15T12:50:33,751 i = self.bonds[n, 0] 2021-07-15T12:50:33,751 ^ 2021-07-15T12:50:33,751 ------------------------------------------------------------ 2021-07-15T12:50:33,751 sella/internal/int_classes.pyx:319:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,751 Error compiling Cython file: 2021-07-15T12:50:33,751 ------------------------------------------------------------ 2021-07-15T12:50:33,752 ... 2021-07-15T12:50:33,752 self.dq[n, i, j] = 1. 2021-07-15T12:50:33,752 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,752 m = self.ncart 2021-07-15T12:50:33,752 for n in range(self.nbonds): 2021-07-15T12:50:33,752 i = self.bonds[n, 0] 2021-07-15T12:50:33,752 ^ 2021-07-15T12:50:33,752 ------------------------------------------------------------ 2021-07-15T12:50:33,753 sella/internal/int_classes.pyx:319:27: Converting to Python object not allowed without gil 2021-07-15T12:50:33,753 Error compiling Cython file: 2021-07-15T12:50:33,753 ------------------------------------------------------------ 2021-07-15T12:50:33,753 ... 2021-07-15T12:50:33,753 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,754 m = self.ncart 2021-07-15T12:50:33,754 for n in range(self.nbonds): 2021-07-15T12:50:33,754 i = self.bonds[n, 0] 2021-07-15T12:50:33,754 j = self.bonds[n, 1] 2021-07-15T12:50:33,754 ^ 2021-07-15T12:50:33,754 ------------------------------------------------------------ 2021-07-15T12:50:33,754 sella/internal/int_classes.pyx:320:26: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,755 Error compiling Cython file: 2021-07-15T12:50:33,755 ------------------------------------------------------------ 2021-07-15T12:50:33,755 ... 2021-07-15T12:50:33,755 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,755 m = self.ncart 2021-07-15T12:50:33,755 for n in range(self.nbonds): 2021-07-15T12:50:33,756 i = self.bonds[n, 0] 2021-07-15T12:50:33,756 j = self.bonds[n, 1] 2021-07-15T12:50:33,756 ^ 2021-07-15T12:50:33,756 ------------------------------------------------------------ 2021-07-15T12:50:33,756 sella/internal/int_classes.pyx:320:26: Indexing Python object not allowed without gil 2021-07-15T12:50:33,757 Error compiling Cython file: 2021-07-15T12:50:33,757 ------------------------------------------------------------ 2021-07-15T12:50:33,757 ... 2021-07-15T12:50:33,757 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,757 m = self.ncart 2021-07-15T12:50:33,757 for n in range(self.nbonds): 2021-07-15T12:50:33,758 i = self.bonds[n, 0] 2021-07-15T12:50:33,758 j = self.bonds[n, 1] 2021-07-15T12:50:33,758 ^ 2021-07-15T12:50:33,758 ------------------------------------------------------------ 2021-07-15T12:50:33,758 sella/internal/int_classes.pyx:320:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,758 Error compiling Cython file: 2021-07-15T12:50:33,759 ------------------------------------------------------------ 2021-07-15T12:50:33,759 ... 2021-07-15T12:50:33,759 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,759 m = self.ncart 2021-07-15T12:50:33,759 for n in range(self.nbonds): 2021-07-15T12:50:33,759 i = self.bonds[n, 0] 2021-07-15T12:50:33,759 j = self.bonds[n, 1] 2021-07-15T12:50:33,759 ^ 2021-07-15T12:50:33,760 ------------------------------------------------------------ 2021-07-15T12:50:33,760 sella/internal/int_classes.pyx:320:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,760 Error compiling Cython file: 2021-07-15T12:50:33,760 ------------------------------------------------------------ 2021-07-15T12:50:33,760 ... 2021-07-15T12:50:33,760 # d2q is the 0 matrix for cartesian coords 2021-07-15T12:50:33,761 m = self.ncart 2021-07-15T12:50:33,761 for n in range(self.nbonds): 2021-07-15T12:50:33,761 i = self.bonds[n, 0] 2021-07-15T12:50:33,761 j = self.bonds[n, 1] 2021-07-15T12:50:33,761 ^ 2021-07-15T12:50:33,761 ------------------------------------------------------------ 2021-07-15T12:50:33,761 sella/internal/int_classes.pyx:320:27: Converting to Python object not allowed without gil 2021-07-15T12:50:33,762 Error compiling Cython file: 2021-07-15T12:50:33,762 ------------------------------------------------------------ 2021-07-15T12:50:33,762 ... 2021-07-15T12:50:33,762 m = self.ncart 2021-07-15T12:50:33,762 for n in range(self.nbonds): 2021-07-15T12:50:33,762 i = self.bonds[n, 0] 2021-07-15T12:50:33,762 j = self.bonds[n, 1] 2021-07-15T12:50:33,762 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,763 ^ 2021-07-15T12:50:33,763 ------------------------------------------------------------ 2021-07-15T12:50:33,763 sella/internal/int_classes.pyx:321:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,763 Error compiling Cython file: 2021-07-15T12:50:33,763 ------------------------------------------------------------ 2021-07-15T12:50:33,763 ... 2021-07-15T12:50:33,764 m = self.ncart 2021-07-15T12:50:33,764 for n in range(self.nbonds): 2021-07-15T12:50:33,764 i = self.bonds[n, 0] 2021-07-15T12:50:33,764 j = self.bonds[n, 1] 2021-07-15T12:50:33,764 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,764 ^ 2021-07-15T12:50:33,764 ------------------------------------------------------------ 2021-07-15T12:50:33,765 sella/internal/int_classes.pyx:321:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,765 Error compiling Cython file: 2021-07-15T12:50:33,765 ------------------------------------------------------------ 2021-07-15T12:50:33,765 ... 2021-07-15T12:50:33,765 m = self.ncart 2021-07-15T12:50:33,765 for n in range(self.nbonds): 2021-07-15T12:50:33,766 i = self.bonds[n, 0] 2021-07-15T12:50:33,766 j = self.bonds[n, 1] 2021-07-15T12:50:33,766 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,766 ^ 2021-07-15T12:50:33,766 ------------------------------------------------------------ 2021-07-15T12:50:33,766 sella/internal/int_classes.pyx:321:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,767 Error compiling Cython file: 2021-07-15T12:50:33,767 ------------------------------------------------------------ 2021-07-15T12:50:33,767 ... 2021-07-15T12:50:33,767 m = self.ncart 2021-07-15T12:50:33,767 for n in range(self.nbonds): 2021-07-15T12:50:33,767 i = self.bonds[n, 0] 2021-07-15T12:50:33,767 j = self.bonds[n, 1] 2021-07-15T12:50:33,767 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,768 ^ 2021-07-15T12:50:33,768 ------------------------------------------------------------ 2021-07-15T12:50:33,768 sella/internal/int_classes.pyx:321:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,768 Error compiling Cython file: 2021-07-15T12:50:33,768 ------------------------------------------------------------ 2021-07-15T12:50:33,768 ... 2021-07-15T12:50:33,769 m = self.ncart 2021-07-15T12:50:33,769 for n in range(self.nbonds): 2021-07-15T12:50:33,769 i = self.bonds[n, 0] 2021-07-15T12:50:33,769 j = self.bonds[n, 1] 2021-07-15T12:50:33,769 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,769 ^ 2021-07-15T12:50:33,769 ------------------------------------------------------------ 2021-07-15T12:50:33,770 sella/internal/int_classes.pyx:321:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,770 Error compiling Cython file: 2021-07-15T12:50:33,770 ------------------------------------------------------------ 2021-07-15T12:50:33,770 ... 2021-07-15T12:50:33,770 m = self.ncart 2021-07-15T12:50:33,770 for n in range(self.nbonds): 2021-07-15T12:50:33,770 i = self.bonds[n, 0] 2021-07-15T12:50:33,771 j = self.bonds[n, 1] 2021-07-15T12:50:33,771 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,771 ^ 2021-07-15T12:50:33,771 ------------------------------------------------------------ 2021-07-15T12:50:33,771 sella/internal/int_classes.pyx:321:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,771 Error compiling Cython file: 2021-07-15T12:50:33,772 ------------------------------------------------------------ 2021-07-15T12:50:33,772 ... 2021-07-15T12:50:33,772 m = self.ncart 2021-07-15T12:50:33,772 for n in range(self.nbonds): 2021-07-15T12:50:33,772 i = self.bonds[n, 0] 2021-07-15T12:50:33,772 j = self.bonds[n, 1] 2021-07-15T12:50:33,772 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,773 ^ 2021-07-15T12:50:33,773 ------------------------------------------------------------ 2021-07-15T12:50:33,773 sella/internal/int_classes.pyx:321:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,773 Error compiling Cython file: 2021-07-15T12:50:33,773 ------------------------------------------------------------ 2021-07-15T12:50:33,773 ... 2021-07-15T12:50:33,774 m = self.ncart 2021-07-15T12:50:33,774 for n in range(self.nbonds): 2021-07-15T12:50:33,774 i = self.bonds[n, 0] 2021-07-15T12:50:33,774 j = self.bonds[n, 1] 2021-07-15T12:50:33,774 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,774 ^ 2021-07-15T12:50:33,774 ------------------------------------------------------------ 2021-07-15T12:50:33,775 sella/internal/int_classes.pyx:321:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,775 Error compiling Cython file: 2021-07-15T12:50:33,775 ------------------------------------------------------------ 2021-07-15T12:50:33,775 ... 2021-07-15T12:50:33,775 m = self.ncart 2021-07-15T12:50:33,775 for n in range(self.nbonds): 2021-07-15T12:50:33,775 i = self.bonds[n, 0] 2021-07-15T12:50:33,776 j = self.bonds[n, 1] 2021-07-15T12:50:33,776 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,776 ^ 2021-07-15T12:50:33,776 ------------------------------------------------------------ 2021-07-15T12:50:33,776 sella/internal/int_classes.pyx:321:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,776 Error compiling Cython file: 2021-07-15T12:50:33,777 ------------------------------------------------------------ 2021-07-15T12:50:33,777 ... 2021-07-15T12:50:33,777 for n in range(self.nbonds): 2021-07-15T12:50:33,777 i = self.bonds[n, 0] 2021-07-15T12:50:33,777 j = self.bonds[n, 1] 2021-07-15T12:50:33,777 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,777 if err != 0: return err 2021-07-15T12:50:33,777 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,777 ^ 2021-07-15T12:50:33,778 ------------------------------------------------------------ 2021-07-15T12:50:33,778 sella/internal/int_classes.pyx:323:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,778 Error compiling Cython file: 2021-07-15T12:50:33,778 ------------------------------------------------------------ 2021-07-15T12:50:33,778 ... 2021-07-15T12:50:33,778 for n in range(self.nbonds): 2021-07-15T12:50:33,778 i = self.bonds[n, 0] 2021-07-15T12:50:33,779 j = self.bonds[n, 1] 2021-07-15T12:50:33,779 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,779 if err != 0: return err 2021-07-15T12:50:33,779 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,779 ^ 2021-07-15T12:50:33,779 ------------------------------------------------------------ 2021-07-15T12:50:33,779 sella/internal/int_classes.pyx:323:31: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,780 Error compiling Cython file: 2021-07-15T12:50:33,780 ------------------------------------------------------------ 2021-07-15T12:50:33,780 ... 2021-07-15T12:50:33,780 for n in range(self.nbonds): 2021-07-15T12:50:33,780 i = self.bonds[n, 0] 2021-07-15T12:50:33,780 j = self.bonds[n, 1] 2021-07-15T12:50:33,780 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,780 if err != 0: return err 2021-07-15T12:50:33,781 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,781 ^ 2021-07-15T12:50:33,781 ------------------------------------------------------------ 2021-07-15T12:50:33,781 sella/internal/int_classes.pyx:323:19: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,781 Error compiling Cython file: 2021-07-15T12:50:33,781 ------------------------------------------------------------ 2021-07-15T12:50:33,782 ... 2021-07-15T12:50:33,782 for n in range(self.nbonds): 2021-07-15T12:50:33,782 i = self.bonds[n, 0] 2021-07-15T12:50:33,782 j = self.bonds[n, 1] 2021-07-15T12:50:33,782 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,782 if err != 0: return err 2021-07-15T12:50:33,782 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,782 ^ 2021-07-15T12:50:33,782 ------------------------------------------------------------ 2021-07-15T12:50:33,783 sella/internal/int_classes.pyx:323:31: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,783 Error compiling Cython file: 2021-07-15T12:50:33,783 ------------------------------------------------------------ 2021-07-15T12:50:33,783 ... 2021-07-15T12:50:33,783 for n in range(self.nbonds): 2021-07-15T12:50:33,784 i = self.bonds[n, 0] 2021-07-15T12:50:33,784 j = self.bonds[n, 1] 2021-07-15T12:50:33,784 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,784 if err != 0: return err 2021-07-15T12:50:33,784 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,784 ^ 2021-07-15T12:50:33,784 ------------------------------------------------------------ 2021-07-15T12:50:33,785 sella/internal/int_classes.pyx:323:32: Converting to Python object not allowed without gil 2021-07-15T12:50:33,785 Error compiling Cython file: 2021-07-15T12:50:33,785 ------------------------------------------------------------ 2021-07-15T12:50:33,785 ... 2021-07-15T12:50:33,785 for n in range(self.nbonds): 2021-07-15T12:50:33,785 i = self.bonds[n, 0] 2021-07-15T12:50:33,786 j = self.bonds[n, 1] 2021-07-15T12:50:33,786 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,786 if err != 0: return err 2021-07-15T12:50:33,786 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,786 ^ 2021-07-15T12:50:33,786 ------------------------------------------------------------ 2021-07-15T12:50:33,786 sella/internal/int_classes.pyx:323:35: Converting to Python object not allowed without gil 2021-07-15T12:50:33,787 Error compiling Cython file: 2021-07-15T12:50:33,787 ------------------------------------------------------------ 2021-07-15T12:50:33,787 ... 2021-07-15T12:50:33,787 for n in range(self.nbonds): 2021-07-15T12:50:33,787 i = self.bonds[n, 0] 2021-07-15T12:50:33,787 j = self.bonds[n, 1] 2021-07-15T12:50:33,787 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,787 if err != 0: return err 2021-07-15T12:50:33,788 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,788 ^ 2021-07-15T12:50:33,788 ------------------------------------------------------------ 2021-07-15T12:50:33,788 sella/internal/int_classes.pyx:323:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,788 Error compiling Cython file: 2021-07-15T12:50:33,788 ------------------------------------------------------------ 2021-07-15T12:50:33,789 ... 2021-07-15T12:50:33,789 for n in range(self.nbonds): 2021-07-15T12:50:33,789 i = self.bonds[n, 0] 2021-07-15T12:50:33,789 j = self.bonds[n, 1] 2021-07-15T12:50:33,789 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,789 if err != 0: return err 2021-07-15T12:50:33,789 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,789 ^ 2021-07-15T12:50:33,790 ------------------------------------------------------------ 2021-07-15T12:50:33,790 sella/internal/int_classes.pyx:323:48: Converting to Python object not allowed without gil 2021-07-15T12:50:33,790 Error compiling Cython file: 2021-07-15T12:50:33,790 ------------------------------------------------------------ 2021-07-15T12:50:33,790 ... 2021-07-15T12:50:33,790 for n in range(self.nbonds): 2021-07-15T12:50:33,790 i = self.bonds[n, 0] 2021-07-15T12:50:33,791 j = self.bonds[n, 1] 2021-07-15T12:50:33,791 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,791 if err != 0: return err 2021-07-15T12:50:33,791 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,791 ^ 2021-07-15T12:50:33,791 ------------------------------------------------------------ 2021-07-15T12:50:33,791 sella/internal/int_classes.pyx:323:56: Indexing Python object not allowed without gil 2021-07-15T12:50:33,792 Error compiling Cython file: 2021-07-15T12:50:33,792 ------------------------------------------------------------ 2021-07-15T12:50:33,792 ... 2021-07-15T12:50:33,792 for n in range(self.nbonds): 2021-07-15T12:50:33,792 i = self.bonds[n, 0] 2021-07-15T12:50:33,792 j = self.bonds[n, 1] 2021-07-15T12:50:33,792 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,792 if err != 0: return err 2021-07-15T12:50:33,793 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,793 ^ 2021-07-15T12:50:33,793 ------------------------------------------------------------ 2021-07-15T12:50:33,793 sella/internal/int_classes.pyx:323:53: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,793 Error compiling Cython file: 2021-07-15T12:50:33,793 ------------------------------------------------------------ 2021-07-15T12:50:33,794 ... 2021-07-15T12:50:33,794 i = self.bonds[n, 0] 2021-07-15T12:50:33,794 j = self.bonds[n, 1] 2021-07-15T12:50:33,794 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,794 if err != 0: return err 2021-07-15T12:50:33,794 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,794 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,794 ^ 2021-07-15T12:50:33,794 ------------------------------------------------------------ 2021-07-15T12:50:33,795 sella/internal/int_classes.pyx:324:39: Indexing Python object not allowed without gil 2021-07-15T12:50:33,795 Error compiling Cython file: 2021-07-15T12:50:33,795 ------------------------------------------------------------ 2021-07-15T12:50:33,795 ... 2021-07-15T12:50:33,795 i = self.bonds[n, 0] 2021-07-15T12:50:33,795 j = self.bonds[n, 1] 2021-07-15T12:50:33,796 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,796 if err != 0: return err 2021-07-15T12:50:33,796 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,796 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,796 ^ 2021-07-15T12:50:33,796 ------------------------------------------------------------ 2021-07-15T12:50:33,796 sella/internal/int_classes.pyx:324:36: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,797 Error compiling Cython file: 2021-07-15T12:50:33,797 ------------------------------------------------------------ 2021-07-15T12:50:33,797 ... 2021-07-15T12:50:33,797 i = self.bonds[n, 0] 2021-07-15T12:50:33,797 j = self.bonds[n, 1] 2021-07-15T12:50:33,797 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,797 if err != 0: return err 2021-07-15T12:50:33,797 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,798 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,798 ^ 2021-07-15T12:50:33,798 ------------------------------------------------------------ 2021-07-15T12:50:33,798 sella/internal/int_classes.pyx:324:62: Indexing Python object not allowed without gil 2021-07-15T12:50:33,798 Error compiling Cython file: 2021-07-15T12:50:33,798 ------------------------------------------------------------ 2021-07-15T12:50:33,799 ... 2021-07-15T12:50:33,799 i = self.bonds[n, 0] 2021-07-15T12:50:33,799 j = self.bonds[n, 1] 2021-07-15T12:50:33,799 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,799 if err != 0: return err 2021-07-15T12:50:33,799 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,799 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,799 ^ 2021-07-15T12:50:33,800 ------------------------------------------------------------ 2021-07-15T12:50:33,800 sella/internal/int_classes.pyx:324:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,800 Error compiling Cython file: 2021-07-15T12:50:33,800 ------------------------------------------------------------ 2021-07-15T12:50:33,800 ... 2021-07-15T12:50:33,800 i = self.bonds[n, 0] 2021-07-15T12:50:33,801 j = self.bonds[n, 1] 2021-07-15T12:50:33,801 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,801 if err != 0: return err 2021-07-15T12:50:33,801 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,801 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,801 ^ 2021-07-15T12:50:33,801 ------------------------------------------------------------ 2021-07-15T12:50:33,801 sella/internal/int_classes.pyx:324:67: Converting to Python object not allowed without gil 2021-07-15T12:50:33,802 Error compiling Cython file: 2021-07-15T12:50:33,802 ------------------------------------------------------------ 2021-07-15T12:50:33,802 ... 2021-07-15T12:50:33,802 i = self.bonds[n, 0] 2021-07-15T12:50:33,802 j = self.bonds[n, 1] 2021-07-15T12:50:33,802 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,802 if err != 0: return err 2021-07-15T12:50:33,803 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,803 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,803 ^ 2021-07-15T12:50:33,803 ------------------------------------------------------------ 2021-07-15T12:50:33,803 sella/internal/int_classes.pyx:324:73: Converting to Python object not allowed without gil 2021-07-15T12:50:33,803 Error compiling Cython file: 2021-07-15T12:50:33,803 ------------------------------------------------------------ 2021-07-15T12:50:33,804 ... 2021-07-15T12:50:33,804 if err != 0: return err 2021-07-15T12:50:33,804 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,804 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,804 if info < 0: return info 2021-07-15T12:50:33,804 m += self.nbonds 2021-07-15T12:50:33,804 ^ 2021-07-15T12:50:33,805 ------------------------------------------------------------ 2021-07-15T12:50:33,805 sella/internal/int_classes.pyx:327:8: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,805 Error compiling Cython file: 2021-07-15T12:50:33,805 ------------------------------------------------------------ 2021-07-15T12:50:33,805 ... 2021-07-15T12:50:33,805 if err != 0: return err 2021-07-15T12:50:33,805 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,806 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,806 if info < 0: return info 2021-07-15T12:50:33,806 m += self.nbonds 2021-07-15T12:50:33,806 ^ 2021-07-15T12:50:33,806 ------------------------------------------------------------ 2021-07-15T12:50:33,806 sella/internal/int_classes.pyx:327:8: Operation not allowed without gil 2021-07-15T12:50:33,807 Error compiling Cython file: 2021-07-15T12:50:33,807 ------------------------------------------------------------ 2021-07-15T12:50:33,807 ... 2021-07-15T12:50:33,807 if err != 0: return err 2021-07-15T12:50:33,807 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,807 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,807 if info < 0: return info 2021-07-15T12:50:33,808 m += self.nbonds 2021-07-15T12:50:33,808 ^ 2021-07-15T12:50:33,808 ------------------------------------------------------------ 2021-07-15T12:50:33,808 sella/internal/int_classes.pyx:327:8: Converting to Python object not allowed without gil 2021-07-15T12:50:33,809 Error compiling Cython file: 2021-07-15T12:50:33,809 ------------------------------------------------------------ 2021-07-15T12:50:33,809 ... 2021-07-15T12:50:33,809 if err != 0: return err 2021-07-15T12:50:33,809 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,809 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,809 if info < 0: return info 2021-07-15T12:50:33,810 m += self.nbonds 2021-07-15T12:50:33,810 ^ 2021-07-15T12:50:33,810 ------------------------------------------------------------ 2021-07-15T12:50:33,810 sella/internal/int_classes.pyx:327:17: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,810 Error compiling Cython file: 2021-07-15T12:50:33,810 ------------------------------------------------------------ 2021-07-15T12:50:33,811 ... 2021-07-15T12:50:33,811 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,811 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,811 if info < 0: return info 2021-07-15T12:50:33,811 m += self.nbonds 2021-07-15T12:50:33,811 for n in range(self.nangles): 2021-07-15T12:50:33,811 ^ 2021-07-15T12:50:33,812 ------------------------------------------------------------ 2021-07-15T12:50:33,812 sella/internal/int_classes.pyx:328:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,812 Error compiling Cython file: 2021-07-15T12:50:33,812 ------------------------------------------------------------ 2021-07-15T12:50:33,812 ... 2021-07-15T12:50:33,812 info = cart_to_bond(i, j, self.dx1, &self.q1[m + n], 2021-07-15T12:50:33,812 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,813 if info < 0: return info 2021-07-15T12:50:33,813 m += self.nbonds 2021-07-15T12:50:33,813 for n in range(self.nangles): 2021-07-15T12:50:33,813 ^ 2021-07-15T12:50:33,813 ------------------------------------------------------------ 2021-07-15T12:50:33,813 sella/internal/int_classes.pyx:328:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,814 Error compiling Cython file: 2021-07-15T12:50:33,814 ------------------------------------------------------------ 2021-07-15T12:50:33,814 ... 2021-07-15T12:50:33,814 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,814 if info < 0: return info 2021-07-15T12:50:33,814 m += self.nbonds 2021-07-15T12:50:33,814 for n in range(self.nangles): 2021-07-15T12:50:33,815 i = self.angles[n, 0] 2021-07-15T12:50:33,815 ^ 2021-07-15T12:50:33,815 ------------------------------------------------------------ 2021-07-15T12:50:33,815 sella/internal/int_classes.pyx:329:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,815 Error compiling Cython file: 2021-07-15T12:50:33,815 ------------------------------------------------------------ 2021-07-15T12:50:33,816 ... 2021-07-15T12:50:33,816 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,816 if info < 0: return info 2021-07-15T12:50:33,816 m += self.nbonds 2021-07-15T12:50:33,816 for n in range(self.nangles): 2021-07-15T12:50:33,816 i = self.angles[n, 0] 2021-07-15T12:50:33,816 ^ 2021-07-15T12:50:33,816 ------------------------------------------------------------ 2021-07-15T12:50:33,817 sella/internal/int_classes.pyx:329:27: Indexing Python object not allowed without gil 2021-07-15T12:50:33,817 Error compiling Cython file: 2021-07-15T12:50:33,817 ------------------------------------------------------------ 2021-07-15T12:50:33,817 ... 2021-07-15T12:50:33,817 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,817 if info < 0: return info 2021-07-15T12:50:33,818 m += self.nbonds 2021-07-15T12:50:33,818 for n in range(self.nangles): 2021-07-15T12:50:33,818 i = self.angles[n, 0] 2021-07-15T12:50:33,818 ^ 2021-07-15T12:50:33,818 ------------------------------------------------------------ 2021-07-15T12:50:33,818 sella/internal/int_classes.pyx:329:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,819 Error compiling Cython file: 2021-07-15T12:50:33,819 ------------------------------------------------------------ 2021-07-15T12:50:33,819 ... 2021-07-15T12:50:33,819 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,819 if info < 0: return info 2021-07-15T12:50:33,819 m += self.nbonds 2021-07-15T12:50:33,819 for n in range(self.nangles): 2021-07-15T12:50:33,819 i = self.angles[n, 0] 2021-07-15T12:50:33,820 ^ 2021-07-15T12:50:33,820 ------------------------------------------------------------ 2021-07-15T12:50:33,820 sella/internal/int_classes.pyx:329:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,820 Error compiling Cython file: 2021-07-15T12:50:33,820 ------------------------------------------------------------ 2021-07-15T12:50:33,820 ... 2021-07-15T12:50:33,821 self.dq[m + n], self.d2q_bonds[n], grad, curv) 2021-07-15T12:50:33,821 if info < 0: return info 2021-07-15T12:50:33,821 m += self.nbonds 2021-07-15T12:50:33,821 for n in range(self.nangles): 2021-07-15T12:50:33,821 i = self.angles[n, 0] 2021-07-15T12:50:33,821 ^ 2021-07-15T12:50:33,821 ------------------------------------------------------------ 2021-07-15T12:50:33,822 sella/internal/int_classes.pyx:329:28: Converting to Python object not allowed without gil 2021-07-15T12:50:33,822 Error compiling Cython file: 2021-07-15T12:50:33,822 ------------------------------------------------------------ 2021-07-15T12:50:33,822 ... 2021-07-15T12:50:33,822 if info < 0: return info 2021-07-15T12:50:33,822 m += self.nbonds 2021-07-15T12:50:33,823 for n in range(self.nangles): 2021-07-15T12:50:33,823 i = self.angles[n, 0] 2021-07-15T12:50:33,823 j = self.angles[n, 1] 2021-07-15T12:50:33,823 ^ 2021-07-15T12:50:33,823 ------------------------------------------------------------ 2021-07-15T12:50:33,823 sella/internal/int_classes.pyx:330:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,823 Error compiling Cython file: 2021-07-15T12:50:33,824 ------------------------------------------------------------ 2021-07-15T12:50:33,824 ... 2021-07-15T12:50:33,824 if info < 0: return info 2021-07-15T12:50:33,824 m += self.nbonds 2021-07-15T12:50:33,824 for n in range(self.nangles): 2021-07-15T12:50:33,824 i = self.angles[n, 0] 2021-07-15T12:50:33,824 j = self.angles[n, 1] 2021-07-15T12:50:33,824 ^ 2021-07-15T12:50:33,825 ------------------------------------------------------------ 2021-07-15T12:50:33,825 sella/internal/int_classes.pyx:330:27: Indexing Python object not allowed without gil 2021-07-15T12:50:33,825 Error compiling Cython file: 2021-07-15T12:50:33,825 ------------------------------------------------------------ 2021-07-15T12:50:33,825 ... 2021-07-15T12:50:33,825 if info < 0: return info 2021-07-15T12:50:33,826 m += self.nbonds 2021-07-15T12:50:33,826 for n in range(self.nangles): 2021-07-15T12:50:33,826 i = self.angles[n, 0] 2021-07-15T12:50:33,826 j = self.angles[n, 1] 2021-07-15T12:50:33,826 ^ 2021-07-15T12:50:33,826 ------------------------------------------------------------ 2021-07-15T12:50:33,826 sella/internal/int_classes.pyx:330:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,827 Error compiling Cython file: 2021-07-15T12:50:33,827 ------------------------------------------------------------ 2021-07-15T12:50:33,827 ... 2021-07-15T12:50:33,827 if info < 0: return info 2021-07-15T12:50:33,827 m += self.nbonds 2021-07-15T12:50:33,827 for n in range(self.nangles): 2021-07-15T12:50:33,828 i = self.angles[n, 0] 2021-07-15T12:50:33,828 j = self.angles[n, 1] 2021-07-15T12:50:33,828 ^ 2021-07-15T12:50:33,828 ------------------------------------------------------------ 2021-07-15T12:50:33,828 sella/internal/int_classes.pyx:330:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,828 Error compiling Cython file: 2021-07-15T12:50:33,828 ------------------------------------------------------------ 2021-07-15T12:50:33,829 ... 2021-07-15T12:50:33,829 if info < 0: return info 2021-07-15T12:50:33,829 m += self.nbonds 2021-07-15T12:50:33,829 for n in range(self.nangles): 2021-07-15T12:50:33,829 i = self.angles[n, 0] 2021-07-15T12:50:33,829 j = self.angles[n, 1] 2021-07-15T12:50:33,829 ^ 2021-07-15T12:50:33,830 ------------------------------------------------------------ 2021-07-15T12:50:33,830 sella/internal/int_classes.pyx:330:28: Converting to Python object not allowed without gil 2021-07-15T12:50:33,830 Error compiling Cython file: 2021-07-15T12:50:33,830 ------------------------------------------------------------ 2021-07-15T12:50:33,830 ... 2021-07-15T12:50:33,830 m += self.nbonds 2021-07-15T12:50:33,831 for n in range(self.nangles): 2021-07-15T12:50:33,831 i = self.angles[n, 0] 2021-07-15T12:50:33,831 j = self.angles[n, 1] 2021-07-15T12:50:33,831 k = self.angles[n, 2] 2021-07-15T12:50:33,831 ^ 2021-07-15T12:50:33,831 ------------------------------------------------------------ 2021-07-15T12:50:33,831 sella/internal/int_classes.pyx:331:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,832 Error compiling Cython file: 2021-07-15T12:50:33,832 ------------------------------------------------------------ 2021-07-15T12:50:33,832 ... 2021-07-15T12:50:33,832 m += self.nbonds 2021-07-15T12:50:33,832 for n in range(self.nangles): 2021-07-15T12:50:33,832 i = self.angles[n, 0] 2021-07-15T12:50:33,832 j = self.angles[n, 1] 2021-07-15T12:50:33,833 k = self.angles[n, 2] 2021-07-15T12:50:33,833 ^ 2021-07-15T12:50:33,833 ------------------------------------------------------------ 2021-07-15T12:50:33,833 sella/internal/int_classes.pyx:331:27: Indexing Python object not allowed without gil 2021-07-15T12:50:33,833 Error compiling Cython file: 2021-07-15T12:50:33,833 ------------------------------------------------------------ 2021-07-15T12:50:33,834 ... 2021-07-15T12:50:33,834 m += self.nbonds 2021-07-15T12:50:33,834 for n in range(self.nangles): 2021-07-15T12:50:33,834 i = self.angles[n, 0] 2021-07-15T12:50:33,834 j = self.angles[n, 1] 2021-07-15T12:50:33,834 k = self.angles[n, 2] 2021-07-15T12:50:33,834 ^ 2021-07-15T12:50:33,834 ------------------------------------------------------------ 2021-07-15T12:50:33,835 sella/internal/int_classes.pyx:331:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,835 Error compiling Cython file: 2021-07-15T12:50:33,835 ------------------------------------------------------------ 2021-07-15T12:50:33,835 ... 2021-07-15T12:50:33,835 m += self.nbonds 2021-07-15T12:50:33,836 for n in range(self.nangles): 2021-07-15T12:50:33,836 i = self.angles[n, 0] 2021-07-15T12:50:33,836 j = self.angles[n, 1] 2021-07-15T12:50:33,836 k = self.angles[n, 2] 2021-07-15T12:50:33,836 ^ 2021-07-15T12:50:33,836 ------------------------------------------------------------ 2021-07-15T12:50:33,836 sella/internal/int_classes.pyx:331:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,837 Error compiling Cython file: 2021-07-15T12:50:33,837 ------------------------------------------------------------ 2021-07-15T12:50:33,837 ... 2021-07-15T12:50:33,837 m += self.nbonds 2021-07-15T12:50:33,838 for n in range(self.nangles): 2021-07-15T12:50:33,838 i = self.angles[n, 0] 2021-07-15T12:50:33,838 j = self.angles[n, 1] 2021-07-15T12:50:33,838 k = self.angles[n, 2] 2021-07-15T12:50:33,838 ^ 2021-07-15T12:50:33,838 ------------------------------------------------------------ 2021-07-15T12:50:33,839 sella/internal/int_classes.pyx:331:28: Converting to Python object not allowed without gil 2021-07-15T12:50:33,839 Error compiling Cython file: 2021-07-15T12:50:33,839 ------------------------------------------------------------ 2021-07-15T12:50:33,839 ... 2021-07-15T12:50:33,839 m += self.nbonds 2021-07-15T12:50:33,839 for n in range(self.nangles): 2021-07-15T12:50:33,840 i = self.angles[n, 0] 2021-07-15T12:50:33,840 j = self.angles[n, 1] 2021-07-15T12:50:33,840 k = self.angles[n, 2] 2021-07-15T12:50:33,840 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,840 ^ 2021-07-15T12:50:33,840 ------------------------------------------------------------ 2021-07-15T12:50:33,840 sella/internal/int_classes.pyx:332:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,841 Error compiling Cython file: 2021-07-15T12:50:33,841 ------------------------------------------------------------ 2021-07-15T12:50:33,841 ... 2021-07-15T12:50:33,841 m += self.nbonds 2021-07-15T12:50:33,841 for n in range(self.nangles): 2021-07-15T12:50:33,841 i = self.angles[n, 0] 2021-07-15T12:50:33,841 j = self.angles[n, 1] 2021-07-15T12:50:33,841 k = self.angles[n, 2] 2021-07-15T12:50:33,842 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,842 ^ 2021-07-15T12:50:33,842 ------------------------------------------------------------ 2021-07-15T12:50:33,842 sella/internal/int_classes.pyx:332:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,842 Error compiling Cython file: 2021-07-15T12:50:33,842 ------------------------------------------------------------ 2021-07-15T12:50:33,842 ... 2021-07-15T12:50:33,843 m += self.nbonds 2021-07-15T12:50:33,843 for n in range(self.nangles): 2021-07-15T12:50:33,843 i = self.angles[n, 0] 2021-07-15T12:50:33,843 j = self.angles[n, 1] 2021-07-15T12:50:33,843 k = self.angles[n, 2] 2021-07-15T12:50:33,843 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,843 ^ 2021-07-15T12:50:33,843 ------------------------------------------------------------ 2021-07-15T12:50:33,844 sella/internal/int_classes.pyx:332:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,844 Error compiling Cython file: 2021-07-15T12:50:33,844 ------------------------------------------------------------ 2021-07-15T12:50:33,844 ... 2021-07-15T12:50:33,844 m += self.nbonds 2021-07-15T12:50:33,844 for n in range(self.nangles): 2021-07-15T12:50:33,844 i = self.angles[n, 0] 2021-07-15T12:50:33,845 j = self.angles[n, 1] 2021-07-15T12:50:33,845 k = self.angles[n, 2] 2021-07-15T12:50:33,845 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,845 ^ 2021-07-15T12:50:33,845 ------------------------------------------------------------ 2021-07-15T12:50:33,845 sella/internal/int_classes.pyx:332:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,846 Error compiling Cython file: 2021-07-15T12:50:33,846 ------------------------------------------------------------ 2021-07-15T12:50:33,846 ... 2021-07-15T12:50:33,846 m += self.nbonds 2021-07-15T12:50:33,846 for n in range(self.nangles): 2021-07-15T12:50:33,846 i = self.angles[n, 0] 2021-07-15T12:50:33,846 j = self.angles[n, 1] 2021-07-15T12:50:33,846 k = self.angles[n, 2] 2021-07-15T12:50:33,847 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,847 ^ 2021-07-15T12:50:33,847 ------------------------------------------------------------ 2021-07-15T12:50:33,847 sella/internal/int_classes.pyx:332:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,847 Error compiling Cython file: 2021-07-15T12:50:33,847 ------------------------------------------------------------ 2021-07-15T12:50:33,847 ... 2021-07-15T12:50:33,848 m += self.nbonds 2021-07-15T12:50:33,848 for n in range(self.nangles): 2021-07-15T12:50:33,848 i = self.angles[n, 0] 2021-07-15T12:50:33,848 j = self.angles[n, 1] 2021-07-15T12:50:33,848 k = self.angles[n, 2] 2021-07-15T12:50:33,848 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,848 ^ 2021-07-15T12:50:33,848 ------------------------------------------------------------ 2021-07-15T12:50:33,849 sella/internal/int_classes.pyx:332:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,849 Error compiling Cython file: 2021-07-15T12:50:33,849 ------------------------------------------------------------ 2021-07-15T12:50:33,849 ... 2021-07-15T12:50:33,849 m += self.nbonds 2021-07-15T12:50:33,849 for n in range(self.nangles): 2021-07-15T12:50:33,849 i = self.angles[n, 0] 2021-07-15T12:50:33,850 j = self.angles[n, 1] 2021-07-15T12:50:33,850 k = self.angles[n, 2] 2021-07-15T12:50:33,850 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,850 ^ 2021-07-15T12:50:33,850 ------------------------------------------------------------ 2021-07-15T12:50:33,850 sella/internal/int_classes.pyx:332:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,850 Error compiling Cython file: 2021-07-15T12:50:33,851 ------------------------------------------------------------ 2021-07-15T12:50:33,851 ... 2021-07-15T12:50:33,851 m += self.nbonds 2021-07-15T12:50:33,851 for n in range(self.nangles): 2021-07-15T12:50:33,851 i = self.angles[n, 0] 2021-07-15T12:50:33,851 j = self.angles[n, 1] 2021-07-15T12:50:33,851 k = self.angles[n, 2] 2021-07-15T12:50:33,851 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,852 ^ 2021-07-15T12:50:33,852 ------------------------------------------------------------ 2021-07-15T12:50:33,852 sella/internal/int_classes.pyx:332:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,852 Error compiling Cython file: 2021-07-15T12:50:33,852 ------------------------------------------------------------ 2021-07-15T12:50:33,852 ... 2021-07-15T12:50:33,852 m += self.nbonds 2021-07-15T12:50:33,853 for n in range(self.nangles): 2021-07-15T12:50:33,853 i = self.angles[n, 0] 2021-07-15T12:50:33,853 j = self.angles[n, 1] 2021-07-15T12:50:33,853 k = self.angles[n, 2] 2021-07-15T12:50:33,853 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,853 ^ 2021-07-15T12:50:33,853 ------------------------------------------------------------ 2021-07-15T12:50:33,854 sella/internal/int_classes.pyx:332:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,854 Error compiling Cython file: 2021-07-15T12:50:33,854 ------------------------------------------------------------ 2021-07-15T12:50:33,854 ... 2021-07-15T12:50:33,854 i = self.angles[n, 0] 2021-07-15T12:50:33,854 j = self.angles[n, 1] 2021-07-15T12:50:33,854 k = self.angles[n, 2] 2021-07-15T12:50:33,854 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,855 if err != 0: return err 2021-07-15T12:50:33,855 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,855 ^ 2021-07-15T12:50:33,855 ------------------------------------------------------------ 2021-07-15T12:50:33,855 sella/internal/int_classes.pyx:334:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,855 Error compiling Cython file: 2021-07-15T12:50:33,856 ------------------------------------------------------------ 2021-07-15T12:50:33,856 ... 2021-07-15T12:50:33,856 i = self.angles[n, 0] 2021-07-15T12:50:33,856 j = self.angles[n, 1] 2021-07-15T12:50:33,856 k = self.angles[n, 2] 2021-07-15T12:50:33,856 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,856 if err != 0: return err 2021-07-15T12:50:33,856 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,856 ^ 2021-07-15T12:50:33,857 ------------------------------------------------------------ 2021-07-15T12:50:33,857 sella/internal/int_classes.pyx:334:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,857 Error compiling Cython file: 2021-07-15T12:50:33,857 ------------------------------------------------------------ 2021-07-15T12:50:33,857 ... 2021-07-15T12:50:33,857 i = self.angles[n, 0] 2021-07-15T12:50:33,858 j = self.angles[n, 1] 2021-07-15T12:50:33,858 k = self.angles[n, 2] 2021-07-15T12:50:33,858 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,858 if err != 0: return err 2021-07-15T12:50:33,858 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,858 ^ 2021-07-15T12:50:33,858 ------------------------------------------------------------ 2021-07-15T12:50:33,858 sella/internal/int_classes.pyx:334:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,859 Error compiling Cython file: 2021-07-15T12:50:33,859 ------------------------------------------------------------ 2021-07-15T12:50:33,859 ... 2021-07-15T12:50:33,859 i = self.angles[n, 0] 2021-07-15T12:50:33,859 j = self.angles[n, 1] 2021-07-15T12:50:33,859 k = self.angles[n, 2] 2021-07-15T12:50:33,859 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,859 if err != 0: return err 2021-07-15T12:50:33,860 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,860 ^ 2021-07-15T12:50:33,860 ------------------------------------------------------------ 2021-07-15T12:50:33,860 sella/internal/int_classes.pyx:334:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,860 Error compiling Cython file: 2021-07-15T12:50:33,860 ------------------------------------------------------------ 2021-07-15T12:50:33,861 ... 2021-07-15T12:50:33,861 i = self.angles[n, 0] 2021-07-15T12:50:33,861 j = self.angles[n, 1] 2021-07-15T12:50:33,861 k = self.angles[n, 2] 2021-07-15T12:50:33,861 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,861 if err != 0: return err 2021-07-15T12:50:33,861 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,861 ^ 2021-07-15T12:50:33,861 ------------------------------------------------------------ 2021-07-15T12:50:33,862 sella/internal/int_classes.pyx:334:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,862 Error compiling Cython file: 2021-07-15T12:50:33,862 ------------------------------------------------------------ 2021-07-15T12:50:33,862 ... 2021-07-15T12:50:33,862 i = self.angles[n, 0] 2021-07-15T12:50:33,862 j = self.angles[n, 1] 2021-07-15T12:50:33,863 k = self.angles[n, 2] 2021-07-15T12:50:33,863 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,863 if err != 0: return err 2021-07-15T12:50:33,863 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,863 ^ 2021-07-15T12:50:33,863 ------------------------------------------------------------ 2021-07-15T12:50:33,864 sella/internal/int_classes.pyx:334:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,864 Error compiling Cython file: 2021-07-15T12:50:33,864 ------------------------------------------------------------ 2021-07-15T12:50:33,864 ... 2021-07-15T12:50:33,864 i = self.angles[n, 0] 2021-07-15T12:50:33,864 j = self.angles[n, 1] 2021-07-15T12:50:33,865 k = self.angles[n, 2] 2021-07-15T12:50:33,865 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,865 if err != 0: return err 2021-07-15T12:50:33,865 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,865 ^ 2021-07-15T12:50:33,865 ------------------------------------------------------------ 2021-07-15T12:50:33,866 sella/internal/int_classes.pyx:334:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,866 Error compiling Cython file: 2021-07-15T12:50:33,866 ------------------------------------------------------------ 2021-07-15T12:50:33,866 ... 2021-07-15T12:50:33,866 i = self.angles[n, 0] 2021-07-15T12:50:33,867 j = self.angles[n, 1] 2021-07-15T12:50:33,867 k = self.angles[n, 2] 2021-07-15T12:50:33,867 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,867 if err != 0: return err 2021-07-15T12:50:33,867 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,867 ^ 2021-07-15T12:50:33,867 ------------------------------------------------------------ 2021-07-15T12:50:33,868 sella/internal/int_classes.pyx:334:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,868 Error compiling Cython file: 2021-07-15T12:50:33,868 ------------------------------------------------------------ 2021-07-15T12:50:33,868 ... 2021-07-15T12:50:33,868 i = self.angles[n, 0] 2021-07-15T12:50:33,868 j = self.angles[n, 1] 2021-07-15T12:50:33,868 k = self.angles[n, 2] 2021-07-15T12:50:33,869 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,869 if err != 0: return err 2021-07-15T12:50:33,869 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,869 ^ 2021-07-15T12:50:33,869 ------------------------------------------------------------ 2021-07-15T12:50:33,869 sella/internal/int_classes.pyx:334:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,869 Error compiling Cython file: 2021-07-15T12:50:33,870 ------------------------------------------------------------ 2021-07-15T12:50:33,870 ... 2021-07-15T12:50:33,870 k = self.angles[n, 2] 2021-07-15T12:50:33,870 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,870 if err != 0: return err 2021-07-15T12:50:33,870 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,870 if err != 0: return err 2021-07-15T12:50:33,870 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,871 ^ 2021-07-15T12:50:33,871 ------------------------------------------------------------ 2021-07-15T12:50:33,871 sella/internal/int_classes.pyx:336:32: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,871 Error compiling Cython file: 2021-07-15T12:50:33,871 ------------------------------------------------------------ 2021-07-15T12:50:33,871 ... 2021-07-15T12:50:33,871 k = self.angles[n, 2] 2021-07-15T12:50:33,872 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,872 if err != 0: return err 2021-07-15T12:50:33,872 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,872 if err != 0: return err 2021-07-15T12:50:33,872 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,872 ^ 2021-07-15T12:50:33,872 ------------------------------------------------------------ 2021-07-15T12:50:33,872 sella/internal/int_classes.pyx:336:32: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,873 Error compiling Cython file: 2021-07-15T12:50:33,873 ------------------------------------------------------------ 2021-07-15T12:50:33,873 ... 2021-07-15T12:50:33,873 k = self.angles[n, 2] 2021-07-15T12:50:33,873 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,873 if err != 0: return err 2021-07-15T12:50:33,873 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,874 if err != 0: return err 2021-07-15T12:50:33,874 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,874 ^ 2021-07-15T12:50:33,874 ------------------------------------------------------------ 2021-07-15T12:50:33,874 sella/internal/int_classes.pyx:336:19: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,874 Error compiling Cython file: 2021-07-15T12:50:33,874 ------------------------------------------------------------ 2021-07-15T12:50:33,875 ... 2021-07-15T12:50:33,875 k = self.angles[n, 2] 2021-07-15T12:50:33,875 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,875 if err != 0: return err 2021-07-15T12:50:33,875 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,875 if err != 0: return err 2021-07-15T12:50:33,875 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,875 ^ 2021-07-15T12:50:33,876 ------------------------------------------------------------ 2021-07-15T12:50:33,876 sella/internal/int_classes.pyx:336:32: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,876 Error compiling Cython file: 2021-07-15T12:50:33,876 ------------------------------------------------------------ 2021-07-15T12:50:33,876 ... 2021-07-15T12:50:33,876 k = self.angles[n, 2] 2021-07-15T12:50:33,876 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,877 if err != 0: return err 2021-07-15T12:50:33,877 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,877 if err != 0: return err 2021-07-15T12:50:33,877 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,877 ^ 2021-07-15T12:50:33,877 ------------------------------------------------------------ 2021-07-15T12:50:33,877 sella/internal/int_classes.pyx:336:33: Converting to Python object not allowed without gil 2021-07-15T12:50:33,878 Error compiling Cython file: 2021-07-15T12:50:33,878 ------------------------------------------------------------ 2021-07-15T12:50:33,878 ... 2021-07-15T12:50:33,878 k = self.angles[n, 2] 2021-07-15T12:50:33,878 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,878 if err != 0: return err 2021-07-15T12:50:33,878 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,878 if err != 0: return err 2021-07-15T12:50:33,879 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,879 ^ 2021-07-15T12:50:33,879 ------------------------------------------------------------ 2021-07-15T12:50:33,879 sella/internal/int_classes.pyx:336:36: Converting to Python object not allowed without gil 2021-07-15T12:50:33,879 Error compiling Cython file: 2021-07-15T12:50:33,879 ------------------------------------------------------------ 2021-07-15T12:50:33,879 ... 2021-07-15T12:50:33,880 k = self.angles[n, 2] 2021-07-15T12:50:33,880 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,880 if err != 0: return err 2021-07-15T12:50:33,880 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,880 if err != 0: return err 2021-07-15T12:50:33,880 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,880 ^ 2021-07-15T12:50:33,880 ------------------------------------------------------------ 2021-07-15T12:50:33,881 sella/internal/int_classes.pyx:336:39: Converting to Python object not allowed without gil 2021-07-15T12:50:33,881 Error compiling Cython file: 2021-07-15T12:50:33,881 ------------------------------------------------------------ 2021-07-15T12:50:33,881 ... 2021-07-15T12:50:33,881 k = self.angles[n, 2] 2021-07-15T12:50:33,881 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,881 if err != 0: return err 2021-07-15T12:50:33,882 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,882 if err != 0: return err 2021-07-15T12:50:33,882 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,882 ^ 2021-07-15T12:50:33,882 ------------------------------------------------------------ 2021-07-15T12:50:33,882 sella/internal/int_classes.pyx:336:46: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,882 Error compiling Cython file: 2021-07-15T12:50:33,883 ------------------------------------------------------------ 2021-07-15T12:50:33,883 ... 2021-07-15T12:50:33,883 k = self.angles[n, 2] 2021-07-15T12:50:33,883 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,883 if err != 0: return err 2021-07-15T12:50:33,883 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,883 if err != 0: return err 2021-07-15T12:50:33,883 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,883 ^ 2021-07-15T12:50:33,884 ------------------------------------------------------------ 2021-07-15T12:50:33,884 sella/internal/int_classes.pyx:336:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,884 Error compiling Cython file: 2021-07-15T12:50:33,884 ------------------------------------------------------------ 2021-07-15T12:50:33,884 ... 2021-07-15T12:50:33,884 k = self.angles[n, 2] 2021-07-15T12:50:33,885 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,885 if err != 0: return err 2021-07-15T12:50:33,885 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,885 if err != 0: return err 2021-07-15T12:50:33,885 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,885 ^ 2021-07-15T12:50:33,885 ------------------------------------------------------------ 2021-07-15T12:50:33,886 sella/internal/int_classes.pyx:336:62: Converting to Python object not allowed without gil 2021-07-15T12:50:33,886 Error compiling Cython file: 2021-07-15T12:50:33,886 ------------------------------------------------------------ 2021-07-15T12:50:33,886 ... 2021-07-15T12:50:33,886 k = self.angles[n, 2] 2021-07-15T12:50:33,886 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,886 if err != 0: return err 2021-07-15T12:50:33,887 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,887 if err != 0: return err 2021-07-15T12:50:33,887 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,887 ^ 2021-07-15T12:50:33,887 ------------------------------------------------------------ 2021-07-15T12:50:33,887 sella/internal/int_classes.pyx:336:70: Indexing Python object not allowed without gil 2021-07-15T12:50:33,888 Error compiling Cython file: 2021-07-15T12:50:33,888 ------------------------------------------------------------ 2021-07-15T12:50:33,888 ... 2021-07-15T12:50:33,888 k = self.angles[n, 2] 2021-07-15T12:50:33,888 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,889 if err != 0: return err 2021-07-15T12:50:33,889 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,889 if err != 0: return err 2021-07-15T12:50:33,889 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,889 ^ 2021-07-15T12:50:33,889 ------------------------------------------------------------ 2021-07-15T12:50:33,889 sella/internal/int_classes.pyx:336:67: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,890 Error compiling Cython file: 2021-07-15T12:50:33,890 ------------------------------------------------------------ 2021-07-15T12:50:33,890 ... 2021-07-15T12:50:33,890 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,890 if err != 0: return err 2021-07-15T12:50:33,890 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,890 if err != 0: return err 2021-07-15T12:50:33,891 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,891 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,891 ^ 2021-07-15T12:50:33,891 ------------------------------------------------------------ 2021-07-15T12:50:33,891 sella/internal/int_classes.pyx:337:40: Indexing Python object not allowed without gil 2021-07-15T12:50:33,891 Error compiling Cython file: 2021-07-15T12:50:33,891 ------------------------------------------------------------ 2021-07-15T12:50:33,892 ... 2021-07-15T12:50:33,892 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,892 if err != 0: return err 2021-07-15T12:50:33,892 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,892 if err != 0: return err 2021-07-15T12:50:33,892 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,892 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,892 ^ 2021-07-15T12:50:33,893 ------------------------------------------------------------ 2021-07-15T12:50:33,893 sella/internal/int_classes.pyx:337:37: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,893 Error compiling Cython file: 2021-07-15T12:50:33,893 ------------------------------------------------------------ 2021-07-15T12:50:33,893 ... 2021-07-15T12:50:33,893 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,893 if err != 0: return err 2021-07-15T12:50:33,894 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,894 if err != 0: return err 2021-07-15T12:50:33,894 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,894 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,894 ^ 2021-07-15T12:50:33,894 ------------------------------------------------------------ 2021-07-15T12:50:33,894 sella/internal/int_classes.pyx:337:64: Indexing Python object not allowed without gil 2021-07-15T12:50:33,895 Error compiling Cython file: 2021-07-15T12:50:33,895 ------------------------------------------------------------ 2021-07-15T12:50:33,895 ... 2021-07-15T12:50:33,895 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,895 if err != 0: return err 2021-07-15T12:50:33,895 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,895 if err != 0: return err 2021-07-15T12:50:33,896 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,896 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,896 ^ 2021-07-15T12:50:33,896 ------------------------------------------------------------ 2021-07-15T12:50:33,896 sella/internal/int_classes.pyx:337:53: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,896 Error compiling Cython file: 2021-07-15T12:50:33,896 ------------------------------------------------------------ 2021-07-15T12:50:33,897 ... 2021-07-15T12:50:33,897 if err != 0: return err 2021-07-15T12:50:33,897 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,897 if err != 0: return err 2021-07-15T12:50:33,897 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,897 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,897 self.work1, grad, curv) 2021-07-15T12:50:33,897 ^ 2021-07-15T12:50:33,898 ------------------------------------------------------------ 2021-07-15T12:50:33,898 sella/internal/int_classes.pyx:338:37: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,898 Error compiling Cython file: 2021-07-15T12:50:33,898 ------------------------------------------------------------ 2021-07-15T12:50:33,898 ... 2021-07-15T12:50:33,898 if err != 0: return err 2021-07-15T12:50:33,898 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,899 if err != 0: return err 2021-07-15T12:50:33,899 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,899 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,899 self.work1, grad, curv) 2021-07-15T12:50:33,899 ^ 2021-07-15T12:50:33,899 ------------------------------------------------------------ 2021-07-15T12:50:33,899 sella/internal/int_classes.pyx:338:45: Converting to Python object not allowed without gil 2021-07-15T12:50:33,900 Error compiling Cython file: 2021-07-15T12:50:33,900 ------------------------------------------------------------ 2021-07-15T12:50:33,900 ... 2021-07-15T12:50:33,900 if err != 0: return err 2021-07-15T12:50:33,900 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,900 if err != 0: return err 2021-07-15T12:50:33,900 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,900 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,901 self.work1, grad, curv) 2021-07-15T12:50:33,901 ^ 2021-07-15T12:50:33,901 ------------------------------------------------------------ 2021-07-15T12:50:33,901 sella/internal/int_classes.pyx:338:51: Converting to Python object not allowed without gil 2021-07-15T12:50:33,901 Error compiling Cython file: 2021-07-15T12:50:33,901 ------------------------------------------------------------ 2021-07-15T12:50:33,902 ... 2021-07-15T12:50:33,902 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,902 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,902 self.work1, grad, curv) 2021-07-15T12:50:33,902 if info < 0: return info 2021-07-15T12:50:33,902 m += self.nangles 2021-07-15T12:50:33,902 ^ 2021-07-15T12:50:33,902 ------------------------------------------------------------ 2021-07-15T12:50:33,903 sella/internal/int_classes.pyx:341:8: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,903 Error compiling Cython file: 2021-07-15T12:50:33,903 ------------------------------------------------------------ 2021-07-15T12:50:33,903 ... 2021-07-15T12:50:33,903 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,903 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,903 self.work1, grad, curv) 2021-07-15T12:50:33,904 if info < 0: return info 2021-07-15T12:50:33,904 m += self.nangles 2021-07-15T12:50:33,904 ^ 2021-07-15T12:50:33,904 ------------------------------------------------------------ 2021-07-15T12:50:33,904 sella/internal/int_classes.pyx:341:8: Operation not allowed without gil 2021-07-15T12:50:33,904 Error compiling Cython file: 2021-07-15T12:50:33,905 ------------------------------------------------------------ 2021-07-15T12:50:33,905 ... 2021-07-15T12:50:33,905 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,905 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,905 self.work1, grad, curv) 2021-07-15T12:50:33,905 if info < 0: return info 2021-07-15T12:50:33,905 m += self.nangles 2021-07-15T12:50:33,906 ^ 2021-07-15T12:50:33,906 ------------------------------------------------------------ 2021-07-15T12:50:33,906 sella/internal/int_classes.pyx:341:8: Converting to Python object not allowed without gil 2021-07-15T12:50:33,906 Error compiling Cython file: 2021-07-15T12:50:33,906 ------------------------------------------------------------ 2021-07-15T12:50:33,906 ... 2021-07-15T12:50:33,907 info = cart_to_angle(i, j, k, self.dx1, self.dx2, &self.q1[m + n], 2021-07-15T12:50:33,907 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,907 self.work1, grad, curv) 2021-07-15T12:50:33,907 if info < 0: return info 2021-07-15T12:50:33,907 m += self.nangles 2021-07-15T12:50:33,907 ^ 2021-07-15T12:50:33,907 ------------------------------------------------------------ 2021-07-15T12:50:33,908 sella/internal/int_classes.pyx:341:17: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,908 Error compiling Cython file: 2021-07-15T12:50:33,908 ------------------------------------------------------------ 2021-07-15T12:50:33,908 ... 2021-07-15T12:50:33,908 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,908 self.work1, grad, curv) 2021-07-15T12:50:33,908 if info < 0: return info 2021-07-15T12:50:33,909 m += self.nangles 2021-07-15T12:50:33,909 for n in range(self.ndihedrals): 2021-07-15T12:50:33,909 ^ 2021-07-15T12:50:33,909 ------------------------------------------------------------ 2021-07-15T12:50:33,909 sella/internal/int_classes.pyx:342:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,909 Error compiling Cython file: 2021-07-15T12:50:33,910 ------------------------------------------------------------ 2021-07-15T12:50:33,910 ... 2021-07-15T12:50:33,910 self.dq[m + n], self.d2q_angles[n], 2021-07-15T12:50:33,910 self.work1, grad, curv) 2021-07-15T12:50:33,910 if info < 0: return info 2021-07-15T12:50:33,911 m += self.nangles 2021-07-15T12:50:33,911 for n in range(self.ndihedrals): 2021-07-15T12:50:33,911 ^ 2021-07-15T12:50:33,911 ------------------------------------------------------------ 2021-07-15T12:50:33,911 sella/internal/int_classes.pyx:342:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,912 Error compiling Cython file: 2021-07-15T12:50:33,912 ------------------------------------------------------------ 2021-07-15T12:50:33,912 ... 2021-07-15T12:50:33,912 self.work1, grad, curv) 2021-07-15T12:50:33,912 if info < 0: return info 2021-07-15T12:50:33,912 m += self.nangles 2021-07-15T12:50:33,912 for n in range(self.ndihedrals): 2021-07-15T12:50:33,913 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,913 ^ 2021-07-15T12:50:33,913 ------------------------------------------------------------ 2021-07-15T12:50:33,913 sella/internal/int_classes.pyx:343:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,913 Error compiling Cython file: 2021-07-15T12:50:33,913 ------------------------------------------------------------ 2021-07-15T12:50:33,914 ... 2021-07-15T12:50:33,914 self.work1, grad, curv) 2021-07-15T12:50:33,914 if info < 0: return info 2021-07-15T12:50:33,914 m += self.nangles 2021-07-15T12:50:33,914 for n in range(self.ndihedrals): 2021-07-15T12:50:33,914 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,914 ^ 2021-07-15T12:50:33,914 ------------------------------------------------------------ 2021-07-15T12:50:33,915 sella/internal/int_classes.pyx:343:30: Indexing Python object not allowed without gil 2021-07-15T12:50:33,915 Error compiling Cython file: 2021-07-15T12:50:33,915 ------------------------------------------------------------ 2021-07-15T12:50:33,915 ... 2021-07-15T12:50:33,915 self.work1, grad, curv) 2021-07-15T12:50:33,915 if info < 0: return info 2021-07-15T12:50:33,916 m += self.nangles 2021-07-15T12:50:33,916 for n in range(self.ndihedrals): 2021-07-15T12:50:33,916 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,916 ^ 2021-07-15T12:50:33,916 ------------------------------------------------------------ 2021-07-15T12:50:33,916 sella/internal/int_classes.pyx:343:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,917 Error compiling Cython file: 2021-07-15T12:50:33,917 ------------------------------------------------------------ 2021-07-15T12:50:33,917 ... 2021-07-15T12:50:33,917 self.work1, grad, curv) 2021-07-15T12:50:33,917 if info < 0: return info 2021-07-15T12:50:33,917 m += self.nangles 2021-07-15T12:50:33,917 for n in range(self.ndihedrals): 2021-07-15T12:50:33,918 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,918 ^ 2021-07-15T12:50:33,918 ------------------------------------------------------------ 2021-07-15T12:50:33,918 sella/internal/int_classes.pyx:343:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,918 Error compiling Cython file: 2021-07-15T12:50:33,918 ------------------------------------------------------------ 2021-07-15T12:50:33,918 ... 2021-07-15T12:50:33,919 self.work1, grad, curv) 2021-07-15T12:50:33,919 if info < 0: return info 2021-07-15T12:50:33,919 m += self.nangles 2021-07-15T12:50:33,919 for n in range(self.ndihedrals): 2021-07-15T12:50:33,919 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,919 ^ 2021-07-15T12:50:33,919 ------------------------------------------------------------ 2021-07-15T12:50:33,920 sella/internal/int_classes.pyx:343:31: Converting to Python object not allowed without gil 2021-07-15T12:50:33,920 Error compiling Cython file: 2021-07-15T12:50:33,920 ------------------------------------------------------------ 2021-07-15T12:50:33,920 ... 2021-07-15T12:50:33,920 if info < 0: return info 2021-07-15T12:50:33,920 m += self.nangles 2021-07-15T12:50:33,921 for n in range(self.ndihedrals): 2021-07-15T12:50:33,921 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,921 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,921 ^ 2021-07-15T12:50:33,921 ------------------------------------------------------------ 2021-07-15T12:50:33,921 sella/internal/int_classes.pyx:344:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,922 Error compiling Cython file: 2021-07-15T12:50:33,922 ------------------------------------------------------------ 2021-07-15T12:50:33,922 ... 2021-07-15T12:50:33,922 if info < 0: return info 2021-07-15T12:50:33,922 m += self.nangles 2021-07-15T12:50:33,922 for n in range(self.ndihedrals): 2021-07-15T12:50:33,922 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,922 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,923 ^ 2021-07-15T12:50:33,923 ------------------------------------------------------------ 2021-07-15T12:50:33,923 sella/internal/int_classes.pyx:344:30: Indexing Python object not allowed without gil 2021-07-15T12:50:33,923 Error compiling Cython file: 2021-07-15T12:50:33,923 ------------------------------------------------------------ 2021-07-15T12:50:33,923 ... 2021-07-15T12:50:33,924 if info < 0: return info 2021-07-15T12:50:33,924 m += self.nangles 2021-07-15T12:50:33,924 for n in range(self.ndihedrals): 2021-07-15T12:50:33,924 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,924 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,924 ^ 2021-07-15T12:50:33,924 ------------------------------------------------------------ 2021-07-15T12:50:33,925 sella/internal/int_classes.pyx:344:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,925 Error compiling Cython file: 2021-07-15T12:50:33,925 ------------------------------------------------------------ 2021-07-15T12:50:33,925 ... 2021-07-15T12:50:33,925 if info < 0: return info 2021-07-15T12:50:33,925 m += self.nangles 2021-07-15T12:50:33,926 for n in range(self.ndihedrals): 2021-07-15T12:50:33,926 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,926 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,926 ^ 2021-07-15T12:50:33,926 ------------------------------------------------------------ 2021-07-15T12:50:33,926 sella/internal/int_classes.pyx:344:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,926 Error compiling Cython file: 2021-07-15T12:50:33,927 ------------------------------------------------------------ 2021-07-15T12:50:33,927 ... 2021-07-15T12:50:33,927 if info < 0: return info 2021-07-15T12:50:33,927 m += self.nangles 2021-07-15T12:50:33,927 for n in range(self.ndihedrals): 2021-07-15T12:50:33,927 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,927 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,928 ^ 2021-07-15T12:50:33,928 ------------------------------------------------------------ 2021-07-15T12:50:33,928 sella/internal/int_classes.pyx:344:31: Converting to Python object not allowed without gil 2021-07-15T12:50:33,928 Error compiling Cython file: 2021-07-15T12:50:33,928 ------------------------------------------------------------ 2021-07-15T12:50:33,928 ... 2021-07-15T12:50:33,929 m += self.nangles 2021-07-15T12:50:33,929 for n in range(self.ndihedrals): 2021-07-15T12:50:33,929 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,929 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,929 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,929 ^ 2021-07-15T12:50:33,929 ------------------------------------------------------------ 2021-07-15T12:50:33,929 sella/internal/int_classes.pyx:345:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,930 Error compiling Cython file: 2021-07-15T12:50:33,930 ------------------------------------------------------------ 2021-07-15T12:50:33,930 ... 2021-07-15T12:50:33,930 m += self.nangles 2021-07-15T12:50:33,930 for n in range(self.ndihedrals): 2021-07-15T12:50:33,930 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,931 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,931 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,931 ^ 2021-07-15T12:50:33,931 ------------------------------------------------------------ 2021-07-15T12:50:33,931 sella/internal/int_classes.pyx:345:30: Indexing Python object not allowed without gil 2021-07-15T12:50:33,931 Error compiling Cython file: 2021-07-15T12:50:33,931 ------------------------------------------------------------ 2021-07-15T12:50:33,932 ... 2021-07-15T12:50:33,932 m += self.nangles 2021-07-15T12:50:33,932 for n in range(self.ndihedrals): 2021-07-15T12:50:33,932 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,932 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,932 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,932 ^ 2021-07-15T12:50:33,933 ------------------------------------------------------------ 2021-07-15T12:50:33,933 sella/internal/int_classes.pyx:345:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,933 Error compiling Cython file: 2021-07-15T12:50:33,933 ------------------------------------------------------------ 2021-07-15T12:50:33,933 ... 2021-07-15T12:50:33,933 m += self.nangles 2021-07-15T12:50:33,934 for n in range(self.ndihedrals): 2021-07-15T12:50:33,934 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,934 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,934 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,934 ^ 2021-07-15T12:50:33,934 ------------------------------------------------------------ 2021-07-15T12:50:33,934 sella/internal/int_classes.pyx:345:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,935 Error compiling Cython file: 2021-07-15T12:50:33,935 ------------------------------------------------------------ 2021-07-15T12:50:33,935 ... 2021-07-15T12:50:33,935 m += self.nangles 2021-07-15T12:50:33,935 for n in range(self.ndihedrals): 2021-07-15T12:50:33,935 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,935 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,936 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,936 ^ 2021-07-15T12:50:33,936 ------------------------------------------------------------ 2021-07-15T12:50:33,936 sella/internal/int_classes.pyx:345:31: Converting to Python object not allowed without gil 2021-07-15T12:50:33,936 Error compiling Cython file: 2021-07-15T12:50:33,936 ------------------------------------------------------------ 2021-07-15T12:50:33,937 ... 2021-07-15T12:50:33,937 m += self.nangles 2021-07-15T12:50:33,937 for n in range(self.ndihedrals): 2021-07-15T12:50:33,937 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,937 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,937 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,937 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,937 ^ 2021-07-15T12:50:33,937 ------------------------------------------------------------ 2021-07-15T12:50:33,938 sella/internal/int_classes.pyx:346:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,938 Error compiling Cython file: 2021-07-15T12:50:33,938 ------------------------------------------------------------ 2021-07-15T12:50:33,938 ... 2021-07-15T12:50:33,938 m += self.nangles 2021-07-15T12:50:33,938 for n in range(self.ndihedrals): 2021-07-15T12:50:33,939 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,939 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,939 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,939 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,939 ^ 2021-07-15T12:50:33,939 ------------------------------------------------------------ 2021-07-15T12:50:33,939 sella/internal/int_classes.pyx:346:30: Indexing Python object not allowed without gil 2021-07-15T12:50:33,940 Error compiling Cython file: 2021-07-15T12:50:33,940 ------------------------------------------------------------ 2021-07-15T12:50:33,940 ... 2021-07-15T12:50:33,940 m += self.nangles 2021-07-15T12:50:33,940 for n in range(self.ndihedrals): 2021-07-15T12:50:33,941 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,941 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,941 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,941 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,941 ^ 2021-07-15T12:50:33,941 ------------------------------------------------------------ 2021-07-15T12:50:33,942 sella/internal/int_classes.pyx:346:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,942 Error compiling Cython file: 2021-07-15T12:50:33,942 ------------------------------------------------------------ 2021-07-15T12:50:33,942 ... 2021-07-15T12:50:33,942 m += self.nangles 2021-07-15T12:50:33,942 for n in range(self.ndihedrals): 2021-07-15T12:50:33,942 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,943 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,943 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,943 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,943 ^ 2021-07-15T12:50:33,943 ------------------------------------------------------------ 2021-07-15T12:50:33,943 sella/internal/int_classes.pyx:346:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,943 Error compiling Cython file: 2021-07-15T12:50:33,944 ------------------------------------------------------------ 2021-07-15T12:50:33,944 ... 2021-07-15T12:50:33,944 m += self.nangles 2021-07-15T12:50:33,944 for n in range(self.ndihedrals): 2021-07-15T12:50:33,944 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,944 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,944 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,944 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,945 ^ 2021-07-15T12:50:33,945 ------------------------------------------------------------ 2021-07-15T12:50:33,945 sella/internal/int_classes.pyx:346:31: Converting to Python object not allowed without gil 2021-07-15T12:50:33,945 Error compiling Cython file: 2021-07-15T12:50:33,945 ------------------------------------------------------------ 2021-07-15T12:50:33,945 ... 2021-07-15T12:50:33,946 for n in range(self.ndihedrals): 2021-07-15T12:50:33,946 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,946 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,946 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,946 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,946 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,946 ^ 2021-07-15T12:50:33,946 ------------------------------------------------------------ 2021-07-15T12:50:33,947 sella/internal/int_classes.pyx:347:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,947 Error compiling Cython file: 2021-07-15T12:50:33,947 ------------------------------------------------------------ 2021-07-15T12:50:33,947 ... 2021-07-15T12:50:33,947 for n in range(self.ndihedrals): 2021-07-15T12:50:33,947 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,947 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,947 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,948 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,948 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,948 ^ 2021-07-15T12:50:33,948 ------------------------------------------------------------ 2021-07-15T12:50:33,948 sella/internal/int_classes.pyx:347:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,948 Error compiling Cython file: 2021-07-15T12:50:33,948 ------------------------------------------------------------ 2021-07-15T12:50:33,949 ... 2021-07-15T12:50:33,949 for n in range(self.ndihedrals): 2021-07-15T12:50:33,949 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,949 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,949 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,949 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,949 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,949 ^ 2021-07-15T12:50:33,950 ------------------------------------------------------------ 2021-07-15T12:50:33,950 sella/internal/int_classes.pyx:347:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,950 Error compiling Cython file: 2021-07-15T12:50:33,950 ------------------------------------------------------------ 2021-07-15T12:50:33,950 ... 2021-07-15T12:50:33,950 for n in range(self.ndihedrals): 2021-07-15T12:50:33,950 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,951 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,951 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,951 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,951 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,951 ^ 2021-07-15T12:50:33,951 ------------------------------------------------------------ 2021-07-15T12:50:33,951 sella/internal/int_classes.pyx:347:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,952 Error compiling Cython file: 2021-07-15T12:50:33,952 ------------------------------------------------------------ 2021-07-15T12:50:33,952 ... 2021-07-15T12:50:33,952 for n in range(self.ndihedrals): 2021-07-15T12:50:33,952 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,952 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,952 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,952 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,953 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,953 ^ 2021-07-15T12:50:33,953 ------------------------------------------------------------ 2021-07-15T12:50:33,953 sella/internal/int_classes.pyx:347:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,953 Error compiling Cython file: 2021-07-15T12:50:33,953 ------------------------------------------------------------ 2021-07-15T12:50:33,953 ... 2021-07-15T12:50:33,954 for n in range(self.ndihedrals): 2021-07-15T12:50:33,954 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,954 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,954 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,954 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,954 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,954 ^ 2021-07-15T12:50:33,954 ------------------------------------------------------------ 2021-07-15T12:50:33,955 sella/internal/int_classes.pyx:347:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,955 Error compiling Cython file: 2021-07-15T12:50:33,955 ------------------------------------------------------------ 2021-07-15T12:50:33,955 ... 2021-07-15T12:50:33,955 for n in range(self.ndihedrals): 2021-07-15T12:50:33,955 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,955 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,956 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,956 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,956 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,956 ^ 2021-07-15T12:50:33,956 ------------------------------------------------------------ 2021-07-15T12:50:33,956 sella/internal/int_classes.pyx:347:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,956 Error compiling Cython file: 2021-07-15T12:50:33,957 ------------------------------------------------------------ 2021-07-15T12:50:33,957 ... 2021-07-15T12:50:33,957 for n in range(self.ndihedrals): 2021-07-15T12:50:33,957 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,957 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,957 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,957 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,957 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,958 ^ 2021-07-15T12:50:33,958 ------------------------------------------------------------ 2021-07-15T12:50:33,958 sella/internal/int_classes.pyx:347:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,958 Error compiling Cython file: 2021-07-15T12:50:33,958 ------------------------------------------------------------ 2021-07-15T12:50:33,958 ... 2021-07-15T12:50:33,958 for n in range(self.ndihedrals): 2021-07-15T12:50:33,959 i = self.dihedrals[n, 0] 2021-07-15T12:50:33,959 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,959 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,959 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,959 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,959 ^ 2021-07-15T12:50:33,959 ------------------------------------------------------------ 2021-07-15T12:50:33,960 sella/internal/int_classes.pyx:347:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,960 Error compiling Cython file: 2021-07-15T12:50:33,960 ------------------------------------------------------------ 2021-07-15T12:50:33,960 ... 2021-07-15T12:50:33,960 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,960 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,960 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,960 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,961 if err != 0: return err 2021-07-15T12:50:33,961 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,961 ^ 2021-07-15T12:50:33,961 ------------------------------------------------------------ 2021-07-15T12:50:33,961 sella/internal/int_classes.pyx:349:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,961 Error compiling Cython file: 2021-07-15T12:50:33,961 ------------------------------------------------------------ 2021-07-15T12:50:33,962 ... 2021-07-15T12:50:33,962 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,962 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,962 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,962 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,962 if err != 0: return err 2021-07-15T12:50:33,962 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,962 ^ 2021-07-15T12:50:33,963 ------------------------------------------------------------ 2021-07-15T12:50:33,963 sella/internal/int_classes.pyx:349:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,963 Error compiling Cython file: 2021-07-15T12:50:33,963 ------------------------------------------------------------ 2021-07-15T12:50:33,963 ... 2021-07-15T12:50:33,963 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,963 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,964 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,964 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,964 if err != 0: return err 2021-07-15T12:50:33,964 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,964 ^ 2021-07-15T12:50:33,964 ------------------------------------------------------------ 2021-07-15T12:50:33,964 sella/internal/int_classes.pyx:349:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,965 Error compiling Cython file: 2021-07-15T12:50:33,965 ------------------------------------------------------------ 2021-07-15T12:50:33,965 ... 2021-07-15T12:50:33,965 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,965 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,965 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,966 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,966 if err != 0: return err 2021-07-15T12:50:33,966 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,966 ^ 2021-07-15T12:50:33,966 ------------------------------------------------------------ 2021-07-15T12:50:33,966 sella/internal/int_classes.pyx:349:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,967 Error compiling Cython file: 2021-07-15T12:50:33,967 ------------------------------------------------------------ 2021-07-15T12:50:33,967 ... 2021-07-15T12:50:33,967 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,967 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,967 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,968 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,968 if err != 0: return err 2021-07-15T12:50:33,968 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,968 ^ 2021-07-15T12:50:33,968 ------------------------------------------------------------ 2021-07-15T12:50:33,968 sella/internal/int_classes.pyx:349:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,968 Error compiling Cython file: 2021-07-15T12:50:33,969 ------------------------------------------------------------ 2021-07-15T12:50:33,969 ... 2021-07-15T12:50:33,969 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,969 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,969 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,969 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,969 if err != 0: return err 2021-07-15T12:50:33,969 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,970 ^ 2021-07-15T12:50:33,970 ------------------------------------------------------------ 2021-07-15T12:50:33,970 sella/internal/int_classes.pyx:349:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,970 Error compiling Cython file: 2021-07-15T12:50:33,970 ------------------------------------------------------------ 2021-07-15T12:50:33,970 ... 2021-07-15T12:50:33,970 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,971 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,971 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,971 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,971 if err != 0: return err 2021-07-15T12:50:33,971 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,971 ^ 2021-07-15T12:50:33,971 ------------------------------------------------------------ 2021-07-15T12:50:33,972 sella/internal/int_classes.pyx:349:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,972 Error compiling Cython file: 2021-07-15T12:50:33,972 ------------------------------------------------------------ 2021-07-15T12:50:33,972 ... 2021-07-15T12:50:33,972 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,972 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,972 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,972 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,973 if err != 0: return err 2021-07-15T12:50:33,973 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,973 ^ 2021-07-15T12:50:33,973 ------------------------------------------------------------ 2021-07-15T12:50:33,973 sella/internal/int_classes.pyx:349:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,973 Error compiling Cython file: 2021-07-15T12:50:33,974 ------------------------------------------------------------ 2021-07-15T12:50:33,974 ... 2021-07-15T12:50:33,974 j = self.dihedrals[n, 1] 2021-07-15T12:50:33,974 k = self.dihedrals[n, 2] 2021-07-15T12:50:33,974 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,974 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,974 if err != 0: return err 2021-07-15T12:50:33,974 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,974 ^ 2021-07-15T12:50:33,975 ------------------------------------------------------------ 2021-07-15T12:50:33,975 sella/internal/int_classes.pyx:349:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,975 Error compiling Cython file: 2021-07-15T12:50:33,975 ------------------------------------------------------------ 2021-07-15T12:50:33,975 ... 2021-07-15T12:50:33,975 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,976 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,976 if err != 0: return err 2021-07-15T12:50:33,976 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,976 if err != 0: return err 2021-07-15T12:50:33,976 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,976 ^ 2021-07-15T12:50:33,976 ------------------------------------------------------------ 2021-07-15T12:50:33,976 sella/internal/int_classes.pyx:351:25: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,977 Error compiling Cython file: 2021-07-15T12:50:33,977 ------------------------------------------------------------ 2021-07-15T12:50:33,977 ... 2021-07-15T12:50:33,977 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,977 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,977 if err != 0: return err 2021-07-15T12:50:33,977 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,978 if err != 0: return err 2021-07-15T12:50:33,978 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,978 ^ 2021-07-15T12:50:33,978 ------------------------------------------------------------ 2021-07-15T12:50:33,978 sella/internal/int_classes.pyx:351:25: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,978 Error compiling Cython file: 2021-07-15T12:50:33,978 ------------------------------------------------------------ 2021-07-15T12:50:33,979 ... 2021-07-15T12:50:33,979 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,979 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,979 if err != 0: return err 2021-07-15T12:50:33,979 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,979 if err != 0: return err 2021-07-15T12:50:33,979 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,979 ^ 2021-07-15T12:50:33,980 ------------------------------------------------------------ 2021-07-15T12:50:33,980 sella/internal/int_classes.pyx:351:18: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,980 Error compiling Cython file: 2021-07-15T12:50:33,980 ------------------------------------------------------------ 2021-07-15T12:50:33,980 ... 2021-07-15T12:50:33,980 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,980 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,981 if err != 0: return err 2021-07-15T12:50:33,981 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,981 if err != 0: return err 2021-07-15T12:50:33,981 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,981 ^ 2021-07-15T12:50:33,981 ------------------------------------------------------------ 2021-07-15T12:50:33,981 sella/internal/int_classes.pyx:351:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,982 Error compiling Cython file: 2021-07-15T12:50:33,982 ------------------------------------------------------------ 2021-07-15T12:50:33,982 ... 2021-07-15T12:50:33,982 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,982 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,982 if err != 0: return err 2021-07-15T12:50:33,982 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,982 if err != 0: return err 2021-07-15T12:50:33,983 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,983 ^ 2021-07-15T12:50:33,983 ------------------------------------------------------------ 2021-07-15T12:50:33,983 sella/internal/int_classes.pyx:351:34: Indexing Python object not allowed without gil 2021-07-15T12:50:33,983 Error compiling Cython file: 2021-07-15T12:50:33,983 ------------------------------------------------------------ 2021-07-15T12:50:33,983 ... 2021-07-15T12:50:33,984 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,984 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,984 if err != 0: return err 2021-07-15T12:50:33,984 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,984 if err != 0: return err 2021-07-15T12:50:33,984 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,984 ^ 2021-07-15T12:50:33,984 ------------------------------------------------------------ 2021-07-15T12:50:33,985 sella/internal/int_classes.pyx:351:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,985 Error compiling Cython file: 2021-07-15T12:50:33,985 ------------------------------------------------------------ 2021-07-15T12:50:33,985 ... 2021-07-15T12:50:33,985 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,985 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,985 if err != 0: return err 2021-07-15T12:50:33,986 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,986 if err != 0: return err 2021-07-15T12:50:33,986 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,986 ^ 2021-07-15T12:50:33,986 ------------------------------------------------------------ 2021-07-15T12:50:33,986 sella/internal/int_classes.pyx:351:47: Indexing Python object not allowed without gil 2021-07-15T12:50:33,986 Error compiling Cython file: 2021-07-15T12:50:33,987 ------------------------------------------------------------ 2021-07-15T12:50:33,987 ... 2021-07-15T12:50:33,987 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,987 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,987 if err != 0: return err 2021-07-15T12:50:33,987 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,987 if err != 0: return err 2021-07-15T12:50:33,987 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,988 ^ 2021-07-15T12:50:33,988 ------------------------------------------------------------ 2021-07-15T12:50:33,988 sella/internal/int_classes.pyx:351:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,988 Error compiling Cython file: 2021-07-15T12:50:33,988 ------------------------------------------------------------ 2021-07-15T12:50:33,988 ... 2021-07-15T12:50:33,988 l = self.dihedrals[n, 3] 2021-07-15T12:50:33,989 err = vec_sum(self.pos[l], self.pos[k], self.dx3, -1.) 2021-07-15T12:50:33,989 if err != 0: return err 2021-07-15T12:50:33,989 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,989 if err != 0: return err 2021-07-15T12:50:33,989 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,989 ^ 2021-07-15T12:50:33,990 ------------------------------------------------------------ 2021-07-15T12:50:33,990 sella/internal/int_classes.pyx:351:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:33,990 Error compiling Cython file: 2021-07-15T12:50:33,990 ------------------------------------------------------------ 2021-07-15T12:50:33,991 ... 2021-07-15T12:50:33,991 if err != 0: return err 2021-07-15T12:50:33,991 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,991 if err != 0: return err 2021-07-15T12:50:33,991 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,991 if err != 0: return err 2021-07-15T12:50:33,991 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:33,992 ^ 2021-07-15T12:50:33,992 ------------------------------------------------------------ 2021-07-15T12:50:33,992 sella/internal/int_classes.pyx:353:35: Coercion from Python not allowed without the GIL 2021-07-15T12:50:33,992 Error compiling Cython file: 2021-07-15T12:50:33,992 ------------------------------------------------------------ 2021-07-15T12:50:33,992 ... 2021-07-15T12:50:33,992 if err != 0: return err 2021-07-15T12:50:33,993 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,993 if err != 0: return err 2021-07-15T12:50:33,993 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,993 if err != 0: return err 2021-07-15T12:50:33,993 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:33,993 ^ 2021-07-15T12:50:33,993 ------------------------------------------------------------ 2021-07-15T12:50:33,994 sella/internal/int_classes.pyx:353:35: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:33,994 Error compiling Cython file: 2021-07-15T12:50:33,994 ------------------------------------------------------------ 2021-07-15T12:50:33,994 ... 2021-07-15T12:50:33,994 if err != 0: return err 2021-07-15T12:50:33,994 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,994 if err != 0: return err 2021-07-15T12:50:33,994 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,995 if err != 0: return err 2021-07-15T12:50:33,995 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:33,995 ^ 2021-07-15T12:50:33,995 ------------------------------------------------------------ 2021-07-15T12:50:33,995 sella/internal/int_classes.pyx:353:19: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:33,995 Error compiling Cython file: 2021-07-15T12:50:33,995 ------------------------------------------------------------ 2021-07-15T12:50:33,996 ... 2021-07-15T12:50:33,996 if err != 0: return err 2021-07-15T12:50:33,996 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,996 if err != 0: return err 2021-07-15T12:50:33,996 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,996 if err != 0: return err 2021-07-15T12:50:33,996 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:33,996 ^ 2021-07-15T12:50:33,997 ------------------------------------------------------------ 2021-07-15T12:50:33,997 sella/internal/int_classes.pyx:353:35: Constructing Python tuple not allowed without gil 2021-07-15T12:50:33,997 Error compiling Cython file: 2021-07-15T12:50:33,997 ------------------------------------------------------------ 2021-07-15T12:50:33,997 ... 2021-07-15T12:50:33,997 if err != 0: return err 2021-07-15T12:50:33,997 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,998 if err != 0: return err 2021-07-15T12:50:33,998 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,998 if err != 0: return err 2021-07-15T12:50:33,998 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:33,998 ^ 2021-07-15T12:50:33,998 ------------------------------------------------------------ 2021-07-15T12:50:33,998 sella/internal/int_classes.pyx:353:36: Converting to Python object not allowed without gil 2021-07-15T12:50:33,999 Error compiling Cython file: 2021-07-15T12:50:33,999 ------------------------------------------------------------ 2021-07-15T12:50:33,999 ... 2021-07-15T12:50:33,999 if err != 0: return err 2021-07-15T12:50:33,999 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:33,999 if err != 0: return err 2021-07-15T12:50:33,999 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:33,999 if err != 0: return err 2021-07-15T12:50:34,000 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,000 ^ 2021-07-15T12:50:34,000 ------------------------------------------------------------ 2021-07-15T12:50:34,000 sella/internal/int_classes.pyx:353:39: Converting to Python object not allowed without gil 2021-07-15T12:50:34,000 Error compiling Cython file: 2021-07-15T12:50:34,000 ------------------------------------------------------------ 2021-07-15T12:50:34,001 ... 2021-07-15T12:50:34,001 if err != 0: return err 2021-07-15T12:50:34,001 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,001 if err != 0: return err 2021-07-15T12:50:34,001 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,001 if err != 0: return err 2021-07-15T12:50:34,001 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,001 ^ 2021-07-15T12:50:34,001 ------------------------------------------------------------ 2021-07-15T12:50:34,002 sella/internal/int_classes.pyx:353:42: Converting to Python object not allowed without gil 2021-07-15T12:50:34,002 Error compiling Cython file: 2021-07-15T12:50:34,002 ------------------------------------------------------------ 2021-07-15T12:50:34,002 ... 2021-07-15T12:50:34,002 if err != 0: return err 2021-07-15T12:50:34,002 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,003 if err != 0: return err 2021-07-15T12:50:34,003 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,003 if err != 0: return err 2021-07-15T12:50:34,003 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,003 ^ 2021-07-15T12:50:34,003 ------------------------------------------------------------ 2021-07-15T12:50:34,003 sella/internal/int_classes.pyx:353:45: Converting to Python object not allowed without gil 2021-07-15T12:50:34,004 Error compiling Cython file: 2021-07-15T12:50:34,004 ------------------------------------------------------------ 2021-07-15T12:50:34,004 ... 2021-07-15T12:50:34,004 if err != 0: return err 2021-07-15T12:50:34,004 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,004 if err != 0: return err 2021-07-15T12:50:34,004 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,004 if err != 0: return err 2021-07-15T12:50:34,005 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,005 ^ 2021-07-15T12:50:34,005 ------------------------------------------------------------ 2021-07-15T12:50:34,005 sella/internal/int_classes.pyx:353:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,005 Error compiling Cython file: 2021-07-15T12:50:34,005 ------------------------------------------------------------ 2021-07-15T12:50:34,006 ... 2021-07-15T12:50:34,006 if err != 0: return err 2021-07-15T12:50:34,006 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,006 if err != 0: return err 2021-07-15T12:50:34,006 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,006 if err != 0: return err 2021-07-15T12:50:34,006 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,006 ^ 2021-07-15T12:50:34,006 ------------------------------------------------------------ 2021-07-15T12:50:34,007 sella/internal/int_classes.pyx:353:62: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,007 Error compiling Cython file: 2021-07-15T12:50:34,007 ------------------------------------------------------------ 2021-07-15T12:50:34,007 ... 2021-07-15T12:50:34,007 if err != 0: return err 2021-07-15T12:50:34,007 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,007 if err != 0: return err 2021-07-15T12:50:34,008 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,008 if err != 0: return err 2021-07-15T12:50:34,008 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,008 ^ 2021-07-15T12:50:34,008 ------------------------------------------------------------ 2021-07-15T12:50:34,008 sella/internal/int_classes.pyx:353:72: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,009 Error compiling Cython file: 2021-07-15T12:50:34,009 ------------------------------------------------------------ 2021-07-15T12:50:34,009 ... 2021-07-15T12:50:34,009 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,009 if err != 0: return err 2021-07-15T12:50:34,009 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,009 if err != 0: return err 2021-07-15T12:50:34,009 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,010 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,010 ^ 2021-07-15T12:50:34,010 ------------------------------------------------------------ 2021-07-15T12:50:34,010 sella/internal/int_classes.pyx:354:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,010 Error compiling Cython file: 2021-07-15T12:50:34,010 ------------------------------------------------------------ 2021-07-15T12:50:34,010 ... 2021-07-15T12:50:34,011 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,011 if err != 0: return err 2021-07-15T12:50:34,011 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,011 if err != 0: return err 2021-07-15T12:50:34,011 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,011 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,011 ^ 2021-07-15T12:50:34,012 ------------------------------------------------------------ 2021-07-15T12:50:34,012 sella/internal/int_classes.pyx:354:44: Indexing Python object not allowed without gil 2021-07-15T12:50:34,012 Error compiling Cython file: 2021-07-15T12:50:34,012 ------------------------------------------------------------ 2021-07-15T12:50:34,013 ... 2021-07-15T12:50:34,013 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,013 if err != 0: return err 2021-07-15T12:50:34,013 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,013 if err != 0: return err 2021-07-15T12:50:34,013 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,013 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,014 ^ 2021-07-15T12:50:34,014 ------------------------------------------------------------ 2021-07-15T12:50:34,014 sella/internal/int_classes.pyx:354:41: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,014 Error compiling Cython file: 2021-07-15T12:50:34,014 ------------------------------------------------------------ 2021-07-15T12:50:34,014 ... 2021-07-15T12:50:34,014 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,015 if err != 0: return err 2021-07-15T12:50:34,015 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,015 if err != 0: return err 2021-07-15T12:50:34,015 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,015 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,015 ^ 2021-07-15T12:50:34,015 ------------------------------------------------------------ 2021-07-15T12:50:34,016 sella/internal/int_classes.pyx:354:60: Indexing Python object not allowed without gil 2021-07-15T12:50:34,016 Error compiling Cython file: 2021-07-15T12:50:34,016 ------------------------------------------------------------ 2021-07-15T12:50:34,016 ... 2021-07-15T12:50:34,016 err = vec_sum(self.pos[k], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,016 if err != 0: return err 2021-07-15T12:50:34,016 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,016 if err != 0: return err 2021-07-15T12:50:34,017 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,017 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,017 ^ 2021-07-15T12:50:34,017 ------------------------------------------------------------ 2021-07-15T12:50:34,017 sella/internal/int_classes.pyx:354:57: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,017 Error compiling Cython file: 2021-07-15T12:50:34,018 ------------------------------------------------------------ 2021-07-15T12:50:34,018 ... 2021-07-15T12:50:34,018 if err != 0: return err 2021-07-15T12:50:34,018 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,018 if err != 0: return err 2021-07-15T12:50:34,018 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,018 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,018 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,018 ^ 2021-07-15T12:50:34,019 ------------------------------------------------------------ 2021-07-15T12:50:34,019 sella/internal/int_classes.pyx:355:54: Indexing Python object not allowed without gil 2021-07-15T12:50:34,019 Error compiling Cython file: 2021-07-15T12:50:34,019 ------------------------------------------------------------ 2021-07-15T12:50:34,019 ... 2021-07-15T12:50:34,019 if err != 0: return err 2021-07-15T12:50:34,020 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,020 if err != 0: return err 2021-07-15T12:50:34,020 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,020 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,020 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,020 ^ 2021-07-15T12:50:34,020 ------------------------------------------------------------ 2021-07-15T12:50:34,020 sella/internal/int_classes.pyx:355:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,021 Error compiling Cython file: 2021-07-15T12:50:34,021 ------------------------------------------------------------ 2021-07-15T12:50:34,021 ... 2021-07-15T12:50:34,021 if err != 0: return err 2021-07-15T12:50:34,021 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,021 if err != 0: return err 2021-07-15T12:50:34,021 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,022 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,022 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,022 ^ 2021-07-15T12:50:34,022 ------------------------------------------------------------ 2021-07-15T12:50:34,022 sella/internal/int_classes.pyx:355:63: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,022 Error compiling Cython file: 2021-07-15T12:50:34,022 ------------------------------------------------------------ 2021-07-15T12:50:34,023 ... 2021-07-15T12:50:34,023 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,023 if err != 0: return err 2021-07-15T12:50:34,023 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,023 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,023 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,023 grad, curv) 2021-07-15T12:50:34,023 ^ 2021-07-15T12:50:34,024 ------------------------------------------------------------ 2021-07-15T12:50:34,024 sella/internal/int_classes.pyx:356:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,024 Error compiling Cython file: 2021-07-15T12:50:34,024 ------------------------------------------------------------ 2021-07-15T12:50:34,024 ... 2021-07-15T12:50:34,024 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,024 if err != 0: return err 2021-07-15T12:50:34,025 info = cart_to_dihedral(i, j, k, l, self.dx1, self.dx2, self.dx3, 2021-07-15T12:50:34,025 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,025 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,025 grad, curv) 2021-07-15T12:50:34,025 ^ 2021-07-15T12:50:34,025 ------------------------------------------------------------ 2021-07-15T12:50:34,025 sella/internal/int_classes.pyx:356:42: Converting to Python object not allowed without gil 2021-07-15T12:50:34,026 Error compiling Cython file: 2021-07-15T12:50:34,026 ------------------------------------------------------------ 2021-07-15T12:50:34,026 ... 2021-07-15T12:50:34,026 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,026 grad, curv) 2021-07-15T12:50:34,026 if info < 0: 2021-07-15T12:50:34,026 return info 2021-07-15T12:50:34,027 m += self.ndihedrals 2021-07-15T12:50:34,027 ^ 2021-07-15T12:50:34,027 ------------------------------------------------------------ 2021-07-15T12:50:34,027 sella/internal/int_classes.pyx:360:8: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,027 Error compiling Cython file: 2021-07-15T12:50:34,027 ------------------------------------------------------------ 2021-07-15T12:50:34,028 ... 2021-07-15T12:50:34,028 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,028 grad, curv) 2021-07-15T12:50:34,028 if info < 0: 2021-07-15T12:50:34,028 return info 2021-07-15T12:50:34,028 m += self.ndihedrals 2021-07-15T12:50:34,028 ^ 2021-07-15T12:50:34,028 ------------------------------------------------------------ 2021-07-15T12:50:34,029 sella/internal/int_classes.pyx:360:8: Operation not allowed without gil 2021-07-15T12:50:34,029 Error compiling Cython file: 2021-07-15T12:50:34,029 ------------------------------------------------------------ 2021-07-15T12:50:34,029 ... 2021-07-15T12:50:34,029 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,029 grad, curv) 2021-07-15T12:50:34,030 if info < 0: 2021-07-15T12:50:34,030 return info 2021-07-15T12:50:34,030 m += self.ndihedrals 2021-07-15T12:50:34,030 ^ 2021-07-15T12:50:34,030 ------------------------------------------------------------ 2021-07-15T12:50:34,030 sella/internal/int_classes.pyx:360:8: Converting to Python object not allowed without gil 2021-07-15T12:50:34,031 Error compiling Cython file: 2021-07-15T12:50:34,031 ------------------------------------------------------------ 2021-07-15T12:50:34,031 ... 2021-07-15T12:50:34,031 self.d2q_dihedrals[n], self.work1, 2021-07-15T12:50:34,031 grad, curv) 2021-07-15T12:50:34,031 if info < 0: 2021-07-15T12:50:34,031 return info 2021-07-15T12:50:34,031 m += self.ndihedrals 2021-07-15T12:50:34,032 ^ 2021-07-15T12:50:34,032 ------------------------------------------------------------ 2021-07-15T12:50:34,032 sella/internal/int_classes.pyx:360:17: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,032 Error compiling Cython file: 2021-07-15T12:50:34,032 ------------------------------------------------------------ 2021-07-15T12:50:34,032 ... 2021-07-15T12:50:34,033 grad, curv) 2021-07-15T12:50:34,033 if info < 0: 2021-07-15T12:50:34,033 return info 2021-07-15T12:50:34,033 m += self.ndihedrals 2021-07-15T12:50:34,033 for n in range(self.nangle_sums): 2021-07-15T12:50:34,033 ^ 2021-07-15T12:50:34,033 ------------------------------------------------------------ 2021-07-15T12:50:34,034 sella/internal/int_classes.pyx:361:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,034 Error compiling Cython file: 2021-07-15T12:50:34,034 ------------------------------------------------------------ 2021-07-15T12:50:34,034 ... 2021-07-15T12:50:34,034 grad, curv) 2021-07-15T12:50:34,034 if info < 0: 2021-07-15T12:50:34,034 return info 2021-07-15T12:50:34,035 m += self.ndihedrals 2021-07-15T12:50:34,035 for n in range(self.nangle_sums): 2021-07-15T12:50:34,035 ^ 2021-07-15T12:50:34,035 ------------------------------------------------------------ 2021-07-15T12:50:34,035 sella/internal/int_classes.pyx:361:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,036 Error compiling Cython file: 2021-07-15T12:50:34,036 ------------------------------------------------------------ 2021-07-15T12:50:34,036 ... 2021-07-15T12:50:34,036 if info < 0: 2021-07-15T12:50:34,036 return info 2021-07-15T12:50:34,037 m += self.ndihedrals 2021-07-15T12:50:34,037 for n in range(self.nangle_sums): 2021-07-15T12:50:34,037 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,037 ^ 2021-07-15T12:50:34,037 ------------------------------------------------------------ 2021-07-15T12:50:34,037 sella/internal/int_classes.pyx:362:55: Indexing Python object not allowed without gil 2021-07-15T12:50:34,038 Error compiling Cython file: 2021-07-15T12:50:34,038 ------------------------------------------------------------ 2021-07-15T12:50:34,038 ... 2021-07-15T12:50:34,038 if info < 0: 2021-07-15T12:50:34,038 return info 2021-07-15T12:50:34,038 m += self.ndihedrals 2021-07-15T12:50:34,039 for n in range(self.nangle_sums): 2021-07-15T12:50:34,039 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,039 ^ 2021-07-15T12:50:34,039 ------------------------------------------------------------ 2021-07-15T12:50:34,039 sella/internal/int_classes.pyx:362:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,039 Error compiling Cython file: 2021-07-15T12:50:34,039 ------------------------------------------------------------ 2021-07-15T12:50:34,040 ... 2021-07-15T12:50:34,040 return info 2021-07-15T12:50:34,040 m += self.ndihedrals 2021-07-15T12:50:34,040 for n in range(self.nangle_sums): 2021-07-15T12:50:34,040 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,040 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,040 ^ 2021-07-15T12:50:34,041 ------------------------------------------------------------ 2021-07-15T12:50:34,041 sella/internal/int_classes.pyx:363:48: Indexing Python object not allowed without gil 2021-07-15T12:50:34,041 Error compiling Cython file: 2021-07-15T12:50:34,041 ------------------------------------------------------------ 2021-07-15T12:50:34,041 ... 2021-07-15T12:50:34,041 return info 2021-07-15T12:50:34,042 m += self.ndihedrals 2021-07-15T12:50:34,042 for n in range(self.nangle_sums): 2021-07-15T12:50:34,042 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,042 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,042 ^ 2021-07-15T12:50:34,042 ------------------------------------------------------------ 2021-07-15T12:50:34,042 sella/internal/int_classes.pyx:363:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,043 Error compiling Cython file: 2021-07-15T12:50:34,043 ------------------------------------------------------------ 2021-07-15T12:50:34,043 ... 2021-07-15T12:50:34,043 return info 2021-07-15T12:50:34,043 m += self.ndihedrals 2021-07-15T12:50:34,043 for n in range(self.nangle_sums): 2021-07-15T12:50:34,044 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,044 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,044 ^ 2021-07-15T12:50:34,044 ------------------------------------------------------------ 2021-07-15T12:50:34,044 sella/internal/int_classes.pyx:363:64: Indexing Python object not allowed without gil 2021-07-15T12:50:34,044 Error compiling Cython file: 2021-07-15T12:50:34,044 ------------------------------------------------------------ 2021-07-15T12:50:34,045 ... 2021-07-15T12:50:34,045 return info 2021-07-15T12:50:34,045 m += self.ndihedrals 2021-07-15T12:50:34,045 for n in range(self.nangle_sums): 2021-07-15T12:50:34,045 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,045 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,045 ^ 2021-07-15T12:50:34,045 ------------------------------------------------------------ 2021-07-15T12:50:34,046 sella/internal/int_classes.pyx:363:61: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,046 Error compiling Cython file: 2021-07-15T12:50:34,046 ------------------------------------------------------------ 2021-07-15T12:50:34,046 ... 2021-07-15T12:50:34,046 m += self.ndihedrals 2021-07-15T12:50:34,047 for n in range(self.nangle_sums): 2021-07-15T12:50:34,047 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,047 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,047 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,047 ^ 2021-07-15T12:50:34,047 ------------------------------------------------------------ 2021-07-15T12:50:34,047 sella/internal/int_classes.pyx:364:59: Indexing Python object not allowed without gil 2021-07-15T12:50:34,048 Error compiling Cython file: 2021-07-15T12:50:34,048 ------------------------------------------------------------ 2021-07-15T12:50:34,048 ... 2021-07-15T12:50:34,048 m += self.ndihedrals 2021-07-15T12:50:34,048 for n in range(self.nangle_sums): 2021-07-15T12:50:34,048 info = self._angle_sum_diff(self.angle_sums[n], 1., 2021-07-15T12:50:34,048 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,049 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,049 ^ 2021-07-15T12:50:34,049 ------------------------------------------------------------ 2021-07-15T12:50:34,049 sella/internal/int_classes.pyx:364:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,049 Error compiling Cython file: 2021-07-15T12:50:34,049 ------------------------------------------------------------ 2021-07-15T12:50:34,050 ... 2021-07-15T12:50:34,050 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,050 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,050 if info < 0: 2021-07-15T12:50:34,050 return info 2021-07-15T12:50:34,050 m += self.nangle_sums 2021-07-15T12:50:34,050 ^ 2021-07-15T12:50:34,050 ------------------------------------------------------------ 2021-07-15T12:50:34,051 sella/internal/int_classes.pyx:368:8: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,051 Error compiling Cython file: 2021-07-15T12:50:34,051 ------------------------------------------------------------ 2021-07-15T12:50:34,051 ... 2021-07-15T12:50:34,051 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,051 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,051 if info < 0: 2021-07-15T12:50:34,052 return info 2021-07-15T12:50:34,052 m += self.nangle_sums 2021-07-15T12:50:34,052 ^ 2021-07-15T12:50:34,052 ------------------------------------------------------------ 2021-07-15T12:50:34,052 sella/internal/int_classes.pyx:368:8: Operation not allowed without gil 2021-07-15T12:50:34,053 Error compiling Cython file: 2021-07-15T12:50:34,053 ------------------------------------------------------------ 2021-07-15T12:50:34,053 ... 2021-07-15T12:50:34,053 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,053 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,053 if info < 0: 2021-07-15T12:50:34,053 return info 2021-07-15T12:50:34,053 m += self.nangle_sums 2021-07-15T12:50:34,054 ^ 2021-07-15T12:50:34,054 ------------------------------------------------------------ 2021-07-15T12:50:34,054 sella/internal/int_classes.pyx:368:8: Converting to Python object not allowed without gil 2021-07-15T12:50:34,054 Error compiling Cython file: 2021-07-15T12:50:34,054 ------------------------------------------------------------ 2021-07-15T12:50:34,054 ... 2021-07-15T12:50:34,055 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,055 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,055 if info < 0: 2021-07-15T12:50:34,055 return info 2021-07-15T12:50:34,055 m += self.nangle_sums 2021-07-15T12:50:34,055 ^ 2021-07-15T12:50:34,055 ------------------------------------------------------------ 2021-07-15T12:50:34,056 sella/internal/int_classes.pyx:368:17: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,056 Error compiling Cython file: 2021-07-15T12:50:34,056 ------------------------------------------------------------ 2021-07-15T12:50:34,056 ... 2021-07-15T12:50:34,056 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,056 if info < 0: 2021-07-15T12:50:34,056 return info 2021-07-15T12:50:34,057 m += self.nangle_sums 2021-07-15T12:50:34,057 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,057 ^ 2021-07-15T12:50:34,057 ------------------------------------------------------------ 2021-07-15T12:50:34,057 sella/internal/int_classes.pyx:369:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,057 Error compiling Cython file: 2021-07-15T12:50:34,058 ------------------------------------------------------------ 2021-07-15T12:50:34,058 ... 2021-07-15T12:50:34,058 self.d2q_angle_sums[n], grad, curv) 2021-07-15T12:50:34,058 if info < 0: 2021-07-15T12:50:34,058 return info 2021-07-15T12:50:34,058 m += self.nangle_sums 2021-07-15T12:50:34,058 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,059 ^ 2021-07-15T12:50:34,059 ------------------------------------------------------------ 2021-07-15T12:50:34,059 sella/internal/int_classes.pyx:369:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,059 Error compiling Cython file: 2021-07-15T12:50:34,059 ------------------------------------------------------------ 2021-07-15T12:50:34,059 ... 2021-07-15T12:50:34,059 if info < 0: 2021-07-15T12:50:34,060 return info 2021-07-15T12:50:34,060 m += self.nangle_sums 2021-07-15T12:50:34,060 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,060 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,060 ^ 2021-07-15T12:50:34,060 ------------------------------------------------------------ 2021-07-15T12:50:34,061 sella/internal/int_classes.pyx:370:56: Indexing Python object not allowed without gil 2021-07-15T12:50:34,061 Error compiling Cython file: 2021-07-15T12:50:34,061 ------------------------------------------------------------ 2021-07-15T12:50:34,061 ... 2021-07-15T12:50:34,061 if info < 0: 2021-07-15T12:50:34,061 return info 2021-07-15T12:50:34,061 m += self.nangle_sums 2021-07-15T12:50:34,062 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,062 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,062 ^ 2021-07-15T12:50:34,062 ------------------------------------------------------------ 2021-07-15T12:50:34,062 sella/internal/int_classes.pyx:370:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,062 Error compiling Cython file: 2021-07-15T12:50:34,063 ------------------------------------------------------------ 2021-07-15T12:50:34,063 ... 2021-07-15T12:50:34,063 return info 2021-07-15T12:50:34,063 m += self.nangle_sums 2021-07-15T12:50:34,063 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,064 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,064 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,064 ^ 2021-07-15T12:50:34,064 ------------------------------------------------------------ 2021-07-15T12:50:34,064 sella/internal/int_classes.pyx:371:48: Indexing Python object not allowed without gil 2021-07-15T12:50:34,065 Error compiling Cython file: 2021-07-15T12:50:34,065 ------------------------------------------------------------ 2021-07-15T12:50:34,065 ... 2021-07-15T12:50:34,065 return info 2021-07-15T12:50:34,065 m += self.nangle_sums 2021-07-15T12:50:34,065 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,065 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,066 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,066 ^ 2021-07-15T12:50:34,066 ------------------------------------------------------------ 2021-07-15T12:50:34,066 sella/internal/int_classes.pyx:371:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,066 Error compiling Cython file: 2021-07-15T12:50:34,066 ------------------------------------------------------------ 2021-07-15T12:50:34,067 ... 2021-07-15T12:50:34,067 return info 2021-07-15T12:50:34,067 m += self.nangle_sums 2021-07-15T12:50:34,067 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,067 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,067 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,067 ^ 2021-07-15T12:50:34,068 ------------------------------------------------------------ 2021-07-15T12:50:34,068 sella/internal/int_classes.pyx:371:64: Indexing Python object not allowed without gil 2021-07-15T12:50:34,068 Error compiling Cython file: 2021-07-15T12:50:34,068 ------------------------------------------------------------ 2021-07-15T12:50:34,068 ... 2021-07-15T12:50:34,068 return info 2021-07-15T12:50:34,069 m += self.nangle_sums 2021-07-15T12:50:34,069 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,069 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,069 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,069 ^ 2021-07-15T12:50:34,069 ------------------------------------------------------------ 2021-07-15T12:50:34,069 sella/internal/int_classes.pyx:371:61: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,070 Error compiling Cython file: 2021-07-15T12:50:34,070 ------------------------------------------------------------ 2021-07-15T12:50:34,070 ... 2021-07-15T12:50:34,070 m += self.nangle_sums 2021-07-15T12:50:34,070 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,070 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,071 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,071 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:34,071 ^ 2021-07-15T12:50:34,071 ------------------------------------------------------------ 2021-07-15T12:50:34,071 sella/internal/int_classes.pyx:372:60: Indexing Python object not allowed without gil 2021-07-15T12:50:34,071 Error compiling Cython file: 2021-07-15T12:50:34,071 ------------------------------------------------------------ 2021-07-15T12:50:34,072 ... 2021-07-15T12:50:34,072 m += self.nangle_sums 2021-07-15T12:50:34,072 for n in range(self.nangle_diffs): 2021-07-15T12:50:34,072 info = self._angle_sum_diff(self.angle_diffs[n], -1., 2021-07-15T12:50:34,072 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,072 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:34,072 ^ 2021-07-15T12:50:34,073 ------------------------------------------------------------ 2021-07-15T12:50:34,073 sella/internal/int_classes.pyx:372:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,073 Error compiling Cython file: 2021-07-15T12:50:34,073 ------------------------------------------------------------ 2021-07-15T12:50:34,073 ... 2021-07-15T12:50:34,073 &self.q1[m + n], self.dq[m + n], 2021-07-15T12:50:34,073 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:34,074 if info < 0: 2021-07-15T12:50:34,074 return info 2021-07-15T12:50:34,074 self.calc_required = False 2021-07-15T12:50:34,074 ^ 2021-07-15T12:50:34,074 ------------------------------------------------------------ 2021-07-15T12:50:34,074 sella/internal/int_classes.pyx:376:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,075 Error compiling Cython file: 2021-07-15T12:50:34,075 ------------------------------------------------------------ 2021-07-15T12:50:34,075 ... 2021-07-15T12:50:34,075 self.d2q_angle_diffs[n], grad, curv) 2021-07-15T12:50:34,075 if info < 0: 2021-07-15T12:50:34,075 return info 2021-07-15T12:50:34,076 self.calc_required = False 2021-07-15T12:50:34,076 self.nint = -1 2021-07-15T12:50:34,076 ^ 2021-07-15T12:50:34,076 ------------------------------------------------------------ 2021-07-15T12:50:34,076 sella/internal/int_classes.pyx:377:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,076 Error compiling Cython file: 2021-07-15T12:50:34,076 ------------------------------------------------------------ 2021-07-15T12:50:34,077 ... 2021-07-15T12:50:34,077 self.calc_required = False 2021-07-15T12:50:34,077 self.nint = -1 2021-07-15T12:50:34,077 return 0 2021-07-15T12:50:34,077 cdef int _U_update(CartToInternal self, 2021-07-15T12:50:34,077 ^ 2021-07-15T12:50:34,077 ------------------------------------------------------------ 2021-07-15T12:50:34,078 sella/internal/int_classes.pyx:380:9: Function declared nogil has Python locals or temporaries 2021-07-15T12:50:34,078 Error compiling Cython file: 2021-07-15T12:50:34,078 ------------------------------------------------------------ 2021-07-15T12:50:34,078 ... 2021-07-15T12:50:34,078 bint force=False) nogil except -1: 2021-07-15T12:50:34,078 cdef int err = self._update(pos, dummypos, True, False, force) 2021-07-15T12:50:34,079 if err != 0: 2021-07-15T12:50:34,079 return err 2021-07-15T12:50:34,079 if self.nint > 0: 2021-07-15T12:50:34,079 ^ 2021-07-15T12:50:34,079 ------------------------------------------------------------ 2021-07-15T12:50:34,079 sella/internal/int_classes.pyx:388:21: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,080 Error compiling Cython file: 2021-07-15T12:50:34,080 ------------------------------------------------------------ 2021-07-15T12:50:34,080 ... 2021-07-15T12:50:34,080 bint force=False) nogil except -1: 2021-07-15T12:50:34,080 cdef int err = self._update(pos, dummypos, True, False, force) 2021-07-15T12:50:34,080 if err != 0: 2021-07-15T12:50:34,080 return err 2021-07-15T12:50:34,080 if self.nint > 0: 2021-07-15T12:50:34,081 ^ 2021-07-15T12:50:34,081 ------------------------------------------------------------ 2021-07-15T12:50:34,081 sella/internal/int_classes.pyx:388:21: Operation not allowed without gil 2021-07-15T12:50:34,081 Error compiling Cython file: 2021-07-15T12:50:34,081 ------------------------------------------------------------ 2021-07-15T12:50:34,081 ... 2021-07-15T12:50:34,082 bint force=False) nogil except -1: 2021-07-15T12:50:34,082 cdef int err = self._update(pos, dummypos, True, False, force) 2021-07-15T12:50:34,082 if err != 0: 2021-07-15T12:50:34,082 return err 2021-07-15T12:50:34,082 if self.nint > 0: 2021-07-15T12:50:34,082 ^ 2021-07-15T12:50:34,082 ------------------------------------------------------------ 2021-07-15T12:50:34,083 sella/internal/int_classes.pyx:388:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,083 Error compiling Cython file: 2021-07-15T12:50:34,083 ------------------------------------------------------------ 2021-07-15T12:50:34,083 ... 2021-07-15T12:50:34,083 return err 2021-07-15T12:50:34,083 if self.nint > 0: 2021-07-15T12:50:34,084 return 0 2021-07-15T12:50:34,084 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,084 ^ 2021-07-15T12:50:34,084 ------------------------------------------------------------ 2021-07-15T12:50:34,084 sella/internal/int_classes.pyx:391:43: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,084 Error compiling Cython file: 2021-07-15T12:50:34,085 ------------------------------------------------------------ 2021-07-15T12:50:34,085 ... 2021-07-15T12:50:34,085 return err 2021-07-15T12:50:34,085 if self.nint > 0: 2021-07-15T12:50:34,085 return 0 2021-07-15T12:50:34,085 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,086 ^ 2021-07-15T12:50:34,086 ------------------------------------------------------------ 2021-07-15T12:50:34,086 sella/internal/int_classes.pyx:391:43: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,086 Error compiling Cython file: 2021-07-15T12:50:34,086 ------------------------------------------------------------ 2021-07-15T12:50:34,086 ... 2021-07-15T12:50:34,086 return err 2021-07-15T12:50:34,087 if self.nint > 0: 2021-07-15T12:50:34,087 return 0 2021-07-15T12:50:34,087 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,087 ^ 2021-07-15T12:50:34,087 ------------------------------------------------------------ 2021-07-15T12:50:34,087 sella/internal/int_classes.pyx:391:39: Indexing Python object not allowed without gil 2021-07-15T12:50:34,088 Error compiling Cython file: 2021-07-15T12:50:34,088 ------------------------------------------------------------ 2021-07-15T12:50:34,088 ... 2021-07-15T12:50:34,088 return err 2021-07-15T12:50:34,088 if self.nint > 0: 2021-07-15T12:50:34,088 return 0 2021-07-15T12:50:34,089 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,089 ^ 2021-07-15T12:50:34,089 ------------------------------------------------------------ 2021-07-15T12:50:34,089 sella/internal/int_classes.pyx:391:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,089 Error compiling Cython file: 2021-07-15T12:50:34,089 ------------------------------------------------------------ 2021-07-15T12:50:34,090 ... 2021-07-15T12:50:34,090 return err 2021-07-15T12:50:34,090 if self.nint > 0: 2021-07-15T12:50:34,090 return 0 2021-07-15T12:50:34,090 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,090 ^ 2021-07-15T12:50:34,091 ------------------------------------------------------------ 2021-07-15T12:50:34,091 sella/internal/int_classes.pyx:391:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,091 Error compiling Cython file: 2021-07-15T12:50:34,091 ------------------------------------------------------------ 2021-07-15T12:50:34,091 ... 2021-07-15T12:50:34,091 if self.nint > 0: 2021-07-15T12:50:34,092 return 0 2021-07-15T12:50:34,092 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,092 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,092 ^ 2021-07-15T12:50:34,092 ------------------------------------------------------------ 2021-07-15T12:50:34,093 sella/internal/int_classes.pyx:392:44: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,093 Error compiling Cython file: 2021-07-15T12:50:34,093 ------------------------------------------------------------ 2021-07-15T12:50:34,093 ... 2021-07-15T12:50:34,094 if self.nint > 0: 2021-07-15T12:50:34,094 return 0 2021-07-15T12:50:34,094 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,094 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,094 ^ 2021-07-15T12:50:34,094 ------------------------------------------------------------ 2021-07-15T12:50:34,095 sella/internal/int_classes.pyx:392:44: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,095 Error compiling Cython file: 2021-07-15T12:50:34,095 ------------------------------------------------------------ 2021-07-15T12:50:34,095 ... 2021-07-15T12:50:34,095 if self.nint > 0: 2021-07-15T12:50:34,095 return 0 2021-07-15T12:50:34,096 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,096 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,096 ^ 2021-07-15T12:50:34,096 ------------------------------------------------------------ 2021-07-15T12:50:34,096 sella/internal/int_classes.pyx:392:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,097 Error compiling Cython file: 2021-07-15T12:50:34,097 ------------------------------------------------------------ 2021-07-15T12:50:34,097 ... 2021-07-15T12:50:34,097 if self.nint > 0: 2021-07-15T12:50:34,097 return 0 2021-07-15T12:50:34,097 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,097 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,098 ^ 2021-07-15T12:50:34,098 ------------------------------------------------------------ 2021-07-15T12:50:34,098 sella/internal/int_classes.pyx:392:32: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,098 Error compiling Cython file: 2021-07-15T12:50:34,098 ------------------------------------------------------------ 2021-07-15T12:50:34,098 ... 2021-07-15T12:50:34,099 if self.nint > 0: 2021-07-15T12:50:34,099 return 0 2021-07-15T12:50:34,099 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,099 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,099 ^ 2021-07-15T12:50:34,099 ------------------------------------------------------------ 2021-07-15T12:50:34,100 sella/internal/int_classes.pyx:392:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,100 Error compiling Cython file: 2021-07-15T12:50:34,100 ------------------------------------------------------------ 2021-07-15T12:50:34,100 ... 2021-07-15T12:50:34,100 if self.nint > 0: 2021-07-15T12:50:34,100 return 0 2021-07-15T12:50:34,101 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,101 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,101 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,101 ^ 2021-07-15T12:50:34,101 ------------------------------------------------------------ 2021-07-15T12:50:34,101 sella/internal/int_classes.pyx:393:25: Indexing Python object not allowed without gil 2021-07-15T12:50:34,102 Error compiling Cython file: 2021-07-15T12:50:34,102 ------------------------------------------------------------ 2021-07-15T12:50:34,102 ... 2021-07-15T12:50:34,102 if self.nint > 0: 2021-07-15T12:50:34,102 return 0 2021-07-15T12:50:34,102 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,102 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,102 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,103 ^ 2021-07-15T12:50:34,103 ------------------------------------------------------------ 2021-07-15T12:50:34,103 sella/internal/int_classes.pyx:393:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,103 Error compiling Cython file: 2021-07-15T12:50:34,103 ------------------------------------------------------------ 2021-07-15T12:50:34,103 ... 2021-07-15T12:50:34,104 if self.nint > 0: 2021-07-15T12:50:34,104 return 0 2021-07-15T12:50:34,104 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,104 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,104 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,104 ^ 2021-07-15T12:50:34,104 ------------------------------------------------------------ 2021-07-15T12:50:34,105 sella/internal/int_classes.pyx:393:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,105 Error compiling Cython file: 2021-07-15T12:50:34,105 ------------------------------------------------------------ 2021-07-15T12:50:34,105 ... 2021-07-15T12:50:34,105 if self.nint > 0: 2021-07-15T12:50:34,105 return 0 2021-07-15T12:50:34,106 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,106 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,106 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,106 ^ 2021-07-15T12:50:34,106 ------------------------------------------------------------ 2021-07-15T12:50:34,106 sella/internal/int_classes.pyx:393:58: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,106 Error compiling Cython file: 2021-07-15T12:50:34,107 ------------------------------------------------------------ 2021-07-15T12:50:34,107 ... 2021-07-15T12:50:34,107 if self.nint > 0: 2021-07-15T12:50:34,107 return 0 2021-07-15T12:50:34,107 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,107 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,107 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,108 ^ 2021-07-15T12:50:34,108 ------------------------------------------------------------ 2021-07-15T12:50:34,108 sella/internal/int_classes.pyx:393:58: Operation not allowed without gil 2021-07-15T12:50:34,108 Error compiling Cython file: 2021-07-15T12:50:34,108 ------------------------------------------------------------ 2021-07-15T12:50:34,108 ... 2021-07-15T12:50:34,108 if self.nint > 0: 2021-07-15T12:50:34,109 return 0 2021-07-15T12:50:34,109 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,109 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,109 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,109 ^ 2021-07-15T12:50:34,109 ------------------------------------------------------------ 2021-07-15T12:50:34,109 sella/internal/int_classes.pyx:393:46: Operation not allowed without gil 2021-07-15T12:50:34,110 Error compiling Cython file: 2021-07-15T12:50:34,110 ------------------------------------------------------------ 2021-07-15T12:50:34,110 ... 2021-07-15T12:50:34,110 if self.nint > 0: 2021-07-15T12:50:34,110 return 0 2021-07-15T12:50:34,110 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,111 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,111 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,111 ^ 2021-07-15T12:50:34,111 ------------------------------------------------------------ 2021-07-15T12:50:34,111 sella/internal/int_classes.pyx:393:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,111 Error compiling Cython file: 2021-07-15T12:50:34,112 ------------------------------------------------------------ 2021-07-15T12:50:34,112 ... 2021-07-15T12:50:34,112 if self.nint > 0: 2021-07-15T12:50:34,112 return 0 2021-07-15T12:50:34,112 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,112 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,112 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,112 ^ 2021-07-15T12:50:34,113 ------------------------------------------------------------ 2021-07-15T12:50:34,113 sella/internal/int_classes.pyx:393:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,113 Error compiling Cython file: 2021-07-15T12:50:34,113 ------------------------------------------------------------ 2021-07-15T12:50:34,113 ... 2021-07-15T12:50:34,113 if self.nint > 0: 2021-07-15T12:50:34,113 return 0 2021-07-15T12:50:34,114 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,114 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,114 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,114 ^ 2021-07-15T12:50:34,114 ------------------------------------------------------------ 2021-07-15T12:50:34,114 sella/internal/int_classes.pyx:393:60: Converting to Python object not allowed without gil 2021-07-15T12:50:34,115 Error compiling Cython file: 2021-07-15T12:50:34,115 ------------------------------------------------------------ 2021-07-15T12:50:34,115 ... 2021-07-15T12:50:34,115 return 0 2021-07-15T12:50:34,115 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,115 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,116 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,116 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,116 ^ 2021-07-15T12:50:34,116 ------------------------------------------------------------ 2021-07-15T12:50:34,116 sella/internal/int_classes.pyx:394:25: Indexing Python object not allowed without gil 2021-07-15T12:50:34,116 Error compiling Cython file: 2021-07-15T12:50:34,116 ------------------------------------------------------------ 2021-07-15T12:50:34,117 ... 2021-07-15T12:50:34,117 return 0 2021-07-15T12:50:34,117 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,117 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,117 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,117 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,117 ^ 2021-07-15T12:50:34,118 ------------------------------------------------------------ 2021-07-15T12:50:34,118 sella/internal/int_classes.pyx:394:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,118 Error compiling Cython file: 2021-07-15T12:50:34,118 ------------------------------------------------------------ 2021-07-15T12:50:34,118 ... 2021-07-15T12:50:34,118 return 0 2021-07-15T12:50:34,119 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,119 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,119 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,119 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,119 ^ 2021-07-15T12:50:34,119 ------------------------------------------------------------ 2021-07-15T12:50:34,119 sella/internal/int_classes.pyx:394:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,120 Error compiling Cython file: 2021-07-15T12:50:34,120 ------------------------------------------------------------ 2021-07-15T12:50:34,120 ... 2021-07-15T12:50:34,120 return 0 2021-07-15T12:50:34,121 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,121 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,121 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,121 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,121 ^ 2021-07-15T12:50:34,121 ------------------------------------------------------------ 2021-07-15T12:50:34,121 sella/internal/int_classes.pyx:394:58: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,122 Error compiling Cython file: 2021-07-15T12:50:34,122 ------------------------------------------------------------ 2021-07-15T12:50:34,122 ... 2021-07-15T12:50:34,122 return 0 2021-07-15T12:50:34,122 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,122 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,123 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,123 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,123 ^ 2021-07-15T12:50:34,123 ------------------------------------------------------------ 2021-07-15T12:50:34,123 sella/internal/int_classes.pyx:394:58: Operation not allowed without gil 2021-07-15T12:50:34,123 Error compiling Cython file: 2021-07-15T12:50:34,123 ------------------------------------------------------------ 2021-07-15T12:50:34,124 ... 2021-07-15T12:50:34,124 return 0 2021-07-15T12:50:34,124 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,124 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,124 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,124 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,124 ^ 2021-07-15T12:50:34,125 ------------------------------------------------------------ 2021-07-15T12:50:34,125 sella/internal/int_classes.pyx:394:46: Operation not allowed without gil 2021-07-15T12:50:34,125 Error compiling Cython file: 2021-07-15T12:50:34,125 ------------------------------------------------------------ 2021-07-15T12:50:34,125 ... 2021-07-15T12:50:34,125 return 0 2021-07-15T12:50:34,126 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,126 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,126 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,126 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,126 ^ 2021-07-15T12:50:34,126 ------------------------------------------------------------ 2021-07-15T12:50:34,126 sella/internal/int_classes.pyx:394:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,127 Error compiling Cython file: 2021-07-15T12:50:34,127 ------------------------------------------------------------ 2021-07-15T12:50:34,127 ... 2021-07-15T12:50:34,127 return 0 2021-07-15T12:50:34,127 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,127 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,127 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,128 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,128 ^ 2021-07-15T12:50:34,128 ------------------------------------------------------------ 2021-07-15T12:50:34,128 sella/internal/int_classes.pyx:394:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,128 Error compiling Cython file: 2021-07-15T12:50:34,128 ------------------------------------------------------------ 2021-07-15T12:50:34,129 ... 2021-07-15T12:50:34,129 return 0 2021-07-15T12:50:34,129 cdef int sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,129 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,129 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,129 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,129 ^ 2021-07-15T12:50:34,129 ------------------------------------------------------------ 2021-07-15T12:50:34,130 sella/internal/int_classes.pyx:394:60: Converting to Python object not allowed without gil 2021-07-15T12:50:34,130 Error compiling Cython file: 2021-07-15T12:50:34,130 ------------------------------------------------------------ 2021-07-15T12:50:34,130 ... 2021-07-15T12:50:34,130 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,130 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,130 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,131 cdef int i 2021-07-15T12:50:34,131 if self.nq == 0: 2021-07-15T12:50:34,131 ^ 2021-07-15T12:50:34,131 ------------------------------------------------------------ 2021-07-15T12:50:34,131 sella/internal/int_classes.pyx:397:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,132 Error compiling Cython file: 2021-07-15T12:50:34,132 ------------------------------------------------------------ 2021-07-15T12:50:34,132 ... 2021-07-15T12:50:34,132 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,132 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,132 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,132 cdef int i 2021-07-15T12:50:34,132 if self.nq == 0: 2021-07-15T12:50:34,133 ^ 2021-07-15T12:50:34,133 ------------------------------------------------------------ 2021-07-15T12:50:34,133 sella/internal/int_classes.pyx:397:19: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,133 Error compiling Cython file: 2021-07-15T12:50:34,133 ------------------------------------------------------------ 2021-07-15T12:50:34,133 ... 2021-07-15T12:50:34,133 cdef int sdu = self.Uint.strides[1] >> 3 2021-07-15T12:50:34,134 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,134 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,134 cdef int i 2021-07-15T12:50:34,134 if self.nq == 0: 2021-07-15T12:50:34,134 ^ 2021-07-15T12:50:34,134 ------------------------------------------------------------ 2021-07-15T12:50:34,135 sella/internal/int_classes.pyx:397:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,135 Error compiling Cython file: 2021-07-15T12:50:34,135 ------------------------------------------------------------ 2021-07-15T12:50:34,135 ... 2021-07-15T12:50:34,135 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,135 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,136 cdef int i 2021-07-15T12:50:34,136 if self.nq == 0: 2021-07-15T12:50:34,136 for i in range(self.nx): 2021-07-15T12:50:34,136 ^ 2021-07-15T12:50:34,136 ------------------------------------------------------------ 2021-07-15T12:50:34,136 sella/internal/int_classes.pyx:398:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,136 Error compiling Cython file: 2021-07-15T12:50:34,137 ------------------------------------------------------------ 2021-07-15T12:50:34,137 ... 2021-07-15T12:50:34,137 memset(&self.Uint[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,137 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,137 cdef int i 2021-07-15T12:50:34,137 if self.nq == 0: 2021-07-15T12:50:34,137 for i in range(self.nx): 2021-07-15T12:50:34,138 ^ 2021-07-15T12:50:34,138 ------------------------------------------------------------ 2021-07-15T12:50:34,138 sella/internal/int_classes.pyx:398:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,138 Error compiling Cython file: 2021-07-15T12:50:34,138 ------------------------------------------------------------ 2021-07-15T12:50:34,138 ... 2021-07-15T12:50:34,138 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,139 cdef int i 2021-07-15T12:50:34,139 if self.nq == 0: 2021-07-15T12:50:34,139 for i in range(self.nx): 2021-07-15T12:50:34,139 self.Uext[i, i] = 1. 2021-07-15T12:50:34,139 ^ 2021-07-15T12:50:34,139 ------------------------------------------------------------ 2021-07-15T12:50:34,140 sella/internal/int_classes.pyx:399:25: Indexing Python object not allowed without gil 2021-07-15T12:50:34,140 Error compiling Cython file: 2021-07-15T12:50:34,140 ------------------------------------------------------------ 2021-07-15T12:50:34,140 ... 2021-07-15T12:50:34,140 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,140 cdef int i 2021-07-15T12:50:34,140 if self.nq == 0: 2021-07-15T12:50:34,141 for i in range(self.nx): 2021-07-15T12:50:34,141 self.Uext[i, i] = 1. 2021-07-15T12:50:34,141 ^ 2021-07-15T12:50:34,141 ------------------------------------------------------------ 2021-07-15T12:50:34,141 sella/internal/int_classes.pyx:399:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,141 Error compiling Cython file: 2021-07-15T12:50:34,141 ------------------------------------------------------------ 2021-07-15T12:50:34,142 ... 2021-07-15T12:50:34,142 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,142 cdef int i 2021-07-15T12:50:34,142 if self.nq == 0: 2021-07-15T12:50:34,142 for i in range(self.nx): 2021-07-15T12:50:34,142 self.Uext[i, i] = 1. 2021-07-15T12:50:34,142 ^ 2021-07-15T12:50:34,143 ------------------------------------------------------------ 2021-07-15T12:50:34,143 sella/internal/int_classes.pyx:399:25: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,143 Error compiling Cython file: 2021-07-15T12:50:34,143 ------------------------------------------------------------ 2021-07-15T12:50:34,143 ... 2021-07-15T12:50:34,143 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,144 cdef int i 2021-07-15T12:50:34,144 if self.nq == 0: 2021-07-15T12:50:34,144 for i in range(self.nx): 2021-07-15T12:50:34,144 self.Uext[i, i] = 1. 2021-07-15T12:50:34,144 ^ 2021-07-15T12:50:34,144 ------------------------------------------------------------ 2021-07-15T12:50:34,144 sella/internal/int_classes.pyx:399:26: Converting to Python object not allowed without gil 2021-07-15T12:50:34,145 Error compiling Cython file: 2021-07-15T12:50:34,145 ------------------------------------------------------------ 2021-07-15T12:50:34,145 ... 2021-07-15T12:50:34,145 memset(&self.Uext[0, 0], 0, self.nmax * self.nmax * sizeof(double)) 2021-07-15T12:50:34,145 cdef int i 2021-07-15T12:50:34,145 if self.nq == 0: 2021-07-15T12:50:34,146 for i in range(self.nx): 2021-07-15T12:50:34,146 self.Uext[i, i] = 1. 2021-07-15T12:50:34,146 ^ 2021-07-15T12:50:34,146 ------------------------------------------------------------ 2021-07-15T12:50:34,146 sella/internal/int_classes.pyx:399:29: Converting to Python object not allowed without gil 2021-07-15T12:50:34,147 Error compiling Cython file: 2021-07-15T12:50:34,147 ------------------------------------------------------------ 2021-07-15T12:50:34,147 ... 2021-07-15T12:50:34,147 cdef int i 2021-07-15T12:50:34,147 if self.nq == 0: 2021-07-15T12:50:34,147 for i in range(self.nx): 2021-07-15T12:50:34,148 self.Uext[i, i] = 1. 2021-07-15T12:50:34,148 self.nint = 0 2021-07-15T12:50:34,148 ^ 2021-07-15T12:50:34,148 ------------------------------------------------------------ 2021-07-15T12:50:34,148 sella/internal/int_classes.pyx:400:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,149 Error compiling Cython file: 2021-07-15T12:50:34,149 ------------------------------------------------------------ 2021-07-15T12:50:34,149 ... 2021-07-15T12:50:34,149 cdef int i 2021-07-15T12:50:34,149 if self.nq == 0: 2021-07-15T12:50:34,149 for i in range(self.nx): 2021-07-15T12:50:34,149 self.Uext[i, i] = 1. 2021-07-15T12:50:34,150 self.nint = 0 2021-07-15T12:50:34,150 self.next = self.nx 2021-07-15T12:50:34,150 ^ 2021-07-15T12:50:34,150 ------------------------------------------------------------ 2021-07-15T12:50:34,150 sella/internal/int_classes.pyx:401:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,150 Error compiling Cython file: 2021-07-15T12:50:34,151 ------------------------------------------------------------ 2021-07-15T12:50:34,151 ... 2021-07-15T12:50:34,151 cdef int i 2021-07-15T12:50:34,151 if self.nq == 0: 2021-07-15T12:50:34,151 for i in range(self.nx): 2021-07-15T12:50:34,151 self.Uext[i, i] = 1. 2021-07-15T12:50:34,151 self.nint = 0 2021-07-15T12:50:34,151 self.next = self.nx 2021-07-15T12:50:34,152 ^ 2021-07-15T12:50:34,152 ------------------------------------------------------------ 2021-07-15T12:50:34,152 sella/internal/int_classes.pyx:401:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,152 Error compiling Cython file: 2021-07-15T12:50:34,152 ------------------------------------------------------------ 2021-07-15T12:50:34,152 ... 2021-07-15T12:50:34,152 self.Uext[i, i] = 1. 2021-07-15T12:50:34,153 self.nint = 0 2021-07-15T12:50:34,153 self.next = self.nx 2021-07-15T12:50:34,153 return 0 2021-07-15T12:50:34,153 for n in range(self.nq): 2021-07-15T12:50:34,153 ^ 2021-07-15T12:50:34,153 ------------------------------------------------------------ 2021-07-15T12:50:34,154 sella/internal/int_classes.pyx:404:17: Iterating over Python object not allowed without gil 2021-07-15T12:50:34,154 Error compiling Cython file: 2021-07-15T12:50:34,154 ------------------------------------------------------------ 2021-07-15T12:50:34,154 ... 2021-07-15T12:50:34,154 self.Uext[i, i] = 1. 2021-07-15T12:50:34,154 self.nint = 0 2021-07-15T12:50:34,154 self.next = self.nx 2021-07-15T12:50:34,155 return 0 2021-07-15T12:50:34,155 for n in range(self.nq): 2021-07-15T12:50:34,155 ^ 2021-07-15T12:50:34,155 ------------------------------------------------------------ 2021-07-15T12:50:34,155 sella/internal/int_classes.pyx:404:22: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,155 Error compiling Cython file: 2021-07-15T12:50:34,156 ------------------------------------------------------------ 2021-07-15T12:50:34,156 ... 2021-07-15T12:50:34,156 self.Uext[i, i] = 1. 2021-07-15T12:50:34,156 self.nint = 0 2021-07-15T12:50:34,156 self.next = self.nx 2021-07-15T12:50:34,156 return 0 2021-07-15T12:50:34,156 for n in range(self.nq): 2021-07-15T12:50:34,156 ^ 2021-07-15T12:50:34,157 ------------------------------------------------------------ 2021-07-15T12:50:34,157 sella/internal/int_classes.pyx:404:22: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,157 Error compiling Cython file: 2021-07-15T12:50:34,157 ------------------------------------------------------------ 2021-07-15T12:50:34,157 ... 2021-07-15T12:50:34,157 self.Uext[i, i] = 1. 2021-07-15T12:50:34,158 self.nint = 0 2021-07-15T12:50:34,158 self.next = self.nx 2021-07-15T12:50:34,158 return 0 2021-07-15T12:50:34,158 for n in range(self.nq): 2021-07-15T12:50:34,158 ^ 2021-07-15T12:50:34,158 ------------------------------------------------------------ 2021-07-15T12:50:34,158 sella/internal/int_classes.pyx:404:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,159 Error compiling Cython file: 2021-07-15T12:50:34,159 ------------------------------------------------------------ 2021-07-15T12:50:34,159 ... 2021-07-15T12:50:34,159 self.nint = 0 2021-07-15T12:50:34,159 self.next = self.nx 2021-07-15T12:50:34,159 return 0 2021-07-15T12:50:34,159 for n in range(self.nq): 2021-07-15T12:50:34,160 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,160 ^ 2021-07-15T12:50:34,160 ------------------------------------------------------------ 2021-07-15T12:50:34,160 sella/internal/int_classes.pyx:405:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,160 Error compiling Cython file: 2021-07-15T12:50:34,160 ------------------------------------------------------------ 2021-07-15T12:50:34,161 ... 2021-07-15T12:50:34,161 self.nint = 0 2021-07-15T12:50:34,161 self.next = self.nx 2021-07-15T12:50:34,161 return 0 2021-07-15T12:50:34,161 for n in range(self.nq): 2021-07-15T12:50:34,161 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,161 ^ 2021-07-15T12:50:34,161 ------------------------------------------------------------ 2021-07-15T12:50:34,162 sella/internal/int_classes.pyx:405:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,162 Error compiling Cython file: 2021-07-15T12:50:34,162 ------------------------------------------------------------ 2021-07-15T12:50:34,162 ... 2021-07-15T12:50:34,162 self.nint = 0 2021-07-15T12:50:34,162 self.next = self.nx 2021-07-15T12:50:34,162 return 0 2021-07-15T12:50:34,163 for n in range(self.nq): 2021-07-15T12:50:34,163 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,163 ^ 2021-07-15T12:50:34,163 ------------------------------------------------------------ 2021-07-15T12:50:34,163 sella/internal/int_classes.pyx:405:33: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,164 Error compiling Cython file: 2021-07-15T12:50:34,164 ------------------------------------------------------------ 2021-07-15T12:50:34,164 ... 2021-07-15T12:50:34,164 self.nint = 0 2021-07-15T12:50:34,164 self.next = self.nx 2021-07-15T12:50:34,164 return 0 2021-07-15T12:50:34,164 for n in range(self.nq): 2021-07-15T12:50:34,164 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,165 ^ 2021-07-15T12:50:34,165 ------------------------------------------------------------ 2021-07-15T12:50:34,165 sella/internal/int_classes.pyx:405:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,165 Error compiling Cython file: 2021-07-15T12:50:34,165 ------------------------------------------------------------ 2021-07-15T12:50:34,165 ... 2021-07-15T12:50:34,166 self.nint = 0 2021-07-15T12:50:34,166 self.next = self.nx 2021-07-15T12:50:34,166 return 0 2021-07-15T12:50:34,166 for n in range(self.nq): 2021-07-15T12:50:34,166 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,166 ^ 2021-07-15T12:50:34,166 ------------------------------------------------------------ 2021-07-15T12:50:34,167 sella/internal/int_classes.pyx:405:64: Indexing Python object not allowed without gil 2021-07-15T12:50:34,167 Error compiling Cython file: 2021-07-15T12:50:34,167 ------------------------------------------------------------ 2021-07-15T12:50:34,167 ... 2021-07-15T12:50:34,167 self.nint = 0 2021-07-15T12:50:34,167 self.next = self.nx 2021-07-15T12:50:34,167 return 0 2021-07-15T12:50:34,168 for n in range(self.nq): 2021-07-15T12:50:34,168 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,168 ^ 2021-07-15T12:50:34,168 ------------------------------------------------------------ 2021-07-15T12:50:34,168 sella/internal/int_classes.pyx:405:59: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,168 Error compiling Cython file: 2021-07-15T12:50:34,169 ------------------------------------------------------------ 2021-07-15T12:50:34,169 ... 2021-07-15T12:50:34,169 self.nint = 0 2021-07-15T12:50:34,169 self.next = self.nx 2021-07-15T12:50:34,169 return 0 2021-07-15T12:50:34,169 for n in range(self.nq): 2021-07-15T12:50:34,169 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,169 ^ 2021-07-15T12:50:34,170 ------------------------------------------------------------ 2021-07-15T12:50:34,170 sella/internal/int_classes.pyx:405:64: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,170 Error compiling Cython file: 2021-07-15T12:50:34,170 ------------------------------------------------------------ 2021-07-15T12:50:34,170 ... 2021-07-15T12:50:34,170 return 0 2021-07-15T12:50:34,171 for n in range(self.nq): 2021-07-15T12:50:34,171 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,171 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,171 ^ 2021-07-15T12:50:34,171 ------------------------------------------------------------ 2021-07-15T12:50:34,171 sella/internal/int_classes.pyx:407:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,172 Error compiling Cython file: 2021-07-15T12:50:34,172 ------------------------------------------------------------ 2021-07-15T12:50:34,172 ... 2021-07-15T12:50:34,172 return 0 2021-07-15T12:50:34,172 for n in range(self.nq): 2021-07-15T12:50:34,172 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,173 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,173 ^ 2021-07-15T12:50:34,173 ------------------------------------------------------------ 2021-07-15T12:50:34,173 sella/internal/int_classes.pyx:407:24: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,173 Error compiling Cython file: 2021-07-15T12:50:34,173 ------------------------------------------------------------ 2021-07-15T12:50:34,173 ... 2021-07-15T12:50:34,174 return 0 2021-07-15T12:50:34,174 for n in range(self.nq): 2021-07-15T12:50:34,174 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,174 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,174 ^ 2021-07-15T12:50:34,174 ------------------------------------------------------------ 2021-07-15T12:50:34,175 sella/internal/int_classes.pyx:407:20: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,175 Error compiling Cython file: 2021-07-15T12:50:34,175 ------------------------------------------------------------ 2021-07-15T12:50:34,175 ... 2021-07-15T12:50:34,175 return 0 2021-07-15T12:50:34,175 for n in range(self.nq): 2021-07-15T12:50:34,176 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,176 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,176 ^ 2021-07-15T12:50:34,176 ------------------------------------------------------------ 2021-07-15T12:50:34,177 sella/internal/int_classes.pyx:407:24: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,177 Error compiling Cython file: 2021-07-15T12:50:34,177 ------------------------------------------------------------ 2021-07-15T12:50:34,177 ... 2021-07-15T12:50:34,177 return 0 2021-07-15T12:50:34,178 for n in range(self.nq): 2021-07-15T12:50:34,178 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,178 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,178 ^ 2021-07-15T12:50:34,178 ------------------------------------------------------------ 2021-07-15T12:50:34,178 sella/internal/int_classes.pyx:407:29: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,179 Error compiling Cython file: 2021-07-15T12:50:34,179 ------------------------------------------------------------ 2021-07-15T12:50:34,179 ... 2021-07-15T12:50:34,179 return 0 2021-07-15T12:50:34,179 for n in range(self.nq): 2021-07-15T12:50:34,179 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,180 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,180 ^ 2021-07-15T12:50:34,180 ------------------------------------------------------------ 2021-07-15T12:50:34,180 sella/internal/int_classes.pyx:407:38: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,180 Error compiling Cython file: 2021-07-15T12:50:34,180 ------------------------------------------------------------ 2021-07-15T12:50:34,181 ... 2021-07-15T12:50:34,181 return 0 2021-07-15T12:50:34,181 for n in range(self.nq): 2021-07-15T12:50:34,181 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,181 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,181 ^ 2021-07-15T12:50:34,181 ------------------------------------------------------------ 2021-07-15T12:50:34,182 sella/internal/int_classes.pyx:407:47: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,182 Error compiling Cython file: 2021-07-15T12:50:34,182 ------------------------------------------------------------ 2021-07-15T12:50:34,182 ... 2021-07-15T12:50:34,182 return 0 2021-07-15T12:50:34,183 for n in range(self.nq): 2021-07-15T12:50:34,183 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,183 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,183 ^ 2021-07-15T12:50:34,183 ------------------------------------------------------------ 2021-07-15T12:50:34,183 sella/internal/int_classes.pyx:407:58: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,184 Error compiling Cython file: 2021-07-15T12:50:34,184 ------------------------------------------------------------ 2021-07-15T12:50:34,184 ... 2021-07-15T12:50:34,184 return 0 2021-07-15T12:50:34,184 for n in range(self.nq): 2021-07-15T12:50:34,184 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,185 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,185 ^ 2021-07-15T12:50:34,185 ------------------------------------------------------------ 2021-07-15T12:50:34,185 sella/internal/int_classes.pyx:407:69: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,185 Error compiling Cython file: 2021-07-15T12:50:34,185 ------------------------------------------------------------ 2021-07-15T12:50:34,185 ... 2021-07-15T12:50:34,186 for n in range(self.nq): 2021-07-15T12:50:34,186 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,186 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,186 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,186 ^ 2021-07-15T12:50:34,186 ------------------------------------------------------------ 2021-07-15T12:50:34,187 sella/internal/int_classes.pyx:408:29: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,187 Error compiling Cython file: 2021-07-15T12:50:34,187 ------------------------------------------------------------ 2021-07-15T12:50:34,187 ... 2021-07-15T12:50:34,187 for n in range(self.nq): 2021-07-15T12:50:34,187 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,188 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,188 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,188 ^ 2021-07-15T12:50:34,188 ------------------------------------------------------------ 2021-07-15T12:50:34,188 sella/internal/int_classes.pyx:408:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,189 Error compiling Cython file: 2021-07-15T12:50:34,189 ------------------------------------------------------------ 2021-07-15T12:50:34,189 ... 2021-07-15T12:50:34,189 for n in range(self.nq): 2021-07-15T12:50:34,189 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,189 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,189 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,190 ^ 2021-07-15T12:50:34,190 ------------------------------------------------------------ 2021-07-15T12:50:34,190 sella/internal/int_classes.pyx:408:51: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,190 Error compiling Cython file: 2021-07-15T12:50:34,190 ------------------------------------------------------------ 2021-07-15T12:50:34,190 ... 2021-07-15T12:50:34,190 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,191 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,191 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,191 if self.nint < 0: 2021-07-15T12:50:34,191 ^ 2021-07-15T12:50:34,191 ------------------------------------------------------------ 2021-07-15T12:50:34,192 sella/internal/int_classes.pyx:410:21: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,192 Error compiling Cython file: 2021-07-15T12:50:34,192 ------------------------------------------------------------ 2021-07-15T12:50:34,192 ... 2021-07-15T12:50:34,192 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,192 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,192 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,193 if self.nint < 0: 2021-07-15T12:50:34,193 ^ 2021-07-15T12:50:34,193 ------------------------------------------------------------ 2021-07-15T12:50:34,193 sella/internal/int_classes.pyx:410:21: Operation not allowed without gil 2021-07-15T12:50:34,193 Error compiling Cython file: 2021-07-15T12:50:34,193 ------------------------------------------------------------ 2021-07-15T12:50:34,194 ... 2021-07-15T12:50:34,194 dcopy(&self.nx, &self.dq[n, 0, 0], &sddq, &self.Uint[n, 0], &sdu) 2021-07-15T12:50:34,194 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,194 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,194 if self.nint < 0: 2021-07-15T12:50:34,194 ^ 2021-07-15T12:50:34,195 ------------------------------------------------------------ 2021-07-15T12:50:34,195 sella/internal/int_classes.pyx:410:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,195 Error compiling Cython file: 2021-07-15T12:50:34,195 ------------------------------------------------------------ 2021-07-15T12:50:34,195 ... 2021-07-15T12:50:34,195 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,196 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,196 if self.nint < 0: 2021-07-15T12:50:34,196 return self.nint 2021-07-15T12:50:34,196 ^ 2021-07-15T12:50:34,196 ------------------------------------------------------------ 2021-07-15T12:50:34,196 sella/internal/int_classes.pyx:411:23: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,197 Error compiling Cython file: 2021-07-15T12:50:34,197 ------------------------------------------------------------ 2021-07-15T12:50:34,197 ... 2021-07-15T12:50:34,197 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,197 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,197 if self.nint < 0: 2021-07-15T12:50:34,198 return self.nint 2021-07-15T12:50:34,198 ^ 2021-07-15T12:50:34,198 ------------------------------------------------------------ 2021-07-15T12:50:34,198 sella/internal/int_classes.pyx:411:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,198 Error compiling Cython file: 2021-07-15T12:50:34,198 ------------------------------------------------------------ 2021-07-15T12:50:34,198 ... 2021-07-15T12:50:34,199 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,199 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,199 if self.nint < 0: 2021-07-15T12:50:34,199 return self.nint 2021-07-15T12:50:34,199 self.next = self.nx - self.nint 2021-07-15T12:50:34,199 ^ 2021-07-15T12:50:34,199 ------------------------------------------------------------ 2021-07-15T12:50:34,200 sella/internal/int_classes.pyx:412:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,200 Error compiling Cython file: 2021-07-15T12:50:34,200 ------------------------------------------------------------ 2021-07-15T12:50:34,200 ... 2021-07-15T12:50:34,200 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,200 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,201 if self.nint < 0: 2021-07-15T12:50:34,201 return self.nint 2021-07-15T12:50:34,201 self.next = self.nx - self.nint 2021-07-15T12:50:34,201 ^ 2021-07-15T12:50:34,201 ------------------------------------------------------------ 2021-07-15T12:50:34,201 sella/internal/int_classes.pyx:412:28: Operation not allowed without gil 2021-07-15T12:50:34,201 Error compiling Cython file: 2021-07-15T12:50:34,202 ------------------------------------------------------------ 2021-07-15T12:50:34,202 ... 2021-07-15T12:50:34,202 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,202 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,202 if self.nint < 0: 2021-07-15T12:50:34,202 return self.nint 2021-07-15T12:50:34,202 self.next = self.nx - self.nint 2021-07-15T12:50:34,202 ^ 2021-07-15T12:50:34,203 ------------------------------------------------------------ 2021-07-15T12:50:34,203 sella/internal/int_classes.pyx:412:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,203 Error compiling Cython file: 2021-07-15T12:50:34,203 ------------------------------------------------------------ 2021-07-15T12:50:34,204 ... 2021-07-15T12:50:34,204 self.nint = mppi(self.nq, self.nx, self.Uint, self.Usvd, self.Uext, 2021-07-15T12:50:34,204 self.sing, self.Binv, self.work3) 2021-07-15T12:50:34,204 if self.nint < 0: 2021-07-15T12:50:34,204 return self.nint 2021-07-15T12:50:34,204 self.next = self.nx - self.nint 2021-07-15T12:50:34,205 ^ 2021-07-15T12:50:34,205 ------------------------------------------------------------ 2021-07-15T12:50:34,205 sella/internal/int_classes.pyx:412:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,205 Error compiling Cython file: 2021-07-15T12:50:34,205 ------------------------------------------------------------ 2021-07-15T12:50:34,205 ... 2021-07-15T12:50:34,206 if self.nint < 0: 2021-07-15T12:50:34,206 return self.nint 2021-07-15T12:50:34,206 self.next = self.nx - self.nint 2021-07-15T12:50:34,206 self.calc_required = False 2021-07-15T12:50:34,206 ^ 2021-07-15T12:50:34,206 ------------------------------------------------------------ 2021-07-15T12:50:34,207 sella/internal/int_classes.pyx:414:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,207 Error compiling Cython file: 2021-07-15T12:50:34,207 ------------------------------------------------------------ 2021-07-15T12:50:34,207 ... 2021-07-15T12:50:34,207 self.calc_required = False 2021-07-15T12:50:34,207 return 0 2021-07-15T12:50:34,208 cdef int _angle_sum_diff(CartToInternal self, 2021-07-15T12:50:34,208 ^ 2021-07-15T12:50:34,208 ------------------------------------------------------------ 2021-07-15T12:50:34,208 sella/internal/int_classes.pyx:418:9: Function declared nogil has Python locals or temporaries 2021-07-15T12:50:34,208 Error compiling Cython file: 2021-07-15T12:50:34,209 ------------------------------------------------------------ 2021-07-15T12:50:34,209 ... 2021-07-15T12:50:34,209 bint grad, 2021-07-15T12:50:34,209 bint curv) nogil: 2021-07-15T12:50:34,209 cdef int err 2021-07-15T12:50:34,209 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,209 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,209 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,209 ^ 2021-07-15T12:50:34,210 ------------------------------------------------------------ 2021-07-15T12:50:34,210 sella/internal/int_classes.pyx:429:26: Indexing Python object not allowed without gil 2021-07-15T12:50:34,210 Error compiling Cython file: 2021-07-15T12:50:34,210 ------------------------------------------------------------ 2021-07-15T12:50:34,210 ... 2021-07-15T12:50:34,210 bint grad, 2021-07-15T12:50:34,211 bint curv) nogil: 2021-07-15T12:50:34,211 cdef int err 2021-07-15T12:50:34,211 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,211 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,211 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,211 ^ 2021-07-15T12:50:34,211 ------------------------------------------------------------ 2021-07-15T12:50:34,211 sella/internal/int_classes.pyx:429:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,212 Error compiling Cython file: 2021-07-15T12:50:34,212 ------------------------------------------------------------ 2021-07-15T12:50:34,212 ... 2021-07-15T12:50:34,212 bint grad, 2021-07-15T12:50:34,212 bint curv) nogil: 2021-07-15T12:50:34,212 cdef int err 2021-07-15T12:50:34,212 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,212 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,213 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,213 ^ 2021-07-15T12:50:34,213 ------------------------------------------------------------ 2021-07-15T12:50:34,213 sella/internal/int_classes.pyx:429:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,213 Error compiling Cython file: 2021-07-15T12:50:34,213 ------------------------------------------------------------ 2021-07-15T12:50:34,213 ... 2021-07-15T12:50:34,214 bint curv) nogil: 2021-07-15T12:50:34,214 cdef int err 2021-07-15T12:50:34,214 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,214 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,214 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,214 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,214 ^ 2021-07-15T12:50:34,214 ------------------------------------------------------------ 2021-07-15T12:50:34,215 sella/internal/int_classes.pyx:430:26: Indexing Python object not allowed without gil 2021-07-15T12:50:34,215 Error compiling Cython file: 2021-07-15T12:50:34,215 ------------------------------------------------------------ 2021-07-15T12:50:34,215 ... 2021-07-15T12:50:34,215 bint curv) nogil: 2021-07-15T12:50:34,216 cdef int err 2021-07-15T12:50:34,216 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,216 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,216 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,216 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,216 ^ 2021-07-15T12:50:34,216 ------------------------------------------------------------ 2021-07-15T12:50:34,216 sella/internal/int_classes.pyx:430:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,217 Error compiling Cython file: 2021-07-15T12:50:34,217 ------------------------------------------------------------ 2021-07-15T12:50:34,217 ... 2021-07-15T12:50:34,217 bint curv) nogil: 2021-07-15T12:50:34,217 cdef int err 2021-07-15T12:50:34,217 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,217 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,217 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,218 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,218 ^ 2021-07-15T12:50:34,218 ------------------------------------------------------------ 2021-07-15T12:50:34,218 sella/internal/int_classes.pyx:430:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,218 Error compiling Cython file: 2021-07-15T12:50:34,218 ------------------------------------------------------------ 2021-07-15T12:50:34,219 ... 2021-07-15T12:50:34,219 bint curv) nogil: 2021-07-15T12:50:34,219 cdef int err 2021-07-15T12:50:34,219 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,219 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,219 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,219 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,219 ^ 2021-07-15T12:50:34,219 ------------------------------------------------------------ 2021-07-15T12:50:34,220 sella/internal/int_classes.pyx:430:45: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,220 Error compiling Cython file: 2021-07-15T12:50:34,220 ------------------------------------------------------------ 2021-07-15T12:50:34,220 ... 2021-07-15T12:50:34,220 bint curv) nogil: 2021-07-15T12:50:34,220 cdef int err 2021-07-15T12:50:34,220 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,221 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,221 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,221 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,221 ^ 2021-07-15T12:50:34,221 ------------------------------------------------------------ 2021-07-15T12:50:34,221 sella/internal/int_classes.pyx:430:45: Operation not allowed without gil 2021-07-15T12:50:34,222 Error compiling Cython file: 2021-07-15T12:50:34,222 ------------------------------------------------------------ 2021-07-15T12:50:34,222 ... 2021-07-15T12:50:34,222 bint curv) nogil: 2021-07-15T12:50:34,222 cdef int err 2021-07-15T12:50:34,222 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,222 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,222 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,222 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,223 ^ 2021-07-15T12:50:34,223 ------------------------------------------------------------ 2021-07-15T12:50:34,223 sella/internal/int_classes.pyx:430:41: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,223 Error compiling Cython file: 2021-07-15T12:50:34,223 ------------------------------------------------------------ 2021-07-15T12:50:34,223 ... 2021-07-15T12:50:34,224 bint curv) nogil: 2021-07-15T12:50:34,224 cdef int err 2021-07-15T12:50:34,224 cdef size_t i, j, k, l, m 2021-07-15T12:50:34,224 cdef size_t sd = sizeof(double) 2021-07-15T12:50:34,224 memset(&self.work1[0, 0, 0, 0], 0, 297 * sd) 2021-07-15T12:50:34,224 memset(&self.work2[0, 0], 0, self.nx * sd) 2021-07-15T12:50:34,224 ^ 2021-07-15T12:50:34,224 ------------------------------------------------------------ 2021-07-15T12:50:34,225 sella/internal/int_classes.pyx:430:47: Converting to Python object not allowed without gil 2021-07-15T12:50:34,225 Error compiling Cython file: 2021-07-15T12:50:34,225 ------------------------------------------------------------ 2021-07-15T12:50:34,225 ... 2021-07-15T12:50:34,225 j = indices[1] 2021-07-15T12:50:34,225 k = indices[2] 2021-07-15T12:50:34,225 l = indices[3] 2021-07-15T12:50:34,226 # First part of the angle sum/diff 2021-07-15T12:50:34,226 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,226 ^ 2021-07-15T12:50:34,226 ------------------------------------------------------------ 2021-07-15T12:50:34,226 sella/internal/int_classes.pyx:437:21: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,226 Error compiling Cython file: 2021-07-15T12:50:34,227 ------------------------------------------------------------ 2021-07-15T12:50:34,227 ... 2021-07-15T12:50:34,227 j = indices[1] 2021-07-15T12:50:34,227 k = indices[2] 2021-07-15T12:50:34,227 l = indices[3] 2021-07-15T12:50:34,227 # First part of the angle sum/diff 2021-07-15T12:50:34,227 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,227 ^ 2021-07-15T12:50:34,228 ------------------------------------------------------------ 2021-07-15T12:50:34,228 sella/internal/int_classes.pyx:437:21: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,228 Error compiling Cython file: 2021-07-15T12:50:34,228 ------------------------------------------------------------ 2021-07-15T12:50:34,228 ... 2021-07-15T12:50:34,228 j = indices[1] 2021-07-15T12:50:34,228 k = indices[2] 2021-07-15T12:50:34,229 l = indices[3] 2021-07-15T12:50:34,229 # First part of the angle sum/diff 2021-07-15T12:50:34,229 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,229 ^ 2021-07-15T12:50:34,229 ------------------------------------------------------------ 2021-07-15T12:50:34,229 sella/internal/int_classes.pyx:437:14: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,230 Error compiling Cython file: 2021-07-15T12:50:34,230 ------------------------------------------------------------ 2021-07-15T12:50:34,230 ... 2021-07-15T12:50:34,230 j = indices[1] 2021-07-15T12:50:34,230 k = indices[2] 2021-07-15T12:50:34,230 l = indices[3] 2021-07-15T12:50:34,230 # First part of the angle sum/diff 2021-07-15T12:50:34,231 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,231 ^ 2021-07-15T12:50:34,231 ------------------------------------------------------------ 2021-07-15T12:50:34,231 sella/internal/int_classes.pyx:437:21: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,231 Error compiling Cython file: 2021-07-15T12:50:34,232 ------------------------------------------------------------ 2021-07-15T12:50:34,232 ... 2021-07-15T12:50:34,232 j = indices[1] 2021-07-15T12:50:34,232 k = indices[2] 2021-07-15T12:50:34,232 l = indices[3] 2021-07-15T12:50:34,232 # First part of the angle sum/diff 2021-07-15T12:50:34,233 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,233 ^ 2021-07-15T12:50:34,233 ------------------------------------------------------------ 2021-07-15T12:50:34,233 sella/internal/int_classes.pyx:437:30: Indexing Python object not allowed without gil 2021-07-15T12:50:34,233 Error compiling Cython file: 2021-07-15T12:50:34,234 ------------------------------------------------------------ 2021-07-15T12:50:34,234 ... 2021-07-15T12:50:34,234 j = indices[1] 2021-07-15T12:50:34,234 k = indices[2] 2021-07-15T12:50:34,234 l = indices[3] 2021-07-15T12:50:34,234 # First part of the angle sum/diff 2021-07-15T12:50:34,234 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,235 ^ 2021-07-15T12:50:34,235 ------------------------------------------------------------ 2021-07-15T12:50:34,235 sella/internal/int_classes.pyx:437:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,235 Error compiling Cython file: 2021-07-15T12:50:34,235 ------------------------------------------------------------ 2021-07-15T12:50:34,235 ... 2021-07-15T12:50:34,235 j = indices[1] 2021-07-15T12:50:34,236 k = indices[2] 2021-07-15T12:50:34,236 l = indices[3] 2021-07-15T12:50:34,236 # First part of the angle sum/diff 2021-07-15T12:50:34,236 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,236 ^ 2021-07-15T12:50:34,236 ------------------------------------------------------------ 2021-07-15T12:50:34,237 sella/internal/int_classes.pyx:437:43: Indexing Python object not allowed without gil 2021-07-15T12:50:34,237 Error compiling Cython file: 2021-07-15T12:50:34,237 ------------------------------------------------------------ 2021-07-15T12:50:34,237 ... 2021-07-15T12:50:34,237 j = indices[1] 2021-07-15T12:50:34,237 k = indices[2] 2021-07-15T12:50:34,237 l = indices[3] 2021-07-15T12:50:34,238 # First part of the angle sum/diff 2021-07-15T12:50:34,238 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,238 ^ 2021-07-15T12:50:34,238 ------------------------------------------------------------ 2021-07-15T12:50:34,238 sella/internal/int_classes.pyx:437:39: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,238 Error compiling Cython file: 2021-07-15T12:50:34,239 ------------------------------------------------------------ 2021-07-15T12:50:34,239 ... 2021-07-15T12:50:34,239 j = indices[1] 2021-07-15T12:50:34,239 k = indices[2] 2021-07-15T12:50:34,239 l = indices[3] 2021-07-15T12:50:34,239 # First part of the angle sum/diff 2021-07-15T12:50:34,239 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,239 ^ 2021-07-15T12:50:34,240 ------------------------------------------------------------ 2021-07-15T12:50:34,240 sella/internal/int_classes.pyx:437:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,240 Error compiling Cython file: 2021-07-15T12:50:34,240 ------------------------------------------------------------ 2021-07-15T12:50:34,240 ... 2021-07-15T12:50:34,240 l = indices[3] 2021-07-15T12:50:34,241 # First part of the angle sum/diff 2021-07-15T12:50:34,241 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,241 if err != 0: return err 2021-07-15T12:50:34,241 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,241 ^ 2021-07-15T12:50:34,241 ------------------------------------------------------------ 2021-07-15T12:50:34,241 sella/internal/int_classes.pyx:439:21: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,242 Error compiling Cython file: 2021-07-15T12:50:34,242 ------------------------------------------------------------ 2021-07-15T12:50:34,242 ... 2021-07-15T12:50:34,242 l = indices[3] 2021-07-15T12:50:34,242 # First part of the angle sum/diff 2021-07-15T12:50:34,242 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,242 if err != 0: return err 2021-07-15T12:50:34,243 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,243 ^ 2021-07-15T12:50:34,243 ------------------------------------------------------------ 2021-07-15T12:50:34,243 sella/internal/int_classes.pyx:439:21: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,243 Error compiling Cython file: 2021-07-15T12:50:34,243 ------------------------------------------------------------ 2021-07-15T12:50:34,243 ... 2021-07-15T12:50:34,244 l = indices[3] 2021-07-15T12:50:34,244 # First part of the angle sum/diff 2021-07-15T12:50:34,244 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,244 if err != 0: return err 2021-07-15T12:50:34,244 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,244 ^ 2021-07-15T12:50:34,244 ------------------------------------------------------------ 2021-07-15T12:50:34,245 sella/internal/int_classes.pyx:439:14: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,245 Error compiling Cython file: 2021-07-15T12:50:34,245 ------------------------------------------------------------ 2021-07-15T12:50:34,245 ... 2021-07-15T12:50:34,245 l = indices[3] 2021-07-15T12:50:34,245 # First part of the angle sum/diff 2021-07-15T12:50:34,246 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,246 if err != 0: return err 2021-07-15T12:50:34,246 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,246 ^ 2021-07-15T12:50:34,246 ------------------------------------------------------------ 2021-07-15T12:50:34,246 sella/internal/int_classes.pyx:439:21: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,246 Error compiling Cython file: 2021-07-15T12:50:34,247 ------------------------------------------------------------ 2021-07-15T12:50:34,247 ... 2021-07-15T12:50:34,247 l = indices[3] 2021-07-15T12:50:34,247 # First part of the angle sum/diff 2021-07-15T12:50:34,247 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,247 if err != 0: return err 2021-07-15T12:50:34,247 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,248 ^ 2021-07-15T12:50:34,248 ------------------------------------------------------------ 2021-07-15T12:50:34,248 sella/internal/int_classes.pyx:439:30: Indexing Python object not allowed without gil 2021-07-15T12:50:34,248 Error compiling Cython file: 2021-07-15T12:50:34,248 ------------------------------------------------------------ 2021-07-15T12:50:34,248 ... 2021-07-15T12:50:34,248 l = indices[3] 2021-07-15T12:50:34,249 # First part of the angle sum/diff 2021-07-15T12:50:34,249 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,249 if err != 0: return err 2021-07-15T12:50:34,249 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,249 ^ 2021-07-15T12:50:34,249 ------------------------------------------------------------ 2021-07-15T12:50:34,249 sella/internal/int_classes.pyx:439:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,250 Error compiling Cython file: 2021-07-15T12:50:34,250 ------------------------------------------------------------ 2021-07-15T12:50:34,250 ... 2021-07-15T12:50:34,250 l = indices[3] 2021-07-15T12:50:34,250 # First part of the angle sum/diff 2021-07-15T12:50:34,250 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,251 if err != 0: return err 2021-07-15T12:50:34,251 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,251 ^ 2021-07-15T12:50:34,251 ------------------------------------------------------------ 2021-07-15T12:50:34,251 sella/internal/int_classes.pyx:439:43: Indexing Python object not allowed without gil 2021-07-15T12:50:34,251 Error compiling Cython file: 2021-07-15T12:50:34,251 ------------------------------------------------------------ 2021-07-15T12:50:34,252 ... 2021-07-15T12:50:34,252 l = indices[3] 2021-07-15T12:50:34,252 # First part of the angle sum/diff 2021-07-15T12:50:34,252 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,252 if err != 0: return err 2021-07-15T12:50:34,252 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,252 ^ 2021-07-15T12:50:34,252 ------------------------------------------------------------ 2021-07-15T12:50:34,253 sella/internal/int_classes.pyx:439:39: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,253 Error compiling Cython file: 2021-07-15T12:50:34,253 ------------------------------------------------------------ 2021-07-15T12:50:34,253 ... 2021-07-15T12:50:34,253 l = indices[3] 2021-07-15T12:50:34,253 # First part of the angle sum/diff 2021-07-15T12:50:34,254 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,254 if err != 0: return err 2021-07-15T12:50:34,254 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,254 ^ 2021-07-15T12:50:34,254 ------------------------------------------------------------ 2021-07-15T12:50:34,254 sella/internal/int_classes.pyx:439:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,255 Error compiling Cython file: 2021-07-15T12:50:34,255 ------------------------------------------------------------ 2021-07-15T12:50:34,255 ... 2021-07-15T12:50:34,255 # First part of the angle sum/diff 2021-07-15T12:50:34,255 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,255 if err != 0: return err 2021-07-15T12:50:34,255 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,255 if err != 0: return err 2021-07-15T12:50:34,255 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,256 ^ 2021-07-15T12:50:34,256 ------------------------------------------------------------ 2021-07-15T12:50:34,256 sella/internal/int_classes.pyx:441:28: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,256 Error compiling Cython file: 2021-07-15T12:50:34,256 ------------------------------------------------------------ 2021-07-15T12:50:34,256 ... 2021-07-15T12:50:34,257 # First part of the angle sum/diff 2021-07-15T12:50:34,257 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,257 if err != 0: return err 2021-07-15T12:50:34,257 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,257 if err != 0: return err 2021-07-15T12:50:34,257 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,257 ^ 2021-07-15T12:50:34,257 ------------------------------------------------------------ 2021-07-15T12:50:34,258 sella/internal/int_classes.pyx:441:15: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,258 Error compiling Cython file: 2021-07-15T12:50:34,258 ------------------------------------------------------------ 2021-07-15T12:50:34,258 ... 2021-07-15T12:50:34,258 # First part of the angle sum/diff 2021-07-15T12:50:34,258 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,259 if err != 0: return err 2021-07-15T12:50:34,259 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,259 if err != 0: return err 2021-07-15T12:50:34,259 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,259 ^ 2021-07-15T12:50:34,259 ------------------------------------------------------------ 2021-07-15T12:50:34,260 sella/internal/int_classes.pyx:441:28: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,260 Error compiling Cython file: 2021-07-15T12:50:34,260 ------------------------------------------------------------ 2021-07-15T12:50:34,260 ... 2021-07-15T12:50:34,260 # First part of the angle sum/diff 2021-07-15T12:50:34,260 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,261 if err != 0: return err 2021-07-15T12:50:34,261 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,261 if err != 0: return err 2021-07-15T12:50:34,261 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,261 ^ 2021-07-15T12:50:34,261 ------------------------------------------------------------ 2021-07-15T12:50:34,261 sella/internal/int_classes.pyx:441:29: Converting to Python object not allowed without gil 2021-07-15T12:50:34,262 Error compiling Cython file: 2021-07-15T12:50:34,262 ------------------------------------------------------------ 2021-07-15T12:50:34,262 ... 2021-07-15T12:50:34,262 # First part of the angle sum/diff 2021-07-15T12:50:34,262 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,262 if err != 0: return err 2021-07-15T12:50:34,262 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,262 if err != 0: return err 2021-07-15T12:50:34,263 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,263 ^ 2021-07-15T12:50:34,263 ------------------------------------------------------------ 2021-07-15T12:50:34,263 sella/internal/int_classes.pyx:441:32: Converting to Python object not allowed without gil 2021-07-15T12:50:34,263 Error compiling Cython file: 2021-07-15T12:50:34,263 ------------------------------------------------------------ 2021-07-15T12:50:34,263 ... 2021-07-15T12:50:34,264 # First part of the angle sum/diff 2021-07-15T12:50:34,264 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,264 if err != 0: return err 2021-07-15T12:50:34,264 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,264 if err != 0: return err 2021-07-15T12:50:34,264 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,264 ^ 2021-07-15T12:50:34,264 ------------------------------------------------------------ 2021-07-15T12:50:34,265 sella/internal/int_classes.pyx:441:35: Converting to Python object not allowed without gil 2021-07-15T12:50:34,265 Error compiling Cython file: 2021-07-15T12:50:34,265 ------------------------------------------------------------ 2021-07-15T12:50:34,265 ... 2021-07-15T12:50:34,265 # First part of the angle sum/diff 2021-07-15T12:50:34,265 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,266 if err != 0: return err 2021-07-15T12:50:34,266 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,266 if err != 0: return err 2021-07-15T12:50:34,266 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,266 ^ 2021-07-15T12:50:34,266 ------------------------------------------------------------ 2021-07-15T12:50:34,266 sella/internal/int_classes.pyx:441:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,267 Error compiling Cython file: 2021-07-15T12:50:34,267 ------------------------------------------------------------ 2021-07-15T12:50:34,267 ... 2021-07-15T12:50:34,267 # First part of the angle sum/diff 2021-07-15T12:50:34,267 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,267 if err != 0: return err 2021-07-15T12:50:34,267 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,267 if err != 0: return err 2021-07-15T12:50:34,267 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,268 ^ 2021-07-15T12:50:34,268 ------------------------------------------------------------ 2021-07-15T12:50:34,268 sella/internal/int_classes.pyx:441:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,268 Error compiling Cython file: 2021-07-15T12:50:34,268 ------------------------------------------------------------ 2021-07-15T12:50:34,268 ... 2021-07-15T12:50:34,269 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,269 if err != 0: return err 2021-07-15T12:50:34,269 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,269 if err != 0: return err 2021-07-15T12:50:34,269 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,269 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,269 ^ 2021-07-15T12:50:34,269 ------------------------------------------------------------ 2021-07-15T12:50:34,270 sella/internal/int_classes.pyx:442:29: Converting to Python object not allowed without gil 2021-07-15T12:50:34,270 Error compiling Cython file: 2021-07-15T12:50:34,270 ------------------------------------------------------------ 2021-07-15T12:50:34,270 ... 2021-07-15T12:50:34,270 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,270 if err != 0: return err 2021-07-15T12:50:34,270 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,270 if err != 0: return err 2021-07-15T12:50:34,271 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,271 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,271 ^ 2021-07-15T12:50:34,271 ------------------------------------------------------------ 2021-07-15T12:50:34,271 sella/internal/int_classes.pyx:442:32: Converting to Python object not allowed without gil 2021-07-15T12:50:34,271 Error compiling Cython file: 2021-07-15T12:50:34,272 ------------------------------------------------------------ 2021-07-15T12:50:34,272 ... 2021-07-15T12:50:34,272 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,272 if err != 0: return err 2021-07-15T12:50:34,272 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,272 if err != 0: return err 2021-07-15T12:50:34,272 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,272 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,272 ^ 2021-07-15T12:50:34,273 ------------------------------------------------------------ 2021-07-15T12:50:34,273 sella/internal/int_classes.pyx:442:46: Slicing Python object not allowed without gil 2021-07-15T12:50:34,273 Error compiling Cython file: 2021-07-15T12:50:34,273 ------------------------------------------------------------ 2021-07-15T12:50:34,273 ... 2021-07-15T12:50:34,273 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,273 if err != 0: return err 2021-07-15T12:50:34,274 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,274 if err != 0: return err 2021-07-15T12:50:34,274 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,274 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,274 ^ 2021-07-15T12:50:34,274 ------------------------------------------------------------ 2021-07-15T12:50:34,274 sella/internal/int_classes.pyx:442:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,275 Error compiling Cython file: 2021-07-15T12:50:34,275 ------------------------------------------------------------ 2021-07-15T12:50:34,275 ... 2021-07-15T12:50:34,275 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,275 if err != 0: return err 2021-07-15T12:50:34,275 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,275 if err != 0: return err 2021-07-15T12:50:34,275 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,276 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,276 ^ 2021-07-15T12:50:34,276 ------------------------------------------------------------ 2021-07-15T12:50:34,276 sella/internal/int_classes.pyx:442:46: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,276 Error compiling Cython file: 2021-07-15T12:50:34,276 ------------------------------------------------------------ 2021-07-15T12:50:34,276 ... 2021-07-15T12:50:34,277 err = vec_sum(self.pos[l], self.pos[j], self.dx2, -1.) 2021-07-15T12:50:34,277 if err != 0: return err 2021-07-15T12:50:34,277 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,277 if err != 0: return err 2021-07-15T12:50:34,277 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,277 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,277 ^ 2021-07-15T12:50:34,277 ------------------------------------------------------------ 2021-07-15T12:50:34,278 sella/internal/int_classes.pyx:442:57: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,278 Error compiling Cython file: 2021-07-15T12:50:34,278 ------------------------------------------------------------ 2021-07-15T12:50:34,278 ... 2021-07-15T12:50:34,278 if err != 0: return err 2021-07-15T12:50:34,278 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,279 if err != 0: return err 2021-07-15T12:50:34,279 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,279 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,279 grad, curv) 2021-07-15T12:50:34,279 ^ 2021-07-15T12:50:34,279 ------------------------------------------------------------ 2021-07-15T12:50:34,279 sella/internal/int_classes.pyx:443:29: Converting to Python object not allowed without gil 2021-07-15T12:50:34,280 Error compiling Cython file: 2021-07-15T12:50:34,280 ------------------------------------------------------------ 2021-07-15T12:50:34,280 ... 2021-07-15T12:50:34,280 if err != 0: return err 2021-07-15T12:50:34,280 err = vec_sum(self.pos[j], self.pos[i], self.dx1, -1.) 2021-07-15T12:50:34,280 if err != 0: return err 2021-07-15T12:50:34,280 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,280 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,280 grad, curv) 2021-07-15T12:50:34,281 ^ 2021-07-15T12:50:34,281 ------------------------------------------------------------ 2021-07-15T12:50:34,281 sella/internal/int_classes.pyx:443:35: Converting to Python object not allowed without gil 2021-07-15T12:50:34,281 Error compiling Cython file: 2021-07-15T12:50:34,281 ------------------------------------------------------------ 2021-07-15T12:50:34,281 ... 2021-07-15T12:50:34,282 if err != 0: return err 2021-07-15T12:50:34,282 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,282 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,282 grad, curv) 2021-07-15T12:50:34,282 # Second part 2021-07-15T12:50:34,282 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,283 ^ 2021-07-15T12:50:34,283 ------------------------------------------------------------ 2021-07-15T12:50:34,283 sella/internal/int_classes.pyx:445:16: Slicing Python object not allowed without gil 2021-07-15T12:50:34,283 Error compiling Cython file: 2021-07-15T12:50:34,283 ------------------------------------------------------------ 2021-07-15T12:50:34,283 ... 2021-07-15T12:50:34,284 if err != 0: return err 2021-07-15T12:50:34,284 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,284 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,284 grad, curv) 2021-07-15T12:50:34,284 # Second part 2021-07-15T12:50:34,284 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,284 ^ 2021-07-15T12:50:34,284 ------------------------------------------------------------ 2021-07-15T12:50:34,285 sella/internal/int_classes.pyx:445:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,285 Error compiling Cython file: 2021-07-15T12:50:34,285 ------------------------------------------------------------ 2021-07-15T12:50:34,285 ... 2021-07-15T12:50:34,285 if err != 0: return err 2021-07-15T12:50:34,285 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,285 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,286 grad, curv) 2021-07-15T12:50:34,286 # Second part 2021-07-15T12:50:34,286 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,286 ^ 2021-07-15T12:50:34,286 ------------------------------------------------------------ 2021-07-15T12:50:34,286 sella/internal/int_classes.pyx:445:16: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,287 Error compiling Cython file: 2021-07-15T12:50:34,287 ------------------------------------------------------------ 2021-07-15T12:50:34,287 ... 2021-07-15T12:50:34,287 if err != 0: return err 2021-07-15T12:50:34,287 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,287 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,287 grad, curv) 2021-07-15T12:50:34,287 # Second part 2021-07-15T12:50:34,287 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,288 ^ 2021-07-15T12:50:34,288 ------------------------------------------------------------ 2021-07-15T12:50:34,288 sella/internal/int_classes.pyx:445:30: Indexing Python object not allowed without gil 2021-07-15T12:50:34,288 Error compiling Cython file: 2021-07-15T12:50:34,288 ------------------------------------------------------------ 2021-07-15T12:50:34,288 ... 2021-07-15T12:50:34,288 if err != 0: return err 2021-07-15T12:50:34,289 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,289 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,289 grad, curv) 2021-07-15T12:50:34,289 # Second part 2021-07-15T12:50:34,289 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,289 ^ 2021-07-15T12:50:34,289 ------------------------------------------------------------ 2021-07-15T12:50:34,290 sella/internal/int_classes.pyx:445:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,290 Error compiling Cython file: 2021-07-15T12:50:34,290 ------------------------------------------------------------ 2021-07-15T12:50:34,290 ... 2021-07-15T12:50:34,290 if err != 0: return err 2021-07-15T12:50:34,290 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,290 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,290 grad, curv) 2021-07-15T12:50:34,291 # Second part 2021-07-15T12:50:34,291 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,291 ^ 2021-07-15T12:50:34,291 ------------------------------------------------------------ 2021-07-15T12:50:34,291 sella/internal/int_classes.pyx:445:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,291 Error compiling Cython file: 2021-07-15T12:50:34,291 ------------------------------------------------------------ 2021-07-15T12:50:34,292 ... 2021-07-15T12:50:34,292 if err != 0: return err 2021-07-15T12:50:34,292 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,292 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,292 grad, curv) 2021-07-15T12:50:34,292 # Second part 2021-07-15T12:50:34,292 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,292 ^ 2021-07-15T12:50:34,292 ------------------------------------------------------------ 2021-07-15T12:50:34,293 sella/internal/int_classes.pyx:445:31: Converting to Python object not allowed without gil 2021-07-15T12:50:34,293 Error compiling Cython file: 2021-07-15T12:50:34,293 ------------------------------------------------------------ 2021-07-15T12:50:34,293 ... 2021-07-15T12:50:34,293 if err != 0: return err 2021-07-15T12:50:34,293 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,294 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,294 grad, curv) 2021-07-15T12:50:34,294 # Second part 2021-07-15T12:50:34,294 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,294 ^ 2021-07-15T12:50:34,294 ------------------------------------------------------------ 2021-07-15T12:50:34,294 sella/internal/int_classes.pyx:445:30: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,295 Error compiling Cython file: 2021-07-15T12:50:34,295 ------------------------------------------------------------ 2021-07-15T12:50:34,295 ... 2021-07-15T12:50:34,295 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,295 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,295 grad, curv) 2021-07-15T12:50:34,295 # Second part 2021-07-15T12:50:34,295 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,296 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,296 ^ 2021-07-15T12:50:34,296 ------------------------------------------------------------ 2021-07-15T12:50:34,296 sella/internal/int_classes.pyx:446:41: Indexing Python object not allowed without gil 2021-07-15T12:50:34,296 Error compiling Cython file: 2021-07-15T12:50:34,296 ------------------------------------------------------------ 2021-07-15T12:50:34,297 ... 2021-07-15T12:50:34,297 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,297 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,297 grad, curv) 2021-07-15T12:50:34,297 # Second part 2021-07-15T12:50:34,297 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,297 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,297 ^ 2021-07-15T12:50:34,297 ------------------------------------------------------------ 2021-07-15T12:50:34,298 sella/internal/int_classes.pyx:446:37: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,298 Error compiling Cython file: 2021-07-15T12:50:34,298 ------------------------------------------------------------ 2021-07-15T12:50:34,298 ... 2021-07-15T12:50:34,298 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,298 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,298 grad, curv) 2021-07-15T12:50:34,299 # Second part 2021-07-15T12:50:34,299 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,299 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,299 ^ 2021-07-15T12:50:34,299 ------------------------------------------------------------ 2021-07-15T12:50:34,299 sella/internal/int_classes.pyx:446:41: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,300 Error compiling Cython file: 2021-07-15T12:50:34,300 ------------------------------------------------------------ 2021-07-15T12:50:34,300 ... 2021-07-15T12:50:34,300 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,300 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,300 grad, curv) 2021-07-15T12:50:34,300 # Second part 2021-07-15T12:50:34,300 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,301 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,301 ^ 2021-07-15T12:50:34,301 ------------------------------------------------------------ 2021-07-15T12:50:34,301 sella/internal/int_classes.pyx:446:42: Converting to Python object not allowed without gil 2021-07-15T12:50:34,301 Error compiling Cython file: 2021-07-15T12:50:34,301 ------------------------------------------------------------ 2021-07-15T12:50:34,301 ... 2021-07-15T12:50:34,302 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,302 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,302 grad, curv) 2021-07-15T12:50:34,302 # Second part 2021-07-15T12:50:34,302 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,302 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,302 ^ 2021-07-15T12:50:34,302 ------------------------------------------------------------ 2021-07-15T12:50:34,303 sella/internal/int_classes.pyx:446:66: Indexing Python object not allowed without gil 2021-07-15T12:50:34,303 Error compiling Cython file: 2021-07-15T12:50:34,303 ------------------------------------------------------------ 2021-07-15T12:50:34,303 ... 2021-07-15T12:50:34,303 info = cart_to_angle(i, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,303 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,303 grad, curv) 2021-07-15T12:50:34,303 # Second part 2021-07-15T12:50:34,304 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,304 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,304 ^ 2021-07-15T12:50:34,304 ------------------------------------------------------------ 2021-07-15T12:50:34,304 sella/internal/int_classes.pyx:446:62: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,304 Error compiling Cython file: 2021-07-15T12:50:34,305 ------------------------------------------------------------ 2021-07-15T12:50:34,305 ... 2021-07-15T12:50:34,305 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,305 grad, curv) 2021-07-15T12:50:34,305 # Second part 2021-07-15T12:50:34,305 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,305 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,305 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,305 ^ 2021-07-15T12:50:34,306 ------------------------------------------------------------ 2021-07-15T12:50:34,306 sella/internal/int_classes.pyx:447:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,306 Error compiling Cython file: 2021-07-15T12:50:34,306 ------------------------------------------------------------ 2021-07-15T12:50:34,307 ... 2021-07-15T12:50:34,307 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,307 grad, curv) 2021-07-15T12:50:34,307 # Second part 2021-07-15T12:50:34,307 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,307 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,307 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,308 ^ 2021-07-15T12:50:34,308 ------------------------------------------------------------ 2021-07-15T12:50:34,308 sella/internal/int_classes.pyx:447:27: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,308 Error compiling Cython file: 2021-07-15T12:50:34,308 ------------------------------------------------------------ 2021-07-15T12:50:34,308 ... 2021-07-15T12:50:34,309 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,309 grad, curv) 2021-07-15T12:50:34,309 # Second part 2021-07-15T12:50:34,309 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,309 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,309 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,309 ^ 2021-07-15T12:50:34,309 ------------------------------------------------------------ 2021-07-15T12:50:34,310 sella/internal/int_classes.pyx:447:14: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,310 Error compiling Cython file: 2021-07-15T12:50:34,310 ------------------------------------------------------------ 2021-07-15T12:50:34,310 ... 2021-07-15T12:50:34,310 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,310 grad, curv) 2021-07-15T12:50:34,310 # Second part 2021-07-15T12:50:34,311 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,311 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,311 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,311 ^ 2021-07-15T12:50:34,311 ------------------------------------------------------------ 2021-07-15T12:50:34,311 sella/internal/int_classes.pyx:447:27: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,311 Error compiling Cython file: 2021-07-15T12:50:34,312 ------------------------------------------------------------ 2021-07-15T12:50:34,312 ... 2021-07-15T12:50:34,312 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,312 grad, curv) 2021-07-15T12:50:34,312 # Second part 2021-07-15T12:50:34,312 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,312 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,312 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,313 ^ 2021-07-15T12:50:34,313 ------------------------------------------------------------ 2021-07-15T12:50:34,313 sella/internal/int_classes.pyx:447:28: Converting to Python object not allowed without gil 2021-07-15T12:50:34,313 Error compiling Cython file: 2021-07-15T12:50:34,313 ------------------------------------------------------------ 2021-07-15T12:50:34,313 ... 2021-07-15T12:50:34,313 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,314 grad, curv) 2021-07-15T12:50:34,314 # Second part 2021-07-15T12:50:34,314 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,314 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,314 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,314 ^ 2021-07-15T12:50:34,314 ------------------------------------------------------------ 2021-07-15T12:50:34,315 sella/internal/int_classes.pyx:447:31: Converting to Python object not allowed without gil 2021-07-15T12:50:34,315 Error compiling Cython file: 2021-07-15T12:50:34,315 ------------------------------------------------------------ 2021-07-15T12:50:34,315 ... 2021-07-15T12:50:34,315 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,315 grad, curv) 2021-07-15T12:50:34,315 # Second part 2021-07-15T12:50:34,315 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,316 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,316 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,316 ^ 2021-07-15T12:50:34,316 ------------------------------------------------------------ 2021-07-15T12:50:34,316 sella/internal/int_classes.pyx:447:34: Converting to Python object not allowed without gil 2021-07-15T12:50:34,316 Error compiling Cython file: 2021-07-15T12:50:34,317 ------------------------------------------------------------ 2021-07-15T12:50:34,317 ... 2021-07-15T12:50:34,317 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,317 grad, curv) 2021-07-15T12:50:34,317 # Second part 2021-07-15T12:50:34,317 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,317 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,317 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,317 ^ 2021-07-15T12:50:34,318 ------------------------------------------------------------ 2021-07-15T12:50:34,318 sella/internal/int_classes.pyx:447:41: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,318 Error compiling Cython file: 2021-07-15T12:50:34,318 ------------------------------------------------------------ 2021-07-15T12:50:34,318 ... 2021-07-15T12:50:34,318 q, dq, self.work1[4:7], self.work1, 2021-07-15T12:50:34,319 grad, curv) 2021-07-15T12:50:34,319 # Second part 2021-07-15T12:50:34,319 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,319 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,319 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,319 ^ 2021-07-15T12:50:34,319 ------------------------------------------------------------ 2021-07-15T12:50:34,319 sella/internal/int_classes.pyx:447:51: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,320 Error compiling Cython file: 2021-07-15T12:50:34,320 ------------------------------------------------------------ 2021-07-15T12:50:34,320 ... 2021-07-15T12:50:34,320 grad, curv) 2021-07-15T12:50:34,320 # Second part 2021-07-15T12:50:34,320 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,320 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,320 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,321 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,321 ^ 2021-07-15T12:50:34,321 ------------------------------------------------------------ 2021-07-15T12:50:34,321 sella/internal/int_classes.pyx:448:28: Converting to Python object not allowed without gil 2021-07-15T12:50:34,321 Error compiling Cython file: 2021-07-15T12:50:34,321 ------------------------------------------------------------ 2021-07-15T12:50:34,322 ... 2021-07-15T12:50:34,322 grad, curv) 2021-07-15T12:50:34,322 # Second part 2021-07-15T12:50:34,322 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,322 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,322 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,322 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,322 ^ 2021-07-15T12:50:34,322 ------------------------------------------------------------ 2021-07-15T12:50:34,323 sella/internal/int_classes.pyx:448:39: Indexing Python object not allowed without gil 2021-07-15T12:50:34,323 Error compiling Cython file: 2021-07-15T12:50:34,323 ------------------------------------------------------------ 2021-07-15T12:50:34,323 ... 2021-07-15T12:50:34,323 grad, curv) 2021-07-15T12:50:34,323 # Second part 2021-07-15T12:50:34,324 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,324 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,324 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,324 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,324 ^ 2021-07-15T12:50:34,324 ------------------------------------------------------------ 2021-07-15T12:50:34,324 sella/internal/int_classes.pyx:448:33: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,325 Error compiling Cython file: 2021-07-15T12:50:34,325 ------------------------------------------------------------ 2021-07-15T12:50:34,325 ... 2021-07-15T12:50:34,325 grad, curv) 2021-07-15T12:50:34,325 # Second part 2021-07-15T12:50:34,325 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,325 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,325 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,326 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,326 ^ 2021-07-15T12:50:34,326 ------------------------------------------------------------ 2021-07-15T12:50:34,326 sella/internal/int_classes.pyx:448:39: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,326 Error compiling Cython file: 2021-07-15T12:50:34,326 ------------------------------------------------------------ 2021-07-15T12:50:34,327 ... 2021-07-15T12:50:34,327 grad, curv) 2021-07-15T12:50:34,327 # Second part 2021-07-15T12:50:34,327 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,327 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,327 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,327 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,327 ^ 2021-07-15T12:50:34,327 ------------------------------------------------------------ 2021-07-15T12:50:34,328 sella/internal/int_classes.pyx:448:57: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,328 Error compiling Cython file: 2021-07-15T12:50:34,328 ------------------------------------------------------------ 2021-07-15T12:50:34,328 ... 2021-07-15T12:50:34,328 # Second part 2021-07-15T12:50:34,328 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,329 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,329 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,329 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,329 self.work1[7:10], self.work1, 2021-07-15T12:50:34,329 ^ 2021-07-15T12:50:34,329 ------------------------------------------------------------ 2021-07-15T12:50:34,330 sella/internal/int_classes.pyx:449:38: Slicing Python object not allowed without gil 2021-07-15T12:50:34,330 Error compiling Cython file: 2021-07-15T12:50:34,330 ------------------------------------------------------------ 2021-07-15T12:50:34,330 ... 2021-07-15T12:50:34,330 # Second part 2021-07-15T12:50:34,330 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,331 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,331 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,331 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,331 self.work1[7:10], self.work1, 2021-07-15T12:50:34,331 ^ 2021-07-15T12:50:34,331 ------------------------------------------------------------ 2021-07-15T12:50:34,331 sella/internal/int_classes.pyx:449:32: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,332 Error compiling Cython file: 2021-07-15T12:50:34,332 ------------------------------------------------------------ 2021-07-15T12:50:34,332 ... 2021-07-15T12:50:34,332 # Second part 2021-07-15T12:50:34,332 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,332 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,332 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,333 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,333 self.work1[7:10], self.work1, 2021-07-15T12:50:34,333 ^ 2021-07-15T12:50:34,333 ------------------------------------------------------------ 2021-07-15T12:50:34,333 sella/internal/int_classes.pyx:449:38: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,333 Error compiling Cython file: 2021-07-15T12:50:34,333 ------------------------------------------------------------ 2021-07-15T12:50:34,334 ... 2021-07-15T12:50:34,334 # Second part 2021-07-15T12:50:34,334 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,334 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,334 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,334 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,334 self.work1[7:10], self.work1, 2021-07-15T12:50:34,334 ^ 2021-07-15T12:50:34,335 ------------------------------------------------------------ 2021-07-15T12:50:34,335 sella/internal/int_classes.pyx:449:50: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,335 Error compiling Cython file: 2021-07-15T12:50:34,335 ------------------------------------------------------------ 2021-07-15T12:50:34,335 ... 2021-07-15T12:50:34,335 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,335 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,336 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,336 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,336 self.work1[7:10], self.work1, 2021-07-15T12:50:34,336 grad, curv) 2021-07-15T12:50:34,336 ^ 2021-07-15T12:50:34,336 ------------------------------------------------------------ 2021-07-15T12:50:34,336 sella/internal/int_classes.pyx:450:28: Converting to Python object not allowed without gil 2021-07-15T12:50:34,337 Error compiling Cython file: 2021-07-15T12:50:34,337 ------------------------------------------------------------ 2021-07-15T12:50:34,337 ... 2021-07-15T12:50:34,337 self.dx1[:] = self.pos[j, :] 2021-07-15T12:50:34,337 daxpy(&THREE, &DNUNITY, &self.pos[k, 0], &UNITY, &self.dx1[0], &UNITY) 2021-07-15T12:50:34,337 err = cart_to_angle(k, j, l, self.dx1, self.dx2, 2021-07-15T12:50:34,337 &self.work1[3, 0, 0, 0], self.work2, 2021-07-15T12:50:34,337 self.work1[7:10], self.work1, 2021-07-15T12:50:34,338 grad, curv) 2021-07-15T12:50:34,338 ^ 2021-07-15T12:50:34,338 ------------------------------------------------------------ 2021-07-15T12:50:34,338 sella/internal/int_classes.pyx:450:34: Converting to Python object not allowed without gil 2021-07-15T12:50:34,338 Error compiling Cython file: 2021-07-15T12:50:34,338 ------------------------------------------------------------ 2021-07-15T12:50:34,339 ... 2021-07-15T12:50:34,339 self.work1[7:10], self.work1, 2021-07-15T12:50:34,339 grad, curv) 2021-07-15T12:50:34,339 if err != 0: return err 2021-07-15T12:50:34,339 # Combine results 2021-07-15T12:50:34,339 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,339 ^ 2021-07-15T12:50:34,339 ------------------------------------------------------------ 2021-07-15T12:50:34,340 sella/internal/int_classes.pyx:454:9: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,340 Error compiling Cython file: 2021-07-15T12:50:34,340 ------------------------------------------------------------ 2021-07-15T12:50:34,340 ... 2021-07-15T12:50:34,340 self.work1[7:10], self.work1, 2021-07-15T12:50:34,340 grad, curv) 2021-07-15T12:50:34,340 if err != 0: return err 2021-07-15T12:50:34,341 # Combine results 2021-07-15T12:50:34,341 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,341 ^ 2021-07-15T12:50:34,341 ------------------------------------------------------------ 2021-07-15T12:50:34,341 sella/internal/int_classes.pyx:454:9: Operation not allowed without gil 2021-07-15T12:50:34,342 Error compiling Cython file: 2021-07-15T12:50:34,342 ------------------------------------------------------------ 2021-07-15T12:50:34,342 ... 2021-07-15T12:50:34,342 self.work1[7:10], self.work1, 2021-07-15T12:50:34,342 grad, curv) 2021-07-15T12:50:34,342 if err != 0: return err 2021-07-15T12:50:34,342 # Combine results 2021-07-15T12:50:34,342 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,343 ^ 2021-07-15T12:50:34,343 ------------------------------------------------------------ 2021-07-15T12:50:34,343 sella/internal/int_classes.pyx:454:9: Converting to Python object not allowed without gil 2021-07-15T12:50:34,343 Error compiling Cython file: 2021-07-15T12:50:34,343 ------------------------------------------------------------ 2021-07-15T12:50:34,343 ... 2021-07-15T12:50:34,343 self.work1[7:10], self.work1, 2021-07-15T12:50:34,344 grad, curv) 2021-07-15T12:50:34,344 if err != 0: return err 2021-07-15T12:50:34,344 # Combine results 2021-07-15T12:50:34,344 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,344 ^ 2021-07-15T12:50:34,344 ------------------------------------------------------------ 2021-07-15T12:50:34,345 sella/internal/int_classes.pyx:454:21: Operation not allowed without gil 2021-07-15T12:50:34,345 Error compiling Cython file: 2021-07-15T12:50:34,345 ------------------------------------------------------------ 2021-07-15T12:50:34,345 ... 2021-07-15T12:50:34,345 self.work1[7:10], self.work1, 2021-07-15T12:50:34,345 grad, curv) 2021-07-15T12:50:34,345 if err != 0: return err 2021-07-15T12:50:34,346 # Combine results 2021-07-15T12:50:34,346 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,346 ^ 2021-07-15T12:50:34,346 ------------------------------------------------------------ 2021-07-15T12:50:34,346 sella/internal/int_classes.pyx:454:16: Converting to Python object not allowed without gil 2021-07-15T12:50:34,346 Error compiling Cython file: 2021-07-15T12:50:34,347 ------------------------------------------------------------ 2021-07-15T12:50:34,347 ... 2021-07-15T12:50:34,347 self.work1[7:10], self.work1, 2021-07-15T12:50:34,347 grad, curv) 2021-07-15T12:50:34,347 if err != 0: return err 2021-07-15T12:50:34,347 # Combine results 2021-07-15T12:50:34,347 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,348 ^ 2021-07-15T12:50:34,348 ------------------------------------------------------------ 2021-07-15T12:50:34,348 sella/internal/int_classes.pyx:454:33: Indexing Python object not allowed without gil 2021-07-15T12:50:34,348 Error compiling Cython file: 2021-07-15T12:50:34,348 ------------------------------------------------------------ 2021-07-15T12:50:34,348 ... 2021-07-15T12:50:34,348 self.work1[7:10], self.work1, 2021-07-15T12:50:34,349 grad, curv) 2021-07-15T12:50:34,349 if err != 0: return err 2021-07-15T12:50:34,349 # Combine results 2021-07-15T12:50:34,349 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,349 ^ 2021-07-15T12:50:34,349 ------------------------------------------------------------ 2021-07-15T12:50:34,349 sella/internal/int_classes.pyx:454:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,350 Error compiling Cython file: 2021-07-15T12:50:34,350 ------------------------------------------------------------ 2021-07-15T12:50:34,350 ... 2021-07-15T12:50:34,350 self.work1[7:10], self.work1, 2021-07-15T12:50:34,350 grad, curv) 2021-07-15T12:50:34,350 if err != 0: return err 2021-07-15T12:50:34,351 # Combine results 2021-07-15T12:50:34,351 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,351 ^ 2021-07-15T12:50:34,351 ------------------------------------------------------------ 2021-07-15T12:50:34,351 sella/internal/int_classes.pyx:454:33: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,351 Error compiling Cython file: 2021-07-15T12:50:34,351 ------------------------------------------------------------ 2021-07-15T12:50:34,352 ... 2021-07-15T12:50:34,352 if err != 0: return err 2021-07-15T12:50:34,352 # Combine results 2021-07-15T12:50:34,352 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,352 if grad or curv: 2021-07-15T12:50:34,352 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,352 ^ 2021-07-15T12:50:34,352 ------------------------------------------------------------ 2021-07-15T12:50:34,353 sella/internal/int_classes.pyx:456:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,353 Error compiling Cython file: 2021-07-15T12:50:34,353 ------------------------------------------------------------ 2021-07-15T12:50:34,353 ... 2021-07-15T12:50:34,353 if err != 0: return err 2021-07-15T12:50:34,354 # Combine results 2021-07-15T12:50:34,354 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,354 if grad or curv: 2021-07-15T12:50:34,354 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,354 ^ 2021-07-15T12:50:34,354 ------------------------------------------------------------ 2021-07-15T12:50:34,354 sella/internal/int_classes.pyx:456:46: Indexing Python object not allowed without gil 2021-07-15T12:50:34,355 Error compiling Cython file: 2021-07-15T12:50:34,355 ------------------------------------------------------------ 2021-07-15T12:50:34,355 ... 2021-07-15T12:50:34,355 if err != 0: return err 2021-07-15T12:50:34,355 # Combine results 2021-07-15T12:50:34,355 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,355 if grad or curv: 2021-07-15T12:50:34,356 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,356 ^ 2021-07-15T12:50:34,356 ------------------------------------------------------------ 2021-07-15T12:50:34,356 sella/internal/int_classes.pyx:456:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,356 Error compiling Cython file: 2021-07-15T12:50:34,357 ------------------------------------------------------------ 2021-07-15T12:50:34,357 ... 2021-07-15T12:50:34,357 if err != 0: return err 2021-07-15T12:50:34,357 # Combine results 2021-07-15T12:50:34,357 q[0] += sign * self.work1[3, 0, 0, 0] 2021-07-15T12:50:34,357 if grad or curv: 2021-07-15T12:50:34,358 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,358 ^ 2021-07-15T12:50:34,358 ------------------------------------------------------------ 2021-07-15T12:50:34,358 sella/internal/int_classes.pyx:456:46: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,358 Error compiling Cython file: 2021-07-15T12:50:34,358 ------------------------------------------------------------ 2021-07-15T12:50:34,359 ... 2021-07-15T12:50:34,359 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,359 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,359 # Combine second derivatives 2021-07-15T12:50:34,359 for i in range(3): 2021-07-15T12:50:34,359 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,359 ^ 2021-07-15T12:50:34,359 ------------------------------------------------------------ 2021-07-15T12:50:34,360 sella/internal/int_classes.pyx:461:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,360 Error compiling Cython file: 2021-07-15T12:50:34,360 ------------------------------------------------------------ 2021-07-15T12:50:34,360 ... 2021-07-15T12:50:34,360 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,360 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,361 # Combine second derivatives 2021-07-15T12:50:34,361 for i in range(3): 2021-07-15T12:50:34,361 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,361 ^ 2021-07-15T12:50:34,361 ------------------------------------------------------------ 2021-07-15T12:50:34,361 sella/internal/int_classes.pyx:461:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,361 Error compiling Cython file: 2021-07-15T12:50:34,362 ------------------------------------------------------------ 2021-07-15T12:50:34,362 ... 2021-07-15T12:50:34,362 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,362 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,362 # Combine second derivatives 2021-07-15T12:50:34,362 for i in range(3): 2021-07-15T12:50:34,362 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,363 ^ 2021-07-15T12:50:34,363 ------------------------------------------------------------ 2021-07-15T12:50:34,363 sella/internal/int_classes.pyx:461:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,363 Error compiling Cython file: 2021-07-15T12:50:34,363 ------------------------------------------------------------ 2021-07-15T12:50:34,363 ... 2021-07-15T12:50:34,363 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,364 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,364 # Combine second derivatives 2021-07-15T12:50:34,364 for i in range(3): 2021-07-15T12:50:34,364 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,364 ^ 2021-07-15T12:50:34,364 ------------------------------------------------------------ 2021-07-15T12:50:34,364 sella/internal/int_classes.pyx:461:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,365 Error compiling Cython file: 2021-07-15T12:50:34,365 ------------------------------------------------------------ 2021-07-15T12:50:34,365 ... 2021-07-15T12:50:34,365 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,365 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,365 # Combine second derivatives 2021-07-15T12:50:34,366 for i in range(3): 2021-07-15T12:50:34,366 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,366 ^ 2021-07-15T12:50:34,366 ------------------------------------------------------------ 2021-07-15T12:50:34,366 sella/internal/int_classes.pyx:461:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,366 Error compiling Cython file: 2021-07-15T12:50:34,366 ------------------------------------------------------------ 2021-07-15T12:50:34,367 ... 2021-07-15T12:50:34,367 daxpy(&self.nx, &sign, &self.work2[0, 0], &UNITY, 2021-07-15T12:50:34,367 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,367 # Combine second derivatives 2021-07-15T12:50:34,367 for i in range(3): 2021-07-15T12:50:34,367 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,367 ^ 2021-07-15T12:50:34,368 ------------------------------------------------------------ 2021-07-15T12:50:34,368 sella/internal/int_classes.pyx:461:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,368 Error compiling Cython file: 2021-07-15T12:50:34,368 ------------------------------------------------------------ 2021-07-15T12:50:34,368 ... 2021-07-15T12:50:34,368 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,369 # Combine second derivatives 2021-07-15T12:50:34,369 for i in range(3): 2021-07-15T12:50:34,369 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,369 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,369 ^ 2021-07-15T12:50:34,369 ------------------------------------------------------------ 2021-07-15T12:50:34,369 sella/internal/int_classes.pyx:462:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,370 Error compiling Cython file: 2021-07-15T12:50:34,370 ------------------------------------------------------------ 2021-07-15T12:50:34,370 ... 2021-07-15T12:50:34,370 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,370 # Combine second derivatives 2021-07-15T12:50:34,370 for i in range(3): 2021-07-15T12:50:34,370 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,371 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,371 ^ 2021-07-15T12:50:34,371 ------------------------------------------------------------ 2021-07-15T12:50:34,371 sella/internal/int_classes.pyx:462:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,371 Error compiling Cython file: 2021-07-15T12:50:34,371 ------------------------------------------------------------ 2021-07-15T12:50:34,371 ... 2021-07-15T12:50:34,372 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,372 # Combine second derivatives 2021-07-15T12:50:34,372 for i in range(3): 2021-07-15T12:50:34,372 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,372 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,372 ^ 2021-07-15T12:50:34,372 ------------------------------------------------------------ 2021-07-15T12:50:34,373 sella/internal/int_classes.pyx:462:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,373 Error compiling Cython file: 2021-07-15T12:50:34,373 ------------------------------------------------------------ 2021-07-15T12:50:34,373 ... 2021-07-15T12:50:34,373 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,373 # Combine second derivatives 2021-07-15T12:50:34,374 for i in range(3): 2021-07-15T12:50:34,374 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,374 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,374 ^ 2021-07-15T12:50:34,374 ------------------------------------------------------------ 2021-07-15T12:50:34,374 sella/internal/int_classes.pyx:462:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,374 Error compiling Cython file: 2021-07-15T12:50:34,375 ------------------------------------------------------------ 2021-07-15T12:50:34,375 ... 2021-07-15T12:50:34,375 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,375 # Combine second derivatives 2021-07-15T12:50:34,375 for i in range(3): 2021-07-15T12:50:34,375 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,375 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,376 ^ 2021-07-15T12:50:34,376 ------------------------------------------------------------ 2021-07-15T12:50:34,376 sella/internal/int_classes.pyx:462:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,376 Error compiling Cython file: 2021-07-15T12:50:34,376 ------------------------------------------------------------ 2021-07-15T12:50:34,376 ... 2021-07-15T12:50:34,376 &dq[0, 0], &UNITY) 2021-07-15T12:50:34,377 # Combine second derivatives 2021-07-15T12:50:34,377 for i in range(3): 2021-07-15T12:50:34,377 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,377 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,377 ^ 2021-07-15T12:50:34,377 ------------------------------------------------------------ 2021-07-15T12:50:34,377 sella/internal/int_classes.pyx:462:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,378 Error compiling Cython file: 2021-07-15T12:50:34,378 ------------------------------------------------------------ 2021-07-15T12:50:34,378 ... 2021-07-15T12:50:34,378 # Combine second derivatives 2021-07-15T12:50:34,378 for i in range(3): 2021-07-15T12:50:34,378 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,379 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,379 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,379 ^ 2021-07-15T12:50:34,379 ------------------------------------------------------------ 2021-07-15T12:50:34,379 sella/internal/int_classes.pyx:463:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,379 Error compiling Cython file: 2021-07-15T12:50:34,379 ------------------------------------------------------------ 2021-07-15T12:50:34,380 ... 2021-07-15T12:50:34,380 # Combine second derivatives 2021-07-15T12:50:34,380 for i in range(3): 2021-07-15T12:50:34,380 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,380 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,380 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,380 ^ 2021-07-15T12:50:34,381 ------------------------------------------------------------ 2021-07-15T12:50:34,381 sella/internal/int_classes.pyx:463:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,381 Error compiling Cython file: 2021-07-15T12:50:34,381 ------------------------------------------------------------ 2021-07-15T12:50:34,381 ... 2021-07-15T12:50:34,381 # Combine second derivatives 2021-07-15T12:50:34,382 for i in range(3): 2021-07-15T12:50:34,382 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,382 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,382 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,382 ^ 2021-07-15T12:50:34,382 ------------------------------------------------------------ 2021-07-15T12:50:34,382 sella/internal/int_classes.pyx:463:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,383 Error compiling Cython file: 2021-07-15T12:50:34,383 ------------------------------------------------------------ 2021-07-15T12:50:34,383 ... 2021-07-15T12:50:34,383 # Combine second derivatives 2021-07-15T12:50:34,383 for i in range(3): 2021-07-15T12:50:34,384 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,384 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,384 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,384 ^ 2021-07-15T12:50:34,384 ------------------------------------------------------------ 2021-07-15T12:50:34,384 sella/internal/int_classes.pyx:463:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,385 Error compiling Cython file: 2021-07-15T12:50:34,385 ------------------------------------------------------------ 2021-07-15T12:50:34,385 ... 2021-07-15T12:50:34,385 # Combine second derivatives 2021-07-15T12:50:34,385 for i in range(3): 2021-07-15T12:50:34,385 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,386 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,386 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,386 ^ 2021-07-15T12:50:34,386 ------------------------------------------------------------ 2021-07-15T12:50:34,386 sella/internal/int_classes.pyx:463:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,386 Error compiling Cython file: 2021-07-15T12:50:34,386 ------------------------------------------------------------ 2021-07-15T12:50:34,387 ... 2021-07-15T12:50:34,387 # Combine second derivatives 2021-07-15T12:50:34,387 for i in range(3): 2021-07-15T12:50:34,387 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,387 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,387 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,387 ^ 2021-07-15T12:50:34,387 ------------------------------------------------------------ 2021-07-15T12:50:34,388 sella/internal/int_classes.pyx:463:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,388 Error compiling Cython file: 2021-07-15T12:50:34,388 ------------------------------------------------------------ 2021-07-15T12:50:34,388 ... 2021-07-15T12:50:34,388 for i in range(3): 2021-07-15T12:50:34,388 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,388 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,389 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,389 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,389 ^ 2021-07-15T12:50:34,389 ------------------------------------------------------------ 2021-07-15T12:50:34,389 sella/internal/int_classes.pyx:465:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,390 Error compiling Cython file: 2021-07-15T12:50:34,390 ------------------------------------------------------------ 2021-07-15T12:50:34,390 ... 2021-07-15T12:50:34,390 for i in range(3): 2021-07-15T12:50:34,390 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,390 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,390 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,390 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,391 ^ 2021-07-15T12:50:34,391 ------------------------------------------------------------ 2021-07-15T12:50:34,391 sella/internal/int_classes.pyx:465:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,391 Error compiling Cython file: 2021-07-15T12:50:34,391 ------------------------------------------------------------ 2021-07-15T12:50:34,391 ... 2021-07-15T12:50:34,392 for i in range(3): 2021-07-15T12:50:34,392 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,392 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,392 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,392 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,392 ^ 2021-07-15T12:50:34,392 ------------------------------------------------------------ 2021-07-15T12:50:34,393 sella/internal/int_classes.pyx:465:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,393 Error compiling Cython file: 2021-07-15T12:50:34,393 ------------------------------------------------------------ 2021-07-15T12:50:34,393 ... 2021-07-15T12:50:34,393 for i in range(3): 2021-07-15T12:50:34,393 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,393 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,393 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,394 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,394 ^ 2021-07-15T12:50:34,394 ------------------------------------------------------------ 2021-07-15T12:50:34,394 sella/internal/int_classes.pyx:465:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,394 Error compiling Cython file: 2021-07-15T12:50:34,395 ------------------------------------------------------------ 2021-07-15T12:50:34,395 ... 2021-07-15T12:50:34,395 for i in range(3): 2021-07-15T12:50:34,395 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,395 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,395 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,395 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,395 ^ 2021-07-15T12:50:34,396 ------------------------------------------------------------ 2021-07-15T12:50:34,396 sella/internal/int_classes.pyx:465:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,396 Error compiling Cython file: 2021-07-15T12:50:34,396 ------------------------------------------------------------ 2021-07-15T12:50:34,396 ... 2021-07-15T12:50:34,396 for i in range(3): 2021-07-15T12:50:34,397 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,397 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,397 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,397 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,397 ^ 2021-07-15T12:50:34,397 ------------------------------------------------------------ 2021-07-15T12:50:34,397 sella/internal/int_classes.pyx:465:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,398 Error compiling Cython file: 2021-07-15T12:50:34,398 ------------------------------------------------------------ 2021-07-15T12:50:34,398 ... 2021-07-15T12:50:34,398 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,398 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,398 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,398 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,399 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,399 ^ 2021-07-15T12:50:34,399 ------------------------------------------------------------ 2021-07-15T12:50:34,399 sella/internal/int_classes.pyx:466:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,399 Error compiling Cython file: 2021-07-15T12:50:34,399 ------------------------------------------------------------ 2021-07-15T12:50:34,400 ... 2021-07-15T12:50:34,400 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,400 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,400 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,400 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,400 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,400 ^ 2021-07-15T12:50:34,400 ------------------------------------------------------------ 2021-07-15T12:50:34,401 sella/internal/int_classes.pyx:466:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,401 Error compiling Cython file: 2021-07-15T12:50:34,401 ------------------------------------------------------------ 2021-07-15T12:50:34,401 ... 2021-07-15T12:50:34,401 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,401 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,402 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,402 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,402 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,402 ^ 2021-07-15T12:50:34,402 ------------------------------------------------------------ 2021-07-15T12:50:34,402 sella/internal/int_classes.pyx:466:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,403 Error compiling Cython file: 2021-07-15T12:50:34,403 ------------------------------------------------------------ 2021-07-15T12:50:34,403 ... 2021-07-15T12:50:34,403 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,403 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,403 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,403 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,404 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,404 ^ 2021-07-15T12:50:34,404 ------------------------------------------------------------ 2021-07-15T12:50:34,404 sella/internal/int_classes.pyx:466:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,404 Error compiling Cython file: 2021-07-15T12:50:34,404 ------------------------------------------------------------ 2021-07-15T12:50:34,404 ... 2021-07-15T12:50:34,405 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,405 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,405 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,405 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,405 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,405 ^ 2021-07-15T12:50:34,405 ------------------------------------------------------------ 2021-07-15T12:50:34,406 sella/internal/int_classes.pyx:466:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,406 Error compiling Cython file: 2021-07-15T12:50:34,406 ------------------------------------------------------------ 2021-07-15T12:50:34,406 ... 2021-07-15T12:50:34,406 d2q[0, i, 0, :] = self.work1[4, i, 0, :] 2021-07-15T12:50:34,406 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,406 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,407 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,407 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,407 ^ 2021-07-15T12:50:34,407 ------------------------------------------------------------ 2021-07-15T12:50:34,407 sella/internal/int_classes.pyx:466:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,407 Error compiling Cython file: 2021-07-15T12:50:34,408 ------------------------------------------------------------ 2021-07-15T12:50:34,408 ... 2021-07-15T12:50:34,408 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,408 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,408 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,408 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,409 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,409 ^ 2021-07-15T12:50:34,409 ------------------------------------------------------------ 2021-07-15T12:50:34,409 sella/internal/int_classes.pyx:467:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,409 Error compiling Cython file: 2021-07-15T12:50:34,410 ------------------------------------------------------------ 2021-07-15T12:50:34,410 ... 2021-07-15T12:50:34,410 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,410 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,410 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,410 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,411 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,411 ^ 2021-07-15T12:50:34,411 ------------------------------------------------------------ 2021-07-15T12:50:34,411 sella/internal/int_classes.pyx:467:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,411 Error compiling Cython file: 2021-07-15T12:50:34,412 ------------------------------------------------------------ 2021-07-15T12:50:34,412 ... 2021-07-15T12:50:34,412 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,412 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,412 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,412 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,413 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,413 ^ 2021-07-15T12:50:34,413 ------------------------------------------------------------ 2021-07-15T12:50:34,413 sella/internal/int_classes.pyx:467:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,413 Error compiling Cython file: 2021-07-15T12:50:34,413 ------------------------------------------------------------ 2021-07-15T12:50:34,414 ... 2021-07-15T12:50:34,414 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,414 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,414 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,414 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,414 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,414 ^ 2021-07-15T12:50:34,414 ------------------------------------------------------------ 2021-07-15T12:50:34,415 sella/internal/int_classes.pyx:467:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,415 Error compiling Cython file: 2021-07-15T12:50:34,415 ------------------------------------------------------------ 2021-07-15T12:50:34,415 ... 2021-07-15T12:50:34,415 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,415 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,416 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,416 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,416 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,416 ^ 2021-07-15T12:50:34,416 ------------------------------------------------------------ 2021-07-15T12:50:34,416 sella/internal/int_classes.pyx:467:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,416 Error compiling Cython file: 2021-07-15T12:50:34,417 ------------------------------------------------------------ 2021-07-15T12:50:34,417 ... 2021-07-15T12:50:34,417 d2q[0, i, 1, :] = self.work1[4, i, 1, :] 2021-07-15T12:50:34,417 d2q[0, i, 3, :] = self.work1[4, i, 2, :] 2021-07-15T12:50:34,417 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,417 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,417 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,417 ^ 2021-07-15T12:50:34,417 ------------------------------------------------------------ 2021-07-15T12:50:34,418 sella/internal/int_classes.pyx:467:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,418 Error compiling Cython file: 2021-07-15T12:50:34,418 ------------------------------------------------------------ 2021-07-15T12:50:34,418 ... 2021-07-15T12:50:34,418 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,418 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,419 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,419 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,419 ^ 2021-07-15T12:50:34,419 ------------------------------------------------------------ 2021-07-15T12:50:34,419 sella/internal/int_classes.pyx:469:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,419 Error compiling Cython file: 2021-07-15T12:50:34,420 ------------------------------------------------------------ 2021-07-15T12:50:34,420 ... 2021-07-15T12:50:34,420 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,420 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,420 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,420 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,420 ^ 2021-07-15T12:50:34,421 ------------------------------------------------------------ 2021-07-15T12:50:34,421 sella/internal/int_classes.pyx:469:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,421 Error compiling Cython file: 2021-07-15T12:50:34,421 ------------------------------------------------------------ 2021-07-15T12:50:34,421 ... 2021-07-15T12:50:34,421 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,421 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,422 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,422 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,422 ^ 2021-07-15T12:50:34,422 ------------------------------------------------------------ 2021-07-15T12:50:34,422 sella/internal/int_classes.pyx:469:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,422 Error compiling Cython file: 2021-07-15T12:50:34,422 ------------------------------------------------------------ 2021-07-15T12:50:34,423 ... 2021-07-15T12:50:34,423 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,423 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,423 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,423 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,423 ^ 2021-07-15T12:50:34,423 ------------------------------------------------------------ 2021-07-15T12:50:34,424 sella/internal/int_classes.pyx:469:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,424 Error compiling Cython file: 2021-07-15T12:50:34,424 ------------------------------------------------------------ 2021-07-15T12:50:34,424 ... 2021-07-15T12:50:34,424 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,424 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,424 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,425 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,425 ^ 2021-07-15T12:50:34,425 ------------------------------------------------------------ 2021-07-15T12:50:34,425 sella/internal/int_classes.pyx:469:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,425 Error compiling Cython file: 2021-07-15T12:50:34,425 ------------------------------------------------------------ 2021-07-15T12:50:34,425 ... 2021-07-15T12:50:34,426 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,426 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,426 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,426 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,426 ^ 2021-07-15T12:50:34,426 ------------------------------------------------------------ 2021-07-15T12:50:34,426 sella/internal/int_classes.pyx:469:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,427 Error compiling Cython file: 2021-07-15T12:50:34,427 ------------------------------------------------------------ 2021-07-15T12:50:34,427 ... 2021-07-15T12:50:34,427 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,427 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,427 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,427 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,427 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,428 ^ 2021-07-15T12:50:34,428 ------------------------------------------------------------ 2021-07-15T12:50:34,428 sella/internal/int_classes.pyx:470:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,428 Error compiling Cython file: 2021-07-15T12:50:34,428 ------------------------------------------------------------ 2021-07-15T12:50:34,428 ... 2021-07-15T12:50:34,428 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,429 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,429 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,429 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,429 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,429 ^ 2021-07-15T12:50:34,429 ------------------------------------------------------------ 2021-07-15T12:50:34,429 sella/internal/int_classes.pyx:470:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,430 Error compiling Cython file: 2021-07-15T12:50:34,430 ------------------------------------------------------------ 2021-07-15T12:50:34,430 ... 2021-07-15T12:50:34,430 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,430 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,430 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,430 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,430 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,430 ^ 2021-07-15T12:50:34,431 ------------------------------------------------------------ 2021-07-15T12:50:34,431 sella/internal/int_classes.pyx:470:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,431 Error compiling Cython file: 2021-07-15T12:50:34,431 ------------------------------------------------------------ 2021-07-15T12:50:34,431 ... 2021-07-15T12:50:34,431 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,431 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,431 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,432 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,432 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,432 ^ 2021-07-15T12:50:34,432 ------------------------------------------------------------ 2021-07-15T12:50:34,432 sella/internal/int_classes.pyx:470:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,433 Error compiling Cython file: 2021-07-15T12:50:34,433 ------------------------------------------------------------ 2021-07-15T12:50:34,433 ... 2021-07-15T12:50:34,433 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,433 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,433 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,433 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,433 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,433 ^ 2021-07-15T12:50:34,434 ------------------------------------------------------------ 2021-07-15T12:50:34,434 sella/internal/int_classes.pyx:470:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,434 Error compiling Cython file: 2021-07-15T12:50:34,434 ------------------------------------------------------------ 2021-07-15T12:50:34,434 ... 2021-07-15T12:50:34,434 d2q[1, i, 0, :] = self.work1[5, i, 0, :] 2021-07-15T12:50:34,434 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,435 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,435 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,435 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,435 ^ 2021-07-15T12:50:34,435 ------------------------------------------------------------ 2021-07-15T12:50:34,435 sella/internal/int_classes.pyx:470:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,436 Error compiling Cython file: 2021-07-15T12:50:34,436 ------------------------------------------------------------ 2021-07-15T12:50:34,436 ... 2021-07-15T12:50:34,436 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,436 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,436 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,436 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,436 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,437 ^ 2021-07-15T12:50:34,437 ------------------------------------------------------------ 2021-07-15T12:50:34,437 sella/internal/int_classes.pyx:471:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,437 Error compiling Cython file: 2021-07-15T12:50:34,437 ------------------------------------------------------------ 2021-07-15T12:50:34,437 ... 2021-07-15T12:50:34,437 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,438 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,438 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,438 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,438 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,438 ^ 2021-07-15T12:50:34,438 ------------------------------------------------------------ 2021-07-15T12:50:34,438 sella/internal/int_classes.pyx:471:40: Indexing Python object not allowed without gil 2021-07-15T12:50:34,439 Error compiling Cython file: 2021-07-15T12:50:34,439 ------------------------------------------------------------ 2021-07-15T12:50:34,439 ... 2021-07-15T12:50:34,439 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,439 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,439 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,440 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,440 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,440 ^ 2021-07-15T12:50:34,440 ------------------------------------------------------------ 2021-07-15T12:50:34,440 sella/internal/int_classes.pyx:471:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,440 Error compiling Cython file: 2021-07-15T12:50:34,440 ------------------------------------------------------------ 2021-07-15T12:50:34,441 ... 2021-07-15T12:50:34,441 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,441 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,441 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,441 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,441 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,441 ^ 2021-07-15T12:50:34,441 ------------------------------------------------------------ 2021-07-15T12:50:34,442 sella/internal/int_classes.pyx:471:40: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,442 Error compiling Cython file: 2021-07-15T12:50:34,442 ------------------------------------------------------------ 2021-07-15T12:50:34,442 ... 2021-07-15T12:50:34,442 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,442 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,443 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,443 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,443 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,443 ^ 2021-07-15T12:50:34,443 ------------------------------------------------------------ 2021-07-15T12:50:34,443 sella/internal/int_classes.pyx:471:44: Converting to Python object not allowed without gil 2021-07-15T12:50:34,444 Error compiling Cython file: 2021-07-15T12:50:34,444 ------------------------------------------------------------ 2021-07-15T12:50:34,444 ... 2021-07-15T12:50:34,444 d2q[1, i, 1, :] = self.work1[5, i, 1, :] 2021-07-15T12:50:34,444 d2q[1, i, 3, :] = self.work1[5, i, 2, :] 2021-07-15T12:50:34,444 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,444 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,445 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,445 ^ 2021-07-15T12:50:34,445 ------------------------------------------------------------ 2021-07-15T12:50:34,445 sella/internal/int_classes.pyx:471:40: Constructing Python slice object not allowed without gil 2021-07-15T12:50:34,445 Error compiling Cython file: 2021-07-15T12:50:34,445 ------------------------------------------------------------ 2021-07-15T12:50:34,445 ... 2021-07-15T12:50:34,446 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,446 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,446 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,446 for i in range(3): 2021-07-15T12:50:34,446 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,446 ^ 2021-07-15T12:50:34,446 ------------------------------------------------------------ 2021-07-15T12:50:34,447 sella/internal/int_classes.pyx:474:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,447 Error compiling Cython file: 2021-07-15T12:50:34,447 ------------------------------------------------------------ 2021-07-15T12:50:34,447 ... 2021-07-15T12:50:34,447 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,447 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,447 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,448 for i in range(3): 2021-07-15T12:50:34,448 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,448 ^ 2021-07-15T12:50:34,448 ------------------------------------------------------------ 2021-07-15T12:50:34,448 sella/internal/int_classes.pyx:474:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,448 Error compiling Cython file: 2021-07-15T12:50:34,449 ------------------------------------------------------------ 2021-07-15T12:50:34,449 ... 2021-07-15T12:50:34,449 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,449 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,449 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,449 for i in range(3): 2021-07-15T12:50:34,449 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,450 ^ 2021-07-15T12:50:34,450 ------------------------------------------------------------ 2021-07-15T12:50:34,450 sella/internal/int_classes.pyx:474:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,450 Error compiling Cython file: 2021-07-15T12:50:34,450 ------------------------------------------------------------ 2021-07-15T12:50:34,450 ... 2021-07-15T12:50:34,450 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,451 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,451 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,451 for i in range(3): 2021-07-15T12:50:34,451 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,451 ^ 2021-07-15T12:50:34,451 ------------------------------------------------------------ 2021-07-15T12:50:34,452 sella/internal/int_classes.pyx:474:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,452 Error compiling Cython file: 2021-07-15T12:50:34,452 ------------------------------------------------------------ 2021-07-15T12:50:34,452 ... 2021-07-15T12:50:34,452 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,452 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,452 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,453 for i in range(3): 2021-07-15T12:50:34,453 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,453 ^ 2021-07-15T12:50:34,453 ------------------------------------------------------------ 2021-07-15T12:50:34,453 sella/internal/int_classes.pyx:474:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,453 Error compiling Cython file: 2021-07-15T12:50:34,453 ------------------------------------------------------------ 2021-07-15T12:50:34,454 ... 2021-07-15T12:50:34,454 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,454 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,454 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,454 for i in range(3): 2021-07-15T12:50:34,454 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,454 ^ 2021-07-15T12:50:34,455 ------------------------------------------------------------ 2021-07-15T12:50:34,455 sella/internal/int_classes.pyx:474:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,455 Error compiling Cython file: 2021-07-15T12:50:34,455 ------------------------------------------------------------ 2021-07-15T12:50:34,455 ... 2021-07-15T12:50:34,455 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,455 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,456 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,456 for i in range(3): 2021-07-15T12:50:34,456 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,456 ^ 2021-07-15T12:50:34,456 ------------------------------------------------------------ 2021-07-15T12:50:34,456 sella/internal/int_classes.pyx:474:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,457 Error compiling Cython file: 2021-07-15T12:50:34,457 ------------------------------------------------------------ 2021-07-15T12:50:34,457 ... 2021-07-15T12:50:34,457 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,457 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,458 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,458 for i in range(3): 2021-07-15T12:50:34,458 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,458 ^ 2021-07-15T12:50:34,458 ------------------------------------------------------------ 2021-07-15T12:50:34,459 sella/internal/int_classes.pyx:474:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,459 Error compiling Cython file: 2021-07-15T12:50:34,459 ------------------------------------------------------------ 2021-07-15T12:50:34,459 ... 2021-07-15T12:50:34,459 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,459 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,459 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,460 for i in range(3): 2021-07-15T12:50:34,460 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,460 ^ 2021-07-15T12:50:34,460 ------------------------------------------------------------ 2021-07-15T12:50:34,460 sella/internal/int_classes.pyx:474:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,461 Error compiling Cython file: 2021-07-15T12:50:34,461 ------------------------------------------------------------ 2021-07-15T12:50:34,461 ... 2021-07-15T12:50:34,461 d2q[3, i, 0, :] = self.work1[6, i, 0, :] 2021-07-15T12:50:34,461 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,461 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,461 for i in range(3): 2021-07-15T12:50:34,461 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,462 ^ 2021-07-15T12:50:34,462 ------------------------------------------------------------ 2021-07-15T12:50:34,462 sella/internal/int_classes.pyx:474:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,462 Error compiling Cython file: 2021-07-15T12:50:34,462 ------------------------------------------------------------ 2021-07-15T12:50:34,462 ... 2021-07-15T12:50:34,462 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,463 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,463 for i in range(3): 2021-07-15T12:50:34,463 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,463 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,463 ^ 2021-07-15T12:50:34,463 ------------------------------------------------------------ 2021-07-15T12:50:34,463 sella/internal/int_classes.pyx:475:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,464 Error compiling Cython file: 2021-07-15T12:50:34,464 ------------------------------------------------------------ 2021-07-15T12:50:34,464 ... 2021-07-15T12:50:34,464 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,464 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,464 for i in range(3): 2021-07-15T12:50:34,464 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,464 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,464 ^ 2021-07-15T12:50:34,465 ------------------------------------------------------------ 2021-07-15T12:50:34,465 sella/internal/int_classes.pyx:475:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,465 Error compiling Cython file: 2021-07-15T12:50:34,465 ------------------------------------------------------------ 2021-07-15T12:50:34,465 ... 2021-07-15T12:50:34,465 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,465 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,466 for i in range(3): 2021-07-15T12:50:34,466 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,466 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,466 ^ 2021-07-15T12:50:34,466 ------------------------------------------------------------ 2021-07-15T12:50:34,466 sella/internal/int_classes.pyx:475:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,466 Error compiling Cython file: 2021-07-15T12:50:34,467 ------------------------------------------------------------ 2021-07-15T12:50:34,467 ... 2021-07-15T12:50:34,467 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,467 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,467 for i in range(3): 2021-07-15T12:50:34,467 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,467 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,467 ^ 2021-07-15T12:50:34,467 ------------------------------------------------------------ 2021-07-15T12:50:34,468 sella/internal/int_classes.pyx:475:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,468 Error compiling Cython file: 2021-07-15T12:50:34,468 ------------------------------------------------------------ 2021-07-15T12:50:34,468 ... 2021-07-15T12:50:34,468 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,468 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,468 for i in range(3): 2021-07-15T12:50:34,469 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,469 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,469 ^ 2021-07-15T12:50:34,469 ------------------------------------------------------------ 2021-07-15T12:50:34,469 sella/internal/int_classes.pyx:475:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,469 Error compiling Cython file: 2021-07-15T12:50:34,469 ------------------------------------------------------------ 2021-07-15T12:50:34,469 ... 2021-07-15T12:50:34,470 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,470 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,470 for i in range(3): 2021-07-15T12:50:34,470 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,470 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,470 ^ 2021-07-15T12:50:34,470 ------------------------------------------------------------ 2021-07-15T12:50:34,470 sella/internal/int_classes.pyx:475:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,471 Error compiling Cython file: 2021-07-15T12:50:34,471 ------------------------------------------------------------ 2021-07-15T12:50:34,471 ... 2021-07-15T12:50:34,471 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,471 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,471 for i in range(3): 2021-07-15T12:50:34,472 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,472 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,472 ^ 2021-07-15T12:50:34,472 ------------------------------------------------------------ 2021-07-15T12:50:34,472 sella/internal/int_classes.pyx:475:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,472 Error compiling Cython file: 2021-07-15T12:50:34,472 ------------------------------------------------------------ 2021-07-15T12:50:34,473 ... 2021-07-15T12:50:34,473 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,473 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,473 for i in range(3): 2021-07-15T12:50:34,473 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,473 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,473 ^ 2021-07-15T12:50:34,473 ------------------------------------------------------------ 2021-07-15T12:50:34,474 sella/internal/int_classes.pyx:475:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,474 Error compiling Cython file: 2021-07-15T12:50:34,474 ------------------------------------------------------------ 2021-07-15T12:50:34,474 ... 2021-07-15T12:50:34,474 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,474 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,475 for i in range(3): 2021-07-15T12:50:34,475 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,475 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,475 ^ 2021-07-15T12:50:34,475 ------------------------------------------------------------ 2021-07-15T12:50:34,475 sella/internal/int_classes.pyx:475:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,476 Error compiling Cython file: 2021-07-15T12:50:34,476 ------------------------------------------------------------ 2021-07-15T12:50:34,476 ... 2021-07-15T12:50:34,476 d2q[3, i, 1, :] = self.work1[6, i, 1, :] 2021-07-15T12:50:34,476 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,476 for i in range(3): 2021-07-15T12:50:34,476 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,476 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,477 ^ 2021-07-15T12:50:34,477 ------------------------------------------------------------ 2021-07-15T12:50:34,477 sella/internal/int_classes.pyx:475:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,477 Error compiling Cython file: 2021-07-15T12:50:34,477 ------------------------------------------------------------ 2021-07-15T12:50:34,477 ... 2021-07-15T12:50:34,478 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,478 for i in range(3): 2021-07-15T12:50:34,478 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,478 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,478 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,478 ^ 2021-07-15T12:50:34,478 ------------------------------------------------------------ 2021-07-15T12:50:34,479 sella/internal/int_classes.pyx:476:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,479 Error compiling Cython file: 2021-07-15T12:50:34,479 ------------------------------------------------------------ 2021-07-15T12:50:34,479 ... 2021-07-15T12:50:34,479 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,479 for i in range(3): 2021-07-15T12:50:34,479 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,480 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,480 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,480 ^ 2021-07-15T12:50:34,480 ------------------------------------------------------------ 2021-07-15T12:50:34,480 sella/internal/int_classes.pyx:476:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,480 Error compiling Cython file: 2021-07-15T12:50:34,480 ------------------------------------------------------------ 2021-07-15T12:50:34,481 ... 2021-07-15T12:50:34,481 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,481 for i in range(3): 2021-07-15T12:50:34,481 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,481 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,482 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,482 ^ 2021-07-15T12:50:34,482 ------------------------------------------------------------ 2021-07-15T12:50:34,482 sella/internal/int_classes.pyx:476:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,482 Error compiling Cython file: 2021-07-15T12:50:34,483 ------------------------------------------------------------ 2021-07-15T12:50:34,483 ... 2021-07-15T12:50:34,483 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,483 for i in range(3): 2021-07-15T12:50:34,483 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,483 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,484 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,484 ^ 2021-07-15T12:50:34,484 ------------------------------------------------------------ 2021-07-15T12:50:34,484 sella/internal/int_classes.pyx:476:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,484 Error compiling Cython file: 2021-07-15T12:50:34,484 ------------------------------------------------------------ 2021-07-15T12:50:34,484 ... 2021-07-15T12:50:34,485 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,485 for i in range(3): 2021-07-15T12:50:34,485 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,485 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,485 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,485 ^ 2021-07-15T12:50:34,485 ------------------------------------------------------------ 2021-07-15T12:50:34,486 sella/internal/int_classes.pyx:476:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,486 Error compiling Cython file: 2021-07-15T12:50:34,486 ------------------------------------------------------------ 2021-07-15T12:50:34,486 ... 2021-07-15T12:50:34,486 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,486 for i in range(3): 2021-07-15T12:50:34,487 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,487 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,487 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,487 ^ 2021-07-15T12:50:34,487 ------------------------------------------------------------ 2021-07-15T12:50:34,487 sella/internal/int_classes.pyx:476:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,488 Error compiling Cython file: 2021-07-15T12:50:34,488 ------------------------------------------------------------ 2021-07-15T12:50:34,488 ... 2021-07-15T12:50:34,488 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,488 for i in range(3): 2021-07-15T12:50:34,488 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,488 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,488 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,489 ^ 2021-07-15T12:50:34,489 ------------------------------------------------------------ 2021-07-15T12:50:34,489 sella/internal/int_classes.pyx:476:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,489 Error compiling Cython file: 2021-07-15T12:50:34,489 ------------------------------------------------------------ 2021-07-15T12:50:34,489 ... 2021-07-15T12:50:34,489 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,490 for i in range(3): 2021-07-15T12:50:34,490 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,490 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,490 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,490 ^ 2021-07-15T12:50:34,490 ------------------------------------------------------------ 2021-07-15T12:50:34,491 sella/internal/int_classes.pyx:476:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,491 Error compiling Cython file: 2021-07-15T12:50:34,491 ------------------------------------------------------------ 2021-07-15T12:50:34,491 ... 2021-07-15T12:50:34,491 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,491 for i in range(3): 2021-07-15T12:50:34,491 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,492 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,492 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,492 ^ 2021-07-15T12:50:34,492 ------------------------------------------------------------ 2021-07-15T12:50:34,492 sella/internal/int_classes.pyx:476:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,492 Error compiling Cython file: 2021-07-15T12:50:34,493 ------------------------------------------------------------ 2021-07-15T12:50:34,493 ... 2021-07-15T12:50:34,493 d2q[3, i, 3, :] = self.work1[6, i, 2, :] 2021-07-15T12:50:34,493 for i in range(3): 2021-07-15T12:50:34,493 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,493 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,493 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,493 ^ 2021-07-15T12:50:34,494 ------------------------------------------------------------ 2021-07-15T12:50:34,494 sella/internal/int_classes.pyx:476:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,494 Error compiling Cython file: 2021-07-15T12:50:34,494 ------------------------------------------------------------ 2021-07-15T12:50:34,494 ... 2021-07-15T12:50:34,494 for i in range(3): 2021-07-15T12:50:34,494 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,495 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,495 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,495 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,495 ^ 2021-07-15T12:50:34,495 ------------------------------------------------------------ 2021-07-15T12:50:34,495 sella/internal/int_classes.pyx:478:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,496 Error compiling Cython file: 2021-07-15T12:50:34,496 ------------------------------------------------------------ 2021-07-15T12:50:34,496 ... 2021-07-15T12:50:34,496 for i in range(3): 2021-07-15T12:50:34,496 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,496 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,496 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,497 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,497 ^ 2021-07-15T12:50:34,497 ------------------------------------------------------------ 2021-07-15T12:50:34,497 sella/internal/int_classes.pyx:478:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,497 Error compiling Cython file: 2021-07-15T12:50:34,497 ------------------------------------------------------------ 2021-07-15T12:50:34,498 ... 2021-07-15T12:50:34,498 for i in range(3): 2021-07-15T12:50:34,498 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,498 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,498 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,498 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,498 ^ 2021-07-15T12:50:34,498 ------------------------------------------------------------ 2021-07-15T12:50:34,499 sella/internal/int_classes.pyx:478:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,499 Error compiling Cython file: 2021-07-15T12:50:34,499 ------------------------------------------------------------ 2021-07-15T12:50:34,499 ... 2021-07-15T12:50:34,499 for i in range(3): 2021-07-15T12:50:34,499 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,500 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,500 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,500 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,500 ^ 2021-07-15T12:50:34,500 ------------------------------------------------------------ 2021-07-15T12:50:34,500 sella/internal/int_classes.pyx:478:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,501 Error compiling Cython file: 2021-07-15T12:50:34,501 ------------------------------------------------------------ 2021-07-15T12:50:34,501 ... 2021-07-15T12:50:34,501 for i in range(3): 2021-07-15T12:50:34,501 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,501 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,501 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,501 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,502 ^ 2021-07-15T12:50:34,502 ------------------------------------------------------------ 2021-07-15T12:50:34,502 sella/internal/int_classes.pyx:478:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,502 Error compiling Cython file: 2021-07-15T12:50:34,502 ------------------------------------------------------------ 2021-07-15T12:50:34,502 ... 2021-07-15T12:50:34,503 for i in range(3): 2021-07-15T12:50:34,503 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,503 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,503 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,503 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,503 ^ 2021-07-15T12:50:34,503 ------------------------------------------------------------ 2021-07-15T12:50:34,504 sella/internal/int_classes.pyx:478:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,504 Error compiling Cython file: 2021-07-15T12:50:34,504 ------------------------------------------------------------ 2021-07-15T12:50:34,504 ... 2021-07-15T12:50:34,504 for i in range(3): 2021-07-15T12:50:34,504 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,504 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,504 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,505 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,505 ^ 2021-07-15T12:50:34,505 ------------------------------------------------------------ 2021-07-15T12:50:34,505 sella/internal/int_classes.pyx:478:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,505 Error compiling Cython file: 2021-07-15T12:50:34,506 ------------------------------------------------------------ 2021-07-15T12:50:34,506 ... 2021-07-15T12:50:34,506 for i in range(3): 2021-07-15T12:50:34,506 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,506 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,506 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,507 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,507 ^ 2021-07-15T12:50:34,507 ------------------------------------------------------------ 2021-07-15T12:50:34,507 sella/internal/int_classes.pyx:478:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,508 Error compiling Cython file: 2021-07-15T12:50:34,508 ------------------------------------------------------------ 2021-07-15T12:50:34,508 ... 2021-07-15T12:50:34,508 for i in range(3): 2021-07-15T12:50:34,508 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,508 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,508 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,509 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,509 ^ 2021-07-15T12:50:34,509 ------------------------------------------------------------ 2021-07-15T12:50:34,509 sella/internal/int_classes.pyx:478:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,509 Error compiling Cython file: 2021-07-15T12:50:34,509 ------------------------------------------------------------ 2021-07-15T12:50:34,510 ... 2021-07-15T12:50:34,510 for i in range(3): 2021-07-15T12:50:34,510 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,510 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,510 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,510 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,510 ^ 2021-07-15T12:50:34,511 ------------------------------------------------------------ 2021-07-15T12:50:34,511 sella/internal/int_classes.pyx:478:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,511 Error compiling Cython file: 2021-07-15T12:50:34,511 ------------------------------------------------------------ 2021-07-15T12:50:34,511 ... 2021-07-15T12:50:34,511 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,511 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,512 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,512 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,512 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,512 ^ 2021-07-15T12:50:34,512 ------------------------------------------------------------ 2021-07-15T12:50:34,512 sella/internal/int_classes.pyx:479:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,513 Error compiling Cython file: 2021-07-15T12:50:34,513 ------------------------------------------------------------ 2021-07-15T12:50:34,513 ... 2021-07-15T12:50:34,513 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,513 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,513 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,513 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,514 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,514 ^ 2021-07-15T12:50:34,514 ------------------------------------------------------------ 2021-07-15T12:50:34,514 sella/internal/int_classes.pyx:479:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,514 Error compiling Cython file: 2021-07-15T12:50:34,514 ------------------------------------------------------------ 2021-07-15T12:50:34,514 ... 2021-07-15T12:50:34,515 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,515 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,515 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,515 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,515 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,515 ^ 2021-07-15T12:50:34,515 ------------------------------------------------------------ 2021-07-15T12:50:34,516 sella/internal/int_classes.pyx:479:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,516 Error compiling Cython file: 2021-07-15T12:50:34,516 ------------------------------------------------------------ 2021-07-15T12:50:34,516 ... 2021-07-15T12:50:34,516 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,516 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,516 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,517 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,517 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,517 ^ 2021-07-15T12:50:34,517 ------------------------------------------------------------ 2021-07-15T12:50:34,517 sella/internal/int_classes.pyx:479:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,518 Error compiling Cython file: 2021-07-15T12:50:34,518 ------------------------------------------------------------ 2021-07-15T12:50:34,518 ... 2021-07-15T12:50:34,518 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,518 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,518 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,518 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,518 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,519 ^ 2021-07-15T12:50:34,519 ------------------------------------------------------------ 2021-07-15T12:50:34,519 sella/internal/int_classes.pyx:479:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,519 Error compiling Cython file: 2021-07-15T12:50:34,519 ------------------------------------------------------------ 2021-07-15T12:50:34,519 ... 2021-07-15T12:50:34,519 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,520 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,520 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,520 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,520 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,520 ^ 2021-07-15T12:50:34,520 ------------------------------------------------------------ 2021-07-15T12:50:34,520 sella/internal/int_classes.pyx:479:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,521 Error compiling Cython file: 2021-07-15T12:50:34,521 ------------------------------------------------------------ 2021-07-15T12:50:34,521 ... 2021-07-15T12:50:34,521 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,521 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,521 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,522 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,522 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,522 ^ 2021-07-15T12:50:34,522 ------------------------------------------------------------ 2021-07-15T12:50:34,522 sella/internal/int_classes.pyx:479:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,522 Error compiling Cython file: 2021-07-15T12:50:34,523 ------------------------------------------------------------ 2021-07-15T12:50:34,523 ... 2021-07-15T12:50:34,523 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,523 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,523 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,523 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,523 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,523 ^ 2021-07-15T12:50:34,524 ------------------------------------------------------------ 2021-07-15T12:50:34,524 sella/internal/int_classes.pyx:479:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,524 Error compiling Cython file: 2021-07-15T12:50:34,524 ------------------------------------------------------------ 2021-07-15T12:50:34,524 ... 2021-07-15T12:50:34,524 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,525 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,525 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,525 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,525 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,525 ^ 2021-07-15T12:50:34,525 ------------------------------------------------------------ 2021-07-15T12:50:34,525 sella/internal/int_classes.pyx:479:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,526 Error compiling Cython file: 2021-07-15T12:50:34,526 ------------------------------------------------------------ 2021-07-15T12:50:34,526 ... 2021-07-15T12:50:34,526 my_daxpy(sign, self.work1[7, i, 0], d2q[2, i, 2]) 2021-07-15T12:50:34,526 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,526 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,526 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,527 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,527 ^ 2021-07-15T12:50:34,527 ------------------------------------------------------------ 2021-07-15T12:50:34,527 sella/internal/int_classes.pyx:479:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,527 Error compiling Cython file: 2021-07-15T12:50:34,527 ------------------------------------------------------------ 2021-07-15T12:50:34,528 ... 2021-07-15T12:50:34,528 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,528 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,528 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,528 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,528 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,528 ^ 2021-07-15T12:50:34,528 ------------------------------------------------------------ 2021-07-15T12:50:34,529 sella/internal/int_classes.pyx:480:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,529 Error compiling Cython file: 2021-07-15T12:50:34,529 ------------------------------------------------------------ 2021-07-15T12:50:34,529 ... 2021-07-15T12:50:34,529 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,530 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,530 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,530 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,530 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,530 ^ 2021-07-15T12:50:34,530 ------------------------------------------------------------ 2021-07-15T12:50:34,531 sella/internal/int_classes.pyx:480:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,531 Error compiling Cython file: 2021-07-15T12:50:34,531 ------------------------------------------------------------ 2021-07-15T12:50:34,531 ... 2021-07-15T12:50:34,531 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,532 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,532 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,532 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,532 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,532 ^ 2021-07-15T12:50:34,532 ------------------------------------------------------------ 2021-07-15T12:50:34,533 sella/internal/int_classes.pyx:480:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,533 Error compiling Cython file: 2021-07-15T12:50:34,533 ------------------------------------------------------------ 2021-07-15T12:50:34,533 ... 2021-07-15T12:50:34,533 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,533 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,533 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,534 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,534 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,534 ^ 2021-07-15T12:50:34,534 ------------------------------------------------------------ 2021-07-15T12:50:34,534 sella/internal/int_classes.pyx:480:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,534 Error compiling Cython file: 2021-07-15T12:50:34,535 ------------------------------------------------------------ 2021-07-15T12:50:34,535 ... 2021-07-15T12:50:34,535 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,535 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,535 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,535 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,535 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,536 ^ 2021-07-15T12:50:34,536 ------------------------------------------------------------ 2021-07-15T12:50:34,536 sella/internal/int_classes.pyx:480:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,536 Error compiling Cython file: 2021-07-15T12:50:34,536 ------------------------------------------------------------ 2021-07-15T12:50:34,536 ... 2021-07-15T12:50:34,536 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,537 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,537 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,537 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,537 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,537 ^ 2021-07-15T12:50:34,537 ------------------------------------------------------------ 2021-07-15T12:50:34,537 sella/internal/int_classes.pyx:480:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,538 Error compiling Cython file: 2021-07-15T12:50:34,538 ------------------------------------------------------------ 2021-07-15T12:50:34,538 ... 2021-07-15T12:50:34,538 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,538 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,538 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,539 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,539 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,539 ^ 2021-07-15T12:50:34,539 ------------------------------------------------------------ 2021-07-15T12:50:34,539 sella/internal/int_classes.pyx:480:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,539 Error compiling Cython file: 2021-07-15T12:50:34,539 ------------------------------------------------------------ 2021-07-15T12:50:34,540 ... 2021-07-15T12:50:34,540 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,540 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,540 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,540 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,540 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,540 ^ 2021-07-15T12:50:34,540 ------------------------------------------------------------ 2021-07-15T12:50:34,541 sella/internal/int_classes.pyx:480:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,541 Error compiling Cython file: 2021-07-15T12:50:34,541 ------------------------------------------------------------ 2021-07-15T12:50:34,541 ... 2021-07-15T12:50:34,541 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,541 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,542 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,542 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,542 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,542 ^ 2021-07-15T12:50:34,542 ------------------------------------------------------------ 2021-07-15T12:50:34,542 sella/internal/int_classes.pyx:480:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,542 Error compiling Cython file: 2021-07-15T12:50:34,543 ------------------------------------------------------------ 2021-07-15T12:50:34,543 ... 2021-07-15T12:50:34,543 my_daxpy(sign, self.work1[7, i, 1], d2q[2, i, 1]) 2021-07-15T12:50:34,543 my_daxpy(sign, self.work1[7, i, 2], d2q[2, i, 3]) 2021-07-15T12:50:34,543 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,543 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,543 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,544 ^ 2021-07-15T12:50:34,544 ------------------------------------------------------------ 2021-07-15T12:50:34,544 sella/internal/int_classes.pyx:480:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,544 Error compiling Cython file: 2021-07-15T12:50:34,544 ------------------------------------------------------------ 2021-07-15T12:50:34,544 ... 2021-07-15T12:50:34,545 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,545 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,545 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,545 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,545 ^ 2021-07-15T12:50:34,545 ------------------------------------------------------------ 2021-07-15T12:50:34,546 sella/internal/int_classes.pyx:482:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,546 Error compiling Cython file: 2021-07-15T12:50:34,546 ------------------------------------------------------------ 2021-07-15T12:50:34,546 ... 2021-07-15T12:50:34,546 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,546 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,546 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,547 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,547 ^ 2021-07-15T12:50:34,547 ------------------------------------------------------------ 2021-07-15T12:50:34,547 sella/internal/int_classes.pyx:482:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,547 Error compiling Cython file: 2021-07-15T12:50:34,547 ------------------------------------------------------------ 2021-07-15T12:50:34,548 ... 2021-07-15T12:50:34,548 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,548 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,548 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,548 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,548 ^ 2021-07-15T12:50:34,549 ------------------------------------------------------------ 2021-07-15T12:50:34,549 sella/internal/int_classes.pyx:482:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,549 Error compiling Cython file: 2021-07-15T12:50:34,549 ------------------------------------------------------------ 2021-07-15T12:50:34,549 ... 2021-07-15T12:50:34,549 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,550 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,550 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,550 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,550 ^ 2021-07-15T12:50:34,550 ------------------------------------------------------------ 2021-07-15T12:50:34,550 sella/internal/int_classes.pyx:482:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,551 Error compiling Cython file: 2021-07-15T12:50:34,551 ------------------------------------------------------------ 2021-07-15T12:50:34,551 ... 2021-07-15T12:50:34,551 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,551 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,551 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,552 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,552 ^ 2021-07-15T12:50:34,552 ------------------------------------------------------------ 2021-07-15T12:50:34,552 sella/internal/int_classes.pyx:482:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,552 Error compiling Cython file: 2021-07-15T12:50:34,552 ------------------------------------------------------------ 2021-07-15T12:50:34,552 ... 2021-07-15T12:50:34,553 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,553 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,553 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,553 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,553 ^ 2021-07-15T12:50:34,553 ------------------------------------------------------------ 2021-07-15T12:50:34,554 sella/internal/int_classes.pyx:482:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,554 Error compiling Cython file: 2021-07-15T12:50:34,554 ------------------------------------------------------------ 2021-07-15T12:50:34,554 ... 2021-07-15T12:50:34,555 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,555 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,555 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,555 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,555 ^ 2021-07-15T12:50:34,556 ------------------------------------------------------------ 2021-07-15T12:50:34,556 sella/internal/int_classes.pyx:482:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,556 Error compiling Cython file: 2021-07-15T12:50:34,556 ------------------------------------------------------------ 2021-07-15T12:50:34,556 ... 2021-07-15T12:50:34,557 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,557 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,557 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,557 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,557 ^ 2021-07-15T12:50:34,557 ------------------------------------------------------------ 2021-07-15T12:50:34,558 sella/internal/int_classes.pyx:482:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,558 Error compiling Cython file: 2021-07-15T12:50:34,558 ------------------------------------------------------------ 2021-07-15T12:50:34,558 ... 2021-07-15T12:50:34,559 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,559 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,559 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,559 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,559 ^ 2021-07-15T12:50:34,559 ------------------------------------------------------------ 2021-07-15T12:50:34,560 sella/internal/int_classes.pyx:482:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,560 Error compiling Cython file: 2021-07-15T12:50:34,560 ------------------------------------------------------------ 2021-07-15T12:50:34,560 ... 2021-07-15T12:50:34,561 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,561 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,561 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,561 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,561 ^ 2021-07-15T12:50:34,561 ------------------------------------------------------------ 2021-07-15T12:50:34,562 sella/internal/int_classes.pyx:482:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,562 Error compiling Cython file: 2021-07-15T12:50:34,562 ------------------------------------------------------------ 2021-07-15T12:50:34,562 ... 2021-07-15T12:50:34,562 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,563 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,563 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,563 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,563 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,563 ^ 2021-07-15T12:50:34,563 ------------------------------------------------------------ 2021-07-15T12:50:34,564 sella/internal/int_classes.pyx:483:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,564 Error compiling Cython file: 2021-07-15T12:50:34,564 ------------------------------------------------------------ 2021-07-15T12:50:34,564 ... 2021-07-15T12:50:34,564 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,565 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,565 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,565 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,565 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,565 ^ 2021-07-15T12:50:34,565 ------------------------------------------------------------ 2021-07-15T12:50:34,566 sella/internal/int_classes.pyx:483:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,566 Error compiling Cython file: 2021-07-15T12:50:34,566 ------------------------------------------------------------ 2021-07-15T12:50:34,566 ... 2021-07-15T12:50:34,566 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,566 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,566 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,567 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,567 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,567 ^ 2021-07-15T12:50:34,567 ------------------------------------------------------------ 2021-07-15T12:50:34,567 sella/internal/int_classes.pyx:483:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,567 Error compiling Cython file: 2021-07-15T12:50:34,568 ------------------------------------------------------------ 2021-07-15T12:50:34,568 ... 2021-07-15T12:50:34,568 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,568 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,568 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,568 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,568 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,568 ^ 2021-07-15T12:50:34,569 ------------------------------------------------------------ 2021-07-15T12:50:34,569 sella/internal/int_classes.pyx:483:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,569 Error compiling Cython file: 2021-07-15T12:50:34,569 ------------------------------------------------------------ 2021-07-15T12:50:34,569 ... 2021-07-15T12:50:34,569 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,569 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,570 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,570 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,570 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,570 ^ 2021-07-15T12:50:34,570 ------------------------------------------------------------ 2021-07-15T12:50:34,570 sella/internal/int_classes.pyx:483:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,571 Error compiling Cython file: 2021-07-15T12:50:34,571 ------------------------------------------------------------ 2021-07-15T12:50:34,571 ... 2021-07-15T12:50:34,571 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,571 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,571 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,572 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,572 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,572 ^ 2021-07-15T12:50:34,572 ------------------------------------------------------------ 2021-07-15T12:50:34,572 sella/internal/int_classes.pyx:483:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,572 Error compiling Cython file: 2021-07-15T12:50:34,572 ------------------------------------------------------------ 2021-07-15T12:50:34,573 ... 2021-07-15T12:50:34,573 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,573 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,573 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,573 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,573 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,573 ^ 2021-07-15T12:50:34,573 ------------------------------------------------------------ 2021-07-15T12:50:34,574 sella/internal/int_classes.pyx:483:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,574 Error compiling Cython file: 2021-07-15T12:50:34,574 ------------------------------------------------------------ 2021-07-15T12:50:34,574 ... 2021-07-15T12:50:34,574 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,574 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,574 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,575 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,575 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,575 ^ 2021-07-15T12:50:34,575 ------------------------------------------------------------ 2021-07-15T12:50:34,575 sella/internal/int_classes.pyx:483:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,576 Error compiling Cython file: 2021-07-15T12:50:34,576 ------------------------------------------------------------ 2021-07-15T12:50:34,576 ... 2021-07-15T12:50:34,576 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,576 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,576 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,576 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,577 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,577 ^ 2021-07-15T12:50:34,577 ------------------------------------------------------------ 2021-07-15T12:50:34,577 sella/internal/int_classes.pyx:483:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,577 Error compiling Cython file: 2021-07-15T12:50:34,577 ------------------------------------------------------------ 2021-07-15T12:50:34,577 ... 2021-07-15T12:50:34,578 my_daxpy(sign, self.work1[8, i, 0], d2q[1, i, 2]) 2021-07-15T12:50:34,578 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,578 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,578 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,578 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,578 ^ 2021-07-15T12:50:34,578 ------------------------------------------------------------ 2021-07-15T12:50:34,579 sella/internal/int_classes.pyx:483:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,579 Error compiling Cython file: 2021-07-15T12:50:34,579 ------------------------------------------------------------ 2021-07-15T12:50:34,579 ... 2021-07-15T12:50:34,579 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,580 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,580 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,580 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,580 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,580 ^ 2021-07-15T12:50:34,580 ------------------------------------------------------------ 2021-07-15T12:50:34,581 sella/internal/int_classes.pyx:484:20: Discarding owned Python object not allowed without gil 2021-07-15T12:50:34,581 Error compiling Cython file: 2021-07-15T12:50:34,581 ------------------------------------------------------------ 2021-07-15T12:50:34,581 ... 2021-07-15T12:50:34,581 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,582 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,582 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,582 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,582 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,582 ^ 2021-07-15T12:50:34,582 ------------------------------------------------------------ 2021-07-15T12:50:34,583 sella/internal/int_classes.pyx:484:20: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,583 Error compiling Cython file: 2021-07-15T12:50:34,583 ------------------------------------------------------------ 2021-07-15T12:50:34,583 ... 2021-07-15T12:50:34,583 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,583 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,583 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,584 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,584 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,584 ^ 2021-07-15T12:50:34,584 ------------------------------------------------------------ 2021-07-15T12:50:34,584 sella/internal/int_classes.pyx:484:12: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,584 Error compiling Cython file: 2021-07-15T12:50:34,584 ------------------------------------------------------------ 2021-07-15T12:50:34,585 ... 2021-07-15T12:50:34,585 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,585 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,585 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,585 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,585 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,585 ^ 2021-07-15T12:50:34,586 ------------------------------------------------------------ 2021-07-15T12:50:34,586 sella/internal/int_classes.pyx:484:20: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,586 Error compiling Cython file: 2021-07-15T12:50:34,586 ------------------------------------------------------------ 2021-07-15T12:50:34,586 ... 2021-07-15T12:50:34,586 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,586 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,587 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,587 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,587 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,587 ^ 2021-07-15T12:50:34,587 ------------------------------------------------------------ 2021-07-15T12:50:34,587 sella/internal/int_classes.pyx:484:21: Converting to Python object not allowed without gil 2021-07-15T12:50:34,588 Error compiling Cython file: 2021-07-15T12:50:34,588 ------------------------------------------------------------ 2021-07-15T12:50:34,588 ... 2021-07-15T12:50:34,588 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,588 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,588 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,588 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,589 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,589 ^ 2021-07-15T12:50:34,589 ------------------------------------------------------------ 2021-07-15T12:50:34,589 sella/internal/int_classes.pyx:484:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,589 Error compiling Cython file: 2021-07-15T12:50:34,589 ------------------------------------------------------------ 2021-07-15T12:50:34,589 ... 2021-07-15T12:50:34,590 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,590 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,590 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,590 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,590 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,590 ^ 2021-07-15T12:50:34,590 ------------------------------------------------------------ 2021-07-15T12:50:34,591 sella/internal/int_classes.pyx:484:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,591 Error compiling Cython file: 2021-07-15T12:50:34,591 ------------------------------------------------------------ 2021-07-15T12:50:34,591 ... 2021-07-15T12:50:34,591 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,591 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,592 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,592 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,592 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,592 ^ 2021-07-15T12:50:34,592 ------------------------------------------------------------ 2021-07-15T12:50:34,592 sella/internal/int_classes.pyx:484:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,592 Error compiling Cython file: 2021-07-15T12:50:34,593 ------------------------------------------------------------ 2021-07-15T12:50:34,593 ... 2021-07-15T12:50:34,593 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,593 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,593 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,593 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,593 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,594 ^ 2021-07-15T12:50:34,594 ------------------------------------------------------------ 2021-07-15T12:50:34,594 sella/internal/int_classes.pyx:484:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,594 Error compiling Cython file: 2021-07-15T12:50:34,594 ------------------------------------------------------------ 2021-07-15T12:50:34,594 ... 2021-07-15T12:50:34,594 my_daxpy(sign, self.work1[8, i, 1], d2q[1, i, 1]) 2021-07-15T12:50:34,595 my_daxpy(sign, self.work1[8, i, 2], d2q[1, i, 3]) 2021-07-15T12:50:34,595 my_daxpy(sign, self.work1[9, i, 0], d2q[3, i, 2]) 2021-07-15T12:50:34,595 my_daxpy(sign, self.work1[9, i, 1], d2q[3, i, 1]) 2021-07-15T12:50:34,595 my_daxpy(sign, self.work1[9, i, 2], d2q[3, i, 3]) 2021-07-15T12:50:34,595 ^ 2021-07-15T12:50:34,595 ------------------------------------------------------------ 2021-07-15T12:50:34,596 sella/internal/int_classes.pyx:484:51: Converting to Python object not allowed without gil 2021-07-15T12:50:34,596 Error compiling Cython file: 2021-07-15T12:50:34,596 ------------------------------------------------------------ 2021-07-15T12:50:34,596 ... 2021-07-15T12:50:34,596 cdef double conv 2021-07-15T12:50:34,596 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,597 # has been released 2021-07-15T12:50:34,597 with nogil: 2021-07-15T12:50:34,597 for i in range(self.nbonds): 2021-07-15T12:50:34,597 ^ 2021-07-15T12:50:34,597 ------------------------------------------------------------ 2021-07-15T12:50:34,597 sella/internal/int_classes.pyx:522:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,597 Error compiling Cython file: 2021-07-15T12:50:34,598 ------------------------------------------------------------ 2021-07-15T12:50:34,598 ... 2021-07-15T12:50:34,598 cdef double conv 2021-07-15T12:50:34,598 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,598 # has been released 2021-07-15T12:50:34,598 with nogil: 2021-07-15T12:50:34,598 for i in range(self.nbonds): 2021-07-15T12:50:34,598 ^ 2021-07-15T12:50:34,599 ------------------------------------------------------------ 2021-07-15T12:50:34,599 sella/internal/int_classes.pyx:522:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,599 Error compiling Cython file: 2021-07-15T12:50:34,599 ------------------------------------------------------------ 2021-07-15T12:50:34,599 ... 2021-07-15T12:50:34,600 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,600 # has been released 2021-07-15T12:50:34,600 with nogil: 2021-07-15T12:50:34,600 for i in range(self.nbonds): 2021-07-15T12:50:34,600 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,600 ^ 2021-07-15T12:50:34,600 ------------------------------------------------------------ 2021-07-15T12:50:34,600 sella/internal/int_classes.pyx:523:33: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,601 Error compiling Cython file: 2021-07-15T12:50:34,601 ------------------------------------------------------------ 2021-07-15T12:50:34,601 ... 2021-07-15T12:50:34,601 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,601 # has been released 2021-07-15T12:50:34,601 with nogil: 2021-07-15T12:50:34,601 for i in range(self.nbonds): 2021-07-15T12:50:34,602 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,602 ^ 2021-07-15T12:50:34,602 ------------------------------------------------------------ 2021-07-15T12:50:34,602 sella/internal/int_classes.pyx:523:33: Indexing Python object not allowed without gil 2021-07-15T12:50:34,602 Error compiling Cython file: 2021-07-15T12:50:34,602 ------------------------------------------------------------ 2021-07-15T12:50:34,603 ... 2021-07-15T12:50:34,603 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,603 # has been released 2021-07-15T12:50:34,603 with nogil: 2021-07-15T12:50:34,603 for i in range(self.nbonds): 2021-07-15T12:50:34,603 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,603 ^ 2021-07-15T12:50:34,603 ------------------------------------------------------------ 2021-07-15T12:50:34,604 sella/internal/int_classes.pyx:523:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,604 Error compiling Cython file: 2021-07-15T12:50:34,604 ------------------------------------------------------------ 2021-07-15T12:50:34,604 ... 2021-07-15T12:50:34,605 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,605 # has been released 2021-07-15T12:50:34,605 with nogil: 2021-07-15T12:50:34,605 for i in range(self.nbonds): 2021-07-15T12:50:34,605 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,605 ^ 2021-07-15T12:50:34,606 ------------------------------------------------------------ 2021-07-15T12:50:34,606 sella/internal/int_classes.pyx:523:33: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,606 Error compiling Cython file: 2021-07-15T12:50:34,606 ------------------------------------------------------------ 2021-07-15T12:50:34,606 ... 2021-07-15T12:50:34,606 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,607 # has been released 2021-07-15T12:50:34,607 with nogil: 2021-07-15T12:50:34,607 for i in range(self.nbonds): 2021-07-15T12:50:34,607 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,607 ^ 2021-07-15T12:50:34,607 ------------------------------------------------------------ 2021-07-15T12:50:34,607 sella/internal/int_classes.pyx:523:34: Converting to Python object not allowed without gil 2021-07-15T12:50:34,608 Error compiling Cython file: 2021-07-15T12:50:34,608 ------------------------------------------------------------ 2021-07-15T12:50:34,608 ... 2021-07-15T12:50:34,608 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,608 # has been released 2021-07-15T12:50:34,608 with nogil: 2021-07-15T12:50:34,608 for i in range(self.nbonds): 2021-07-15T12:50:34,608 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,609 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,609 ^ 2021-07-15T12:50:34,609 ------------------------------------------------------------ 2021-07-15T12:50:34,609 sella/internal/int_classes.pyx:524:33: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,609 Error compiling Cython file: 2021-07-15T12:50:34,609 ------------------------------------------------------------ 2021-07-15T12:50:34,609 ... 2021-07-15T12:50:34,610 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,610 # has been released 2021-07-15T12:50:34,610 with nogil: 2021-07-15T12:50:34,610 for i in range(self.nbonds): 2021-07-15T12:50:34,610 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,610 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,610 ^ 2021-07-15T12:50:34,610 ------------------------------------------------------------ 2021-07-15T12:50:34,611 sella/internal/int_classes.pyx:524:33: Indexing Python object not allowed without gil 2021-07-15T12:50:34,611 Error compiling Cython file: 2021-07-15T12:50:34,611 ------------------------------------------------------------ 2021-07-15T12:50:34,611 ... 2021-07-15T12:50:34,611 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,611 # has been released 2021-07-15T12:50:34,612 with nogil: 2021-07-15T12:50:34,612 for i in range(self.nbonds): 2021-07-15T12:50:34,612 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,612 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,612 ^ 2021-07-15T12:50:34,612 ------------------------------------------------------------ 2021-07-15T12:50:34,612 sella/internal/int_classes.pyx:524:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,613 Error compiling Cython file: 2021-07-15T12:50:34,613 ------------------------------------------------------------ 2021-07-15T12:50:34,613 ... 2021-07-15T12:50:34,613 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,613 # has been released 2021-07-15T12:50:34,613 with nogil: 2021-07-15T12:50:34,613 for i in range(self.nbonds): 2021-07-15T12:50:34,613 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,614 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,614 ^ 2021-07-15T12:50:34,614 ------------------------------------------------------------ 2021-07-15T12:50:34,614 sella/internal/int_classes.pyx:524:33: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,614 Error compiling Cython file: 2021-07-15T12:50:34,614 ------------------------------------------------------------ 2021-07-15T12:50:34,614 ... 2021-07-15T12:50:34,615 # FIXME: for some reason, this fails at runtime when the gil 2021-07-15T12:50:34,615 # has been released 2021-07-15T12:50:34,615 with nogil: 2021-07-15T12:50:34,615 for i in range(self.nbonds): 2021-07-15T12:50:34,615 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,615 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,615 ^ 2021-07-15T12:50:34,615 ------------------------------------------------------------ 2021-07-15T12:50:34,616 sella/internal/int_classes.pyx:524:34: Converting to Python object not allowed without gil 2021-07-15T12:50:34,616 Error compiling Cython file: 2021-07-15T12:50:34,616 ------------------------------------------------------------ 2021-07-15T12:50:34,616 ... 2021-07-15T12:50:34,616 with nogil: 2021-07-15T12:50:34,616 for i in range(self.nbonds): 2021-07-15T12:50:34,617 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,617 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,617 for i in range(self.nreal): 2021-07-15T12:50:34,617 ^ 2021-07-15T12:50:34,617 ------------------------------------------------------------ 2021-07-15T12:50:34,617 sella/internal/int_classes.pyx:526:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,618 Error compiling Cython file: 2021-07-15T12:50:34,618 ------------------------------------------------------------ 2021-07-15T12:50:34,618 ... 2021-07-15T12:50:34,618 with nogil: 2021-07-15T12:50:34,618 for i in range(self.nbonds): 2021-07-15T12:50:34,618 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,618 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,619 for i in range(self.nreal): 2021-07-15T12:50:34,619 ^ 2021-07-15T12:50:34,619 ------------------------------------------------------------ 2021-07-15T12:50:34,619 sella/internal/int_classes.pyx:526:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,619 Error compiling Cython file: 2021-07-15T12:50:34,619 ------------------------------------------------------------ 2021-07-15T12:50:34,619 ... 2021-07-15T12:50:34,620 for i in range(self.nbonds): 2021-07-15T12:50:34,620 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,620 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,620 for i in range(self.nreal): 2021-07-15T12:50:34,620 if self.dinds[i] != -1: 2021-07-15T12:50:34,620 ^ 2021-07-15T12:50:34,620 ------------------------------------------------------------ 2021-07-15T12:50:34,621 sella/internal/int_classes.pyx:527:33: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,621 Error compiling Cython file: 2021-07-15T12:50:34,621 ------------------------------------------------------------ 2021-07-15T12:50:34,621 ... 2021-07-15T12:50:34,621 for i in range(self.nbonds): 2021-07-15T12:50:34,621 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,621 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,622 for i in range(self.nreal): 2021-07-15T12:50:34,622 if self.dinds[i] != -1: 2021-07-15T12:50:34,622 ^ 2021-07-15T12:50:34,622 ------------------------------------------------------------ 2021-07-15T12:50:34,622 sella/internal/int_classes.pyx:527:33: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,623 Error compiling Cython file: 2021-07-15T12:50:34,623 ------------------------------------------------------------ 2021-07-15T12:50:34,623 ... 2021-07-15T12:50:34,623 for i in range(self.nbonds): 2021-07-15T12:50:34,623 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,623 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,623 for i in range(self.nreal): 2021-07-15T12:50:34,623 if self.dinds[i] != -1: 2021-07-15T12:50:34,624 ^ 2021-07-15T12:50:34,624 ------------------------------------------------------------ 2021-07-15T12:50:34,624 sella/internal/int_classes.pyx:527:29: Indexing Python object not allowed without gil 2021-07-15T12:50:34,624 Error compiling Cython file: 2021-07-15T12:50:34,624 ------------------------------------------------------------ 2021-07-15T12:50:34,624 ... 2021-07-15T12:50:34,625 for i in range(self.nbonds): 2021-07-15T12:50:34,625 nbonds[self.bonds[i, 0]] += 1 2021-07-15T12:50:34,625 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,625 for i in range(self.nreal): 2021-07-15T12:50:34,625 if self.dinds[i] != -1: 2021-07-15T12:50:34,625 ^ 2021-07-15T12:50:34,625 ------------------------------------------------------------ 2021-07-15T12:50:34,626 sella/internal/int_classes.pyx:527:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,626 Error compiling Cython file: 2021-07-15T12:50:34,626 ------------------------------------------------------------ 2021-07-15T12:50:34,626 ... 2021-07-15T12:50:34,626 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,626 for i in range(self.nreal): 2021-07-15T12:50:34,627 if self.dinds[i] != -1: 2021-07-15T12:50:34,627 nbonds[i] += 1 2021-07-15T12:50:34,627 nbonds[self.dinds[i]] += 1 2021-07-15T12:50:34,627 ^ 2021-07-15T12:50:34,627 ------------------------------------------------------------ 2021-07-15T12:50:34,627 sella/internal/int_classes.pyx:529:37: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,628 Error compiling Cython file: 2021-07-15T12:50:34,628 ------------------------------------------------------------ 2021-07-15T12:50:34,628 ... 2021-07-15T12:50:34,628 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,628 for i in range(self.nreal): 2021-07-15T12:50:34,628 if self.dinds[i] != -1: 2021-07-15T12:50:34,628 nbonds[i] += 1 2021-07-15T12:50:34,628 nbonds[self.dinds[i]] += 1 2021-07-15T12:50:34,629 ^ 2021-07-15T12:50:34,629 ------------------------------------------------------------ 2021-07-15T12:50:34,629 sella/internal/int_classes.pyx:529:37: Indexing Python object not allowed without gil 2021-07-15T12:50:34,629 Error compiling Cython file: 2021-07-15T12:50:34,629 ------------------------------------------------------------ 2021-07-15T12:50:34,629 ... 2021-07-15T12:50:34,629 nbonds[self.bonds[i, 1]] += 1 2021-07-15T12:50:34,630 for i in range(self.nreal): 2021-07-15T12:50:34,630 if self.dinds[i] != -1: 2021-07-15T12:50:34,630 nbonds[i] += 1 2021-07-15T12:50:34,630 nbonds[self.dinds[i]] += 1 2021-07-15T12:50:34,630 ^ 2021-07-15T12:50:34,630 ------------------------------------------------------------ 2021-07-15T12:50:34,631 sella/internal/int_classes.pyx:529:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,631 Error compiling Cython file: 2021-07-15T12:50:34,631 ------------------------------------------------------------ 2021-07-15T12:50:34,631 ... 2021-07-15T12:50:34,631 if self.dinds[i] != -1: 2021-07-15T12:50:34,631 nbonds[i] += 1 2021-07-15T12:50:34,632 nbonds[self.dinds[i]] += 1 2021-07-15T12:50:34,632 n = 0 2021-07-15T12:50:34,632 for i in range(self.ncart): 2021-07-15T12:50:34,632 ^ 2021-07-15T12:50:34,632 ------------------------------------------------------------ 2021-07-15T12:50:34,633 sella/internal/int_classes.pyx:532:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,633 Error compiling Cython file: 2021-07-15T12:50:34,633 ------------------------------------------------------------ 2021-07-15T12:50:34,633 ... 2021-07-15T12:50:34,633 if self.dinds[i] != -1: 2021-07-15T12:50:34,633 nbonds[i] += 1 2021-07-15T12:50:34,634 nbonds[self.dinds[i]] += 1 2021-07-15T12:50:34,634 n = 0 2021-07-15T12:50:34,634 for i in range(self.ncart): 2021-07-15T12:50:34,634 ^ 2021-07-15T12:50:34,634 ------------------------------------------------------------ 2021-07-15T12:50:34,634 sella/internal/int_classes.pyx:532:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,635 Error compiling Cython file: 2021-07-15T12:50:34,635 ------------------------------------------------------------ 2021-07-15T12:50:34,635 ... 2021-07-15T12:50:34,635 for i in range(self.ncart): 2021-07-15T12:50:34,635 h0[n] = h0cart 2021-07-15T12:50:34,635 n += 1 2021-07-15T12:50:34,636 conv = Hartree / Bohr**2 2021-07-15T12:50:34,636 for i in range(self.nbonds): 2021-07-15T12:50:34,636 ^ 2021-07-15T12:50:34,636 ------------------------------------------------------------ 2021-07-15T12:50:34,636 sella/internal/int_classes.pyx:537:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,637 Error compiling Cython file: 2021-07-15T12:50:34,637 ------------------------------------------------------------ 2021-07-15T12:50:34,637 ... 2021-07-15T12:50:34,637 for i in range(self.ncart): 2021-07-15T12:50:34,637 h0[n] = h0cart 2021-07-15T12:50:34,638 n += 1 2021-07-15T12:50:34,638 conv = Hartree / Bohr**2 2021-07-15T12:50:34,638 for i in range(self.nbonds): 2021-07-15T12:50:34,638 ^ 2021-07-15T12:50:34,638 ------------------------------------------------------------ 2021-07-15T12:50:34,638 sella/internal/int_classes.pyx:537:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,639 Error compiling Cython file: 2021-07-15T12:50:34,639 ------------------------------------------------------------ 2021-07-15T12:50:34,639 ... 2021-07-15T12:50:34,639 h0[n] = h0cart 2021-07-15T12:50:34,639 n += 1 2021-07-15T12:50:34,639 conv = Hartree / Bohr**2 2021-07-15T12:50:34,639 for i in range(self.nbonds): 2021-07-15T12:50:34,640 a = self.bonds[i, 0] 2021-07-15T12:50:34,640 ^ 2021-07-15T12:50:34,640 ------------------------------------------------------------ 2021-07-15T12:50:34,640 sella/internal/int_classes.pyx:538:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,640 Error compiling Cython file: 2021-07-15T12:50:34,640 ------------------------------------------------------------ 2021-07-15T12:50:34,641 ... 2021-07-15T12:50:34,641 h0[n] = h0cart 2021-07-15T12:50:34,641 n += 1 2021-07-15T12:50:34,641 conv = Hartree / Bohr**2 2021-07-15T12:50:34,641 for i in range(self.nbonds): 2021-07-15T12:50:34,641 a = self.bonds[i, 0] 2021-07-15T12:50:34,641 ^ 2021-07-15T12:50:34,641 ------------------------------------------------------------ 2021-07-15T12:50:34,642 sella/internal/int_classes.pyx:538:30: Indexing Python object not allowed without gil 2021-07-15T12:50:34,642 Error compiling Cython file: 2021-07-15T12:50:34,642 ------------------------------------------------------------ 2021-07-15T12:50:34,642 ... 2021-07-15T12:50:34,642 h0[n] = h0cart 2021-07-15T12:50:34,642 n += 1 2021-07-15T12:50:34,643 conv = Hartree / Bohr**2 2021-07-15T12:50:34,643 for i in range(self.nbonds): 2021-07-15T12:50:34,643 a = self.bonds[i, 0] 2021-07-15T12:50:34,643 ^ 2021-07-15T12:50:34,643 ------------------------------------------------------------ 2021-07-15T12:50:34,643 sella/internal/int_classes.pyx:538:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,644 Error compiling Cython file: 2021-07-15T12:50:34,644 ------------------------------------------------------------ 2021-07-15T12:50:34,644 ... 2021-07-15T12:50:34,644 h0[n] = h0cart 2021-07-15T12:50:34,644 n += 1 2021-07-15T12:50:34,644 conv = Hartree / Bohr**2 2021-07-15T12:50:34,644 for i in range(self.nbonds): 2021-07-15T12:50:34,645 a = self.bonds[i, 0] 2021-07-15T12:50:34,645 ^ 2021-07-15T12:50:34,645 ------------------------------------------------------------ 2021-07-15T12:50:34,645 sella/internal/int_classes.pyx:538:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,645 Error compiling Cython file: 2021-07-15T12:50:34,645 ------------------------------------------------------------ 2021-07-15T12:50:34,646 ... 2021-07-15T12:50:34,646 h0[n] = h0cart 2021-07-15T12:50:34,646 n += 1 2021-07-15T12:50:34,646 conv = Hartree / Bohr**2 2021-07-15T12:50:34,646 for i in range(self.nbonds): 2021-07-15T12:50:34,646 a = self.bonds[i, 0] 2021-07-15T12:50:34,646 ^ 2021-07-15T12:50:34,646 ------------------------------------------------------------ 2021-07-15T12:50:34,647 sella/internal/int_classes.pyx:538:31: Converting to Python object not allowed without gil 2021-07-15T12:50:34,647 Error compiling Cython file: 2021-07-15T12:50:34,647 ------------------------------------------------------------ 2021-07-15T12:50:34,647 ... 2021-07-15T12:50:34,647 n += 1 2021-07-15T12:50:34,648 conv = Hartree / Bohr**2 2021-07-15T12:50:34,648 for i in range(self.nbonds): 2021-07-15T12:50:34,648 a = self.bonds[i, 0] 2021-07-15T12:50:34,648 b = self.bonds[i, 1] 2021-07-15T12:50:34,648 ^ 2021-07-15T12:50:34,648 ------------------------------------------------------------ 2021-07-15T12:50:34,648 sella/internal/int_classes.pyx:539:30: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,649 Error compiling Cython file: 2021-07-15T12:50:34,649 ------------------------------------------------------------ 2021-07-15T12:50:34,649 ... 2021-07-15T12:50:34,649 n += 1 2021-07-15T12:50:34,649 conv = Hartree / Bohr**2 2021-07-15T12:50:34,649 for i in range(self.nbonds): 2021-07-15T12:50:34,649 a = self.bonds[i, 0] 2021-07-15T12:50:34,650 b = self.bonds[i, 1] 2021-07-15T12:50:34,650 ^ 2021-07-15T12:50:34,650 ------------------------------------------------------------ 2021-07-15T12:50:34,650 sella/internal/int_classes.pyx:539:30: Indexing Python object not allowed without gil 2021-07-15T12:50:34,650 Error compiling Cython file: 2021-07-15T12:50:34,650 ------------------------------------------------------------ 2021-07-15T12:50:34,650 ... 2021-07-15T12:50:34,651 n += 1 2021-07-15T12:50:34,651 conv = Hartree / Bohr**2 2021-07-15T12:50:34,651 for i in range(self.nbonds): 2021-07-15T12:50:34,651 a = self.bonds[i, 0] 2021-07-15T12:50:34,651 b = self.bonds[i, 1] 2021-07-15T12:50:34,651 ^ 2021-07-15T12:50:34,651 ------------------------------------------------------------ 2021-07-15T12:50:34,652 sella/internal/int_classes.pyx:539:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,652 Error compiling Cython file: 2021-07-15T12:50:34,652 ------------------------------------------------------------ 2021-07-15T12:50:34,652 ... 2021-07-15T12:50:34,652 n += 1 2021-07-15T12:50:34,652 conv = Hartree / Bohr**2 2021-07-15T12:50:34,653 for i in range(self.nbonds): 2021-07-15T12:50:34,653 a = self.bonds[i, 0] 2021-07-15T12:50:34,653 b = self.bonds[i, 1] 2021-07-15T12:50:34,653 ^ 2021-07-15T12:50:34,653 ------------------------------------------------------------ 2021-07-15T12:50:34,653 sella/internal/int_classes.pyx:539:30: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,653 Error compiling Cython file: 2021-07-15T12:50:34,654 ------------------------------------------------------------ 2021-07-15T12:50:34,654 ... 2021-07-15T12:50:34,654 n += 1 2021-07-15T12:50:34,654 conv = Hartree / Bohr**2 2021-07-15T12:50:34,654 for i in range(self.nbonds): 2021-07-15T12:50:34,654 a = self.bonds[i, 0] 2021-07-15T12:50:34,654 b = self.bonds[i, 1] 2021-07-15T12:50:34,655 ^ 2021-07-15T12:50:34,655 ------------------------------------------------------------ 2021-07-15T12:50:34,655 sella/internal/int_classes.pyx:539:31: Converting to Python object not allowed without gil 2021-07-15T12:50:34,655 Error compiling Cython file: 2021-07-15T12:50:34,655 ------------------------------------------------------------ 2021-07-15T12:50:34,655 ... 2021-07-15T12:50:34,656 #h0[n] = self._h0_bond(self.bonds[i, 0], self.bonds[i, 1], 2021-07-15T12:50:34,656 # rij, rcov, conv) 2021-07-15T12:50:34,656 n += 1 2021-07-15T12:50:34,656 conv = Hartree 2021-07-15T12:50:34,656 for i in range(self.nangles): 2021-07-15T12:50:34,656 ^ 2021-07-15T12:50:34,656 ------------------------------------------------------------ 2021-07-15T12:50:34,657 sella/internal/int_classes.pyx:546:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,657 Error compiling Cython file: 2021-07-15T12:50:34,657 ------------------------------------------------------------ 2021-07-15T12:50:34,657 ... 2021-07-15T12:50:34,657 #h0[n] = self._h0_bond(self.bonds[i, 0], self.bonds[i, 1], 2021-07-15T12:50:34,657 # rij, rcov, conv) 2021-07-15T12:50:34,658 n += 1 2021-07-15T12:50:34,658 conv = Hartree 2021-07-15T12:50:34,658 for i in range(self.nangles): 2021-07-15T12:50:34,658 ^ 2021-07-15T12:50:34,658 ------------------------------------------------------------ 2021-07-15T12:50:34,658 sella/internal/int_classes.pyx:546:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,659 Error compiling Cython file: 2021-07-15T12:50:34,659 ------------------------------------------------------------ 2021-07-15T12:50:34,659 ... 2021-07-15T12:50:34,659 # rij, rcov, conv) 2021-07-15T12:50:34,659 n += 1 2021-07-15T12:50:34,659 conv = Hartree 2021-07-15T12:50:34,659 for i in range(self.nangles): 2021-07-15T12:50:34,659 a = self.angles[i, 0] 2021-07-15T12:50:34,660 ^ 2021-07-15T12:50:34,660 ------------------------------------------------------------ 2021-07-15T12:50:34,660 sella/internal/int_classes.pyx:547:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,660 Error compiling Cython file: 2021-07-15T12:50:34,660 ------------------------------------------------------------ 2021-07-15T12:50:34,660 ... 2021-07-15T12:50:34,661 # rij, rcov, conv) 2021-07-15T12:50:34,661 n += 1 2021-07-15T12:50:34,661 conv = Hartree 2021-07-15T12:50:34,661 for i in range(self.nangles): 2021-07-15T12:50:34,661 a = self.angles[i, 0] 2021-07-15T12:50:34,661 ^ 2021-07-15T12:50:34,661 ------------------------------------------------------------ 2021-07-15T12:50:34,662 sella/internal/int_classes.pyx:547:31: Indexing Python object not allowed without gil 2021-07-15T12:50:34,662 Error compiling Cython file: 2021-07-15T12:50:34,662 ------------------------------------------------------------ 2021-07-15T12:50:34,662 ... 2021-07-15T12:50:34,662 # rij, rcov, conv) 2021-07-15T12:50:34,663 n += 1 2021-07-15T12:50:34,663 conv = Hartree 2021-07-15T12:50:34,663 for i in range(self.nangles): 2021-07-15T12:50:34,663 a = self.angles[i, 0] 2021-07-15T12:50:34,663 ^ 2021-07-15T12:50:34,663 ------------------------------------------------------------ 2021-07-15T12:50:34,664 sella/internal/int_classes.pyx:547:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,664 Error compiling Cython file: 2021-07-15T12:50:34,664 ------------------------------------------------------------ 2021-07-15T12:50:34,664 ... 2021-07-15T12:50:34,665 # rij, rcov, conv) 2021-07-15T12:50:34,665 n += 1 2021-07-15T12:50:34,665 conv = Hartree 2021-07-15T12:50:34,665 for i in range(self.nangles): 2021-07-15T12:50:34,665 a = self.angles[i, 0] 2021-07-15T12:50:34,665 ^ 2021-07-15T12:50:34,665 ------------------------------------------------------------ 2021-07-15T12:50:34,666 sella/internal/int_classes.pyx:547:31: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,666 Error compiling Cython file: 2021-07-15T12:50:34,666 ------------------------------------------------------------ 2021-07-15T12:50:34,666 ... 2021-07-15T12:50:34,666 # rij, rcov, conv) 2021-07-15T12:50:34,666 n += 1 2021-07-15T12:50:34,667 conv = Hartree 2021-07-15T12:50:34,667 for i in range(self.nangles): 2021-07-15T12:50:34,667 a = self.angles[i, 0] 2021-07-15T12:50:34,667 ^ 2021-07-15T12:50:34,667 ------------------------------------------------------------ 2021-07-15T12:50:34,667 sella/internal/int_classes.pyx:547:32: Converting to Python object not allowed without gil 2021-07-15T12:50:34,668 Error compiling Cython file: 2021-07-15T12:50:34,668 ------------------------------------------------------------ 2021-07-15T12:50:34,668 ... 2021-07-15T12:50:34,668 n += 1 2021-07-15T12:50:34,668 conv = Hartree 2021-07-15T12:50:34,668 for i in range(self.nangles): 2021-07-15T12:50:34,668 a = self.angles[i, 0] 2021-07-15T12:50:34,668 b = self.angles[i, 1] 2021-07-15T12:50:34,669 ^ 2021-07-15T12:50:34,669 ------------------------------------------------------------ 2021-07-15T12:50:34,669 sella/internal/int_classes.pyx:548:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,669 Error compiling Cython file: 2021-07-15T12:50:34,669 ------------------------------------------------------------ 2021-07-15T12:50:34,669 ... 2021-07-15T12:50:34,670 n += 1 2021-07-15T12:50:34,670 conv = Hartree 2021-07-15T12:50:34,670 for i in range(self.nangles): 2021-07-15T12:50:34,670 a = self.angles[i, 0] 2021-07-15T12:50:34,670 b = self.angles[i, 1] 2021-07-15T12:50:34,670 ^ 2021-07-15T12:50:34,670 ------------------------------------------------------------ 2021-07-15T12:50:34,671 sella/internal/int_classes.pyx:548:31: Indexing Python object not allowed without gil 2021-07-15T12:50:34,671 Error compiling Cython file: 2021-07-15T12:50:34,671 ------------------------------------------------------------ 2021-07-15T12:50:34,671 ... 2021-07-15T12:50:34,671 n += 1 2021-07-15T12:50:34,671 conv = Hartree 2021-07-15T12:50:34,671 for i in range(self.nangles): 2021-07-15T12:50:34,672 a = self.angles[i, 0] 2021-07-15T12:50:34,672 b = self.angles[i, 1] 2021-07-15T12:50:34,672 ^ 2021-07-15T12:50:34,672 ------------------------------------------------------------ 2021-07-15T12:50:34,672 sella/internal/int_classes.pyx:548:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,672 Error compiling Cython file: 2021-07-15T12:50:34,673 ------------------------------------------------------------ 2021-07-15T12:50:34,673 ... 2021-07-15T12:50:34,673 n += 1 2021-07-15T12:50:34,673 conv = Hartree 2021-07-15T12:50:34,673 for i in range(self.nangles): 2021-07-15T12:50:34,673 a = self.angles[i, 0] 2021-07-15T12:50:34,673 b = self.angles[i, 1] 2021-07-15T12:50:34,673 ^ 2021-07-15T12:50:34,674 ------------------------------------------------------------ 2021-07-15T12:50:34,674 sella/internal/int_classes.pyx:548:31: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,674 Error compiling Cython file: 2021-07-15T12:50:34,674 ------------------------------------------------------------ 2021-07-15T12:50:34,674 ... 2021-07-15T12:50:34,674 n += 1 2021-07-15T12:50:34,675 conv = Hartree 2021-07-15T12:50:34,675 for i in range(self.nangles): 2021-07-15T12:50:34,675 a = self.angles[i, 0] 2021-07-15T12:50:34,675 b = self.angles[i, 1] 2021-07-15T12:50:34,675 ^ 2021-07-15T12:50:34,675 ------------------------------------------------------------ 2021-07-15T12:50:34,675 sella/internal/int_classes.pyx:548:32: Converting to Python object not allowed without gil 2021-07-15T12:50:34,676 Error compiling Cython file: 2021-07-15T12:50:34,676 ------------------------------------------------------------ 2021-07-15T12:50:34,676 ... 2021-07-15T12:50:34,676 conv = Hartree 2021-07-15T12:50:34,676 for i in range(self.nangles): 2021-07-15T12:50:34,676 a = self.angles[i, 0] 2021-07-15T12:50:34,676 b = self.angles[i, 1] 2021-07-15T12:50:34,677 c = self.angles[i, 2] 2021-07-15T12:50:34,677 ^ 2021-07-15T12:50:34,677 ------------------------------------------------------------ 2021-07-15T12:50:34,677 sella/internal/int_classes.pyx:549:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,677 Error compiling Cython file: 2021-07-15T12:50:34,677 ------------------------------------------------------------ 2021-07-15T12:50:34,677 ... 2021-07-15T12:50:34,678 conv = Hartree 2021-07-15T12:50:34,678 for i in range(self.nangles): 2021-07-15T12:50:34,678 a = self.angles[i, 0] 2021-07-15T12:50:34,678 b = self.angles[i, 1] 2021-07-15T12:50:34,678 c = self.angles[i, 2] 2021-07-15T12:50:34,678 ^ 2021-07-15T12:50:34,678 ------------------------------------------------------------ 2021-07-15T12:50:34,679 sella/internal/int_classes.pyx:549:31: Indexing Python object not allowed without gil 2021-07-15T12:50:34,679 Error compiling Cython file: 2021-07-15T12:50:34,679 ------------------------------------------------------------ 2021-07-15T12:50:34,679 ... 2021-07-15T12:50:34,679 conv = Hartree 2021-07-15T12:50:34,679 for i in range(self.nangles): 2021-07-15T12:50:34,680 a = self.angles[i, 0] 2021-07-15T12:50:34,680 b = self.angles[i, 1] 2021-07-15T12:50:34,680 c = self.angles[i, 2] 2021-07-15T12:50:34,680 ^ 2021-07-15T12:50:34,680 ------------------------------------------------------------ 2021-07-15T12:50:34,680 sella/internal/int_classes.pyx:549:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,680 Error compiling Cython file: 2021-07-15T12:50:34,681 ------------------------------------------------------------ 2021-07-15T12:50:34,681 ... 2021-07-15T12:50:34,681 conv = Hartree 2021-07-15T12:50:34,681 for i in range(self.nangles): 2021-07-15T12:50:34,681 a = self.angles[i, 0] 2021-07-15T12:50:34,681 b = self.angles[i, 1] 2021-07-15T12:50:34,681 c = self.angles[i, 2] 2021-07-15T12:50:34,681 ^ 2021-07-15T12:50:34,682 ------------------------------------------------------------ 2021-07-15T12:50:34,682 sella/internal/int_classes.pyx:549:31: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,682 Error compiling Cython file: 2021-07-15T12:50:34,682 ------------------------------------------------------------ 2021-07-15T12:50:34,682 ... 2021-07-15T12:50:34,682 conv = Hartree 2021-07-15T12:50:34,683 for i in range(self.nangles): 2021-07-15T12:50:34,683 a = self.angles[i, 0] 2021-07-15T12:50:34,683 b = self.angles[i, 1] 2021-07-15T12:50:34,683 c = self.angles[i, 2] 2021-07-15T12:50:34,683 ^ 2021-07-15T12:50:34,683 ------------------------------------------------------------ 2021-07-15T12:50:34,683 sella/internal/int_classes.pyx:549:32: Converting to Python object not allowed without gil 2021-07-15T12:50:34,684 Error compiling Cython file: 2021-07-15T12:50:34,684 ------------------------------------------------------------ 2021-07-15T12:50:34,684 ... 2021-07-15T12:50:34,684 rcov[b] + rcov[c], conv) 2021-07-15T12:50:34,684 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,684 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,684 n += 1 2021-07-15T12:50:34,684 for i in range(self.ndihedrals): 2021-07-15T12:50:34,685 ^ 2021-07-15T12:50:34,685 ------------------------------------------------------------ 2021-07-15T12:50:34,685 sella/internal/int_classes.pyx:556:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,685 Error compiling Cython file: 2021-07-15T12:50:34,685 ------------------------------------------------------------ 2021-07-15T12:50:34,685 ... 2021-07-15T12:50:34,686 rcov[b] + rcov[c], conv) 2021-07-15T12:50:34,686 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,686 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,686 n += 1 2021-07-15T12:50:34,686 for i in range(self.ndihedrals): 2021-07-15T12:50:34,686 ^ 2021-07-15T12:50:34,686 ------------------------------------------------------------ 2021-07-15T12:50:34,687 sella/internal/int_classes.pyx:556:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,687 Error compiling Cython file: 2021-07-15T12:50:34,687 ------------------------------------------------------------ 2021-07-15T12:50:34,687 ... 2021-07-15T12:50:34,687 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,687 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,687 n += 1 2021-07-15T12:50:34,688 for i in range(self.ndihedrals): 2021-07-15T12:50:34,688 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,688 ^ 2021-07-15T12:50:34,688 ------------------------------------------------------------ 2021-07-15T12:50:34,688 sella/internal/int_classes.pyx:557:34: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,688 Error compiling Cython file: 2021-07-15T12:50:34,688 ------------------------------------------------------------ 2021-07-15T12:50:34,689 ... 2021-07-15T12:50:34,689 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,689 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,689 n += 1 2021-07-15T12:50:34,689 for i in range(self.ndihedrals): 2021-07-15T12:50:34,689 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,689 ^ 2021-07-15T12:50:34,689 ------------------------------------------------------------ 2021-07-15T12:50:34,690 sella/internal/int_classes.pyx:557:34: Indexing Python object not allowed without gil 2021-07-15T12:50:34,690 Error compiling Cython file: 2021-07-15T12:50:34,690 ------------------------------------------------------------ 2021-07-15T12:50:34,690 ... 2021-07-15T12:50:34,690 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,690 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,691 n += 1 2021-07-15T12:50:34,691 for i in range(self.ndihedrals): 2021-07-15T12:50:34,691 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,691 ^ 2021-07-15T12:50:34,691 ------------------------------------------------------------ 2021-07-15T12:50:34,691 sella/internal/int_classes.pyx:557:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,692 Error compiling Cython file: 2021-07-15T12:50:34,692 ------------------------------------------------------------ 2021-07-15T12:50:34,692 ... 2021-07-15T12:50:34,692 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,692 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,692 n += 1 2021-07-15T12:50:34,693 for i in range(self.ndihedrals): 2021-07-15T12:50:34,693 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,693 ^ 2021-07-15T12:50:34,693 ------------------------------------------------------------ 2021-07-15T12:50:34,693 sella/internal/int_classes.pyx:557:34: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,693 Error compiling Cython file: 2021-07-15T12:50:34,693 ------------------------------------------------------------ 2021-07-15T12:50:34,694 ... 2021-07-15T12:50:34,694 #h0[n] = self._h0_angle(self.angles[i, 0], self.angles[i, 1], 2021-07-15T12:50:34,694 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,694 n += 1 2021-07-15T12:50:34,694 for i in range(self.ndihedrals): 2021-07-15T12:50:34,694 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,694 ^ 2021-07-15T12:50:34,695 ------------------------------------------------------------ 2021-07-15T12:50:34,695 sella/internal/int_classes.pyx:557:35: Converting to Python object not allowed without gil 2021-07-15T12:50:34,695 Error compiling Cython file: 2021-07-15T12:50:34,695 ------------------------------------------------------------ 2021-07-15T12:50:34,695 ... 2021-07-15T12:50:34,695 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,696 n += 1 2021-07-15T12:50:34,696 for i in range(self.ndihedrals): 2021-07-15T12:50:34,696 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,696 c = self.dihedrals[i, 2] 2021-07-15T12:50:34,696 ^ 2021-07-15T12:50:34,696 ------------------------------------------------------------ 2021-07-15T12:50:34,696 sella/internal/int_classes.pyx:558:34: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,697 Error compiling Cython file: 2021-07-15T12:50:34,697 ------------------------------------------------------------ 2021-07-15T12:50:34,697 ... 2021-07-15T12:50:34,697 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,697 n += 1 2021-07-15T12:50:34,697 for i in range(self.ndihedrals): 2021-07-15T12:50:34,697 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,698 c = self.dihedrals[i, 2] 2021-07-15T12:50:34,698 ^ 2021-07-15T12:50:34,698 ------------------------------------------------------------ 2021-07-15T12:50:34,698 sella/internal/int_classes.pyx:558:34: Indexing Python object not allowed without gil 2021-07-15T12:50:34,698 Error compiling Cython file: 2021-07-15T12:50:34,698 ------------------------------------------------------------ 2021-07-15T12:50:34,698 ... 2021-07-15T12:50:34,699 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,699 n += 1 2021-07-15T12:50:34,699 for i in range(self.ndihedrals): 2021-07-15T12:50:34,699 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,699 c = self.dihedrals[i, 2] 2021-07-15T12:50:34,699 ^ 2021-07-15T12:50:34,699 ------------------------------------------------------------ 2021-07-15T12:50:34,700 sella/internal/int_classes.pyx:558:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,700 Error compiling Cython file: 2021-07-15T12:50:34,700 ------------------------------------------------------------ 2021-07-15T12:50:34,700 ... 2021-07-15T12:50:34,700 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,700 n += 1 2021-07-15T12:50:34,700 for i in range(self.ndihedrals): 2021-07-15T12:50:34,701 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,701 c = self.dihedrals[i, 2] 2021-07-15T12:50:34,701 ^ 2021-07-15T12:50:34,701 ------------------------------------------------------------ 2021-07-15T12:50:34,701 sella/internal/int_classes.pyx:558:34: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,701 Error compiling Cython file: 2021-07-15T12:50:34,702 ------------------------------------------------------------ 2021-07-15T12:50:34,702 ... 2021-07-15T12:50:34,702 # self.angles[i, 2], rij, rcov, conv) 2021-07-15T12:50:34,702 n += 1 2021-07-15T12:50:34,702 for i in range(self.ndihedrals): 2021-07-15T12:50:34,702 b = self.dihedrals[i, 1] 2021-07-15T12:50:34,702 c = self.dihedrals[i, 2] 2021-07-15T12:50:34,702 ^ 2021-07-15T12:50:34,703 ------------------------------------------------------------ 2021-07-15T12:50:34,703 sella/internal/int_classes.pyx:558:35: Converting to Python object not allowed without gil 2021-07-15T12:50:34,703 Error compiling Cython file: 2021-07-15T12:50:34,703 ------------------------------------------------------------ 2021-07-15T12:50:34,703 ... 2021-07-15T12:50:34,703 # self.dihedrals[i, 2], 2021-07-15T12:50:34,703 # self.dihedrals[i, 3], 2021-07-15T12:50:34,704 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,704 n += 1 2021-07-15T12:50:34,704 for i in range(self.nangle_sums): 2021-07-15T12:50:34,704 ^ 2021-07-15T12:50:34,704 ------------------------------------------------------------ 2021-07-15T12:50:34,704 sella/internal/int_classes.pyx:568:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,705 Error compiling Cython file: 2021-07-15T12:50:34,705 ------------------------------------------------------------ 2021-07-15T12:50:34,705 ... 2021-07-15T12:50:34,705 # self.dihedrals[i, 2], 2021-07-15T12:50:34,705 # self.dihedrals[i, 3], 2021-07-15T12:50:34,705 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,705 n += 1 2021-07-15T12:50:34,706 for i in range(self.nangle_sums): 2021-07-15T12:50:34,706 ^ 2021-07-15T12:50:34,706 ------------------------------------------------------------ 2021-07-15T12:50:34,706 sella/internal/int_classes.pyx:568:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,706 Error compiling Cython file: 2021-07-15T12:50:34,706 ------------------------------------------------------------ 2021-07-15T12:50:34,707 ... 2021-07-15T12:50:34,707 # self.dihedrals[i, 3], 2021-07-15T12:50:34,707 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,707 n += 1 2021-07-15T12:50:34,707 for i in range(self.nangle_sums): 2021-07-15T12:50:34,707 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,707 ^ 2021-07-15T12:50:34,708 ------------------------------------------------------------ 2021-07-15T12:50:34,708 sella/internal/int_classes.pyx:569:35: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,708 Error compiling Cython file: 2021-07-15T12:50:34,708 ------------------------------------------------------------ 2021-07-15T12:50:34,708 ... 2021-07-15T12:50:34,708 # self.dihedrals[i, 3], 2021-07-15T12:50:34,708 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,709 n += 1 2021-07-15T12:50:34,709 for i in range(self.nangle_sums): 2021-07-15T12:50:34,709 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,709 ^ 2021-07-15T12:50:34,709 ------------------------------------------------------------ 2021-07-15T12:50:34,709 sella/internal/int_classes.pyx:569:35: Indexing Python object not allowed without gil 2021-07-15T12:50:34,710 Error compiling Cython file: 2021-07-15T12:50:34,710 ------------------------------------------------------------ 2021-07-15T12:50:34,710 ... 2021-07-15T12:50:34,710 # self.dihedrals[i, 3], 2021-07-15T12:50:34,710 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,710 n += 1 2021-07-15T12:50:34,710 for i in range(self.nangle_sums): 2021-07-15T12:50:34,711 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,711 ^ 2021-07-15T12:50:34,711 ------------------------------------------------------------ 2021-07-15T12:50:34,711 sella/internal/int_classes.pyx:569:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,711 Error compiling Cython file: 2021-07-15T12:50:34,711 ------------------------------------------------------------ 2021-07-15T12:50:34,712 ... 2021-07-15T12:50:34,712 # self.dihedrals[i, 3], 2021-07-15T12:50:34,712 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,712 n += 1 2021-07-15T12:50:34,712 for i in range(self.nangle_sums): 2021-07-15T12:50:34,712 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,712 ^ 2021-07-15T12:50:34,712 ------------------------------------------------------------ 2021-07-15T12:50:34,713 sella/internal/int_classes.pyx:569:35: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,713 Error compiling Cython file: 2021-07-15T12:50:34,713 ------------------------------------------------------------ 2021-07-15T12:50:34,713 ... 2021-07-15T12:50:34,713 # self.dihedrals[i, 3], 2021-07-15T12:50:34,713 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,714 n += 1 2021-07-15T12:50:34,714 for i in range(self.nangle_sums): 2021-07-15T12:50:34,714 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,714 ^ 2021-07-15T12:50:34,714 ------------------------------------------------------------ 2021-07-15T12:50:34,714 sella/internal/int_classes.pyx:569:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,715 Error compiling Cython file: 2021-07-15T12:50:34,715 ------------------------------------------------------------ 2021-07-15T12:50:34,715 ... 2021-07-15T12:50:34,715 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,715 n += 1 2021-07-15T12:50:34,715 for i in range(self.nangle_sums): 2021-07-15T12:50:34,715 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,715 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,716 ^ 2021-07-15T12:50:34,716 ------------------------------------------------------------ 2021-07-15T12:50:34,716 sella/internal/int_classes.pyx:570:35: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,716 Error compiling Cython file: 2021-07-15T12:50:34,717 ------------------------------------------------------------ 2021-07-15T12:50:34,717 ... 2021-07-15T12:50:34,717 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,717 n += 1 2021-07-15T12:50:34,717 for i in range(self.nangle_sums): 2021-07-15T12:50:34,717 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,718 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,718 ^ 2021-07-15T12:50:34,718 ------------------------------------------------------------ 2021-07-15T12:50:34,718 sella/internal/int_classes.pyx:570:35: Indexing Python object not allowed without gil 2021-07-15T12:50:34,719 Error compiling Cython file: 2021-07-15T12:50:34,719 ------------------------------------------------------------ 2021-07-15T12:50:34,719 ... 2021-07-15T12:50:34,719 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,719 n += 1 2021-07-15T12:50:34,719 for i in range(self.nangle_sums): 2021-07-15T12:50:34,720 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,720 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,720 ^ 2021-07-15T12:50:34,720 ------------------------------------------------------------ 2021-07-15T12:50:34,720 sella/internal/int_classes.pyx:570:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,720 Error compiling Cython file: 2021-07-15T12:50:34,721 ------------------------------------------------------------ 2021-07-15T12:50:34,721 ... 2021-07-15T12:50:34,721 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,721 n += 1 2021-07-15T12:50:34,721 for i in range(self.nangle_sums): 2021-07-15T12:50:34,721 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,721 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,722 ^ 2021-07-15T12:50:34,722 ------------------------------------------------------------ 2021-07-15T12:50:34,722 sella/internal/int_classes.pyx:570:35: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,722 Error compiling Cython file: 2021-07-15T12:50:34,722 ------------------------------------------------------------ 2021-07-15T12:50:34,722 ... 2021-07-15T12:50:34,722 # nbonds, rij, rcov, conv) 2021-07-15T12:50:34,723 n += 1 2021-07-15T12:50:34,723 for i in range(self.nangle_sums): 2021-07-15T12:50:34,723 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,723 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,723 ^ 2021-07-15T12:50:34,723 ------------------------------------------------------------ 2021-07-15T12:50:34,724 sella/internal/int_classes.pyx:570:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,724 Error compiling Cython file: 2021-07-15T12:50:34,724 ------------------------------------------------------------ 2021-07-15T12:50:34,724 ... 2021-07-15T12:50:34,724 n += 1 2021-07-15T12:50:34,724 for i in range(self.nangle_sums): 2021-07-15T12:50:34,724 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,725 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,725 c = self.angle_sums[i, 2] 2021-07-15T12:50:34,725 ^ 2021-07-15T12:50:34,725 ------------------------------------------------------------ 2021-07-15T12:50:34,725 sella/internal/int_classes.pyx:571:35: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,725 Error compiling Cython file: 2021-07-15T12:50:34,726 ------------------------------------------------------------ 2021-07-15T12:50:34,726 ... 2021-07-15T12:50:34,726 n += 1 2021-07-15T12:50:34,726 for i in range(self.nangle_sums): 2021-07-15T12:50:34,726 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,726 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,726 c = self.angle_sums[i, 2] 2021-07-15T12:50:34,726 ^ 2021-07-15T12:50:34,727 ------------------------------------------------------------ 2021-07-15T12:50:34,727 sella/internal/int_classes.pyx:571:35: Indexing Python object not allowed without gil 2021-07-15T12:50:34,727 Error compiling Cython file: 2021-07-15T12:50:34,727 ------------------------------------------------------------ 2021-07-15T12:50:34,727 ... 2021-07-15T12:50:34,727 n += 1 2021-07-15T12:50:34,728 for i in range(self.nangle_sums): 2021-07-15T12:50:34,728 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,728 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,728 c = self.angle_sums[i, 2] 2021-07-15T12:50:34,728 ^ 2021-07-15T12:50:34,728 ------------------------------------------------------------ 2021-07-15T12:50:34,728 sella/internal/int_classes.pyx:571:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,729 Error compiling Cython file: 2021-07-15T12:50:34,729 ------------------------------------------------------------ 2021-07-15T12:50:34,729 ... 2021-07-15T12:50:34,729 n += 1 2021-07-15T12:50:34,729 for i in range(self.nangle_sums): 2021-07-15T12:50:34,729 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,729 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,730 c = self.angle_sums[i, 2] 2021-07-15T12:50:34,730 ^ 2021-07-15T12:50:34,730 ------------------------------------------------------------ 2021-07-15T12:50:34,730 sella/internal/int_classes.pyx:571:35: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,730 Error compiling Cython file: 2021-07-15T12:50:34,730 ------------------------------------------------------------ 2021-07-15T12:50:34,731 ... 2021-07-15T12:50:34,731 n += 1 2021-07-15T12:50:34,731 for i in range(self.nangle_sums): 2021-07-15T12:50:34,731 a = self.angle_sums[i, 0] 2021-07-15T12:50:34,731 b = self.angle_sums[i, 1] 2021-07-15T12:50:34,731 c = self.angle_sums[i, 2] 2021-07-15T12:50:34,731 ^ 2021-07-15T12:50:34,731 ------------------------------------------------------------ 2021-07-15T12:50:34,732 sella/internal/int_classes.pyx:571:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,732 Error compiling Cython file: 2021-07-15T12:50:34,732 ------------------------------------------------------------ 2021-07-15T12:50:34,732 ... 2021-07-15T12:50:34,732 # self.angle_sums[i, 1], 2021-07-15T12:50:34,732 # self.angle_sums[i, 3], 2021-07-15T12:50:34,732 # rij, rcov, conv) 2021-07-15T12:50:34,733 n += 1 2021-07-15T12:50:34,733 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,733 ^ 2021-07-15T12:50:34,733 ------------------------------------------------------------ 2021-07-15T12:50:34,733 sella/internal/int_classes.pyx:584:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,734 Error compiling Cython file: 2021-07-15T12:50:34,734 ------------------------------------------------------------ 2021-07-15T12:50:34,734 ... 2021-07-15T12:50:34,734 # self.angle_sums[i, 1], 2021-07-15T12:50:34,734 # self.angle_sums[i, 3], 2021-07-15T12:50:34,734 # rij, rcov, conv) 2021-07-15T12:50:34,734 n += 1 2021-07-15T12:50:34,734 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,735 ^ 2021-07-15T12:50:34,735 ------------------------------------------------------------ 2021-07-15T12:50:34,735 sella/internal/int_classes.pyx:584:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,735 Error compiling Cython file: 2021-07-15T12:50:34,735 ------------------------------------------------------------ 2021-07-15T12:50:34,735 ... 2021-07-15T12:50:34,735 # self.angle_sums[i, 3], 2021-07-15T12:50:34,736 # rij, rcov, conv) 2021-07-15T12:50:34,736 n += 1 2021-07-15T12:50:34,736 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,736 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,736 ^ 2021-07-15T12:50:34,736 ------------------------------------------------------------ 2021-07-15T12:50:34,737 sella/internal/int_classes.pyx:585:36: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,737 Error compiling Cython file: 2021-07-15T12:50:34,737 ------------------------------------------------------------ 2021-07-15T12:50:34,737 ... 2021-07-15T12:50:34,737 # self.angle_sums[i, 3], 2021-07-15T12:50:34,737 # rij, rcov, conv) 2021-07-15T12:50:34,737 n += 1 2021-07-15T12:50:34,738 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,738 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,738 ^ 2021-07-15T12:50:34,738 ------------------------------------------------------------ 2021-07-15T12:50:34,738 sella/internal/int_classes.pyx:585:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,738 Error compiling Cython file: 2021-07-15T12:50:34,738 ------------------------------------------------------------ 2021-07-15T12:50:34,739 ... 2021-07-15T12:50:34,739 # self.angle_sums[i, 3], 2021-07-15T12:50:34,739 # rij, rcov, conv) 2021-07-15T12:50:34,739 n += 1 2021-07-15T12:50:34,739 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,739 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,739 ^ 2021-07-15T12:50:34,740 ------------------------------------------------------------ 2021-07-15T12:50:34,740 sella/internal/int_classes.pyx:585:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,740 Error compiling Cython file: 2021-07-15T12:50:34,740 ------------------------------------------------------------ 2021-07-15T12:50:34,740 ... 2021-07-15T12:50:34,740 # self.angle_sums[i, 3], 2021-07-15T12:50:34,740 # rij, rcov, conv) 2021-07-15T12:50:34,741 n += 1 2021-07-15T12:50:34,741 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,741 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,741 ^ 2021-07-15T12:50:34,741 ------------------------------------------------------------ 2021-07-15T12:50:34,741 sella/internal/int_classes.pyx:585:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,742 Error compiling Cython file: 2021-07-15T12:50:34,742 ------------------------------------------------------------ 2021-07-15T12:50:34,742 ... 2021-07-15T12:50:34,742 # self.angle_sums[i, 3], 2021-07-15T12:50:34,742 # rij, rcov, conv) 2021-07-15T12:50:34,742 n += 1 2021-07-15T12:50:34,742 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,743 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,743 ^ 2021-07-15T12:50:34,743 ------------------------------------------------------------ 2021-07-15T12:50:34,743 sella/internal/int_classes.pyx:585:37: Converting to Python object not allowed without gil 2021-07-15T12:50:34,743 Error compiling Cython file: 2021-07-15T12:50:34,743 ------------------------------------------------------------ 2021-07-15T12:50:34,743 ... 2021-07-15T12:50:34,744 # rij, rcov, conv) 2021-07-15T12:50:34,744 n += 1 2021-07-15T12:50:34,744 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,744 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,744 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,745 ^ 2021-07-15T12:50:34,745 ------------------------------------------------------------ 2021-07-15T12:50:34,745 sella/internal/int_classes.pyx:586:36: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,745 Error compiling Cython file: 2021-07-15T12:50:34,746 ------------------------------------------------------------ 2021-07-15T12:50:34,746 ... 2021-07-15T12:50:34,746 # rij, rcov, conv) 2021-07-15T12:50:34,746 n += 1 2021-07-15T12:50:34,746 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,746 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,746 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,747 ^ 2021-07-15T12:50:34,747 ------------------------------------------------------------ 2021-07-15T12:50:34,747 sella/internal/int_classes.pyx:586:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,747 Error compiling Cython file: 2021-07-15T12:50:34,747 ------------------------------------------------------------ 2021-07-15T12:50:34,747 ... 2021-07-15T12:50:34,748 # rij, rcov, conv) 2021-07-15T12:50:34,748 n += 1 2021-07-15T12:50:34,748 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,748 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,748 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,748 ^ 2021-07-15T12:50:34,748 ------------------------------------------------------------ 2021-07-15T12:50:34,749 sella/internal/int_classes.pyx:586:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,749 Error compiling Cython file: 2021-07-15T12:50:34,749 ------------------------------------------------------------ 2021-07-15T12:50:34,749 ... 2021-07-15T12:50:34,749 # rij, rcov, conv) 2021-07-15T12:50:34,749 n += 1 2021-07-15T12:50:34,750 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,750 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,750 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,750 ^ 2021-07-15T12:50:34,750 ------------------------------------------------------------ 2021-07-15T12:50:34,750 sella/internal/int_classes.pyx:586:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,750 Error compiling Cython file: 2021-07-15T12:50:34,751 ------------------------------------------------------------ 2021-07-15T12:50:34,751 ... 2021-07-15T12:50:34,751 # rij, rcov, conv) 2021-07-15T12:50:34,751 n += 1 2021-07-15T12:50:34,751 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,751 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,751 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,752 ^ 2021-07-15T12:50:34,752 ------------------------------------------------------------ 2021-07-15T12:50:34,752 sella/internal/int_classes.pyx:586:37: Converting to Python object not allowed without gil 2021-07-15T12:50:34,752 Error compiling Cython file: 2021-07-15T12:50:34,752 ------------------------------------------------------------ 2021-07-15T12:50:34,752 ... 2021-07-15T12:50:34,752 n += 1 2021-07-15T12:50:34,753 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,753 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,753 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,753 c = self.angle_diffs[i, 2] 2021-07-15T12:50:34,753 ^ 2021-07-15T12:50:34,753 ------------------------------------------------------------ 2021-07-15T12:50:34,753 sella/internal/int_classes.pyx:587:36: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,754 Error compiling Cython file: 2021-07-15T12:50:34,754 ------------------------------------------------------------ 2021-07-15T12:50:34,754 ... 2021-07-15T12:50:34,754 n += 1 2021-07-15T12:50:34,754 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,754 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,755 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,755 c = self.angle_diffs[i, 2] 2021-07-15T12:50:34,755 ^ 2021-07-15T12:50:34,755 ------------------------------------------------------------ 2021-07-15T12:50:34,755 sella/internal/int_classes.pyx:587:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,755 Error compiling Cython file: 2021-07-15T12:50:34,755 ------------------------------------------------------------ 2021-07-15T12:50:34,756 ... 2021-07-15T12:50:34,756 n += 1 2021-07-15T12:50:34,756 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,756 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,756 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,756 c = self.angle_diffs[i, 2] 2021-07-15T12:50:34,756 ^ 2021-07-15T12:50:34,757 ------------------------------------------------------------ 2021-07-15T12:50:34,757 sella/internal/int_classes.pyx:587:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,757 Error compiling Cython file: 2021-07-15T12:50:34,757 ------------------------------------------------------------ 2021-07-15T12:50:34,757 ... 2021-07-15T12:50:34,757 n += 1 2021-07-15T12:50:34,758 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,758 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,758 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,758 c = self.angle_diffs[i, 2] 2021-07-15T12:50:34,758 ^ 2021-07-15T12:50:34,758 ------------------------------------------------------------ 2021-07-15T12:50:34,758 sella/internal/int_classes.pyx:587:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,759 Error compiling Cython file: 2021-07-15T12:50:34,759 ------------------------------------------------------------ 2021-07-15T12:50:34,759 ... 2021-07-15T12:50:34,759 n += 1 2021-07-15T12:50:34,759 for i in range(self.nangle_diffs): 2021-07-15T12:50:34,759 a = self.angle_diffs[i, 0] 2021-07-15T12:50:34,759 b = self.angle_diffs[i, 1] 2021-07-15T12:50:34,760 c = self.angle_diffs[i, 2] 2021-07-15T12:50:34,760 ^ 2021-07-15T12:50:34,760 ------------------------------------------------------------ 2021-07-15T12:50:34,760 sella/internal/int_classes.pyx:587:37: Converting to Python object not allowed without gil 2021-07-15T12:50:34,760 Error compiling Cython file: 2021-07-15T12:50:34,760 ------------------------------------------------------------ 2021-07-15T12:50:34,761 ... 2021-07-15T12:50:34,761 cdef double[:] dq_out = memoryview(dq_out_np) 2021-07-15T12:50:34,761 dq_out[:] = dq[:] 2021-07-15T12:50:34,761 cdef int ncba = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:34,761 cdef int i 2021-07-15T12:50:34,761 with nogil: 2021-07-15T12:50:34,761 for i in range(self.ndihedrals): 2021-07-15T12:50:34,761 ^ 2021-07-15T12:50:34,761 ------------------------------------------------------------ 2021-07-15T12:50:34,762 sella/internal/int_classes.pyx:666:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,762 Error compiling Cython file: 2021-07-15T12:50:34,762 ------------------------------------------------------------ 2021-07-15T12:50:34,762 ... 2021-07-15T12:50:34,762 cdef double[:] dq_out = memoryview(dq_out_np) 2021-07-15T12:50:34,762 dq_out[:] = dq[:] 2021-07-15T12:50:34,762 cdef int ncba = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:34,763 cdef int i 2021-07-15T12:50:34,763 with nogil: 2021-07-15T12:50:34,763 for i in range(self.ndihedrals): 2021-07-15T12:50:34,763 ^ 2021-07-15T12:50:34,763 ------------------------------------------------------------ 2021-07-15T12:50:34,763 sella/internal/int_classes.pyx:666:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,764 Error compiling Cython file: 2021-07-15T12:50:34,764 ------------------------------------------------------------ 2021-07-15T12:50:34,764 ... 2021-07-15T12:50:34,764 cdef double[:] dx = memoryview(dx_np) 2021-07-15T12:50:34,764 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,764 cdef double dist 2021-07-15T12:50:34,764 cdef double factr 2021-07-15T12:50:34,764 with nogil: 2021-07-15T12:50:34,764 start = self.ncart + self.nbonds 2021-07-15T12:50:34,765 ^ 2021-07-15T12:50:34,765 ------------------------------------------------------------ 2021-07-15T12:50:34,765 sella/internal/int_classes.pyx:687:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,765 Error compiling Cython file: 2021-07-15T12:50:34,765 ------------------------------------------------------------ 2021-07-15T12:50:34,765 ... 2021-07-15T12:50:34,766 cdef double[:] dx = memoryview(dx_np) 2021-07-15T12:50:34,766 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,766 cdef double dist 2021-07-15T12:50:34,766 cdef double factr 2021-07-15T12:50:34,766 with nogil: 2021-07-15T12:50:34,766 start = self.ncart + self.nbonds 2021-07-15T12:50:34,766 ^ 2021-07-15T12:50:34,766 ------------------------------------------------------------ 2021-07-15T12:50:34,767 sella/internal/int_classes.pyx:687:31: Operation not allowed without gil 2021-07-15T12:50:34,767 Error compiling Cython file: 2021-07-15T12:50:34,767 ------------------------------------------------------------ 2021-07-15T12:50:34,767 ... 2021-07-15T12:50:34,767 cdef double[:] dx = memoryview(dx_np) 2021-07-15T12:50:34,767 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,767 cdef double dist 2021-07-15T12:50:34,768 cdef double factr 2021-07-15T12:50:34,768 with nogil: 2021-07-15T12:50:34,768 start = self.ncart + self.nbonds 2021-07-15T12:50:34,768 ^ 2021-07-15T12:50:34,768 ------------------------------------------------------------ 2021-07-15T12:50:34,768 sella/internal/int_classes.pyx:687:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,768 Error compiling Cython file: 2021-07-15T12:50:34,769 ------------------------------------------------------------ 2021-07-15T12:50:34,769 ... 2021-07-15T12:50:34,769 cdef double[:] dx = memoryview(dx_np) 2021-07-15T12:50:34,769 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,769 cdef double dist 2021-07-15T12:50:34,769 cdef double factr 2021-07-15T12:50:34,769 with nogil: 2021-07-15T12:50:34,769 start = self.ncart + self.nbonds 2021-07-15T12:50:34,769 ^ 2021-07-15T12:50:34,770 ------------------------------------------------------------ 2021-07-15T12:50:34,770 sella/internal/int_classes.pyx:687:37: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,770 Error compiling Cython file: 2021-07-15T12:50:34,770 ------------------------------------------------------------ 2021-07-15T12:50:34,770 ... 2021-07-15T12:50:34,770 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,771 cdef double dist 2021-07-15T12:50:34,771 cdef double factr 2021-07-15T12:50:34,771 with nogil: 2021-07-15T12:50:34,771 start = self.ncart + self.nbonds 2021-07-15T12:50:34,771 for i in range(self.nangles): 2021-07-15T12:50:34,771 ^ 2021-07-15T12:50:34,771 ------------------------------------------------------------ 2021-07-15T12:50:34,771 sella/internal/int_classes.pyx:688:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,772 Error compiling Cython file: 2021-07-15T12:50:34,772 ------------------------------------------------------------ 2021-07-15T12:50:34,772 ... 2021-07-15T12:50:34,772 cdef int sddx = dx.strides[0] >> 3 2021-07-15T12:50:34,772 cdef double dist 2021-07-15T12:50:34,773 cdef double factr 2021-07-15T12:50:34,773 with nogil: 2021-07-15T12:50:34,773 start = self.ncart + self.nbonds 2021-07-15T12:50:34,773 for i in range(self.nangles): 2021-07-15T12:50:34,773 ^ 2021-07-15T12:50:34,773 ------------------------------------------------------------ 2021-07-15T12:50:34,774 sella/internal/int_classes.pyx:688:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,774 Error compiling Cython file: 2021-07-15T12:50:34,774 ------------------------------------------------------------ 2021-07-15T12:50:34,774 ... 2021-07-15T12:50:34,774 cdef double dist 2021-07-15T12:50:34,774 cdef double factr 2021-07-15T12:50:34,774 with nogil: 2021-07-15T12:50:34,775 start = self.ncart + self.nbonds 2021-07-15T12:50:34,775 for i in range(self.nangles): 2021-07-15T12:50:34,775 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,775 ^ 2021-07-15T12:50:34,775 ------------------------------------------------------------ 2021-07-15T12:50:34,775 sella/internal/int_classes.pyx:689:34: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,776 Error compiling Cython file: 2021-07-15T12:50:34,776 ------------------------------------------------------------ 2021-07-15T12:50:34,776 ... 2021-07-15T12:50:34,776 cdef double dist 2021-07-15T12:50:34,776 cdef double factr 2021-07-15T12:50:34,776 with nogil: 2021-07-15T12:50:34,776 start = self.ncart + self.nbonds 2021-07-15T12:50:34,776 for i in range(self.nangles): 2021-07-15T12:50:34,776 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,777 ^ 2021-07-15T12:50:34,777 ------------------------------------------------------------ 2021-07-15T12:50:34,777 sella/internal/int_classes.pyx:689:34: Operation not allowed without gil 2021-07-15T12:50:34,777 Error compiling Cython file: 2021-07-15T12:50:34,777 ------------------------------------------------------------ 2021-07-15T12:50:34,777 ... 2021-07-15T12:50:34,778 cdef double dist 2021-07-15T12:50:34,778 cdef double factr 2021-07-15T12:50:34,778 with nogil: 2021-07-15T12:50:34,778 start = self.ncart + self.nbonds 2021-07-15T12:50:34,778 for i in range(self.nangles): 2021-07-15T12:50:34,778 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,778 ^ 2021-07-15T12:50:34,778 ------------------------------------------------------------ 2021-07-15T12:50:34,779 sella/internal/int_classes.pyx:689:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,779 Error compiling Cython file: 2021-07-15T12:50:34,779 ------------------------------------------------------------ 2021-07-15T12:50:34,779 ... 2021-07-15T12:50:34,779 cdef double dist 2021-07-15T12:50:34,779 cdef double factr 2021-07-15T12:50:34,779 with nogil: 2021-07-15T12:50:34,779 start = self.ncart + self.nbonds 2021-07-15T12:50:34,780 for i in range(self.nangles): 2021-07-15T12:50:34,780 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,780 ^ 2021-07-15T12:50:34,780 ------------------------------------------------------------ 2021-07-15T12:50:34,780 sella/internal/int_classes.pyx:689:43: Indexing Python object not allowed without gil 2021-07-15T12:50:34,780 Error compiling Cython file: 2021-07-15T12:50:34,781 ------------------------------------------------------------ 2021-07-15T12:50:34,781 ... 2021-07-15T12:50:34,781 cdef double dist 2021-07-15T12:50:34,781 cdef double factr 2021-07-15T12:50:34,781 with nogil: 2021-07-15T12:50:34,781 start = self.ncart + self.nbonds 2021-07-15T12:50:34,781 for i in range(self.nangles): 2021-07-15T12:50:34,781 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,782 ^ 2021-07-15T12:50:34,782 ------------------------------------------------------------ 2021-07-15T12:50:34,782 sella/internal/int_classes.pyx:689:40: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,782 Error compiling Cython file: 2021-07-15T12:50:34,782 ------------------------------------------------------------ 2021-07-15T12:50:34,782 ... 2021-07-15T12:50:34,782 cdef double dist 2021-07-15T12:50:34,783 cdef double factr 2021-07-15T12:50:34,783 with nogil: 2021-07-15T12:50:34,783 start = self.ncart + self.nbonds 2021-07-15T12:50:34,783 for i in range(self.nangles): 2021-07-15T12:50:34,783 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,783 ^ 2021-07-15T12:50:34,783 ------------------------------------------------------------ 2021-07-15T12:50:34,783 sella/internal/int_classes.pyx:689:60: Operation not allowed without gil 2021-07-15T12:50:34,784 Error compiling Cython file: 2021-07-15T12:50:34,784 ------------------------------------------------------------ 2021-07-15T12:50:34,784 ... 2021-07-15T12:50:34,784 cdef double dist 2021-07-15T12:50:34,784 cdef double factr 2021-07-15T12:50:34,784 with nogil: 2021-07-15T12:50:34,784 start = self.ncart + self.nbonds 2021-07-15T12:50:34,785 for i in range(self.nangles): 2021-07-15T12:50:34,785 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,785 ^ 2021-07-15T12:50:34,785 ------------------------------------------------------------ 2021-07-15T12:50:34,785 sella/internal/int_classes.pyx:689:57: Converting to Python object not allowed without gil 2021-07-15T12:50:34,786 Error compiling Cython file: 2021-07-15T12:50:34,786 ------------------------------------------------------------ 2021-07-15T12:50:34,786 ... 2021-07-15T12:50:34,786 cdef double dist 2021-07-15T12:50:34,786 cdef double factr 2021-07-15T12:50:34,786 with nogil: 2021-07-15T12:50:34,786 start = self.ncart + self.nbonds 2021-07-15T12:50:34,786 for i in range(self.nangles): 2021-07-15T12:50:34,787 if not (self.atol < self.q1[start + i] < pi - self.atol): 2021-07-15T12:50:34,787 ^ 2021-07-15T12:50:34,787 ------------------------------------------------------------ 2021-07-15T12:50:34,787 sella/internal/int_classes.pyx:689:66: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,787 Error compiling Cython file: 2021-07-15T12:50:34,787 ------------------------------------------------------------ 2021-07-15T12:50:34,788 ... 2021-07-15T12:50:34,788 bad = True 2021-07-15T12:50:34,788 break 2021-07-15T12:50:34,788 if not bad: 2021-07-15T12:50:34,788 # Ignore dummy atoms for this check 2021-07-15T12:50:34,788 for i in range(self.nreal - 1): 2021-07-15T12:50:34,788 ^ 2021-07-15T12:50:34,788 ------------------------------------------------------------ 2021-07-15T12:50:34,789 sella/internal/int_classes.pyx:695:42: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,789 Error compiling Cython file: 2021-07-15T12:50:34,789 ------------------------------------------------------------ 2021-07-15T12:50:34,789 ... 2021-07-15T12:50:34,789 bad = True 2021-07-15T12:50:34,789 break 2021-07-15T12:50:34,790 if not bad: 2021-07-15T12:50:34,790 # Ignore dummy atoms for this check 2021-07-15T12:50:34,790 for i in range(self.nreal - 1): 2021-07-15T12:50:34,790 ^ 2021-07-15T12:50:34,790 ------------------------------------------------------------ 2021-07-15T12:50:34,790 sella/internal/int_classes.pyx:695:42: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,791 Error compiling Cython file: 2021-07-15T12:50:34,791 ------------------------------------------------------------ 2021-07-15T12:50:34,791 ... 2021-07-15T12:50:34,791 bad = True 2021-07-15T12:50:34,791 break 2021-07-15T12:50:34,791 if not bad: 2021-07-15T12:50:34,791 # Ignore dummy atoms for this check 2021-07-15T12:50:34,792 for i in range(self.nreal - 1): 2021-07-15T12:50:34,792 ^ 2021-07-15T12:50:34,792 ------------------------------------------------------------ 2021-07-15T12:50:34,792 sella/internal/int_classes.pyx:695:35: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,792 Error compiling Cython file: 2021-07-15T12:50:34,792 ------------------------------------------------------------ 2021-07-15T12:50:34,792 ... 2021-07-15T12:50:34,793 break 2021-07-15T12:50:34,793 if not bad: 2021-07-15T12:50:34,793 # Ignore dummy atoms for this check 2021-07-15T12:50:34,793 for i in range(self.nreal - 1): 2021-07-15T12:50:34,793 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,793 ^ 2021-07-15T12:50:34,793 ------------------------------------------------------------ 2021-07-15T12:50:34,794 sella/internal/int_classes.pyx:696:46: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,794 Error compiling Cython file: 2021-07-15T12:50:34,794 ------------------------------------------------------------ 2021-07-15T12:50:34,794 ... 2021-07-15T12:50:34,794 break 2021-07-15T12:50:34,794 if not bad: 2021-07-15T12:50:34,795 # Ignore dummy atoms for this check 2021-07-15T12:50:34,795 for i in range(self.nreal - 1): 2021-07-15T12:50:34,795 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,795 ^ 2021-07-15T12:50:34,795 ------------------------------------------------------------ 2021-07-15T12:50:34,795 sella/internal/int_classes.pyx:696:46: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,795 Error compiling Cython file: 2021-07-15T12:50:34,796 ------------------------------------------------------------ 2021-07-15T12:50:34,796 ... 2021-07-15T12:50:34,796 if not bad: 2021-07-15T12:50:34,796 # Ignore dummy atoms for this check 2021-07-15T12:50:34,796 for i in range(self.nreal - 1): 2021-07-15T12:50:34,796 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,796 if self.bmat[i, j]: 2021-07-15T12:50:34,797 ^ 2021-07-15T12:50:34,797 ------------------------------------------------------------ 2021-07-15T12:50:34,797 sella/internal/int_classes.pyx:697:36: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,797 Error compiling Cython file: 2021-07-15T12:50:34,797 ------------------------------------------------------------ 2021-07-15T12:50:34,797 ... 2021-07-15T12:50:34,798 if not bad: 2021-07-15T12:50:34,798 # Ignore dummy atoms for this check 2021-07-15T12:50:34,798 for i in range(self.nreal - 1): 2021-07-15T12:50:34,798 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,798 if self.bmat[i, j]: 2021-07-15T12:50:34,798 ^ 2021-07-15T12:50:34,798 ------------------------------------------------------------ 2021-07-15T12:50:34,799 sella/internal/int_classes.pyx:697:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,799 Error compiling Cython file: 2021-07-15T12:50:34,799 ------------------------------------------------------------ 2021-07-15T12:50:34,799 ... 2021-07-15T12:50:34,799 if not bad: 2021-07-15T12:50:34,799 # Ignore dummy atoms for this check 2021-07-15T12:50:34,800 for i in range(self.nreal - 1): 2021-07-15T12:50:34,800 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,800 if self.bmat[i, j]: 2021-07-15T12:50:34,800 ^ 2021-07-15T12:50:34,800 ------------------------------------------------------------ 2021-07-15T12:50:34,801 sella/internal/int_classes.pyx:697:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,801 Error compiling Cython file: 2021-07-15T12:50:34,801 ------------------------------------------------------------ 2021-07-15T12:50:34,801 ... 2021-07-15T12:50:34,801 if not bad: 2021-07-15T12:50:34,802 # Ignore dummy atoms for this check 2021-07-15T12:50:34,802 for i in range(self.nreal - 1): 2021-07-15T12:50:34,802 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,802 if self.bmat[i, j]: 2021-07-15T12:50:34,802 ^ 2021-07-15T12:50:34,802 ------------------------------------------------------------ 2021-07-15T12:50:34,802 sella/internal/int_classes.pyx:697:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,803 Error compiling Cython file: 2021-07-15T12:50:34,803 ------------------------------------------------------------ 2021-07-15T12:50:34,803 ... 2021-07-15T12:50:34,803 if not bad: 2021-07-15T12:50:34,803 # Ignore dummy atoms for this check 2021-07-15T12:50:34,803 for i in range(self.nreal - 1): 2021-07-15T12:50:34,803 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,804 if self.bmat[i, j]: 2021-07-15T12:50:34,804 ^ 2021-07-15T12:50:34,804 ------------------------------------------------------------ 2021-07-15T12:50:34,804 sella/internal/int_classes.pyx:697:37: Converting to Python object not allowed without gil 2021-07-15T12:50:34,804 Error compiling Cython file: 2021-07-15T12:50:34,804 ------------------------------------------------------------ 2021-07-15T12:50:34,804 ... 2021-07-15T12:50:34,805 if not bad: 2021-07-15T12:50:34,805 # Ignore dummy atoms for this check 2021-07-15T12:50:34,805 for i in range(self.nreal - 1): 2021-07-15T12:50:34,805 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,805 if self.bmat[i, j]: 2021-07-15T12:50:34,805 ^ 2021-07-15T12:50:34,805 ------------------------------------------------------------ 2021-07-15T12:50:34,806 sella/internal/int_classes.pyx:697:40: Converting to Python object not allowed without gil 2021-07-15T12:50:34,806 Error compiling Cython file: 2021-07-15T12:50:34,806 ------------------------------------------------------------ 2021-07-15T12:50:34,806 ... 2021-07-15T12:50:34,806 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,806 if self.bmat[i, j]: 2021-07-15T12:50:34,807 factr = 0.5 2021-07-15T12:50:34,807 else: 2021-07-15T12:50:34,807 factr = 1.25 2021-07-15T12:50:34,807 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,807 ^ 2021-07-15T12:50:34,807 ------------------------------------------------------------ 2021-07-15T12:50:34,807 sella/internal/int_classes.pyx:701:38: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,808 Error compiling Cython file: 2021-07-15T12:50:34,808 ------------------------------------------------------------ 2021-07-15T12:50:34,808 ... 2021-07-15T12:50:34,808 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,808 if self.bmat[i, j]: 2021-07-15T12:50:34,808 factr = 0.5 2021-07-15T12:50:34,808 else: 2021-07-15T12:50:34,808 factr = 1.25 2021-07-15T12:50:34,809 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,809 ^ 2021-07-15T12:50:34,809 ------------------------------------------------------------ 2021-07-15T12:50:34,809 sella/internal/int_classes.pyx:701:38: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,809 Error compiling Cython file: 2021-07-15T12:50:34,809 ------------------------------------------------------------ 2021-07-15T12:50:34,809 ... 2021-07-15T12:50:34,810 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,810 if self.bmat[i, j]: 2021-07-15T12:50:34,810 factr = 0.5 2021-07-15T12:50:34,810 else: 2021-07-15T12:50:34,810 factr = 1.25 2021-07-15T12:50:34,810 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,810 ^ 2021-07-15T12:50:34,810 ------------------------------------------------------------ 2021-07-15T12:50:34,811 sella/internal/int_classes.pyx:701:31: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:34,811 Error compiling Cython file: 2021-07-15T12:50:34,811 ------------------------------------------------------------ 2021-07-15T12:50:34,811 ... 2021-07-15T12:50:34,811 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,811 if self.bmat[i, j]: 2021-07-15T12:50:34,811 factr = 0.5 2021-07-15T12:50:34,812 else: 2021-07-15T12:50:34,812 factr = 1.25 2021-07-15T12:50:34,812 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,812 ^ 2021-07-15T12:50:34,812 ------------------------------------------------------------ 2021-07-15T12:50:34,812 sella/internal/int_classes.pyx:701:38: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,812 Error compiling Cython file: 2021-07-15T12:50:34,813 ------------------------------------------------------------ 2021-07-15T12:50:34,813 ... 2021-07-15T12:50:34,813 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,813 if self.bmat[i, j]: 2021-07-15T12:50:34,813 factr = 0.5 2021-07-15T12:50:34,813 else: 2021-07-15T12:50:34,813 factr = 1.25 2021-07-15T12:50:34,813 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,813 ^ 2021-07-15T12:50:34,814 ------------------------------------------------------------ 2021-07-15T12:50:34,814 sella/internal/int_classes.pyx:701:47: Indexing Python object not allowed without gil 2021-07-15T12:50:34,814 Error compiling Cython file: 2021-07-15T12:50:34,814 ------------------------------------------------------------ 2021-07-15T12:50:34,814 ... 2021-07-15T12:50:34,814 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,815 if self.bmat[i, j]: 2021-07-15T12:50:34,815 factr = 0.5 2021-07-15T12:50:34,815 else: 2021-07-15T12:50:34,815 factr = 1.25 2021-07-15T12:50:34,815 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,815 ^ 2021-07-15T12:50:34,815 ------------------------------------------------------------ 2021-07-15T12:50:34,815 sella/internal/int_classes.pyx:701:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,816 Error compiling Cython file: 2021-07-15T12:50:34,816 ------------------------------------------------------------ 2021-07-15T12:50:34,816 ... 2021-07-15T12:50:34,816 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,816 if self.bmat[i, j]: 2021-07-15T12:50:34,816 factr = 0.5 2021-07-15T12:50:34,816 else: 2021-07-15T12:50:34,816 factr = 1.25 2021-07-15T12:50:34,817 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,817 ^ 2021-07-15T12:50:34,817 ------------------------------------------------------------ 2021-07-15T12:50:34,817 sella/internal/int_classes.pyx:701:60: Indexing Python object not allowed without gil 2021-07-15T12:50:34,817 Error compiling Cython file: 2021-07-15T12:50:34,817 ------------------------------------------------------------ 2021-07-15T12:50:34,818 ... 2021-07-15T12:50:34,818 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,818 if self.bmat[i, j]: 2021-07-15T12:50:34,818 factr = 0.5 2021-07-15T12:50:34,818 else: 2021-07-15T12:50:34,818 factr = 1.25 2021-07-15T12:50:34,818 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,818 ^ 2021-07-15T12:50:34,818 ------------------------------------------------------------ 2021-07-15T12:50:34,819 sella/internal/int_classes.pyx:701:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,819 Error compiling Cython file: 2021-07-15T12:50:34,819 ------------------------------------------------------------ 2021-07-15T12:50:34,819 ... 2021-07-15T12:50:34,819 for j in range(i + 1, self.nreal): 2021-07-15T12:50:34,819 if self.bmat[i, j]: 2021-07-15T12:50:34,820 factr = 0.5 2021-07-15T12:50:34,820 else: 2021-07-15T12:50:34,820 factr = 1.25 2021-07-15T12:50:34,820 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,820 ^ 2021-07-15T12:50:34,820 ------------------------------------------------------------ 2021-07-15T12:50:34,820 sella/internal/int_classes.pyx:701:65: Converting to Python object not allowed without gil 2021-07-15T12:50:34,821 Error compiling Cython file: 2021-07-15T12:50:34,821 ------------------------------------------------------------ 2021-07-15T12:50:34,821 ... 2021-07-15T12:50:34,821 else: 2021-07-15T12:50:34,821 factr = 1.25 2021-07-15T12:50:34,821 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,821 if info != 0: break 2021-07-15T12:50:34,821 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,822 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,822 ^ 2021-07-15T12:50:34,822 ------------------------------------------------------------ 2021-07-15T12:50:34,822 sella/internal/int_classes.pyx:704:32: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,822 Error compiling Cython file: 2021-07-15T12:50:34,822 ------------------------------------------------------------ 2021-07-15T12:50:34,822 ... 2021-07-15T12:50:34,823 else: 2021-07-15T12:50:34,823 factr = 1.25 2021-07-15T12:50:34,823 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,823 if info != 0: break 2021-07-15T12:50:34,823 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,823 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,823 ^ 2021-07-15T12:50:34,823 ------------------------------------------------------------ 2021-07-15T12:50:34,824 sella/internal/int_classes.pyx:704:32: Operation not allowed without gil 2021-07-15T12:50:34,824 Error compiling Cython file: 2021-07-15T12:50:34,824 ------------------------------------------------------------ 2021-07-15T12:50:34,824 ... 2021-07-15T12:50:34,825 else: 2021-07-15T12:50:34,825 factr = 1.25 2021-07-15T12:50:34,825 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,825 if info != 0: break 2021-07-15T12:50:34,825 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,825 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,826 ^ 2021-07-15T12:50:34,826 ------------------------------------------------------------ 2021-07-15T12:50:34,826 sella/internal/int_classes.pyx:704:27: Converting to Python object not allowed without gil 2021-07-15T12:50:34,826 Error compiling Cython file: 2021-07-15T12:50:34,826 ------------------------------------------------------------ 2021-07-15T12:50:34,826 ... 2021-07-15T12:50:34,826 else: 2021-07-15T12:50:34,827 factr = 1.25 2021-07-15T12:50:34,827 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,827 if info != 0: break 2021-07-15T12:50:34,827 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,827 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,827 ^ 2021-07-15T12:50:34,827 ------------------------------------------------------------ 2021-07-15T12:50:34,827 sella/internal/int_classes.pyx:704:40: Operation not allowed without gil 2021-07-15T12:50:34,828 Error compiling Cython file: 2021-07-15T12:50:34,828 ------------------------------------------------------------ 2021-07-15T12:50:34,828 ... 2021-07-15T12:50:34,828 else: 2021-07-15T12:50:34,828 factr = 1.25 2021-07-15T12:50:34,828 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,828 if info != 0: break 2021-07-15T12:50:34,829 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,829 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,829 ^ 2021-07-15T12:50:34,829 ------------------------------------------------------------ 2021-07-15T12:50:34,829 sella/internal/int_classes.pyx:704:34: Converting to Python object not allowed without gil 2021-07-15T12:50:34,829 Error compiling Cython file: 2021-07-15T12:50:34,830 ------------------------------------------------------------ 2021-07-15T12:50:34,830 ... 2021-07-15T12:50:34,830 else: 2021-07-15T12:50:34,830 factr = 1.25 2021-07-15T12:50:34,830 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,830 if info != 0: break 2021-07-15T12:50:34,830 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,830 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,830 ^ 2021-07-15T12:50:34,831 ------------------------------------------------------------ 2021-07-15T12:50:34,831 sella/internal/int_classes.pyx:704:56: Operation not allowed without gil 2021-07-15T12:50:34,831 Error compiling Cython file: 2021-07-15T12:50:34,831 ------------------------------------------------------------ 2021-07-15T12:50:34,831 ... 2021-07-15T12:50:34,831 else: 2021-07-15T12:50:34,831 factr = 1.25 2021-07-15T12:50:34,832 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,832 if info != 0: break 2021-07-15T12:50:34,832 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,832 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,832 ^ 2021-07-15T12:50:34,832 ------------------------------------------------------------ 2021-07-15T12:50:34,832 sella/internal/int_classes.pyx:704:52: Indexing Python object not allowed without gil 2021-07-15T12:50:34,833 Error compiling Cython file: 2021-07-15T12:50:34,833 ------------------------------------------------------------ 2021-07-15T12:50:34,833 ... 2021-07-15T12:50:34,833 else: 2021-07-15T12:50:34,833 factr = 1.25 2021-07-15T12:50:34,833 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,833 if info != 0: break 2021-07-15T12:50:34,833 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,834 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,834 ^ 2021-07-15T12:50:34,834 ------------------------------------------------------------ 2021-07-15T12:50:34,834 sella/internal/int_classes.pyx:704:47: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,834 Error compiling Cython file: 2021-07-15T12:50:34,834 ------------------------------------------------------------ 2021-07-15T12:50:34,835 ... 2021-07-15T12:50:34,835 else: 2021-07-15T12:50:34,835 factr = 1.25 2021-07-15T12:50:34,835 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,835 if info != 0: break 2021-07-15T12:50:34,835 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,835 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,835 ^ 2021-07-15T12:50:34,836 ------------------------------------------------------------ 2021-07-15T12:50:34,836 sella/internal/int_classes.pyx:704:67: Indexing Python object not allowed without gil 2021-07-15T12:50:34,836 Error compiling Cython file: 2021-07-15T12:50:34,836 ------------------------------------------------------------ 2021-07-15T12:50:34,836 ... 2021-07-15T12:50:34,836 else: 2021-07-15T12:50:34,836 factr = 1.25 2021-07-15T12:50:34,837 info = vec_sum(self.pos[i], self.pos[j], dx, -1.) 2021-07-15T12:50:34,837 if info != 0: break 2021-07-15T12:50:34,837 dist = dnrm2(&THREE, &dx[0], &sddx) 2021-07-15T12:50:34,837 if dist < factr * (self.rcov[i] + self.rcov[j]): 2021-07-15T12:50:34,837 ^ 2021-07-15T12:50:34,837 ------------------------------------------------------------ 2021-07-15T12:50:34,837 sella/internal/int_classes.pyx:704:62: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,838 Error compiling Cython file: 2021-07-15T12:50:34,838 ------------------------------------------------------------ 2021-07-15T12:50:34,838 ... 2021-07-15T12:50:34,838 self.tvecs = memoryview(np.zeros((3, self.nx), dtype=np.float64)) 2021-07-15T12:50:34,838 cdef int n, j 2021-07-15T12:50:34,838 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,839 with nogil: 2021-07-15T12:50:34,839 if self.proj_trans: 2021-07-15T12:50:34,839 ^ 2021-07-15T12:50:34,839 ------------------------------------------------------------ 2021-07-15T12:50:34,839 sella/internal/int_classes.pyx:781:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,839 Error compiling Cython file: 2021-07-15T12:50:34,839 ------------------------------------------------------------ 2021-07-15T12:50:34,840 ... 2021-07-15T12:50:34,840 self.tvecs = memoryview(np.zeros((3, self.nx), dtype=np.float64)) 2021-07-15T12:50:34,840 cdef int n, j 2021-07-15T12:50:34,840 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,840 with nogil: 2021-07-15T12:50:34,840 if self.proj_trans: 2021-07-15T12:50:34,840 ^ 2021-07-15T12:50:34,840 ------------------------------------------------------------ 2021-07-15T12:50:34,841 sella/internal/int_classes.pyx:781:19: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,841 Error compiling Cython file: 2021-07-15T12:50:34,841 ------------------------------------------------------------ 2021-07-15T12:50:34,841 ... 2021-07-15T12:50:34,841 cdef int n, j 2021-07-15T12:50:34,841 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,842 with nogil: 2021-07-15T12:50:34,842 if self.proj_trans: 2021-07-15T12:50:34,842 for j in range(3): 2021-07-15T12:50:34,842 self.trans_dirs[j] = True 2021-07-15T12:50:34,842 ^ 2021-07-15T12:50:34,842 ------------------------------------------------------------ 2021-07-15T12:50:34,842 sella/internal/int_classes.pyx:783:35: Indexing Python object not allowed without gil 2021-07-15T12:50:34,843 Error compiling Cython file: 2021-07-15T12:50:34,843 ------------------------------------------------------------ 2021-07-15T12:50:34,843 ... 2021-07-15T12:50:34,843 cdef int n, j 2021-07-15T12:50:34,843 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,843 with nogil: 2021-07-15T12:50:34,843 if self.proj_trans: 2021-07-15T12:50:34,843 for j in range(3): 2021-07-15T12:50:34,843 self.trans_dirs[j] = True 2021-07-15T12:50:34,844 ^ 2021-07-15T12:50:34,844 ------------------------------------------------------------ 2021-07-15T12:50:34,844 sella/internal/int_classes.pyx:783:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,844 Error compiling Cython file: 2021-07-15T12:50:34,844 ------------------------------------------------------------ 2021-07-15T12:50:34,844 ... 2021-07-15T12:50:34,845 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,845 with nogil: 2021-07-15T12:50:34,845 if self.proj_trans: 2021-07-15T12:50:34,845 for j in range(3): 2021-07-15T12:50:34,845 self.trans_dirs[j] = True 2021-07-15T12:50:34,845 for n in range(self.ncart): 2021-07-15T12:50:34,845 ^ 2021-07-15T12:50:34,845 ------------------------------------------------------------ 2021-07-15T12:50:34,846 sella/internal/int_classes.pyx:784:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,846 Error compiling Cython file: 2021-07-15T12:50:34,846 ------------------------------------------------------------ 2021-07-15T12:50:34,846 ... 2021-07-15T12:50:34,846 cdef double invsqrtnat = sqrt(1. / self.natoms) 2021-07-15T12:50:34,846 with nogil: 2021-07-15T12:50:34,846 if self.proj_trans: 2021-07-15T12:50:34,847 for j in range(3): 2021-07-15T12:50:34,847 self.trans_dirs[j] = True 2021-07-15T12:50:34,847 for n in range(self.ncart): 2021-07-15T12:50:34,847 ^ 2021-07-15T12:50:34,847 ------------------------------------------------------------ 2021-07-15T12:50:34,847 sella/internal/int_classes.pyx:784:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,847 Error compiling Cython file: 2021-07-15T12:50:34,848 ------------------------------------------------------------ 2021-07-15T12:50:34,848 ... 2021-07-15T12:50:34,848 with nogil: 2021-07-15T12:50:34,848 if self.proj_trans: 2021-07-15T12:50:34,848 for j in range(3): 2021-07-15T12:50:34,848 self.trans_dirs[j] = True 2021-07-15T12:50:34,848 for n in range(self.ncart): 2021-07-15T12:50:34,849 i = self.cart[n, 0] 2021-07-15T12:50:34,849 ^ 2021-07-15T12:50:34,849 ------------------------------------------------------------ 2021-07-15T12:50:34,849 sella/internal/int_classes.pyx:785:29: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,849 Error compiling Cython file: 2021-07-15T12:50:34,850 ------------------------------------------------------------ 2021-07-15T12:50:34,850 ... 2021-07-15T12:50:34,850 with nogil: 2021-07-15T12:50:34,850 if self.proj_trans: 2021-07-15T12:50:34,850 for j in range(3): 2021-07-15T12:50:34,850 self.trans_dirs[j] = True 2021-07-15T12:50:34,850 for n in range(self.ncart): 2021-07-15T12:50:34,851 i = self.cart[n, 0] 2021-07-15T12:50:34,851 ^ 2021-07-15T12:50:34,851 ------------------------------------------------------------ 2021-07-15T12:50:34,851 sella/internal/int_classes.pyx:785:29: Indexing Python object not allowed without gil 2021-07-15T12:50:34,851 Error compiling Cython file: 2021-07-15T12:50:34,852 ------------------------------------------------------------ 2021-07-15T12:50:34,852 ... 2021-07-15T12:50:34,852 with nogil: 2021-07-15T12:50:34,852 if self.proj_trans: 2021-07-15T12:50:34,852 for j in range(3): 2021-07-15T12:50:34,852 self.trans_dirs[j] = True 2021-07-15T12:50:34,852 for n in range(self.ncart): 2021-07-15T12:50:34,852 i = self.cart[n, 0] 2021-07-15T12:50:34,852 ^ 2021-07-15T12:50:34,853 ------------------------------------------------------------ 2021-07-15T12:50:34,853 sella/internal/int_classes.pyx:785:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,853 Error compiling Cython file: 2021-07-15T12:50:34,853 ------------------------------------------------------------ 2021-07-15T12:50:34,853 ... 2021-07-15T12:50:34,853 with nogil: 2021-07-15T12:50:34,854 if self.proj_trans: 2021-07-15T12:50:34,854 for j in range(3): 2021-07-15T12:50:34,854 self.trans_dirs[j] = True 2021-07-15T12:50:34,854 for n in range(self.ncart): 2021-07-15T12:50:34,854 i = self.cart[n, 0] 2021-07-15T12:50:34,854 ^ 2021-07-15T12:50:34,854 ------------------------------------------------------------ 2021-07-15T12:50:34,854 sella/internal/int_classes.pyx:785:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,855 Error compiling Cython file: 2021-07-15T12:50:34,855 ------------------------------------------------------------ 2021-07-15T12:50:34,855 ... 2021-07-15T12:50:34,855 with nogil: 2021-07-15T12:50:34,855 if self.proj_trans: 2021-07-15T12:50:34,855 for j in range(3): 2021-07-15T12:50:34,855 self.trans_dirs[j] = True 2021-07-15T12:50:34,856 for n in range(self.ncart): 2021-07-15T12:50:34,856 i = self.cart[n, 0] 2021-07-15T12:50:34,856 ^ 2021-07-15T12:50:34,856 ------------------------------------------------------------ 2021-07-15T12:50:34,856 sella/internal/int_classes.pyx:785:30: Converting to Python object not allowed without gil 2021-07-15T12:50:34,856 Error compiling Cython file: 2021-07-15T12:50:34,856 ------------------------------------------------------------ 2021-07-15T12:50:34,857 ... 2021-07-15T12:50:34,857 if self.proj_trans: 2021-07-15T12:50:34,857 for j in range(3): 2021-07-15T12:50:34,857 self.trans_dirs[j] = True 2021-07-15T12:50:34,857 for n in range(self.ncart): 2021-07-15T12:50:34,857 i = self.cart[n, 0] 2021-07-15T12:50:34,857 j = self.cart[n, 1] 2021-07-15T12:50:34,857 ^ 2021-07-15T12:50:34,858 ------------------------------------------------------------ 2021-07-15T12:50:34,858 sella/internal/int_classes.pyx:786:29: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,858 Error compiling Cython file: 2021-07-15T12:50:34,858 ------------------------------------------------------------ 2021-07-15T12:50:34,858 ... 2021-07-15T12:50:34,858 if self.proj_trans: 2021-07-15T12:50:34,859 for j in range(3): 2021-07-15T12:50:34,859 self.trans_dirs[j] = True 2021-07-15T12:50:34,859 for n in range(self.ncart): 2021-07-15T12:50:34,859 i = self.cart[n, 0] 2021-07-15T12:50:34,859 j = self.cart[n, 1] 2021-07-15T12:50:34,859 ^ 2021-07-15T12:50:34,859 ------------------------------------------------------------ 2021-07-15T12:50:34,859 sella/internal/int_classes.pyx:786:29: Indexing Python object not allowed without gil 2021-07-15T12:50:34,860 Error compiling Cython file: 2021-07-15T12:50:34,860 ------------------------------------------------------------ 2021-07-15T12:50:34,860 ... 2021-07-15T12:50:34,860 if self.proj_trans: 2021-07-15T12:50:34,860 for j in range(3): 2021-07-15T12:50:34,860 self.trans_dirs[j] = True 2021-07-15T12:50:34,860 for n in range(self.ncart): 2021-07-15T12:50:34,860 i = self.cart[n, 0] 2021-07-15T12:50:34,861 j = self.cart[n, 1] 2021-07-15T12:50:34,861 ^ 2021-07-15T12:50:34,861 ------------------------------------------------------------ 2021-07-15T12:50:34,861 sella/internal/int_classes.pyx:786:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,861 Error compiling Cython file: 2021-07-15T12:50:34,861 ------------------------------------------------------------ 2021-07-15T12:50:34,862 ... 2021-07-15T12:50:34,862 if self.proj_trans: 2021-07-15T12:50:34,862 for j in range(3): 2021-07-15T12:50:34,862 self.trans_dirs[j] = True 2021-07-15T12:50:34,862 for n in range(self.ncart): 2021-07-15T12:50:34,862 i = self.cart[n, 0] 2021-07-15T12:50:34,862 j = self.cart[n, 1] 2021-07-15T12:50:34,862 ^ 2021-07-15T12:50:34,863 ------------------------------------------------------------ 2021-07-15T12:50:34,863 sella/internal/int_classes.pyx:786:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,863 Error compiling Cython file: 2021-07-15T12:50:34,863 ------------------------------------------------------------ 2021-07-15T12:50:34,863 ... 2021-07-15T12:50:34,863 if self.proj_trans: 2021-07-15T12:50:34,863 for j in range(3): 2021-07-15T12:50:34,864 self.trans_dirs[j] = True 2021-07-15T12:50:34,864 for n in range(self.ncart): 2021-07-15T12:50:34,864 i = self.cart[n, 0] 2021-07-15T12:50:34,864 j = self.cart[n, 1] 2021-07-15T12:50:34,864 ^ 2021-07-15T12:50:34,864 ------------------------------------------------------------ 2021-07-15T12:50:34,864 sella/internal/int_classes.pyx:786:30: Converting to Python object not allowed without gil 2021-07-15T12:50:34,865 Error compiling Cython file: 2021-07-15T12:50:34,865 ------------------------------------------------------------ 2021-07-15T12:50:34,865 ... 2021-07-15T12:50:34,865 self.trans_dirs[j] = True 2021-07-15T12:50:34,865 for n in range(self.ncart): 2021-07-15T12:50:34,865 i = self.cart[n, 0] 2021-07-15T12:50:34,865 j = self.cart[n, 1] 2021-07-15T12:50:34,865 fixed[i, j] = True 2021-07-15T12:50:34,866 self.trans_dirs[j] = False 2021-07-15T12:50:34,866 ^ 2021-07-15T12:50:34,866 ------------------------------------------------------------ 2021-07-15T12:50:34,866 sella/internal/int_classes.pyx:788:31: Indexing Python object not allowed without gil 2021-07-15T12:50:34,866 Error compiling Cython file: 2021-07-15T12:50:34,866 ------------------------------------------------------------ 2021-07-15T12:50:34,867 ... 2021-07-15T12:50:34,867 self.trans_dirs[j] = True 2021-07-15T12:50:34,867 for n in range(self.ncart): 2021-07-15T12:50:34,867 i = self.cart[n, 0] 2021-07-15T12:50:34,867 j = self.cart[n, 1] 2021-07-15T12:50:34,867 fixed[i, j] = True 2021-07-15T12:50:34,867 self.trans_dirs[j] = False 2021-07-15T12:50:34,867 ^ 2021-07-15T12:50:34,867 ------------------------------------------------------------ 2021-07-15T12:50:34,868 sella/internal/int_classes.pyx:788:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,868 Error compiling Cython file: 2021-07-15T12:50:34,868 ------------------------------------------------------------ 2021-07-15T12:50:34,868 ... 2021-07-15T12:50:34,868 i = self.cart[n, 0] 2021-07-15T12:50:34,868 j = self.cart[n, 1] 2021-07-15T12:50:34,868 fixed[i, j] = True 2021-07-15T12:50:34,869 self.trans_dirs[j] = False 2021-07-15T12:50:34,869 n = 0 2021-07-15T12:50:34,869 for i in range(self.natoms): 2021-07-15T12:50:34,869 ^ 2021-07-15T12:50:34,869 ------------------------------------------------------------ 2021-07-15T12:50:34,869 sella/internal/int_classes.pyx:790:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,870 Error compiling Cython file: 2021-07-15T12:50:34,870 ------------------------------------------------------------ 2021-07-15T12:50:34,870 ... 2021-07-15T12:50:34,870 i = self.cart[n, 0] 2021-07-15T12:50:34,870 j = self.cart[n, 1] 2021-07-15T12:50:34,870 fixed[i, j] = True 2021-07-15T12:50:34,870 self.trans_dirs[j] = False 2021-07-15T12:50:34,870 n = 0 2021-07-15T12:50:34,870 for i in range(self.natoms): 2021-07-15T12:50:34,871 ^ 2021-07-15T12:50:34,871 ------------------------------------------------------------ 2021-07-15T12:50:34,871 sella/internal/int_classes.pyx:790:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,871 Error compiling Cython file: 2021-07-15T12:50:34,871 ------------------------------------------------------------ 2021-07-15T12:50:34,871 ... 2021-07-15T12:50:34,872 n = 0 2021-07-15T12:50:34,872 for i in range(self.natoms): 2021-07-15T12:50:34,872 for j in range(3): 2021-07-15T12:50:34,872 if fixed[i, j]: 2021-07-15T12:50:34,872 continue 2021-07-15T12:50:34,872 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,872 ^ 2021-07-15T12:50:34,872 ------------------------------------------------------------ 2021-07-15T12:50:34,873 sella/internal/int_classes.pyx:794:29: Indexing Python object not allowed without gil 2021-07-15T12:50:34,873 Error compiling Cython file: 2021-07-15T12:50:34,873 ------------------------------------------------------------ 2021-07-15T12:50:34,873 ... 2021-07-15T12:50:34,873 n = 0 2021-07-15T12:50:34,873 for i in range(self.natoms): 2021-07-15T12:50:34,873 for j in range(3): 2021-07-15T12:50:34,874 if fixed[i, j]: 2021-07-15T12:50:34,874 continue 2021-07-15T12:50:34,874 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,874 ^ 2021-07-15T12:50:34,874 ------------------------------------------------------------ 2021-07-15T12:50:34,874 sella/internal/int_classes.pyx:794:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,874 Error compiling Cython file: 2021-07-15T12:50:34,875 ------------------------------------------------------------ 2021-07-15T12:50:34,875 ... 2021-07-15T12:50:34,875 n = 0 2021-07-15T12:50:34,875 for i in range(self.natoms): 2021-07-15T12:50:34,875 for j in range(3): 2021-07-15T12:50:34,875 if fixed[i, j]: 2021-07-15T12:50:34,875 continue 2021-07-15T12:50:34,875 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,876 ^ 2021-07-15T12:50:34,876 ------------------------------------------------------------ 2021-07-15T12:50:34,876 sella/internal/int_classes.pyx:794:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,876 Error compiling Cython file: 2021-07-15T12:50:34,876 ------------------------------------------------------------ 2021-07-15T12:50:34,876 ... 2021-07-15T12:50:34,877 n = 0 2021-07-15T12:50:34,877 for i in range(self.natoms): 2021-07-15T12:50:34,877 for j in range(3): 2021-07-15T12:50:34,877 if fixed[i, j]: 2021-07-15T12:50:34,877 continue 2021-07-15T12:50:34,877 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,878 ^ 2021-07-15T12:50:34,878 ------------------------------------------------------------ 2021-07-15T12:50:34,878 sella/internal/int_classes.pyx:794:36: Converting to Python object not allowed without gil 2021-07-15T12:50:34,878 Error compiling Cython file: 2021-07-15T12:50:34,878 ------------------------------------------------------------ 2021-07-15T12:50:34,879 ... 2021-07-15T12:50:34,879 n = 0 2021-07-15T12:50:34,879 for i in range(self.natoms): 2021-07-15T12:50:34,879 for j in range(3): 2021-07-15T12:50:34,879 if fixed[i, j]: 2021-07-15T12:50:34,879 continue 2021-07-15T12:50:34,879 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,879 ^ 2021-07-15T12:50:34,880 ------------------------------------------------------------ 2021-07-15T12:50:34,880 sella/internal/int_classes.pyx:794:41: Converting to Python object not allowed without gil 2021-07-15T12:50:34,880 Error compiling Cython file: 2021-07-15T12:50:34,880 ------------------------------------------------------------ 2021-07-15T12:50:34,880 ... 2021-07-15T12:50:34,880 if fixed[i, j]: 2021-07-15T12:50:34,880 continue 2021-07-15T12:50:34,881 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,881 n += 1 2021-07-15T12:50:34,881 self.ntrans = 0 2021-07-15T12:50:34,881 ^ 2021-07-15T12:50:34,881 ------------------------------------------------------------ 2021-07-15T12:50:34,881 sella/internal/int_classes.pyx:797:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,882 Error compiling Cython file: 2021-07-15T12:50:34,882 ------------------------------------------------------------ 2021-07-15T12:50:34,882 ... 2021-07-15T12:50:34,882 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,882 n += 1 2021-07-15T12:50:34,882 self.ntrans = 0 2021-07-15T12:50:34,882 for j in range(3): 2021-07-15T12:50:34,883 if self.trans_dirs[j]: 2021-07-15T12:50:34,883 ^ 2021-07-15T12:50:34,883 ------------------------------------------------------------ 2021-07-15T12:50:34,883 sella/internal/int_classes.pyx:799:34: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,883 Error compiling Cython file: 2021-07-15T12:50:34,883 ------------------------------------------------------------ 2021-07-15T12:50:34,883 ... 2021-07-15T12:50:34,884 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,884 n += 1 2021-07-15T12:50:34,884 self.ntrans = 0 2021-07-15T12:50:34,884 for j in range(3): 2021-07-15T12:50:34,884 if self.trans_dirs[j]: 2021-07-15T12:50:34,884 ^ 2021-07-15T12:50:34,884 ------------------------------------------------------------ 2021-07-15T12:50:34,885 sella/internal/int_classes.pyx:799:34: Indexing Python object not allowed without gil 2021-07-15T12:50:34,885 Error compiling Cython file: 2021-07-15T12:50:34,885 ------------------------------------------------------------ 2021-07-15T12:50:34,885 ... 2021-07-15T12:50:34,885 self.Ured[3 * i + j, n] = 1. 2021-07-15T12:50:34,885 n += 1 2021-07-15T12:50:34,886 self.ntrans = 0 2021-07-15T12:50:34,886 for j in range(3): 2021-07-15T12:50:34,886 if self.trans_dirs[j]: 2021-07-15T12:50:34,886 ^ 2021-07-15T12:50:34,886 ------------------------------------------------------------ 2021-07-15T12:50:34,886 sella/internal/int_classes.pyx:799:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,887 Error compiling Cython file: 2021-07-15T12:50:34,887 ------------------------------------------------------------ 2021-07-15T12:50:34,887 ... 2021-07-15T12:50:34,887 n += 1 2021-07-15T12:50:34,887 self.ntrans = 0 2021-07-15T12:50:34,887 for j in range(3): 2021-07-15T12:50:34,887 if self.trans_dirs[j]: 2021-07-15T12:50:34,888 for i in range(self.natoms): 2021-07-15T12:50:34,888 ^ 2021-07-15T12:50:34,888 ------------------------------------------------------------ 2021-07-15T12:50:34,888 sella/internal/int_classes.pyx:800:39: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,888 Error compiling Cython file: 2021-07-15T12:50:34,888 ------------------------------------------------------------ 2021-07-15T12:50:34,888 ... 2021-07-15T12:50:34,889 n += 1 2021-07-15T12:50:34,889 self.ntrans = 0 2021-07-15T12:50:34,889 for j in range(3): 2021-07-15T12:50:34,889 if self.trans_dirs[j]: 2021-07-15T12:50:34,889 for i in range(self.natoms): 2021-07-15T12:50:34,889 ^ 2021-07-15T12:50:34,889 ------------------------------------------------------------ 2021-07-15T12:50:34,890 sella/internal/int_classes.pyx:800:39: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,890 Error compiling Cython file: 2021-07-15T12:50:34,890 ------------------------------------------------------------ 2021-07-15T12:50:34,890 ... 2021-07-15T12:50:34,890 self.ntrans = 0 2021-07-15T12:50:34,890 for j in range(3): 2021-07-15T12:50:34,890 if self.trans_dirs[j]: 2021-07-15T12:50:34,891 for i in range(self.natoms): 2021-07-15T12:50:34,891 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,891 ^ 2021-07-15T12:50:34,891 ------------------------------------------------------------ 2021-07-15T12:50:34,891 sella/internal/int_classes.pyx:801:34: Indexing Python object not allowed without gil 2021-07-15T12:50:34,891 Error compiling Cython file: 2021-07-15T12:50:34,892 ------------------------------------------------------------ 2021-07-15T12:50:34,892 ... 2021-07-15T12:50:34,892 self.ntrans = 0 2021-07-15T12:50:34,892 for j in range(3): 2021-07-15T12:50:34,892 if self.trans_dirs[j]: 2021-07-15T12:50:34,892 for i in range(self.natoms): 2021-07-15T12:50:34,892 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,892 ^ 2021-07-15T12:50:34,893 ------------------------------------------------------------ 2021-07-15T12:50:34,893 sella/internal/int_classes.pyx:801:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,893 Error compiling Cython file: 2021-07-15T12:50:34,893 ------------------------------------------------------------ 2021-07-15T12:50:34,893 ... 2021-07-15T12:50:34,893 self.ntrans = 0 2021-07-15T12:50:34,894 for j in range(3): 2021-07-15T12:50:34,894 if self.trans_dirs[j]: 2021-07-15T12:50:34,894 for i in range(self.natoms): 2021-07-15T12:50:34,894 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,894 ^ 2021-07-15T12:50:34,894 ------------------------------------------------------------ 2021-07-15T12:50:34,894 sella/internal/int_classes.pyx:801:34: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,895 Error compiling Cython file: 2021-07-15T12:50:34,895 ------------------------------------------------------------ 2021-07-15T12:50:34,895 ... 2021-07-15T12:50:34,895 self.ntrans = 0 2021-07-15T12:50:34,895 for j in range(3): 2021-07-15T12:50:34,895 if self.trans_dirs[j]: 2021-07-15T12:50:34,895 for i in range(self.natoms): 2021-07-15T12:50:34,896 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,896 ^ 2021-07-15T12:50:34,896 ------------------------------------------------------------ 2021-07-15T12:50:34,896 sella/internal/int_classes.pyx:801:39: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,896 Error compiling Cython file: 2021-07-15T12:50:34,896 ------------------------------------------------------------ 2021-07-15T12:50:34,896 ... 2021-07-15T12:50:34,897 self.ntrans = 0 2021-07-15T12:50:34,897 for j in range(3): 2021-07-15T12:50:34,897 if self.trans_dirs[j]: 2021-07-15T12:50:34,897 for i in range(self.natoms): 2021-07-15T12:50:34,897 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,897 ^ 2021-07-15T12:50:34,897 ------------------------------------------------------------ 2021-07-15T12:50:34,898 sella/internal/int_classes.pyx:801:54: Converting to Python object not allowed without gil 2021-07-15T12:50:34,898 Error compiling Cython file: 2021-07-15T12:50:34,898 ------------------------------------------------------------ 2021-07-15T12:50:34,898 ... 2021-07-15T12:50:34,898 self.ntrans = 0 2021-07-15T12:50:34,898 for j in range(3): 2021-07-15T12:50:34,899 if self.trans_dirs[j]: 2021-07-15T12:50:34,899 for i in range(self.natoms): 2021-07-15T12:50:34,899 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,899 ^ 2021-07-15T12:50:34,899 ------------------------------------------------------------ 2021-07-15T12:50:34,899 sella/internal/int_classes.pyx:801:61: Converting to Python object not allowed without gil 2021-07-15T12:50:34,900 Error compiling Cython file: 2021-07-15T12:50:34,900 ------------------------------------------------------------ 2021-07-15T12:50:34,900 ... 2021-07-15T12:50:34,900 self.ntrans = 0 2021-07-15T12:50:34,900 for j in range(3): 2021-07-15T12:50:34,900 if self.trans_dirs[j]: 2021-07-15T12:50:34,900 for i in range(self.natoms): 2021-07-15T12:50:34,900 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,900 self.ntrans += 1 2021-07-15T12:50:34,901 ^ 2021-07-15T12:50:34,901 ------------------------------------------------------------ 2021-07-15T12:50:34,901 sella/internal/int_classes.pyx:802:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,901 Error compiling Cython file: 2021-07-15T12:50:34,901 ------------------------------------------------------------ 2021-07-15T12:50:34,901 ... 2021-07-15T12:50:34,902 self.ntrans = 0 2021-07-15T12:50:34,902 for j in range(3): 2021-07-15T12:50:34,902 if self.trans_dirs[j]: 2021-07-15T12:50:34,902 for i in range(self.natoms): 2021-07-15T12:50:34,902 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,902 self.ntrans += 1 2021-07-15T12:50:34,902 ^ 2021-07-15T12:50:34,902 ------------------------------------------------------------ 2021-07-15T12:50:34,903 sella/internal/int_classes.pyx:802:24: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,903 Error compiling Cython file: 2021-07-15T12:50:34,903 ------------------------------------------------------------ 2021-07-15T12:50:34,903 ... 2021-07-15T12:50:34,903 self.ntrans = 0 2021-07-15T12:50:34,903 for j in range(3): 2021-07-15T12:50:34,903 if self.trans_dirs[j]: 2021-07-15T12:50:34,903 for i in range(self.natoms): 2021-07-15T12:50:34,904 self.tvecs[self.ntrans, 3 * i + j] = invsqrtnat 2021-07-15T12:50:34,904 self.ntrans += 1 2021-07-15T12:50:34,904 ^ 2021-07-15T12:50:34,904 ------------------------------------------------------------ 2021-07-15T12:50:34,904 sella/internal/int_classes.pyx:802:24: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,905 Error compiling Cython file: 2021-07-15T12:50:34,905 ------------------------------------------------------------ 2021-07-15T12:50:34,905 ... 2021-07-15T12:50:34,905 bint grad=False, 2021-07-15T12:50:34,905 bint curv=False, 2021-07-15T12:50:34,905 bint force=False) nogil except -1: 2021-07-15T12:50:34,906 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,906 return -1 2021-07-15T12:50:34,906 if not self.calc_required and not force: 2021-07-15T12:50:34,906 ^ 2021-07-15T12:50:34,906 ------------------------------------------------------------ 2021-07-15T12:50:34,906 sella/internal/int_classes.pyx:838:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,907 Error compiling Cython file: 2021-07-15T12:50:34,907 ------------------------------------------------------------ 2021-07-15T12:50:34,907 ... 2021-07-15T12:50:34,907 bint grad=False, 2021-07-15T12:50:34,907 bint curv=False, 2021-07-15T12:50:34,907 bint force=False) nogil except -1: 2021-07-15T12:50:34,908 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,908 return -1 2021-07-15T12:50:34,908 if not self.calc_required and not force: 2021-07-15T12:50:34,908 ^ 2021-07-15T12:50:34,908 ------------------------------------------------------------ 2021-07-15T12:50:34,908 sella/internal/int_classes.pyx:838:19: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,909 Error compiling Cython file: 2021-07-15T12:50:34,909 ------------------------------------------------------------ 2021-07-15T12:50:34,909 ... 2021-07-15T12:50:34,909 bint curv=False, 2021-07-15T12:50:34,909 bint force=False) nogil except -1: 2021-07-15T12:50:34,909 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,909 return -1 2021-07-15T12:50:34,909 if not self.calc_required and not force: 2021-07-15T12:50:34,910 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:34,910 ^ 2021-07-15T12:50:34,910 ------------------------------------------------------------ 2021-07-15T12:50:34,910 sella/internal/int_classes.pyx:839:20: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,910 Error compiling Cython file: 2021-07-15T12:50:34,910 ------------------------------------------------------------ 2021-07-15T12:50:34,911 ... 2021-07-15T12:50:34,911 bint curv=False, 2021-07-15T12:50:34,911 bint force=False) nogil except -1: 2021-07-15T12:50:34,911 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,911 return -1 2021-07-15T12:50:34,911 if not self.calc_required and not force: 2021-07-15T12:50:34,911 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:34,912 ^ 2021-07-15T12:50:34,912 ------------------------------------------------------------ 2021-07-15T12:50:34,912 sella/internal/int_classes.pyx:839:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,912 Error compiling Cython file: 2021-07-15T12:50:34,912 ------------------------------------------------------------ 2021-07-15T12:50:34,913 ... 2021-07-15T12:50:34,913 bint curv=False, 2021-07-15T12:50:34,913 bint force=False) nogil except -1: 2021-07-15T12:50:34,913 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,913 return -1 2021-07-15T12:50:34,913 if not self.calc_required and not force: 2021-07-15T12:50:34,913 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:34,913 ^ 2021-07-15T12:50:34,913 ------------------------------------------------------------ 2021-07-15T12:50:34,914 sella/internal/int_classes.pyx:839:48: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,914 Error compiling Cython file: 2021-07-15T12:50:34,914 ------------------------------------------------------------ 2021-07-15T12:50:34,914 ... 2021-07-15T12:50:34,914 bint curv=False, 2021-07-15T12:50:34,914 bint force=False) nogil except -1: 2021-07-15T12:50:34,914 if not self._validate_pos(pos, dummypos): 2021-07-15T12:50:34,915 return -1 2021-07-15T12:50:34,915 if not self.calc_required and not force: 2021-07-15T12:50:34,915 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:34,915 ^ 2021-07-15T12:50:34,915 ------------------------------------------------------------ 2021-07-15T12:50:34,915 sella/internal/int_classes.pyx:839:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,916 Error compiling Cython file: 2021-07-15T12:50:34,916 ------------------------------------------------------------ 2021-07-15T12:50:34,916 ... 2021-07-15T12:50:34,916 if (self.grad or not grad) and (self.curv or not curv): 2021-07-15T12:50:34,916 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:34,916 return 0 2021-07-15T12:50:34,916 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,916 self.calc_res = False 2021-07-15T12:50:34,917 ^ 2021-07-15T12:50:34,917 ------------------------------------------------------------ 2021-07-15T12:50:34,917 sella/internal/int_classes.pyx:844:12: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,917 Error compiling Cython file: 2021-07-15T12:50:34,917 ------------------------------------------------------------ 2021-07-15T12:50:34,917 ... 2021-07-15T12:50:34,917 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:34,918 return 0 2021-07-15T12:50:34,918 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,918 self.calc_res = False 2021-07-15T12:50:34,918 if self.nq == 0: 2021-07-15T12:50:34,918 ^ 2021-07-15T12:50:34,918 ------------------------------------------------------------ 2021-07-15T12:50:34,919 sella/internal/int_classes.pyx:845:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,919 Error compiling Cython file: 2021-07-15T12:50:34,919 ------------------------------------------------------------ 2021-07-15T12:50:34,919 ... 2021-07-15T12:50:34,919 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:34,919 return 0 2021-07-15T12:50:34,919 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,920 self.calc_res = False 2021-07-15T12:50:34,920 if self.nq == 0: 2021-07-15T12:50:34,920 ^ 2021-07-15T12:50:34,920 ------------------------------------------------------------ 2021-07-15T12:50:34,920 sella/internal/int_classes.pyx:845:19: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,920 Error compiling Cython file: 2021-07-15T12:50:34,920 ------------------------------------------------------------ 2021-07-15T12:50:34,921 ... 2021-07-15T12:50:34,921 if not self.geom_changed(pos, dummypos): 2021-07-15T12:50:34,921 return 0 2021-07-15T12:50:34,921 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,921 self.calc_res = False 2021-07-15T12:50:34,921 if self.nq == 0: 2021-07-15T12:50:34,921 ^ 2021-07-15T12:50:34,922 ------------------------------------------------------------ 2021-07-15T12:50:34,922 sella/internal/int_classes.pyx:845:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,922 Error compiling Cython file: 2021-07-15T12:50:34,922 ------------------------------------------------------------ 2021-07-15T12:50:34,922 ... 2021-07-15T12:50:34,922 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,923 self.calc_res = False 2021-07-15T12:50:34,923 if self.nq == 0: 2021-07-15T12:50:34,923 return 0 2021-07-15T12:50:34,923 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,923 ^ 2021-07-15T12:50:34,923 ------------------------------------------------------------ 2021-07-15T12:50:34,923 sella/internal/int_classes.pyx:847:24: Indexing Python object not allowed without gil 2021-07-15T12:50:34,924 Error compiling Cython file: 2021-07-15T12:50:34,924 ------------------------------------------------------------ 2021-07-15T12:50:34,924 ... 2021-07-15T12:50:34,924 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,924 self.calc_res = False 2021-07-15T12:50:34,924 if self.nq == 0: 2021-07-15T12:50:34,924 return 0 2021-07-15T12:50:34,924 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,925 ^ 2021-07-15T12:50:34,925 ------------------------------------------------------------ 2021-07-15T12:50:34,925 sella/internal/int_classes.pyx:847:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,925 Error compiling Cython file: 2021-07-15T12:50:34,925 ------------------------------------------------------------ 2021-07-15T12:50:34,925 ... 2021-07-15T12:50:34,926 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,926 self.calc_res = False 2021-07-15T12:50:34,926 if self.nq == 0: 2021-07-15T12:50:34,926 return 0 2021-07-15T12:50:34,926 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,926 ^ 2021-07-15T12:50:34,926 ------------------------------------------------------------ 2021-07-15T12:50:34,927 sella/internal/int_classes.pyx:847:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,927 Error compiling Cython file: 2021-07-15T12:50:34,927 ------------------------------------------------------------ 2021-07-15T12:50:34,927 ... 2021-07-15T12:50:34,927 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,927 self.calc_res = False 2021-07-15T12:50:34,927 if self.nq == 0: 2021-07-15T12:50:34,928 return 0 2021-07-15T12:50:34,928 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,928 ^ 2021-07-15T12:50:34,928 ------------------------------------------------------------ 2021-07-15T12:50:34,928 sella/internal/int_classes.pyx:847:40: Operation not allowed without gil 2021-07-15T12:50:34,928 Error compiling Cython file: 2021-07-15T12:50:34,929 ------------------------------------------------------------ 2021-07-15T12:50:34,929 ... 2021-07-15T12:50:34,929 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,929 self.calc_res = False 2021-07-15T12:50:34,929 if self.nq == 0: 2021-07-15T12:50:34,929 return 0 2021-07-15T12:50:34,929 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,929 ^ 2021-07-15T12:50:34,930 ------------------------------------------------------------ 2021-07-15T12:50:34,930 sella/internal/int_classes.pyx:847:36: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,930 Error compiling Cython file: 2021-07-15T12:50:34,930 ------------------------------------------------------------ 2021-07-15T12:50:34,930 ... 2021-07-15T12:50:34,930 cdef int i, err, sddq, sdt, ntot, sdr 2021-07-15T12:50:34,931 self.calc_res = False 2021-07-15T12:50:34,931 if self.nq == 0: 2021-07-15T12:50:34,931 return 0 2021-07-15T12:50:34,931 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,931 ^ 2021-07-15T12:50:34,931 ------------------------------------------------------------ 2021-07-15T12:50:34,931 sella/internal/int_classes.pyx:847:42: Converting to Python object not allowed without gil 2021-07-15T12:50:34,932 Error compiling Cython file: 2021-07-15T12:50:34,932 ------------------------------------------------------------ 2021-07-15T12:50:34,932 ... 2021-07-15T12:50:34,932 return 0 2021-07-15T12:50:34,932 memset(&self.res[0], 0, self.nq * sizeof(double)) 2021-07-15T12:50:34,932 err = CartToInternal._update(self, pos, dummypos, grad, 2021-07-15T12:50:34,932 curv, True) 2021-07-15T12:50:34,933 if err != 0: 2021-07-15T12:50:34,933 self.calc_required = True 2021-07-15T12:50:34,933 ^ 2021-07-15T12:50:34,933 ------------------------------------------------------------ 2021-07-15T12:50:34,933 sella/internal/int_classes.pyx:851:16: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,934 Error compiling Cython file: 2021-07-15T12:50:34,934 ------------------------------------------------------------ 2021-07-15T12:50:34,934 ... 2021-07-15T12:50:34,934 curv, True) 2021-07-15T12:50:34,934 if err != 0: 2021-07-15T12:50:34,934 self.calc_required = True 2021-07-15T12:50:34,934 return err 2021-07-15T12:50:34,935 if not self.grad: 2021-07-15T12:50:34,935 ^ 2021-07-15T12:50:34,935 ------------------------------------------------------------ 2021-07-15T12:50:34,935 sella/internal/int_classes.pyx:854:19: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,935 Error compiling Cython file: 2021-07-15T12:50:34,936 ------------------------------------------------------------ 2021-07-15T12:50:34,936 ... 2021-07-15T12:50:34,936 curv, True) 2021-07-15T12:50:34,936 if err != 0: 2021-07-15T12:50:34,936 self.calc_required = True 2021-07-15T12:50:34,936 return err 2021-07-15T12:50:34,936 if not self.grad: 2021-07-15T12:50:34,936 ^ 2021-07-15T12:50:34,937 ------------------------------------------------------------ 2021-07-15T12:50:34,937 sella/internal/int_classes.pyx:854:19: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,937 Error compiling Cython file: 2021-07-15T12:50:34,937 ------------------------------------------------------------ 2021-07-15T12:50:34,937 ... 2021-07-15T12:50:34,937 return err 2021-07-15T12:50:34,938 if not self.grad: 2021-07-15T12:50:34,938 return 0 2021-07-15T12:50:34,938 if self.proj_trans: 2021-07-15T12:50:34,938 ^ 2021-07-15T12:50:34,938 ------------------------------------------------------------ 2021-07-15T12:50:34,938 sella/internal/int_classes.pyx:857:15: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,939 Error compiling Cython file: 2021-07-15T12:50:34,939 ------------------------------------------------------------ 2021-07-15T12:50:34,939 ... 2021-07-15T12:50:34,939 return err 2021-07-15T12:50:34,939 if not self.grad: 2021-07-15T12:50:34,939 return 0 2021-07-15T12:50:34,940 if self.proj_trans: 2021-07-15T12:50:34,940 ^ 2021-07-15T12:50:34,940 ------------------------------------------------------------ 2021-07-15T12:50:34,940 sella/internal/int_classes.pyx:857:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,940 Error compiling Cython file: 2021-07-15T12:50:34,940 ------------------------------------------------------------ 2021-07-15T12:50:34,941 ... 2021-07-15T12:50:34,941 if not self.grad: 2021-07-15T12:50:34,941 return 0 2021-07-15T12:50:34,941 if self.proj_trans: 2021-07-15T12:50:34,941 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,941 ^ 2021-07-15T12:50:34,941 ------------------------------------------------------------ 2021-07-15T12:50:34,942 sella/internal/int_classes.pyx:858:38: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,942 Error compiling Cython file: 2021-07-15T12:50:34,942 ------------------------------------------------------------ 2021-07-15T12:50:34,942 ... 2021-07-15T12:50:34,942 if not self.grad: 2021-07-15T12:50:34,942 return 0 2021-07-15T12:50:34,943 if self.proj_trans: 2021-07-15T12:50:34,943 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,943 ^ 2021-07-15T12:50:34,943 ------------------------------------------------------------ 2021-07-15T12:50:34,943 sella/internal/int_classes.pyx:858:38: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,944 Error compiling Cython file: 2021-07-15T12:50:34,944 ------------------------------------------------------------ 2021-07-15T12:50:34,944 ... 2021-07-15T12:50:34,944 if not self.grad: 2021-07-15T12:50:34,944 return 0 2021-07-15T12:50:34,944 if self.proj_trans: 2021-07-15T12:50:34,944 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,945 ^ 2021-07-15T12:50:34,945 ------------------------------------------------------------ 2021-07-15T12:50:34,945 sella/internal/int_classes.pyx:858:34: Indexing Python object not allowed without gil 2021-07-15T12:50:34,945 Error compiling Cython file: 2021-07-15T12:50:34,945 ------------------------------------------------------------ 2021-07-15T12:50:34,945 ... 2021-07-15T12:50:34,946 if not self.grad: 2021-07-15T12:50:34,946 return 0 2021-07-15T12:50:34,946 if self.proj_trans: 2021-07-15T12:50:34,946 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,946 ^ 2021-07-15T12:50:34,946 ------------------------------------------------------------ 2021-07-15T12:50:34,947 sella/internal/int_classes.pyx:858:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,947 Error compiling Cython file: 2021-07-15T12:50:34,947 ------------------------------------------------------------ 2021-07-15T12:50:34,947 ... 2021-07-15T12:50:34,947 if not self.grad: 2021-07-15T12:50:34,947 return 0 2021-07-15T12:50:34,948 if self.proj_trans: 2021-07-15T12:50:34,948 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,948 ^ 2021-07-15T12:50:34,948 ------------------------------------------------------------ 2021-07-15T12:50:34,948 sella/internal/int_classes.pyx:858:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,949 Error compiling Cython file: 2021-07-15T12:50:34,949 ------------------------------------------------------------ 2021-07-15T12:50:34,949 ... 2021-07-15T12:50:34,949 if not self.grad: 2021-07-15T12:50:34,949 return 0 2021-07-15T12:50:34,949 if self.proj_trans: 2021-07-15T12:50:34,949 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,949 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,950 ^ 2021-07-15T12:50:34,950 ------------------------------------------------------------ 2021-07-15T12:50:34,950 sella/internal/int_classes.pyx:859:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,950 Error compiling Cython file: 2021-07-15T12:50:34,950 ------------------------------------------------------------ 2021-07-15T12:50:34,950 ... 2021-07-15T12:50:34,950 if not self.grad: 2021-07-15T12:50:34,951 return 0 2021-07-15T12:50:34,951 if self.proj_trans: 2021-07-15T12:50:34,951 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,951 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,951 ^ 2021-07-15T12:50:34,951 ------------------------------------------------------------ 2021-07-15T12:50:34,952 sella/internal/int_classes.pyx:859:40: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,952 Error compiling Cython file: 2021-07-15T12:50:34,952 ------------------------------------------------------------ 2021-07-15T12:50:34,952 ... 2021-07-15T12:50:34,952 if not self.grad: 2021-07-15T12:50:34,952 return 0 2021-07-15T12:50:34,952 if self.proj_trans: 2021-07-15T12:50:34,953 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,953 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,953 ^ 2021-07-15T12:50:34,953 ------------------------------------------------------------ 2021-07-15T12:50:34,953 sella/internal/int_classes.pyx:859:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,953 Error compiling Cython file: 2021-07-15T12:50:34,954 ------------------------------------------------------------ 2021-07-15T12:50:34,954 ... 2021-07-15T12:50:34,954 if not self.grad: 2021-07-15T12:50:34,954 return 0 2021-07-15T12:50:34,954 if self.proj_trans: 2021-07-15T12:50:34,954 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,954 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,954 ^ 2021-07-15T12:50:34,955 ------------------------------------------------------------ 2021-07-15T12:50:34,955 sella/internal/int_classes.pyx:859:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,955 Error compiling Cython file: 2021-07-15T12:50:34,955 ------------------------------------------------------------ 2021-07-15T12:50:34,955 ... 2021-07-15T12:50:34,955 if not self.grad: 2021-07-15T12:50:34,956 return 0 2021-07-15T12:50:34,956 if self.proj_trans: 2021-07-15T12:50:34,956 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,956 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,956 ^ 2021-07-15T12:50:34,956 ------------------------------------------------------------ 2021-07-15T12:50:34,956 sella/internal/int_classes.pyx:859:22: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,957 Error compiling Cython file: 2021-07-15T12:50:34,957 ------------------------------------------------------------ 2021-07-15T12:50:34,957 ... 2021-07-15T12:50:34,957 return 0 2021-07-15T12:50:34,957 if self.proj_trans: 2021-07-15T12:50:34,957 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,958 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,958 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,958 ^ 2021-07-15T12:50:34,958 ------------------------------------------------------------ 2021-07-15T12:50:34,958 sella/internal/int_classes.pyx:860:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,958 Error compiling Cython file: 2021-07-15T12:50:34,958 ------------------------------------------------------------ 2021-07-15T12:50:34,959 ... 2021-07-15T12:50:34,959 return 0 2021-07-15T12:50:34,959 if self.proj_trans: 2021-07-15T12:50:34,959 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,959 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,959 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,959 ^ 2021-07-15T12:50:34,960 ------------------------------------------------------------ 2021-07-15T12:50:34,960 sella/internal/int_classes.pyx:860:31: Operation not allowed without gil 2021-07-15T12:50:34,960 Error compiling Cython file: 2021-07-15T12:50:34,960 ------------------------------------------------------------ 2021-07-15T12:50:34,960 ... 2021-07-15T12:50:34,960 return 0 2021-07-15T12:50:34,961 if self.proj_trans: 2021-07-15T12:50:34,961 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,961 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,961 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,961 ^ 2021-07-15T12:50:34,961 ------------------------------------------------------------ 2021-07-15T12:50:34,961 sella/internal/int_classes.pyx:860:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,962 Error compiling Cython file: 2021-07-15T12:50:34,962 ------------------------------------------------------------ 2021-07-15T12:50:34,962 ... 2021-07-15T12:50:34,962 return 0 2021-07-15T12:50:34,962 if self.proj_trans: 2021-07-15T12:50:34,962 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,963 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,963 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,963 ^ 2021-07-15T12:50:34,963 ------------------------------------------------------------ 2021-07-15T12:50:34,963 sella/internal/int_classes.pyx:860:37: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,963 Error compiling Cython file: 2021-07-15T12:50:34,963 ------------------------------------------------------------ 2021-07-15T12:50:34,964 ... 2021-07-15T12:50:34,964 if self.proj_trans: 2021-07-15T12:50:34,964 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,964 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,964 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,964 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,965 ^ 2021-07-15T12:50:34,965 ------------------------------------------------------------ 2021-07-15T12:50:34,965 sella/internal/int_classes.pyx:861:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,965 Error compiling Cython file: 2021-07-15T12:50:34,965 ------------------------------------------------------------ 2021-07-15T12:50:34,966 ... 2021-07-15T12:50:34,966 if self.proj_trans: 2021-07-15T12:50:34,966 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,966 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,966 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,967 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,967 ^ 2021-07-15T12:50:34,967 ------------------------------------------------------------ 2021-07-15T12:50:34,967 sella/internal/int_classes.pyx:861:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,967 Error compiling Cython file: 2021-07-15T12:50:34,967 ------------------------------------------------------------ 2021-07-15T12:50:34,967 ... 2021-07-15T12:50:34,968 if self.proj_trans: 2021-07-15T12:50:34,968 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,968 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,968 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,968 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,968 ^ 2021-07-15T12:50:34,968 ------------------------------------------------------------ 2021-07-15T12:50:34,969 sella/internal/int_classes.pyx:861:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,969 Error compiling Cython file: 2021-07-15T12:50:34,969 ------------------------------------------------------------ 2021-07-15T12:50:34,969 ... 2021-07-15T12:50:34,969 if self.proj_trans: 2021-07-15T12:50:34,969 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,969 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,970 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,970 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,970 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,970 ^ 2021-07-15T12:50:34,970 ------------------------------------------------------------ 2021-07-15T12:50:34,970 sella/internal/int_classes.pyx:862:26: Indexing Python object not allowed without gil 2021-07-15T12:50:34,970 Error compiling Cython file: 2021-07-15T12:50:34,971 ------------------------------------------------------------ 2021-07-15T12:50:34,971 ... 2021-07-15T12:50:34,971 if self.proj_trans: 2021-07-15T12:50:34,971 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,971 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,971 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,971 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,971 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,972 ^ 2021-07-15T12:50:34,972 ------------------------------------------------------------ 2021-07-15T12:50:34,972 sella/internal/int_classes.pyx:862:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,972 Error compiling Cython file: 2021-07-15T12:50:34,972 ------------------------------------------------------------ 2021-07-15T12:50:34,972 ... 2021-07-15T12:50:34,972 if self.proj_trans: 2021-07-15T12:50:34,973 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,973 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,973 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,973 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,973 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,973 ^ 2021-07-15T12:50:34,973 ------------------------------------------------------------ 2021-07-15T12:50:34,973 sella/internal/int_classes.pyx:862:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,974 Error compiling Cython file: 2021-07-15T12:50:34,974 ------------------------------------------------------------ 2021-07-15T12:50:34,974 ... 2021-07-15T12:50:34,974 if self.proj_trans: 2021-07-15T12:50:34,974 sddq = self.dq.strides[2] >> 3 2021-07-15T12:50:34,974 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,974 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,975 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,975 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,975 ^ 2021-07-15T12:50:34,975 ------------------------------------------------------------ 2021-07-15T12:50:34,975 sella/internal/int_classes.pyx:862:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,975 Error compiling Cython file: 2021-07-15T12:50:34,976 ------------------------------------------------------------ 2021-07-15T12:50:34,976 ... 2021-07-15T12:50:34,976 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,976 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,976 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,976 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,976 if self.proj_rot: 2021-07-15T12:50:34,976 ^ 2021-07-15T12:50:34,977 ------------------------------------------------------------ 2021-07-15T12:50:34,977 sella/internal/int_classes.pyx:864:15: Truth-testing Python object not allowed without gil 2021-07-15T12:50:34,977 Error compiling Cython file: 2021-07-15T12:50:34,977 ------------------------------------------------------------ 2021-07-15T12:50:34,977 ... 2021-07-15T12:50:34,977 sdt = self.tvecs.strides[1] >> 3 2021-07-15T12:50:34,978 ntot = self.ntrans * self.nx 2021-07-15T12:50:34,978 dcopy(&ntot, &self.tvecs[0, 0], &sdt, 2021-07-15T12:50:34,978 &self.dq[self.ninternal, 0, 0], &sddq) 2021-07-15T12:50:34,978 if self.proj_rot: 2021-07-15T12:50:34,978 ^ 2021-07-15T12:50:34,978 ------------------------------------------------------------ 2021-07-15T12:50:34,978 sella/internal/int_classes.pyx:864:15: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,979 Error compiling Cython file: 2021-07-15T12:50:34,979 ------------------------------------------------------------ 2021-07-15T12:50:34,979 ... 2021-07-15T12:50:34,979 if self.proj_rot: 2021-07-15T12:50:34,979 err = self.project_rotation() 2021-07-15T12:50:34,979 if err != 0: return err 2021-07-15T12:50:34,980 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,980 ^ 2021-07-15T12:50:34,980 ------------------------------------------------------------ 2021-07-15T12:50:34,980 sella/internal/int_classes.pyx:868:40: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,980 Error compiling Cython file: 2021-07-15T12:50:34,980 ------------------------------------------------------------ 2021-07-15T12:50:34,980 ... 2021-07-15T12:50:34,981 if self.proj_rot: 2021-07-15T12:50:34,981 err = self.project_rotation() 2021-07-15T12:50:34,981 if err != 0: return err 2021-07-15T12:50:34,981 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,981 ^ 2021-07-15T12:50:34,981 ------------------------------------------------------------ 2021-07-15T12:50:34,982 sella/internal/int_classes.pyx:868:40: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:34,982 Error compiling Cython file: 2021-07-15T12:50:34,982 ------------------------------------------------------------ 2021-07-15T12:50:34,982 ... 2021-07-15T12:50:34,982 if self.proj_rot: 2021-07-15T12:50:34,982 err = self.project_rotation() 2021-07-15T12:50:34,983 if err != 0: return err 2021-07-15T12:50:34,983 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,983 ^ 2021-07-15T12:50:34,983 ------------------------------------------------------------ 2021-07-15T12:50:34,983 sella/internal/int_classes.pyx:868:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,983 Error compiling Cython file: 2021-07-15T12:50:34,984 ------------------------------------------------------------ 2021-07-15T12:50:34,984 ... 2021-07-15T12:50:34,984 if self.proj_rot: 2021-07-15T12:50:34,984 err = self.project_rotation() 2021-07-15T12:50:34,984 if err != 0: return err 2021-07-15T12:50:34,984 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,985 ^ 2021-07-15T12:50:34,985 ------------------------------------------------------------ 2021-07-15T12:50:34,985 sella/internal/int_classes.pyx:868:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,985 Error compiling Cython file: 2021-07-15T12:50:34,985 ------------------------------------------------------------ 2021-07-15T12:50:34,985 ... 2021-07-15T12:50:34,986 if self.proj_rot: 2021-07-15T12:50:34,986 err = self.project_rotation() 2021-07-15T12:50:34,986 if err != 0: return err 2021-07-15T12:50:34,986 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,986 ^ 2021-07-15T12:50:34,986 ------------------------------------------------------------ 2021-07-15T12:50:34,986 sella/internal/int_classes.pyx:868:22: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,987 Error compiling Cython file: 2021-07-15T12:50:34,987 ------------------------------------------------------------ 2021-07-15T12:50:34,987 ... 2021-07-15T12:50:34,987 if self.proj_rot: 2021-07-15T12:50:34,987 err = self.project_rotation() 2021-07-15T12:50:34,987 if err != 0: return err 2021-07-15T12:50:34,988 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,988 ntot = self.nrot * self.nx 2021-07-15T12:50:34,988 ^ 2021-07-15T12:50:34,988 ------------------------------------------------------------ 2021-07-15T12:50:34,988 sella/internal/int_classes.pyx:869:29: Coercion from Python not allowed without the GIL 2021-07-15T12:50:34,988 Error compiling Cython file: 2021-07-15T12:50:34,988 ------------------------------------------------------------ 2021-07-15T12:50:34,989 ... 2021-07-15T12:50:34,989 if self.proj_rot: 2021-07-15T12:50:34,989 err = self.project_rotation() 2021-07-15T12:50:34,989 if err != 0: return err 2021-07-15T12:50:34,989 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,989 ntot = self.nrot * self.nx 2021-07-15T12:50:34,989 ^ 2021-07-15T12:50:34,989 ------------------------------------------------------------ 2021-07-15T12:50:34,990 sella/internal/int_classes.pyx:869:29: Operation not allowed without gil 2021-07-15T12:50:34,990 Error compiling Cython file: 2021-07-15T12:50:34,990 ------------------------------------------------------------ 2021-07-15T12:50:34,990 ... 2021-07-15T12:50:34,990 if self.proj_rot: 2021-07-15T12:50:34,990 err = self.project_rotation() 2021-07-15T12:50:34,991 if err != 0: return err 2021-07-15T12:50:34,991 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,991 ntot = self.nrot * self.nx 2021-07-15T12:50:34,991 ^ 2021-07-15T12:50:34,991 ------------------------------------------------------------ 2021-07-15T12:50:34,991 sella/internal/int_classes.pyx:869:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,992 Error compiling Cython file: 2021-07-15T12:50:34,992 ------------------------------------------------------------ 2021-07-15T12:50:34,992 ... 2021-07-15T12:50:34,992 if self.proj_rot: 2021-07-15T12:50:34,992 err = self.project_rotation() 2021-07-15T12:50:34,992 if err != 0: return err 2021-07-15T12:50:34,992 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,993 ntot = self.nrot * self.nx 2021-07-15T12:50:34,993 ^ 2021-07-15T12:50:34,993 ------------------------------------------------------------ 2021-07-15T12:50:34,993 sella/internal/int_classes.pyx:869:35: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,994 Error compiling Cython file: 2021-07-15T12:50:34,994 ------------------------------------------------------------ 2021-07-15T12:50:34,994 ... 2021-07-15T12:50:34,994 err = self.project_rotation() 2021-07-15T12:50:34,994 if err != 0: return err 2021-07-15T12:50:34,994 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,995 ntot = self.nrot * self.nx 2021-07-15T12:50:34,995 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:34,995 ^ 2021-07-15T12:50:34,995 ------------------------------------------------------------ 2021-07-15T12:50:34,995 sella/internal/int_classes.pyx:870:36: Indexing Python object not allowed without gil 2021-07-15T12:50:34,996 Error compiling Cython file: 2021-07-15T12:50:34,996 ------------------------------------------------------------ 2021-07-15T12:50:34,996 ... 2021-07-15T12:50:34,996 err = self.project_rotation() 2021-07-15T12:50:34,996 if err != 0: return err 2021-07-15T12:50:34,996 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,997 ntot = self.nrot * self.nx 2021-07-15T12:50:34,997 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:34,997 ^ 2021-07-15T12:50:34,997 ------------------------------------------------------------ 2021-07-15T12:50:34,997 sella/internal/int_classes.pyx:870:30: Accessing Python attribute not allowed without gil 2021-07-15T12:50:34,998 Error compiling Cython file: 2021-07-15T12:50:34,998 ------------------------------------------------------------ 2021-07-15T12:50:34,998 ... 2021-07-15T12:50:34,998 err = self.project_rotation() 2021-07-15T12:50:34,998 if err != 0: return err 2021-07-15T12:50:34,998 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:34,998 ntot = self.nrot * self.nx 2021-07-15T12:50:34,999 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:34,999 ^ 2021-07-15T12:50:34,999 ------------------------------------------------------------ 2021-07-15T12:50:34,999 sella/internal/int_classes.pyx:870:36: Constructing Python tuple not allowed without gil 2021-07-15T12:50:34,999 Error compiling Cython file: 2021-07-15T12:50:34,999 ------------------------------------------------------------ 2021-07-15T12:50:35,000 ... 2021-07-15T12:50:35,000 if err != 0: return err 2021-07-15T12:50:35,000 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,000 ntot = self.nrot * self.nx 2021-07-15T12:50:35,000 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,000 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,000 ^ 2021-07-15T12:50:35,000 ------------------------------------------------------------ 2021-07-15T12:50:35,001 sella/internal/int_classes.pyx:871:26: Indexing Python object not allowed without gil 2021-07-15T12:50:35,001 Error compiling Cython file: 2021-07-15T12:50:35,001 ------------------------------------------------------------ 2021-07-15T12:50:35,001 ... 2021-07-15T12:50:35,001 if err != 0: return err 2021-07-15T12:50:35,002 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,002 ntot = self.nrot * self.nx 2021-07-15T12:50:35,002 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,002 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,002 ^ 2021-07-15T12:50:35,002 ------------------------------------------------------------ 2021-07-15T12:50:35,002 sella/internal/int_classes.pyx:871:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,003 Error compiling Cython file: 2021-07-15T12:50:35,003 ------------------------------------------------------------ 2021-07-15T12:50:35,003 ... 2021-07-15T12:50:35,003 if err != 0: return err 2021-07-15T12:50:35,003 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,003 ntot = self.nrot * self.nx 2021-07-15T12:50:35,003 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,003 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,004 ^ 2021-07-15T12:50:35,004 ------------------------------------------------------------ 2021-07-15T12:50:35,004 sella/internal/int_classes.pyx:871:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,004 Error compiling Cython file: 2021-07-15T12:50:35,004 ------------------------------------------------------------ 2021-07-15T12:50:35,004 ... 2021-07-15T12:50:35,004 if err != 0: return err 2021-07-15T12:50:35,005 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,005 ntot = self.nrot * self.nx 2021-07-15T12:50:35,005 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,005 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,005 ^ 2021-07-15T12:50:35,005 ------------------------------------------------------------ 2021-07-15T12:50:35,006 sella/internal/int_classes.pyx:871:42: Operation not allowed without gil 2021-07-15T12:50:35,006 Error compiling Cython file: 2021-07-15T12:50:35,006 ------------------------------------------------------------ 2021-07-15T12:50:35,006 ... 2021-07-15T12:50:35,006 if err != 0: return err 2021-07-15T12:50:35,006 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,007 ntot = self.nrot * self.nx 2021-07-15T12:50:35,007 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,007 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,007 ^ 2021-07-15T12:50:35,007 ------------------------------------------------------------ 2021-07-15T12:50:35,007 sella/internal/int_classes.pyx:871:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,007 Error compiling Cython file: 2021-07-15T12:50:35,008 ------------------------------------------------------------ 2021-07-15T12:50:35,008 ... 2021-07-15T12:50:35,008 if err != 0: return err 2021-07-15T12:50:35,008 sdr = self.rvecs.strides[1] >> 3 2021-07-15T12:50:35,008 ntot = self.nrot * self.nx 2021-07-15T12:50:35,008 dcopy(&ntot, &self.rvecs[0, 0], &sdr, 2021-07-15T12:50:35,008 &self.dq[self.ninternal + self.ntrans, 0, 0], &sddq) 2021-07-15T12:50:35,009 ^ 2021-07-15T12:50:35,009 ------------------------------------------------------------ 2021-07-15T12:50:35,009 sella/internal/int_classes.pyx:871:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,009 Error compiling Cython file: 2021-07-15T12:50:35,009 ------------------------------------------------------------ 2021-07-15T12:50:35,009 ... 2021-07-15T12:50:35,010 return 0 2021-07-15T12:50:35,010 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,010 cdef int i, j 2021-07-15T12:50:35,010 for i in range(self.nrot): 2021-07-15T12:50:35,010 ^ 2021-07-15T12:50:35,010 ------------------------------------------------------------ 2021-07-15T12:50:35,011 sella/internal/int_classes.pyx:878:27: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,011 Error compiling Cython file: 2021-07-15T12:50:35,011 ------------------------------------------------------------ 2021-07-15T12:50:35,011 ... 2021-07-15T12:50:35,011 return 0 2021-07-15T12:50:35,011 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,012 cdef int i, j 2021-07-15T12:50:35,012 for i in range(self.nrot): 2021-07-15T12:50:35,012 ^ 2021-07-15T12:50:35,012 ------------------------------------------------------------ 2021-07-15T12:50:35,012 sella/internal/int_classes.pyx:878:27: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,012 Error compiling Cython file: 2021-07-15T12:50:35,013 ------------------------------------------------------------ 2021-07-15T12:50:35,013 ... 2021-07-15T12:50:35,013 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,013 cdef int i, j 2021-07-15T12:50:35,013 for i in range(self.nrot): 2021-07-15T12:50:35,013 for j in range(self.natoms): 2021-07-15T12:50:35,013 ^ 2021-07-15T12:50:35,014 ------------------------------------------------------------ 2021-07-15T12:50:35,014 sella/internal/int_classes.pyx:879:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,014 Error compiling Cython file: 2021-07-15T12:50:35,014 ------------------------------------------------------------ 2021-07-15T12:50:35,014 ... 2021-07-15T12:50:35,015 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,015 cdef int i, j 2021-07-15T12:50:35,015 for i in range(self.nrot): 2021-07-15T12:50:35,015 for j in range(self.natoms): 2021-07-15T12:50:35,015 ^ 2021-07-15T12:50:35,015 ------------------------------------------------------------ 2021-07-15T12:50:35,015 sella/internal/int_classes.pyx:879:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,016 Error compiling Cython file: 2021-07-15T12:50:35,016 ------------------------------------------------------------ 2021-07-15T12:50:35,016 ... 2021-07-15T12:50:35,016 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,016 cdef int i, j 2021-07-15T12:50:35,016 for i in range(self.nrot): 2021-07-15T12:50:35,016 for j in range(self.natoms): 2021-07-15T12:50:35,017 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,017 ^ 2021-07-15T12:50:35,017 ------------------------------------------------------------ 2021-07-15T12:50:35,017 sella/internal/int_classes.pyx:880:21: Discarding owned Python object not allowed without gil 2021-07-15T12:50:35,017 Error compiling Cython file: 2021-07-15T12:50:35,017 ------------------------------------------------------------ 2021-07-15T12:50:35,017 ... 2021-07-15T12:50:35,018 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,018 cdef int i, j 2021-07-15T12:50:35,018 for i in range(self.nrot): 2021-07-15T12:50:35,018 for j in range(self.natoms): 2021-07-15T12:50:35,018 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,018 ^ 2021-07-15T12:50:35,018 ------------------------------------------------------------ 2021-07-15T12:50:35,019 sella/internal/int_classes.pyx:880:21: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:35,019 Error compiling Cython file: 2021-07-15T12:50:35,019 ------------------------------------------------------------ 2021-07-15T12:50:35,019 ... 2021-07-15T12:50:35,019 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,019 cdef int i, j 2021-07-15T12:50:35,020 for i in range(self.nrot): 2021-07-15T12:50:35,020 for j in range(self.natoms): 2021-07-15T12:50:35,020 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,020 ^ 2021-07-15T12:50:35,020 ------------------------------------------------------------ 2021-07-15T12:50:35,020 sella/internal/int_classes.pyx:880:16: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:35,021 Error compiling Cython file: 2021-07-15T12:50:35,021 ------------------------------------------------------------ 2021-07-15T12:50:35,021 ... 2021-07-15T12:50:35,021 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,021 cdef int i, j 2021-07-15T12:50:35,021 for i in range(self.nrot): 2021-07-15T12:50:35,021 for j in range(self.natoms): 2021-07-15T12:50:35,021 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,022 ^ 2021-07-15T12:50:35,022 ------------------------------------------------------------ 2021-07-15T12:50:35,022 sella/internal/int_classes.pyx:880:21: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,022 Error compiling Cython file: 2021-07-15T12:50:35,023 ------------------------------------------------------------ 2021-07-15T12:50:35,023 ... 2021-07-15T12:50:35,023 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,023 cdef int i, j 2021-07-15T12:50:35,023 for i in range(self.nrot): 2021-07-15T12:50:35,023 for j in range(self.natoms): 2021-07-15T12:50:35,024 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,024 ^ 2021-07-15T12:50:35,024 ------------------------------------------------------------ 2021-07-15T12:50:35,024 sella/internal/int_classes.pyx:880:35: Indexing Python object not allowed without gil 2021-07-15T12:50:35,024 Error compiling Cython file: 2021-07-15T12:50:35,024 ------------------------------------------------------------ 2021-07-15T12:50:35,025 ... 2021-07-15T12:50:35,025 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,025 cdef int i, j 2021-07-15T12:50:35,025 for i in range(self.nrot): 2021-07-15T12:50:35,025 for j in range(self.natoms): 2021-07-15T12:50:35,025 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,025 ^ 2021-07-15T12:50:35,026 ------------------------------------------------------------ 2021-07-15T12:50:35,026 sella/internal/int_classes.pyx:880:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,026 Error compiling Cython file: 2021-07-15T12:50:35,026 ------------------------------------------------------------ 2021-07-15T12:50:35,026 ... 2021-07-15T12:50:35,027 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,027 cdef int i, j 2021-07-15T12:50:35,027 for i in range(self.nrot): 2021-07-15T12:50:35,027 for j in range(self.natoms): 2021-07-15T12:50:35,027 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,027 ^ 2021-07-15T12:50:35,027 ------------------------------------------------------------ 2021-07-15T12:50:35,027 sella/internal/int_classes.pyx:880:48: Indexing Python object not allowed without gil 2021-07-15T12:50:35,028 Error compiling Cython file: 2021-07-15T12:50:35,028 ------------------------------------------------------------ 2021-07-15T12:50:35,028 ... 2021-07-15T12:50:35,028 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,028 cdef int i, j 2021-07-15T12:50:35,028 for i in range(self.nrot): 2021-07-15T12:50:35,029 for j in range(self.natoms): 2021-07-15T12:50:35,029 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,029 ^ 2021-07-15T12:50:35,029 ------------------------------------------------------------ 2021-07-15T12:50:35,029 sella/internal/int_classes.pyx:880:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,029 Error compiling Cython file: 2021-07-15T12:50:35,029 ------------------------------------------------------------ 2021-07-15T12:50:35,030 ... 2021-07-15T12:50:35,030 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,030 cdef int i, j 2021-07-15T12:50:35,030 for i in range(self.nrot): 2021-07-15T12:50:35,030 for j in range(self.natoms): 2021-07-15T12:50:35,030 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,030 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,030 ^ 2021-07-15T12:50:35,031 ------------------------------------------------------------ 2021-07-15T12:50:35,031 sella/internal/int_classes.pyx:881:32: Indexing Python object not allowed without gil 2021-07-15T12:50:35,031 Error compiling Cython file: 2021-07-15T12:50:35,031 ------------------------------------------------------------ 2021-07-15T12:50:35,031 ... 2021-07-15T12:50:35,031 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,032 cdef int i, j 2021-07-15T12:50:35,032 for i in range(self.nrot): 2021-07-15T12:50:35,032 for j in range(self.natoms): 2021-07-15T12:50:35,032 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,032 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,032 ^ 2021-07-15T12:50:35,032 ------------------------------------------------------------ 2021-07-15T12:50:35,032 sella/internal/int_classes.pyx:881:26: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,033 Error compiling Cython file: 2021-07-15T12:50:35,033 ------------------------------------------------------------ 2021-07-15T12:50:35,033 ... 2021-07-15T12:50:35,033 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,033 cdef int i, j 2021-07-15T12:50:35,033 for i in range(self.nrot): 2021-07-15T12:50:35,033 for j in range(self.natoms): 2021-07-15T12:50:35,034 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,034 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,034 ^ 2021-07-15T12:50:35,034 ------------------------------------------------------------ 2021-07-15T12:50:35,034 sella/internal/int_classes.pyx:881:32: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,034 Error compiling Cython file: 2021-07-15T12:50:35,034 ------------------------------------------------------------ 2021-07-15T12:50:35,035 ... 2021-07-15T12:50:35,035 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,035 cdef int i, j 2021-07-15T12:50:35,035 for i in range(self.nrot): 2021-07-15T12:50:35,035 for j in range(self.natoms): 2021-07-15T12:50:35,035 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,035 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,035 ^ 2021-07-15T12:50:35,036 ------------------------------------------------------------ 2021-07-15T12:50:35,036 sella/internal/int_classes.pyx:881:33: Converting to Python object not allowed without gil 2021-07-15T12:50:35,036 Error compiling Cython file: 2021-07-15T12:50:35,036 ------------------------------------------------------------ 2021-07-15T12:50:35,036 ... 2021-07-15T12:50:35,036 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,036 cdef int i, j 2021-07-15T12:50:35,037 for i in range(self.nrot): 2021-07-15T12:50:35,037 for j in range(self.natoms): 2021-07-15T12:50:35,037 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,037 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,037 ^ 2021-07-15T12:50:35,037 ------------------------------------------------------------ 2021-07-15T12:50:35,037 sella/internal/int_classes.pyx:881:32: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,038 Error compiling Cython file: 2021-07-15T12:50:35,038 ------------------------------------------------------------ 2021-07-15T12:50:35,038 ... 2021-07-15T12:50:35,038 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,038 cdef int i, j 2021-07-15T12:50:35,038 for i in range(self.nrot): 2021-07-15T12:50:35,038 for j in range(self.natoms): 2021-07-15T12:50:35,038 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,039 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,039 ^ 2021-07-15T12:50:35,039 ------------------------------------------------------------ 2021-07-15T12:50:35,039 sella/internal/int_classes.pyx:881:37: Converting to Python object not allowed without gil 2021-07-15T12:50:35,039 Error compiling Cython file: 2021-07-15T12:50:35,039 ------------------------------------------------------------ 2021-07-15T12:50:35,040 ... 2021-07-15T12:50:35,040 cdef int project_rotation(Constraints self) nogil: 2021-07-15T12:50:35,040 cdef int i, j 2021-07-15T12:50:35,040 for i in range(self.nrot): 2021-07-15T12:50:35,040 for j in range(self.natoms): 2021-07-15T12:50:35,040 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,040 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,040 ^ 2021-07-15T12:50:35,040 ------------------------------------------------------------ 2021-07-15T12:50:35,041 sella/internal/int_classes.pyx:881:43: Converting to Python object not allowed without gil 2021-07-15T12:50:35,041 Error compiling Cython file: 2021-07-15T12:50:35,041 ------------------------------------------------------------ 2021-07-15T12:50:35,041 ... 2021-07-15T12:50:35,041 cdef int i, j 2021-07-15T12:50:35,041 for i in range(self.nrot): 2021-07-15T12:50:35,042 for j in range(self.natoms): 2021-07-15T12:50:35,042 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,042 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,042 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,042 ^ 2021-07-15T12:50:35,042 ------------------------------------------------------------ 2021-07-15T12:50:35,042 sella/internal/int_classes.pyx:882:26: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,043 Error compiling Cython file: 2021-07-15T12:50:35,043 ------------------------------------------------------------ 2021-07-15T12:50:35,043 ... 2021-07-15T12:50:35,043 cdef int i, j 2021-07-15T12:50:35,043 for i in range(self.nrot): 2021-07-15T12:50:35,043 for j in range(self.natoms): 2021-07-15T12:50:35,043 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,043 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,044 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,044 ^ 2021-07-15T12:50:35,044 ------------------------------------------------------------ 2021-07-15T12:50:35,044 sella/internal/int_classes.pyx:882:26: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:35,044 Error compiling Cython file: 2021-07-15T12:50:35,044 ------------------------------------------------------------ 2021-07-15T12:50:35,044 ... 2021-07-15T12:50:35,045 cdef int i, j 2021-07-15T12:50:35,045 for i in range(self.nrot): 2021-07-15T12:50:35,045 for j in range(self.natoms): 2021-07-15T12:50:35,045 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,045 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,045 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,045 ^ 2021-07-15T12:50:35,045 ------------------------------------------------------------ 2021-07-15T12:50:35,046 sella/internal/int_classes.pyx:882:23: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:35,046 Error compiling Cython file: 2021-07-15T12:50:35,046 ------------------------------------------------------------ 2021-07-15T12:50:35,046 ... 2021-07-15T12:50:35,046 cdef int i, j 2021-07-15T12:50:35,046 for i in range(self.nrot): 2021-07-15T12:50:35,047 for j in range(self.natoms): 2021-07-15T12:50:35,047 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,047 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,047 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,047 ^ 2021-07-15T12:50:35,047 ------------------------------------------------------------ 2021-07-15T12:50:35,047 sella/internal/int_classes.pyx:882:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,048 Error compiling Cython file: 2021-07-15T12:50:35,048 ------------------------------------------------------------ 2021-07-15T12:50:35,048 ... 2021-07-15T12:50:35,048 cdef int i, j 2021-07-15T12:50:35,048 for i in range(self.nrot): 2021-07-15T12:50:35,048 for j in range(self.natoms): 2021-07-15T12:50:35,048 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,049 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,049 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,049 ^ 2021-07-15T12:50:35,049 ------------------------------------------------------------ 2021-07-15T12:50:35,049 sella/internal/int_classes.pyx:882:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,050 Error compiling Cython file: 2021-07-15T12:50:35,050 ------------------------------------------------------------ 2021-07-15T12:50:35,050 ... 2021-07-15T12:50:35,050 cdef int i, j 2021-07-15T12:50:35,050 for i in range(self.nrot): 2021-07-15T12:50:35,050 for j in range(self.natoms): 2021-07-15T12:50:35,050 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,051 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,051 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,051 ^ 2021-07-15T12:50:35,051 ------------------------------------------------------------ 2021-07-15T12:50:35,051 sella/internal/int_classes.pyx:882:37: Indexing Python object not allowed without gil 2021-07-15T12:50:35,051 Error compiling Cython file: 2021-07-15T12:50:35,052 ------------------------------------------------------------ 2021-07-15T12:50:35,052 ... 2021-07-15T12:50:35,052 cdef int i, j 2021-07-15T12:50:35,052 for i in range(self.nrot): 2021-07-15T12:50:35,052 for j in range(self.natoms): 2021-07-15T12:50:35,052 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,052 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,052 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,052 ^ 2021-07-15T12:50:35,053 ------------------------------------------------------------ 2021-07-15T12:50:35,053 sella/internal/int_classes.pyx:882:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,053 Error compiling Cython file: 2021-07-15T12:50:35,053 ------------------------------------------------------------ 2021-07-15T12:50:35,053 ... 2021-07-15T12:50:35,053 cdef int i, j 2021-07-15T12:50:35,053 for i in range(self.nrot): 2021-07-15T12:50:35,054 for j in range(self.natoms): 2021-07-15T12:50:35,054 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,054 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,054 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,054 ^ 2021-07-15T12:50:35,054 ------------------------------------------------------------ 2021-07-15T12:50:35,054 sella/internal/int_classes.pyx:882:37: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,055 Error compiling Cython file: 2021-07-15T12:50:35,055 ------------------------------------------------------------ 2021-07-15T12:50:35,055 ... 2021-07-15T12:50:35,055 cdef int i, j 2021-07-15T12:50:35,055 for i in range(self.nrot): 2021-07-15T12:50:35,055 for j in range(self.natoms): 2021-07-15T12:50:35,055 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,055 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,056 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,056 ^ 2021-07-15T12:50:35,056 ------------------------------------------------------------ 2021-07-15T12:50:35,056 sella/internal/int_classes.pyx:882:37: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,056 Error compiling Cython file: 2021-07-15T12:50:35,056 ------------------------------------------------------------ 2021-07-15T12:50:35,057 ... 2021-07-15T12:50:35,057 cdef int i, j 2021-07-15T12:50:35,057 for i in range(self.nrot): 2021-07-15T12:50:35,057 for j in range(self.natoms): 2021-07-15T12:50:35,057 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,057 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,057 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,057 ^ 2021-07-15T12:50:35,057 ------------------------------------------------------------ 2021-07-15T12:50:35,058 sella/internal/int_classes.pyx:882:43: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,058 Error compiling Cython file: 2021-07-15T12:50:35,058 ------------------------------------------------------------ 2021-07-15T12:50:35,058 ... 2021-07-15T12:50:35,058 cdef int i, j 2021-07-15T12:50:35,058 for i in range(self.nrot): 2021-07-15T12:50:35,059 for j in range(self.natoms): 2021-07-15T12:50:35,059 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,059 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,059 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,059 ^ 2021-07-15T12:50:35,059 ------------------------------------------------------------ 2021-07-15T12:50:35,059 sella/internal/int_classes.pyx:882:37: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,060 Error compiling Cython file: 2021-07-15T12:50:35,060 ------------------------------------------------------------ 2021-07-15T12:50:35,060 ... 2021-07-15T12:50:35,060 cdef int i, j 2021-07-15T12:50:35,060 for i in range(self.nrot): 2021-07-15T12:50:35,060 for j in range(self.natoms): 2021-07-15T12:50:35,060 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,060 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,061 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,061 ^ 2021-07-15T12:50:35,061 ------------------------------------------------------------ 2021-07-15T12:50:35,061 sella/internal/int_classes.pyx:882:66: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,061 Error compiling Cython file: 2021-07-15T12:50:35,061 ------------------------------------------------------------ 2021-07-15T12:50:35,061 ... 2021-07-15T12:50:35,062 cdef int i, j 2021-07-15T12:50:35,062 for i in range(self.nrot): 2021-07-15T12:50:35,062 for j in range(self.natoms): 2021-07-15T12:50:35,062 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,062 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,062 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,062 ^ 2021-07-15T12:50:35,062 ------------------------------------------------------------ 2021-07-15T12:50:35,063 sella/internal/int_classes.pyx:882:60: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,063 Error compiling Cython file: 2021-07-15T12:50:35,063 ------------------------------------------------------------ 2021-07-15T12:50:35,063 ... 2021-07-15T12:50:35,063 for j in range(self.natoms): 2021-07-15T12:50:35,063 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,063 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,064 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,064 if err < 0: return err 2021-07-15T12:50:35,064 if err < self.nrot: return -1 2021-07-15T12:50:35,064 ^ 2021-07-15T12:50:35,064 ------------------------------------------------------------ 2021-07-15T12:50:35,064 sella/internal/int_classes.pyx:884:15: Truth-testing Python object not allowed without gil 2021-07-15T12:50:35,064 Error compiling Cython file: 2021-07-15T12:50:35,065 ------------------------------------------------------------ 2021-07-15T12:50:35,065 ... 2021-07-15T12:50:35,065 for j in range(self.natoms): 2021-07-15T12:50:35,065 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,065 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,065 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,065 if err < 0: return err 2021-07-15T12:50:35,065 if err < self.nrot: return -1 2021-07-15T12:50:35,066 ^ 2021-07-15T12:50:35,066 ------------------------------------------------------------ 2021-07-15T12:50:35,066 sella/internal/int_classes.pyx:884:15: Operation not allowed without gil 2021-07-15T12:50:35,066 Error compiling Cython file: 2021-07-15T12:50:35,066 ------------------------------------------------------------ 2021-07-15T12:50:35,066 ... 2021-07-15T12:50:35,067 for j in range(self.natoms): 2021-07-15T12:50:35,067 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,067 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,067 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,067 if err < 0: return err 2021-07-15T12:50:35,067 if err < self.nrot: return -1 2021-07-15T12:50:35,067 ^ 2021-07-15T12:50:35,067 ------------------------------------------------------------ 2021-07-15T12:50:35,068 sella/internal/int_classes.pyx:884:11: Converting to Python object not allowed without gil 2021-07-15T12:50:35,068 Error compiling Cython file: 2021-07-15T12:50:35,068 ------------------------------------------------------------ 2021-07-15T12:50:35,068 ... 2021-07-15T12:50:35,068 for j in range(self.natoms): 2021-07-15T12:50:35,068 cross(self.rot_axes[i], self.pos[j], 2021-07-15T12:50:35,068 self.rvecs[i, 3*j : 3*(j+1)]) 2021-07-15T12:50:35,069 cdef int err = mgs(self.rvecs[:self.nrot, :].T, self.tvecs.T) 2021-07-15T12:50:35,069 if err < 0: return err 2021-07-15T12:50:35,069 if err < self.nrot: return -1 2021-07-15T12:50:35,069 ^ 2021-07-15T12:50:35,069 ------------------------------------------------------------ 2021-07-15T12:50:35,069 sella/internal/int_classes.pyx:884:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,069 Error compiling Cython file: 2021-07-15T12:50:35,070 ------------------------------------------------------------ 2021-07-15T12:50:35,070 ... 2021-07-15T12:50:35,070 "".format(info)) 2021-07-15T12:50:35,070 if self.calc_res: 2021-07-15T12:50:35,070 return np.asarray(self.res) 2021-07-15T12:50:35,070 cdef int i, n 2021-07-15T12:50:35,070 with nogil: 2021-07-15T12:50:35,070 for i in range(self.ninternal): 2021-07-15T12:50:35,071 ^ 2021-07-15T12:50:35,071 ------------------------------------------------------------ 2021-07-15T12:50:35,071 sella/internal/int_classes.pyx:899:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,071 Error compiling Cython file: 2021-07-15T12:50:35,071 ------------------------------------------------------------ 2021-07-15T12:50:35,071 ... 2021-07-15T12:50:35,072 "".format(info)) 2021-07-15T12:50:35,072 if self.calc_res: 2021-07-15T12:50:35,072 return np.asarray(self.res) 2021-07-15T12:50:35,072 cdef int i, n 2021-07-15T12:50:35,072 with nogil: 2021-07-15T12:50:35,072 for i in range(self.ninternal): 2021-07-15T12:50:35,072 ^ 2021-07-15T12:50:35,072 ------------------------------------------------------------ 2021-07-15T12:50:35,073 sella/internal/int_classes.pyx:899:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,073 Error compiling Cython file: 2021-07-15T12:50:35,073 ------------------------------------------------------------ 2021-07-15T12:50:35,073 ... 2021-07-15T12:50:35,073 if self.calc_res: 2021-07-15T12:50:35,073 return np.asarray(self.res) 2021-07-15T12:50:35,074 cdef int i, n 2021-07-15T12:50:35,074 with nogil: 2021-07-15T12:50:35,074 for i in range(self.ninternal): 2021-07-15T12:50:35,074 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,074 ^ 2021-07-15T12:50:35,074 ------------------------------------------------------------ 2021-07-15T12:50:35,075 sella/internal/int_classes.pyx:900:24: Indexing Python object not allowed without gil 2021-07-15T12:50:35,075 Error compiling Cython file: 2021-07-15T12:50:35,075 ------------------------------------------------------------ 2021-07-15T12:50:35,075 ... 2021-07-15T12:50:35,075 if self.calc_res: 2021-07-15T12:50:35,076 return np.asarray(self.res) 2021-07-15T12:50:35,076 cdef int i, n 2021-07-15T12:50:35,076 with nogil: 2021-07-15T12:50:35,076 for i in range(self.ninternal): 2021-07-15T12:50:35,076 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,076 ^ 2021-07-15T12:50:35,076 ------------------------------------------------------------ 2021-07-15T12:50:35,077 sella/internal/int_classes.pyx:900:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,077 Error compiling Cython file: 2021-07-15T12:50:35,077 ------------------------------------------------------------ 2021-07-15T12:50:35,077 ... 2021-07-15T12:50:35,077 if self.calc_res: 2021-07-15T12:50:35,077 return np.asarray(self.res) 2021-07-15T12:50:35,078 cdef int i, n 2021-07-15T12:50:35,078 with nogil: 2021-07-15T12:50:35,078 for i in range(self.ninternal): 2021-07-15T12:50:35,078 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,078 ^ 2021-07-15T12:50:35,078 ------------------------------------------------------------ 2021-07-15T12:50:35,078 sella/internal/int_classes.pyx:900:41: Operation not allowed without gil 2021-07-15T12:50:35,079 Error compiling Cython file: 2021-07-15T12:50:35,079 ------------------------------------------------------------ 2021-07-15T12:50:35,079 ... 2021-07-15T12:50:35,079 if self.calc_res: 2021-07-15T12:50:35,079 return np.asarray(self.res) 2021-07-15T12:50:35,079 cdef int i, n 2021-07-15T12:50:35,079 with nogil: 2021-07-15T12:50:35,079 for i in range(self.ninternal): 2021-07-15T12:50:35,080 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,080 ^ 2021-07-15T12:50:35,080 ------------------------------------------------------------ 2021-07-15T12:50:35,080 sella/internal/int_classes.pyx:900:37: Indexing Python object not allowed without gil 2021-07-15T12:50:35,080 Error compiling Cython file: 2021-07-15T12:50:35,080 ------------------------------------------------------------ 2021-07-15T12:50:35,080 ... 2021-07-15T12:50:35,081 if self.calc_res: 2021-07-15T12:50:35,081 return np.asarray(self.res) 2021-07-15T12:50:35,081 cdef int i, n 2021-07-15T12:50:35,081 with nogil: 2021-07-15T12:50:35,081 for i in range(self.ninternal): 2021-07-15T12:50:35,081 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,081 ^ 2021-07-15T12:50:35,081 ------------------------------------------------------------ 2021-07-15T12:50:35,082 sella/internal/int_classes.pyx:900:34: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,082 Error compiling Cython file: 2021-07-15T12:50:35,082 ------------------------------------------------------------ 2021-07-15T12:50:35,082 ... 2021-07-15T12:50:35,082 if self.calc_res: 2021-07-15T12:50:35,082 return np.asarray(self.res) 2021-07-15T12:50:35,082 cdef int i, n 2021-07-15T12:50:35,083 with nogil: 2021-07-15T12:50:35,083 for i in range(self.ninternal): 2021-07-15T12:50:35,083 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,083 ^ 2021-07-15T12:50:35,083 ------------------------------------------------------------ 2021-07-15T12:50:35,083 sella/internal/int_classes.pyx:900:54: Indexing Python object not allowed without gil 2021-07-15T12:50:35,084 Error compiling Cython file: 2021-07-15T12:50:35,084 ------------------------------------------------------------ 2021-07-15T12:50:35,084 ... 2021-07-15T12:50:35,084 if self.calc_res: 2021-07-15T12:50:35,084 return np.asarray(self.res) 2021-07-15T12:50:35,084 cdef int i, n 2021-07-15T12:50:35,084 with nogil: 2021-07-15T12:50:35,084 for i in range(self.ninternal): 2021-07-15T12:50:35,084 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,085 ^ 2021-07-15T12:50:35,085 ------------------------------------------------------------ 2021-07-15T12:50:35,085 sella/internal/int_classes.pyx:900:47: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,085 Error compiling Cython file: 2021-07-15T12:50:35,085 ------------------------------------------------------------ 2021-07-15T12:50:35,085 ... 2021-07-15T12:50:35,086 cdef int i, n 2021-07-15T12:50:35,086 with nogil: 2021-07-15T12:50:35,086 for i in range(self.ninternal): 2021-07-15T12:50:35,086 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,086 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,086 ^ 2021-07-15T12:50:35,086 ------------------------------------------------------------ 2021-07-15T12:50:35,087 sella/internal/int_classes.pyx:902:41: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,087 Error compiling Cython file: 2021-07-15T12:50:35,087 ------------------------------------------------------------ 2021-07-15T12:50:35,087 ... 2021-07-15T12:50:35,087 cdef int i, n 2021-07-15T12:50:35,087 with nogil: 2021-07-15T12:50:35,087 for i in range(self.ninternal): 2021-07-15T12:50:35,088 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,088 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,088 ^ 2021-07-15T12:50:35,088 ------------------------------------------------------------ 2021-07-15T12:50:35,088 sella/internal/int_classes.pyx:902:41: Operation not allowed without gil 2021-07-15T12:50:35,088 Error compiling Cython file: 2021-07-15T12:50:35,089 ------------------------------------------------------------ 2021-07-15T12:50:35,089 ... 2021-07-15T12:50:35,089 cdef int i, n 2021-07-15T12:50:35,089 with nogil: 2021-07-15T12:50:35,089 for i in range(self.ninternal): 2021-07-15T12:50:35,089 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,089 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,090 ^ 2021-07-15T12:50:35,090 ------------------------------------------------------------ 2021-07-15T12:50:35,090 sella/internal/int_classes.pyx:902:27: Operation not allowed without gil 2021-07-15T12:50:35,090 Error compiling Cython file: 2021-07-15T12:50:35,090 ------------------------------------------------------------ 2021-07-15T12:50:35,090 ... 2021-07-15T12:50:35,090 cdef int i, n 2021-07-15T12:50:35,091 with nogil: 2021-07-15T12:50:35,091 for i in range(self.ninternal): 2021-07-15T12:50:35,091 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,091 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,091 ^ 2021-07-15T12:50:35,091 ------------------------------------------------------------ 2021-07-15T12:50:35,092 sella/internal/int_classes.pyx:902:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,092 Error compiling Cython file: 2021-07-15T12:50:35,092 ------------------------------------------------------------ 2021-07-15T12:50:35,092 ... 2021-07-15T12:50:35,092 cdef int i, n 2021-07-15T12:50:35,092 with nogil: 2021-07-15T12:50:35,092 for i in range(self.ninternal): 2021-07-15T12:50:35,093 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,093 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,093 ^ 2021-07-15T12:50:35,093 ------------------------------------------------------------ 2021-07-15T12:50:35,093 sella/internal/int_classes.pyx:902:33: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,093 Error compiling Cython file: 2021-07-15T12:50:35,094 ------------------------------------------------------------ 2021-07-15T12:50:35,094 ... 2021-07-15T12:50:35,094 cdef int i, n 2021-07-15T12:50:35,094 with nogil: 2021-07-15T12:50:35,094 for i in range(self.ninternal): 2021-07-15T12:50:35,094 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,094 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,095 ^ 2021-07-15T12:50:35,095 ------------------------------------------------------------ 2021-07-15T12:50:35,095 sella/internal/int_classes.pyx:902:47: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,095 Error compiling Cython file: 2021-07-15T12:50:35,095 ------------------------------------------------------------ 2021-07-15T12:50:35,095 ... 2021-07-15T12:50:35,096 for i in range(self.ninternal): 2021-07-15T12:50:35,096 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,096 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,096 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,096 for i in range(self.ndihedrals): 2021-07-15T12:50:35,096 ^ 2021-07-15T12:50:35,096 ------------------------------------------------------------ 2021-07-15T12:50:35,097 sella/internal/int_classes.pyx:904:31: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,097 Error compiling Cython file: 2021-07-15T12:50:35,097 ------------------------------------------------------------ 2021-07-15T12:50:35,097 ... 2021-07-15T12:50:35,097 for i in range(self.ninternal): 2021-07-15T12:50:35,097 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,098 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,098 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,098 for i in range(self.ndihedrals): 2021-07-15T12:50:35,098 ^ 2021-07-15T12:50:35,098 ------------------------------------------------------------ 2021-07-15T12:50:35,098 sella/internal/int_classes.pyx:904:31: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,098 Error compiling Cython file: 2021-07-15T12:50:35,099 ------------------------------------------------------------ 2021-07-15T12:50:35,099 ... 2021-07-15T12:50:35,099 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,099 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,099 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,099 for i in range(self.ndihedrals): 2021-07-15T12:50:35,099 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,100 ^ 2021-07-15T12:50:35,100 ------------------------------------------------------------ 2021-07-15T12:50:35,100 sella/internal/int_classes.pyx:905:24: Indexing Python object not allowed without gil 2021-07-15T12:50:35,100 Error compiling Cython file: 2021-07-15T12:50:35,100 ------------------------------------------------------------ 2021-07-15T12:50:35,100 ... 2021-07-15T12:50:35,101 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,101 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,101 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,101 for i in range(self.ndihedrals): 2021-07-15T12:50:35,101 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,101 ^ 2021-07-15T12:50:35,102 ------------------------------------------------------------ 2021-07-15T12:50:35,102 sella/internal/int_classes.pyx:905:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,102 Error compiling Cython file: 2021-07-15T12:50:35,102 ------------------------------------------------------------ 2021-07-15T12:50:35,102 ... 2021-07-15T12:50:35,103 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,103 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,103 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,103 for i in range(self.ndihedrals): 2021-07-15T12:50:35,103 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,103 ^ 2021-07-15T12:50:35,104 ------------------------------------------------------------ 2021-07-15T12:50:35,104 sella/internal/int_classes.pyx:905:57: Operation not allowed without gil 2021-07-15T12:50:35,104 Error compiling Cython file: 2021-07-15T12:50:35,104 ------------------------------------------------------------ 2021-07-15T12:50:35,104 ... 2021-07-15T12:50:35,104 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,105 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,105 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,105 for i in range(self.ndihedrals): 2021-07-15T12:50:35,105 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,105 ^ 2021-07-15T12:50:35,105 ------------------------------------------------------------ 2021-07-15T12:50:35,106 sella/internal/int_classes.pyx:905:38: Operation not allowed without gil 2021-07-15T12:50:35,106 Error compiling Cython file: 2021-07-15T12:50:35,106 ------------------------------------------------------------ 2021-07-15T12:50:35,106 ... 2021-07-15T12:50:35,106 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,106 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,106 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,107 for i in range(self.ndihedrals): 2021-07-15T12:50:35,107 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,107 ^ 2021-07-15T12:50:35,107 ------------------------------------------------------------ 2021-07-15T12:50:35,107 sella/internal/int_classes.pyx:905:35: Converting to Python object not allowed without gil 2021-07-15T12:50:35,107 Error compiling Cython file: 2021-07-15T12:50:35,108 ------------------------------------------------------------ 2021-07-15T12:50:35,108 ... 2021-07-15T12:50:35,108 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,108 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,108 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,108 for i in range(self.ndihedrals): 2021-07-15T12:50:35,108 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,109 ^ 2021-07-15T12:50:35,109 ------------------------------------------------------------ 2021-07-15T12:50:35,109 sella/internal/int_classes.pyx:905:48: Indexing Python object not allowed without gil 2021-07-15T12:50:35,109 Error compiling Cython file: 2021-07-15T12:50:35,109 ------------------------------------------------------------ 2021-07-15T12:50:35,109 ... 2021-07-15T12:50:35,109 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,110 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,110 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,110 for i in range(self.ndihedrals): 2021-07-15T12:50:35,110 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,110 ^ 2021-07-15T12:50:35,110 ------------------------------------------------------------ 2021-07-15T12:50:35,111 sella/internal/int_classes.pyx:905:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,111 Error compiling Cython file: 2021-07-15T12:50:35,111 ------------------------------------------------------------ 2021-07-15T12:50:35,111 ... 2021-07-15T12:50:35,111 self.res[i] = self.q1[i] - self.target[i] 2021-07-15T12:50:35,111 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,111 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,112 for i in range(self.ndihedrals): 2021-07-15T12:50:35,112 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,112 ^ 2021-07-15T12:50:35,112 ------------------------------------------------------------ 2021-07-15T12:50:35,112 sella/internal/int_classes.pyx:905:62: Converting to Python object not allowed without gil 2021-07-15T12:50:35,112 Error compiling Cython file: 2021-07-15T12:50:35,113 ------------------------------------------------------------ 2021-07-15T12:50:35,113 ... 2021-07-15T12:50:35,113 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,113 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,113 for i in range(self.ndihedrals): 2021-07-15T12:50:35,113 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,113 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,113 ^ 2021-07-15T12:50:35,114 ------------------------------------------------------------ 2021-07-15T12:50:35,114 sella/internal/int_classes.pyx:906:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,114 Error compiling Cython file: 2021-07-15T12:50:35,114 ------------------------------------------------------------ 2021-07-15T12:50:35,114 ... 2021-07-15T12:50:35,114 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,115 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,115 for i in range(self.ndihedrals): 2021-07-15T12:50:35,115 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,115 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,115 ^ 2021-07-15T12:50:35,115 ------------------------------------------------------------ 2021-07-15T12:50:35,115 sella/internal/int_classes.pyx:906:24: Indexing Python object not allowed without gil 2021-07-15T12:50:35,116 Error compiling Cython file: 2021-07-15T12:50:35,116 ------------------------------------------------------------ 2021-07-15T12:50:35,116 ... 2021-07-15T12:50:35,116 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,116 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,116 for i in range(self.ndihedrals): 2021-07-15T12:50:35,116 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,117 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,117 ^ 2021-07-15T12:50:35,117 ------------------------------------------------------------ 2021-07-15T12:50:35,117 sella/internal/int_classes.pyx:906:20: Operation not allowed without gil 2021-07-15T12:50:35,117 Error compiling Cython file: 2021-07-15T12:50:35,117 ------------------------------------------------------------ 2021-07-15T12:50:35,118 ... 2021-07-15T12:50:35,118 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,118 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,118 for i in range(self.ndihedrals): 2021-07-15T12:50:35,118 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,118 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,118 ^ 2021-07-15T12:50:35,118 ------------------------------------------------------------ 2021-07-15T12:50:35,119 sella/internal/int_classes.pyx:906:24: Operation not allowed without gil 2021-07-15T12:50:35,119 Error compiling Cython file: 2021-07-15T12:50:35,119 ------------------------------------------------------------ 2021-07-15T12:50:35,119 ... 2021-07-15T12:50:35,119 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,120 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,120 for i in range(self.ndihedrals): 2021-07-15T12:50:35,120 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,120 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,120 ^ 2021-07-15T12:50:35,120 ------------------------------------------------------------ 2021-07-15T12:50:35,120 sella/internal/int_classes.pyx:906:24: Indexing Python object not allowed without gil 2021-07-15T12:50:35,121 Error compiling Cython file: 2021-07-15T12:50:35,121 ------------------------------------------------------------ 2021-07-15T12:50:35,121 ... 2021-07-15T12:50:35,121 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,121 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,121 for i in range(self.ndihedrals): 2021-07-15T12:50:35,121 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,122 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,122 ^ 2021-07-15T12:50:35,122 ------------------------------------------------------------ 2021-07-15T12:50:35,122 sella/internal/int_classes.pyx:906:20: Operation not allowed without gil 2021-07-15T12:50:35,122 Error compiling Cython file: 2021-07-15T12:50:35,122 ------------------------------------------------------------ 2021-07-15T12:50:35,122 ... 2021-07-15T12:50:35,123 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,123 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,123 for i in range(self.ndihedrals): 2021-07-15T12:50:35,123 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,123 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,123 ^ 2021-07-15T12:50:35,123 ------------------------------------------------------------ 2021-07-15T12:50:35,124 sella/internal/int_classes.pyx:906:43: Converting to Python object not allowed without gil 2021-07-15T12:50:35,124 Error compiling Cython file: 2021-07-15T12:50:35,124 ------------------------------------------------------------ 2021-07-15T12:50:35,124 ... 2021-07-15T12:50:35,124 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,124 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,125 for i in range(self.ndihedrals): 2021-07-15T12:50:35,125 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,125 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,125 ^ 2021-07-15T12:50:35,125 ------------------------------------------------------------ 2021-07-15T12:50:35,126 sella/internal/int_classes.pyx:906:56: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,126 Error compiling Cython file: 2021-07-15T12:50:35,126 ------------------------------------------------------------ 2021-07-15T12:50:35,126 ... 2021-07-15T12:50:35,126 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,127 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,127 for i in range(self.ndihedrals): 2021-07-15T12:50:35,127 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,127 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,127 ^ 2021-07-15T12:50:35,127 ------------------------------------------------------------ 2021-07-15T12:50:35,128 sella/internal/int_classes.pyx:906:56: Indexing Python object not allowed without gil 2021-07-15T12:50:35,128 Error compiling Cython file: 2021-07-15T12:50:35,128 ------------------------------------------------------------ 2021-07-15T12:50:35,128 ... 2021-07-15T12:50:35,128 n = self.ncart + self.nbonds + self.nangles 2021-07-15T12:50:35,128 # Dihedrals are periodic on the range -pi to pi 2021-07-15T12:50:35,129 for i in range(self.ndihedrals): 2021-07-15T12:50:35,129 self.res[n + i] = (pi + self.res[n + i]) % (2 * pi) #- pi 2021-07-15T12:50:35,129 self.res[n + i] -= copysign(pi, self.res[n + i]) 2021-07-15T12:50:35,129 ^ 2021-07-15T12:50:35,129 ------------------------------------------------------------ 2021-07-15T12:50:35,129 sella/internal/int_classes.pyx:906:52: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,129 Error compiling Cython file: 2021-07-15T12:50:35,130 ------------------------------------------------------------ 2021-07-15T12:50:35,130 ... 2021-07-15T12:50:35,130 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,130 dtype=np.float64) 2021-07-15T12:50:35,130 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,130 with nogil: 2021-07-15T12:50:35,130 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,131 ^ 2021-07-15T12:50:35,131 ------------------------------------------------------------ 2021-07-15T12:50:35,131 sella/internal/int_classes.pyx:1000:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,131 Error compiling Cython file: 2021-07-15T12:50:35,131 ------------------------------------------------------------ 2021-07-15T12:50:35,131 ... 2021-07-15T12:50:35,132 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,132 dtype=np.float64) 2021-07-15T12:50:35,132 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,132 with nogil: 2021-07-15T12:50:35,132 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,132 ^ 2021-07-15T12:50:35,132 ------------------------------------------------------------ 2021-07-15T12:50:35,133 sella/internal/int_classes.pyx:1000:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,133 Error compiling Cython file: 2021-07-15T12:50:35,133 ------------------------------------------------------------ 2021-07-15T12:50:35,133 ... 2021-07-15T12:50:35,133 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,133 dtype=np.float64) 2021-07-15T12:50:35,133 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,134 with nogil: 2021-07-15T12:50:35,134 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,134 ^ 2021-07-15T12:50:35,134 ------------------------------------------------------------ 2021-07-15T12:50:35,134 sella/internal/int_classes.pyx:1000:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,134 Error compiling Cython file: 2021-07-15T12:50:35,135 ------------------------------------------------------------ 2021-07-15T12:50:35,135 ... 2021-07-15T12:50:35,135 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,135 dtype=np.float64) 2021-07-15T12:50:35,135 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,135 with nogil: 2021-07-15T12:50:35,135 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,135 ^ 2021-07-15T12:50:35,136 ------------------------------------------------------------ 2021-07-15T12:50:35,136 sella/internal/int_classes.pyx:1000:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,136 Error compiling Cython file: 2021-07-15T12:50:35,136 ------------------------------------------------------------ 2021-07-15T12:50:35,136 ... 2021-07-15T12:50:35,136 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,137 dtype=np.float64) 2021-07-15T12:50:35,137 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,137 with nogil: 2021-07-15T12:50:35,137 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,137 m += self.nbonds 2021-07-15T12:50:35,137 ^ 2021-07-15T12:50:35,137 ------------------------------------------------------------ 2021-07-15T12:50:35,137 sella/internal/int_classes.pyx:1001:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,138 Error compiling Cython file: 2021-07-15T12:50:35,138 ------------------------------------------------------------ 2021-07-15T12:50:35,138 ... 2021-07-15T12:50:35,138 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,138 dtype=np.float64) 2021-07-15T12:50:35,138 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,138 with nogil: 2021-07-15T12:50:35,139 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,139 m += self.nbonds 2021-07-15T12:50:35,139 ^ 2021-07-15T12:50:35,139 ------------------------------------------------------------ 2021-07-15T12:50:35,139 sella/internal/int_classes.pyx:1001:12: Operation not allowed without gil 2021-07-15T12:50:35,139 Error compiling Cython file: 2021-07-15T12:50:35,139 ------------------------------------------------------------ 2021-07-15T12:50:35,140 ... 2021-07-15T12:50:35,140 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,140 dtype=np.float64) 2021-07-15T12:50:35,140 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,140 with nogil: 2021-07-15T12:50:35,140 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,140 m += self.nbonds 2021-07-15T12:50:35,140 ^ 2021-07-15T12:50:35,141 ------------------------------------------------------------ 2021-07-15T12:50:35,141 sella/internal/int_classes.pyx:1001:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,141 Error compiling Cython file: 2021-07-15T12:50:35,141 ------------------------------------------------------------ 2021-07-15T12:50:35,141 ... 2021-07-15T12:50:35,141 result_np = np.zeros((self.natoms, 3, self.natoms, 3), 2021-07-15T12:50:35,141 dtype=np.float64) 2021-07-15T12:50:35,142 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,142 with nogil: 2021-07-15T12:50:35,142 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,142 m += self.nbonds 2021-07-15T12:50:35,142 ^ 2021-07-15T12:50:35,142 ------------------------------------------------------------ 2021-07-15T12:50:35,142 sella/internal/int_classes.pyx:1001:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,143 Error compiling Cython file: 2021-07-15T12:50:35,143 ------------------------------------------------------------ 2021-07-15T12:50:35,143 ... 2021-07-15T12:50:35,143 dtype=np.float64) 2021-07-15T12:50:35,143 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,143 with nogil: 2021-07-15T12:50:35,143 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,143 m += self.nbonds 2021-07-15T12:50:35,144 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,144 ^ 2021-07-15T12:50:35,144 ------------------------------------------------------------ 2021-07-15T12:50:35,144 sella/internal/int_classes.pyx:1002:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,144 Error compiling Cython file: 2021-07-15T12:50:35,144 ------------------------------------------------------------ 2021-07-15T12:50:35,145 ... 2021-07-15T12:50:35,145 dtype=np.float64) 2021-07-15T12:50:35,145 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,145 with nogil: 2021-07-15T12:50:35,145 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,145 m += self.nbonds 2021-07-15T12:50:35,145 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,145 ^ 2021-07-15T12:50:35,146 ------------------------------------------------------------ 2021-07-15T12:50:35,146 sella/internal/int_classes.pyx:1002:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,146 Error compiling Cython file: 2021-07-15T12:50:35,146 ------------------------------------------------------------ 2021-07-15T12:50:35,146 ... 2021-07-15T12:50:35,146 dtype=np.float64) 2021-07-15T12:50:35,146 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,147 with nogil: 2021-07-15T12:50:35,147 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,147 m += self.nbonds 2021-07-15T12:50:35,147 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,147 ^ 2021-07-15T12:50:35,147 ------------------------------------------------------------ 2021-07-15T12:50:35,147 sella/internal/int_classes.pyx:1002:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,148 Error compiling Cython file: 2021-07-15T12:50:35,148 ------------------------------------------------------------ 2021-07-15T12:50:35,148 ... 2021-07-15T12:50:35,148 dtype=np.float64) 2021-07-15T12:50:35,148 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,148 with nogil: 2021-07-15T12:50:35,148 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,149 m += self.nbonds 2021-07-15T12:50:35,149 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,149 ^ 2021-07-15T12:50:35,149 ------------------------------------------------------------ 2021-07-15T12:50:35,149 sella/internal/int_classes.pyx:1002:58: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,149 Error compiling Cython file: 2021-07-15T12:50:35,149 ------------------------------------------------------------ 2021-07-15T12:50:35,150 ... 2021-07-15T12:50:35,150 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,150 with nogil: 2021-07-15T12:50:35,150 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,150 m += self.nbonds 2021-07-15T12:50:35,150 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,151 m += self.nangles 2021-07-15T12:50:35,151 ^ 2021-07-15T12:50:35,151 ------------------------------------------------------------ 2021-07-15T12:50:35,151 sella/internal/int_classes.pyx:1003:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,151 Error compiling Cython file: 2021-07-15T12:50:35,152 ------------------------------------------------------------ 2021-07-15T12:50:35,152 ... 2021-07-15T12:50:35,152 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,152 with nogil: 2021-07-15T12:50:35,152 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,152 m += self.nbonds 2021-07-15T12:50:35,152 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,152 m += self.nangles 2021-07-15T12:50:35,153 ^ 2021-07-15T12:50:35,153 ------------------------------------------------------------ 2021-07-15T12:50:35,153 sella/internal/int_classes.pyx:1003:12: Operation not allowed without gil 2021-07-15T12:50:35,153 Error compiling Cython file: 2021-07-15T12:50:35,153 ------------------------------------------------------------ 2021-07-15T12:50:35,153 ... 2021-07-15T12:50:35,153 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,154 with nogil: 2021-07-15T12:50:35,154 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,154 m += self.nbonds 2021-07-15T12:50:35,154 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,154 m += self.nangles 2021-07-15T12:50:35,154 ^ 2021-07-15T12:50:35,154 ------------------------------------------------------------ 2021-07-15T12:50:35,155 sella/internal/int_classes.pyx:1003:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,155 Error compiling Cython file: 2021-07-15T12:50:35,155 ------------------------------------------------------------ 2021-07-15T12:50:35,155 ... 2021-07-15T12:50:35,155 cdef double[:, :, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,155 with nogil: 2021-07-15T12:50:35,155 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,155 m += self.nbonds 2021-07-15T12:50:35,156 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,156 m += self.nangles 2021-07-15T12:50:35,156 ^ 2021-07-15T12:50:35,156 ------------------------------------------------------------ 2021-07-15T12:50:35,156 sella/internal/int_classes.pyx:1003:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,156 Error compiling Cython file: 2021-07-15T12:50:35,157 ------------------------------------------------------------ 2021-07-15T12:50:35,157 ... 2021-07-15T12:50:35,157 with nogil: 2021-07-15T12:50:35,157 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,157 m += self.nbonds 2021-07-15T12:50:35,157 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,157 m += self.nangles 2021-07-15T12:50:35,157 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,157 ^ 2021-07-15T12:50:35,158 ------------------------------------------------------------ 2021-07-15T12:50:35,158 sella/internal/int_classes.pyx:1004:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,158 Error compiling Cython file: 2021-07-15T12:50:35,158 ------------------------------------------------------------ 2021-07-15T12:50:35,158 ... 2021-07-15T12:50:35,158 with nogil: 2021-07-15T12:50:35,158 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,159 m += self.nbonds 2021-07-15T12:50:35,159 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,159 m += self.nangles 2021-07-15T12:50:35,159 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,159 ^ 2021-07-15T12:50:35,159 ------------------------------------------------------------ 2021-07-15T12:50:35,159 sella/internal/int_classes.pyx:1004:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,160 Error compiling Cython file: 2021-07-15T12:50:35,160 ------------------------------------------------------------ 2021-07-15T12:50:35,160 ... 2021-07-15T12:50:35,160 with nogil: 2021-07-15T12:50:35,160 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,160 m += self.nbonds 2021-07-15T12:50:35,160 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,160 m += self.nangles 2021-07-15T12:50:35,161 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,161 ^ 2021-07-15T12:50:35,161 ------------------------------------------------------------ 2021-07-15T12:50:35,161 sella/internal/int_classes.pyx:1004:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,161 Error compiling Cython file: 2021-07-15T12:50:35,161 ------------------------------------------------------------ 2021-07-15T12:50:35,161 ... 2021-07-15T12:50:35,162 with nogil: 2021-07-15T12:50:35,162 self._ld(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,162 m += self.nbonds 2021-07-15T12:50:35,162 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,162 m += self.nangles 2021-07-15T12:50:35,162 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,162 ^ 2021-07-15T12:50:35,162 ------------------------------------------------------------ 2021-07-15T12:50:35,163 sella/internal/int_classes.pyx:1004:64: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,163 Error compiling Cython file: 2021-07-15T12:50:35,163 ------------------------------------------------------------ 2021-07-15T12:50:35,163 ... 2021-07-15T12:50:35,163 m += self.nbonds 2021-07-15T12:50:35,163 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,163 m += self.nangles 2021-07-15T12:50:35,164 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,164 v1, res) 2021-07-15T12:50:35,164 m += self.ndihedrals 2021-07-15T12:50:35,164 ^ 2021-07-15T12:50:35,164 ------------------------------------------------------------ 2021-07-15T12:50:35,164 sella/internal/int_classes.pyx:1006:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,165 Error compiling Cython file: 2021-07-15T12:50:35,165 ------------------------------------------------------------ 2021-07-15T12:50:35,165 ... 2021-07-15T12:50:35,165 m += self.nbonds 2021-07-15T12:50:35,165 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,165 m += self.nangles 2021-07-15T12:50:35,165 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,165 v1, res) 2021-07-15T12:50:35,166 m += self.ndihedrals 2021-07-15T12:50:35,166 ^ 2021-07-15T12:50:35,166 ------------------------------------------------------------ 2021-07-15T12:50:35,166 sella/internal/int_classes.pyx:1006:12: Operation not allowed without gil 2021-07-15T12:50:35,166 Error compiling Cython file: 2021-07-15T12:50:35,166 ------------------------------------------------------------ 2021-07-15T12:50:35,166 ... 2021-07-15T12:50:35,167 m += self.nbonds 2021-07-15T12:50:35,167 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,167 m += self.nangles 2021-07-15T12:50:35,167 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,167 v1, res) 2021-07-15T12:50:35,167 m += self.ndihedrals 2021-07-15T12:50:35,167 ^ 2021-07-15T12:50:35,167 ------------------------------------------------------------ 2021-07-15T12:50:35,168 sella/internal/int_classes.pyx:1006:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,168 Error compiling Cython file: 2021-07-15T12:50:35,168 ------------------------------------------------------------ 2021-07-15T12:50:35,168 ... 2021-07-15T12:50:35,168 m += self.nbonds 2021-07-15T12:50:35,168 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,168 m += self.nangles 2021-07-15T12:50:35,169 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,169 v1, res) 2021-07-15T12:50:35,169 m += self.ndihedrals 2021-07-15T12:50:35,169 ^ 2021-07-15T12:50:35,169 ------------------------------------------------------------ 2021-07-15T12:50:35,169 sella/internal/int_classes.pyx:1006:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,170 Error compiling Cython file: 2021-07-15T12:50:35,170 ------------------------------------------------------------ 2021-07-15T12:50:35,170 ... 2021-07-15T12:50:35,170 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,170 m += self.nangles 2021-07-15T12:50:35,170 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,170 v1, res) 2021-07-15T12:50:35,170 m += self.ndihedrals 2021-07-15T12:50:35,170 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,171 ^ 2021-07-15T12:50:35,171 ------------------------------------------------------------ 2021-07-15T12:50:35,171 sella/internal/int_classes.pyx:1007:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,171 Error compiling Cython file: 2021-07-15T12:50:35,171 ------------------------------------------------------------ 2021-07-15T12:50:35,171 ... 2021-07-15T12:50:35,172 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,172 m += self.nangles 2021-07-15T12:50:35,172 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,172 v1, res) 2021-07-15T12:50:35,172 m += self.ndihedrals 2021-07-15T12:50:35,172 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,172 ^ 2021-07-15T12:50:35,172 ------------------------------------------------------------ 2021-07-15T12:50:35,173 sella/internal/int_classes.pyx:1007:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,173 Error compiling Cython file: 2021-07-15T12:50:35,173 ------------------------------------------------------------ 2021-07-15T12:50:35,173 ... 2021-07-15T12:50:35,173 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,173 m += self.nangles 2021-07-15T12:50:35,173 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,174 v1, res) 2021-07-15T12:50:35,174 m += self.ndihedrals 2021-07-15T12:50:35,174 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,174 ^ 2021-07-15T12:50:35,174 ------------------------------------------------------------ 2021-07-15T12:50:35,174 sella/internal/int_classes.pyx:1007:49: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,175 Error compiling Cython file: 2021-07-15T12:50:35,175 ------------------------------------------------------------ 2021-07-15T12:50:35,175 ... 2021-07-15T12:50:35,175 self._ld(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,175 m += self.nangles 2021-07-15T12:50:35,175 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,176 v1, res) 2021-07-15T12:50:35,176 m += self.ndihedrals 2021-07-15T12:50:35,176 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,176 ^ 2021-07-15T12:50:35,176 ------------------------------------------------------------ 2021-07-15T12:50:35,176 sella/internal/int_classes.pyx:1007:66: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,177 Error compiling Cython file: 2021-07-15T12:50:35,177 ------------------------------------------------------------ 2021-07-15T12:50:35,177 ... 2021-07-15T12:50:35,177 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,177 v1, res) 2021-07-15T12:50:35,177 m += self.ndihedrals 2021-07-15T12:50:35,178 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,178 v1, res) 2021-07-15T12:50:35,178 m += self.nangle_sums 2021-07-15T12:50:35,178 ^ 2021-07-15T12:50:35,178 ------------------------------------------------------------ 2021-07-15T12:50:35,178 sella/internal/int_classes.pyx:1009:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,179 Error compiling Cython file: 2021-07-15T12:50:35,179 ------------------------------------------------------------ 2021-07-15T12:50:35,179 ... 2021-07-15T12:50:35,179 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,179 v1, res) 2021-07-15T12:50:35,179 m += self.ndihedrals 2021-07-15T12:50:35,179 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,179 v1, res) 2021-07-15T12:50:35,180 m += self.nangle_sums 2021-07-15T12:50:35,180 ^ 2021-07-15T12:50:35,180 ------------------------------------------------------------ 2021-07-15T12:50:35,180 sella/internal/int_classes.pyx:1009:12: Operation not allowed without gil 2021-07-15T12:50:35,180 Error compiling Cython file: 2021-07-15T12:50:35,180 ------------------------------------------------------------ 2021-07-15T12:50:35,180 ... 2021-07-15T12:50:35,181 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,181 v1, res) 2021-07-15T12:50:35,181 m += self.ndihedrals 2021-07-15T12:50:35,181 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,181 v1, res) 2021-07-15T12:50:35,181 m += self.nangle_sums 2021-07-15T12:50:35,181 ^ 2021-07-15T12:50:35,181 ------------------------------------------------------------ 2021-07-15T12:50:35,182 sella/internal/int_classes.pyx:1009:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,182 Error compiling Cython file: 2021-07-15T12:50:35,182 ------------------------------------------------------------ 2021-07-15T12:50:35,182 ... 2021-07-15T12:50:35,182 self._ld(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,182 v1, res) 2021-07-15T12:50:35,182 m += self.ndihedrals 2021-07-15T12:50:35,183 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,183 v1, res) 2021-07-15T12:50:35,183 m += self.nangle_sums 2021-07-15T12:50:35,183 ^ 2021-07-15T12:50:35,183 ------------------------------------------------------------ 2021-07-15T12:50:35,183 sella/internal/int_classes.pyx:1009:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,184 Error compiling Cython file: 2021-07-15T12:50:35,184 ------------------------------------------------------------ 2021-07-15T12:50:35,184 ... 2021-07-15T12:50:35,184 v1, res) 2021-07-15T12:50:35,184 m += self.ndihedrals 2021-07-15T12:50:35,184 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,184 v1, res) 2021-07-15T12:50:35,184 m += self.nangle_sums 2021-07-15T12:50:35,184 self._ld(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,185 ^ 2021-07-15T12:50:35,185 ------------------------------------------------------------ 2021-07-15T12:50:35,185 sella/internal/int_classes.pyx:1010:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,185 Error compiling Cython file: 2021-07-15T12:50:35,185 ------------------------------------------------------------ 2021-07-15T12:50:35,185 ... 2021-07-15T12:50:35,185 v1, res) 2021-07-15T12:50:35,186 m += self.ndihedrals 2021-07-15T12:50:35,186 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,186 v1, res) 2021-07-15T12:50:35,186 m += self.nangle_sums 2021-07-15T12:50:35,186 self._ld(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,186 ^ 2021-07-15T12:50:35,186 ------------------------------------------------------------ 2021-07-15T12:50:35,187 sella/internal/int_classes.pyx:1010:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,187 Error compiling Cython file: 2021-07-15T12:50:35,187 ------------------------------------------------------------ 2021-07-15T12:50:35,187 ... 2021-07-15T12:50:35,187 v1, res) 2021-07-15T12:50:35,187 m += self.ndihedrals 2021-07-15T12:50:35,187 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,188 v1, res) 2021-07-15T12:50:35,188 m += self.nangle_sums 2021-07-15T12:50:35,188 self._ld(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,188 ^ 2021-07-15T12:50:35,188 ------------------------------------------------------------ 2021-07-15T12:50:35,188 sella/internal/int_classes.pyx:1010:50: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,189 Error compiling Cython file: 2021-07-15T12:50:35,189 ------------------------------------------------------------ 2021-07-15T12:50:35,189 ... 2021-07-15T12:50:35,189 m += self.ndihedrals 2021-07-15T12:50:35,189 self._ld(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,189 v1, res) 2021-07-15T12:50:35,189 m += self.nangle_sums 2021-07-15T12:50:35,189 self._ld(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,189 self.Dangle_diffs, v1, res) 2021-07-15T12:50:35,190 ^ 2021-07-15T12:50:35,190 ------------------------------------------------------------ 2021-07-15T12:50:35,190 sella/internal/int_classes.pyx:1011:25: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,190 Error compiling Cython file: 2021-07-15T12:50:35,190 ------------------------------------------------------------ 2021-07-15T12:50:35,190 ... 2021-07-15T12:50:35,190 for a in range(nind): 2021-07-15T12:50:35,191 ai = q[n, a] 2021-07-15T12:50:35,191 for b in range(nind): 2021-07-15T12:50:35,191 bi = q[n, b] 2021-07-15T12:50:35,191 for i in range(3): 2021-07-15T12:50:35,191 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,191 ^ 2021-07-15T12:50:35,191 ------------------------------------------------------------ 2021-07-15T12:50:35,192 sella/internal/int_classes.pyx:1031:38: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,192 Error compiling Cython file: 2021-07-15T12:50:35,192 ------------------------------------------------------------ 2021-07-15T12:50:35,192 ... 2021-07-15T12:50:35,192 for a in range(nind): 2021-07-15T12:50:35,192 ai = q[n, a] 2021-07-15T12:50:35,192 for b in range(nind): 2021-07-15T12:50:35,192 bi = q[n, b] 2021-07-15T12:50:35,193 for i in range(3): 2021-07-15T12:50:35,193 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,193 ^ 2021-07-15T12:50:35,193 ------------------------------------------------------------ 2021-07-15T12:50:35,193 sella/internal/int_classes.pyx:1031:38: Calling gil-requiring function not allowed without gil 2021-07-15T12:50:35,193 Error compiling Cython file: 2021-07-15T12:50:35,194 ------------------------------------------------------------ 2021-07-15T12:50:35,194 ... 2021-07-15T12:50:35,194 for a in range(nind): 2021-07-15T12:50:35,194 ai = q[n, a] 2021-07-15T12:50:35,194 for b in range(nind): 2021-07-15T12:50:35,194 bi = q[n, b] 2021-07-15T12:50:35,194 for i in range(3): 2021-07-15T12:50:35,194 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,194 ^ 2021-07-15T12:50:35,195 ------------------------------------------------------------ 2021-07-15T12:50:35,195 sella/internal/int_classes.pyx:1031:30: Accessing Python global or builtin not allowed without gil 2021-07-15T12:50:35,195 Error compiling Cython file: 2021-07-15T12:50:35,195 ------------------------------------------------------------ 2021-07-15T12:50:35,195 ... 2021-07-15T12:50:35,195 for a in range(nind): 2021-07-15T12:50:35,196 ai = q[n, a] 2021-07-15T12:50:35,196 for b in range(nind): 2021-07-15T12:50:35,196 bi = q[n, b] 2021-07-15T12:50:35,196 for i in range(3): 2021-07-15T12:50:35,196 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,196 ^ 2021-07-15T12:50:35,196 ------------------------------------------------------------ 2021-07-15T12:50:35,196 sella/internal/int_classes.pyx:1031:38: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,197 Error compiling Cython file: 2021-07-15T12:50:35,197 ------------------------------------------------------------ 2021-07-15T12:50:35,197 ... 2021-07-15T12:50:35,197 for a in range(nind): 2021-07-15T12:50:35,197 ai = q[n, a] 2021-07-15T12:50:35,197 for b in range(nind): 2021-07-15T12:50:35,197 bi = q[n, b] 2021-07-15T12:50:35,198 for i in range(3): 2021-07-15T12:50:35,198 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,198 ^ 2021-07-15T12:50:35,198 ------------------------------------------------------------ 2021-07-15T12:50:35,198 sella/internal/int_classes.pyx:1031:40: Converting to Python object not allowed without gil 2021-07-15T12:50:35,198 Error compiling Cython file: 2021-07-15T12:50:35,198 ------------------------------------------------------------ 2021-07-15T12:50:35,199 ... 2021-07-15T12:50:35,199 for a in range(nind): 2021-07-15T12:50:35,199 ai = q[n, a] 2021-07-15T12:50:35,199 for b in range(nind): 2021-07-15T12:50:35,199 bi = q[n, b] 2021-07-15T12:50:35,199 for i in range(3): 2021-07-15T12:50:35,199 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,200 ^ 2021-07-15T12:50:35,200 ------------------------------------------------------------ 2021-07-15T12:50:35,200 sella/internal/int_classes.pyx:1031:55: Converting to Python object not allowed without gil 2021-07-15T12:50:35,200 Error compiling Cython file: 2021-07-15T12:50:35,201 ------------------------------------------------------------ 2021-07-15T12:50:35,201 ... 2021-07-15T12:50:35,201 ai = q[n, a] 2021-07-15T12:50:35,201 for b in range(nind): 2021-07-15T12:50:35,201 bi = q[n, b] 2021-07-15T12:50:35,201 for i in range(3): 2021-07-15T12:50:35,201 err = my_daxpy(v[start + n], D2[n, a, i, b], 2021-07-15T12:50:35,201 res[ai, i, bi]) 2021-07-15T12:50:35,202 ^ 2021-07-15T12:50:35,202 ------------------------------------------------------------ 2021-07-15T12:50:35,202 sella/internal/int_classes.pyx:1032:42: Converting to Python object not allowed without gil 2021-07-15T12:50:35,202 Error compiling Cython file: 2021-07-15T12:50:35,202 ------------------------------------------------------------ 2021-07-15T12:50:35,202 ... 2021-07-15T12:50:35,203 assert len(v1) == self.nx 2021-07-15T12:50:35,203 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,203 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,203 with nogil: 2021-07-15T12:50:35,203 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,203 ^ 2021-07-15T12:50:35,203 ------------------------------------------------------------ 2021-07-15T12:50:35,204 sella/internal/int_classes.pyx:1044:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,204 Error compiling Cython file: 2021-07-15T12:50:35,204 ------------------------------------------------------------ 2021-07-15T12:50:35,204 ... 2021-07-15T12:50:35,204 assert len(v1) == self.nx 2021-07-15T12:50:35,204 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,205 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,205 with nogil: 2021-07-15T12:50:35,205 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,205 ^ 2021-07-15T12:50:35,205 ------------------------------------------------------------ 2021-07-15T12:50:35,205 sella/internal/int_classes.pyx:1044:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,206 Error compiling Cython file: 2021-07-15T12:50:35,206 ------------------------------------------------------------ 2021-07-15T12:50:35,206 ... 2021-07-15T12:50:35,206 assert len(v1) == self.nx 2021-07-15T12:50:35,206 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,206 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,206 with nogil: 2021-07-15T12:50:35,206 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,207 ^ 2021-07-15T12:50:35,207 ------------------------------------------------------------ 2021-07-15T12:50:35,207 sella/internal/int_classes.pyx:1044:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,207 Error compiling Cython file: 2021-07-15T12:50:35,207 ------------------------------------------------------------ 2021-07-15T12:50:35,207 ... 2021-07-15T12:50:35,208 assert len(v1) == self.nx 2021-07-15T12:50:35,208 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,208 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,208 with nogil: 2021-07-15T12:50:35,208 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,208 ^ 2021-07-15T12:50:35,208 ------------------------------------------------------------ 2021-07-15T12:50:35,209 sella/internal/int_classes.pyx:1044:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,209 Error compiling Cython file: 2021-07-15T12:50:35,209 ------------------------------------------------------------ 2021-07-15T12:50:35,209 ... 2021-07-15T12:50:35,209 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,209 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,210 with nogil: 2021-07-15T12:50:35,210 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,210 m += self.nbonds 2021-07-15T12:50:35,210 ^ 2021-07-15T12:50:35,210 ------------------------------------------------------------ 2021-07-15T12:50:35,210 sella/internal/int_classes.pyx:1045:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,210 Error compiling Cython file: 2021-07-15T12:50:35,211 ------------------------------------------------------------ 2021-07-15T12:50:35,211 ... 2021-07-15T12:50:35,211 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,211 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,211 with nogil: 2021-07-15T12:50:35,211 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,211 m += self.nbonds 2021-07-15T12:50:35,212 ^ 2021-07-15T12:50:35,212 ------------------------------------------------------------ 2021-07-15T12:50:35,212 sella/internal/int_classes.pyx:1045:12: Operation not allowed without gil 2021-07-15T12:50:35,212 Error compiling Cython file: 2021-07-15T12:50:35,212 ------------------------------------------------------------ 2021-07-15T12:50:35,212 ... 2021-07-15T12:50:35,213 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,213 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,213 with nogil: 2021-07-15T12:50:35,213 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,213 m += self.nbonds 2021-07-15T12:50:35,213 ^ 2021-07-15T12:50:35,213 ------------------------------------------------------------ 2021-07-15T12:50:35,214 sella/internal/int_classes.pyx:1045:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,214 Error compiling Cython file: 2021-07-15T12:50:35,214 ------------------------------------------------------------ 2021-07-15T12:50:35,214 ... 2021-07-15T12:50:35,214 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,214 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,214 with nogil: 2021-07-15T12:50:35,215 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,215 m += self.nbonds 2021-07-15T12:50:35,215 ^ 2021-07-15T12:50:35,215 ------------------------------------------------------------ 2021-07-15T12:50:35,215 sella/internal/int_classes.pyx:1045:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,215 Error compiling Cython file: 2021-07-15T12:50:35,216 ------------------------------------------------------------ 2021-07-15T12:50:35,216 ... 2021-07-15T12:50:35,216 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,216 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,216 with nogil: 2021-07-15T12:50:35,216 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,216 m += self.nbonds 2021-07-15T12:50:35,216 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,217 ^ 2021-07-15T12:50:35,217 ------------------------------------------------------------ 2021-07-15T12:50:35,217 sella/internal/int_classes.pyx:1046:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,217 Error compiling Cython file: 2021-07-15T12:50:35,217 ------------------------------------------------------------ 2021-07-15T12:50:35,217 ... 2021-07-15T12:50:35,217 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,218 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,218 with nogil: 2021-07-15T12:50:35,218 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,218 m += self.nbonds 2021-07-15T12:50:35,218 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,218 ^ 2021-07-15T12:50:35,218 ------------------------------------------------------------ 2021-07-15T12:50:35,219 sella/internal/int_classes.pyx:1046:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,219 Error compiling Cython file: 2021-07-15T12:50:35,219 ------------------------------------------------------------ 2021-07-15T12:50:35,219 ... 2021-07-15T12:50:35,219 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,219 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,219 with nogil: 2021-07-15T12:50:35,220 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,220 m += self.nbonds 2021-07-15T12:50:35,220 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,220 ^ 2021-07-15T12:50:35,220 ------------------------------------------------------------ 2021-07-15T12:50:35,220 sella/internal/int_classes.pyx:1046:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,220 Error compiling Cython file: 2021-07-15T12:50:35,221 ------------------------------------------------------------ 2021-07-15T12:50:35,221 ... 2021-07-15T12:50:35,221 result_np = np.zeros((self.nq, self.natoms, 3), dtype=np.float64) 2021-07-15T12:50:35,221 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,221 with nogil: 2021-07-15T12:50:35,221 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,221 m += self.nbonds 2021-07-15T12:50:35,221 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,221 ^ 2021-07-15T12:50:35,222 ------------------------------------------------------------ 2021-07-15T12:50:35,222 sella/internal/int_classes.pyx:1046:58: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,222 Error compiling Cython file: 2021-07-15T12:50:35,222 ------------------------------------------------------------ 2021-07-15T12:50:35,222 ... 2021-07-15T12:50:35,222 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,223 with nogil: 2021-07-15T12:50:35,223 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,223 m += self.nbonds 2021-07-15T12:50:35,223 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,223 m += self.nangles 2021-07-15T12:50:35,223 ^ 2021-07-15T12:50:35,223 ------------------------------------------------------------ 2021-07-15T12:50:35,224 sella/internal/int_classes.pyx:1047:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,224 Error compiling Cython file: 2021-07-15T12:50:35,224 ------------------------------------------------------------ 2021-07-15T12:50:35,224 ... 2021-07-15T12:50:35,224 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,224 with nogil: 2021-07-15T12:50:35,225 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,225 m += self.nbonds 2021-07-15T12:50:35,225 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,225 m += self.nangles 2021-07-15T12:50:35,225 ^ 2021-07-15T12:50:35,225 ------------------------------------------------------------ 2021-07-15T12:50:35,226 sella/internal/int_classes.pyx:1047:12: Operation not allowed without gil 2021-07-15T12:50:35,226 Error compiling Cython file: 2021-07-15T12:50:35,226 ------------------------------------------------------------ 2021-07-15T12:50:35,226 ... 2021-07-15T12:50:35,226 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,226 with nogil: 2021-07-15T12:50:35,227 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,227 m += self.nbonds 2021-07-15T12:50:35,227 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,227 m += self.nangles 2021-07-15T12:50:35,227 ^ 2021-07-15T12:50:35,227 ------------------------------------------------------------ 2021-07-15T12:50:35,228 sella/internal/int_classes.pyx:1047:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,228 Error compiling Cython file: 2021-07-15T12:50:35,228 ------------------------------------------------------------ 2021-07-15T12:50:35,228 ... 2021-07-15T12:50:35,228 cdef double[:, :, :] res = memoryview(result_np) 2021-07-15T12:50:35,228 with nogil: 2021-07-15T12:50:35,228 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,229 m += self.nbonds 2021-07-15T12:50:35,229 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,229 m += self.nangles 2021-07-15T12:50:35,229 ^ 2021-07-15T12:50:35,229 ------------------------------------------------------------ 2021-07-15T12:50:35,229 sella/internal/int_classes.pyx:1047:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,230 Error compiling Cython file: 2021-07-15T12:50:35,230 ------------------------------------------------------------ 2021-07-15T12:50:35,230 ... 2021-07-15T12:50:35,230 with nogil: 2021-07-15T12:50:35,230 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,230 m += self.nbonds 2021-07-15T12:50:35,230 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,231 m += self.nangles 2021-07-15T12:50:35,231 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,231 ^ 2021-07-15T12:50:35,231 ------------------------------------------------------------ 2021-07-15T12:50:35,231 sella/internal/int_classes.pyx:1048:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,232 Error compiling Cython file: 2021-07-15T12:50:35,232 ------------------------------------------------------------ 2021-07-15T12:50:35,232 ... 2021-07-15T12:50:35,232 with nogil: 2021-07-15T12:50:35,232 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,232 m += self.nbonds 2021-07-15T12:50:35,233 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,233 m += self.nangles 2021-07-15T12:50:35,233 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,233 ^ 2021-07-15T12:50:35,233 ------------------------------------------------------------ 2021-07-15T12:50:35,233 sella/internal/int_classes.pyx:1048:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,234 Error compiling Cython file: 2021-07-15T12:50:35,234 ------------------------------------------------------------ 2021-07-15T12:50:35,234 ... 2021-07-15T12:50:35,234 with nogil: 2021-07-15T12:50:35,234 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,234 m += self.nbonds 2021-07-15T12:50:35,235 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,235 m += self.nangles 2021-07-15T12:50:35,235 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,235 ^ 2021-07-15T12:50:35,235 ------------------------------------------------------------ 2021-07-15T12:50:35,236 sella/internal/int_classes.pyx:1048:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,236 Error compiling Cython file: 2021-07-15T12:50:35,236 ------------------------------------------------------------ 2021-07-15T12:50:35,236 ... 2021-07-15T12:50:35,236 with nogil: 2021-07-15T12:50:35,236 self._rd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, res) 2021-07-15T12:50:35,236 m += self.nbonds 2021-07-15T12:50:35,237 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,237 m += self.nangles 2021-07-15T12:50:35,237 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,237 ^ 2021-07-15T12:50:35,237 ------------------------------------------------------------ 2021-07-15T12:50:35,238 sella/internal/int_classes.pyx:1048:64: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,238 Error compiling Cython file: 2021-07-15T12:50:35,238 ------------------------------------------------------------ 2021-07-15T12:50:35,238 ... 2021-07-15T12:50:35,238 m += self.nbonds 2021-07-15T12:50:35,238 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,239 m += self.nangles 2021-07-15T12:50:35,239 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,239 v1, res) 2021-07-15T12:50:35,239 m += self.ndihedrals 2021-07-15T12:50:35,239 ^ 2021-07-15T12:50:35,239 ------------------------------------------------------------ 2021-07-15T12:50:35,240 sella/internal/int_classes.pyx:1050:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,240 Error compiling Cython file: 2021-07-15T12:50:35,240 ------------------------------------------------------------ 2021-07-15T12:50:35,240 ... 2021-07-15T12:50:35,240 m += self.nbonds 2021-07-15T12:50:35,240 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,241 m += self.nangles 2021-07-15T12:50:35,241 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,241 v1, res) 2021-07-15T12:50:35,241 m += self.ndihedrals 2021-07-15T12:50:35,241 ^ 2021-07-15T12:50:35,241 ------------------------------------------------------------ 2021-07-15T12:50:35,242 sella/internal/int_classes.pyx:1050:12: Operation not allowed without gil 2021-07-15T12:50:35,242 Error compiling Cython file: 2021-07-15T12:50:35,242 ------------------------------------------------------------ 2021-07-15T12:50:35,242 ... 2021-07-15T12:50:35,242 m += self.nbonds 2021-07-15T12:50:35,242 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,243 m += self.nangles 2021-07-15T12:50:35,243 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,243 v1, res) 2021-07-15T12:50:35,244 m += self.ndihedrals 2021-07-15T12:50:35,244 ^ 2021-07-15T12:50:35,244 ------------------------------------------------------------ 2021-07-15T12:50:35,244 sella/internal/int_classes.pyx:1050:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,245 Error compiling Cython file: 2021-07-15T12:50:35,245 ------------------------------------------------------------ 2021-07-15T12:50:35,245 ... 2021-07-15T12:50:35,245 m += self.nbonds 2021-07-15T12:50:35,245 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,245 m += self.nangles 2021-07-15T12:50:35,245 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,246 v1, res) 2021-07-15T12:50:35,246 m += self.ndihedrals 2021-07-15T12:50:35,246 ^ 2021-07-15T12:50:35,246 ------------------------------------------------------------ 2021-07-15T12:50:35,246 sella/internal/int_classes.pyx:1050:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,247 Error compiling Cython file: 2021-07-15T12:50:35,247 ------------------------------------------------------------ 2021-07-15T12:50:35,247 ... 2021-07-15T12:50:35,247 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,247 m += self.nangles 2021-07-15T12:50:35,247 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,247 v1, res) 2021-07-15T12:50:35,248 m += self.ndihedrals 2021-07-15T12:50:35,248 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,248 ^ 2021-07-15T12:50:35,248 ------------------------------------------------------------ 2021-07-15T12:50:35,248 sella/internal/int_classes.pyx:1051:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,249 Error compiling Cython file: 2021-07-15T12:50:35,249 ------------------------------------------------------------ 2021-07-15T12:50:35,249 ... 2021-07-15T12:50:35,249 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,249 m += self.nangles 2021-07-15T12:50:35,249 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,250 v1, res) 2021-07-15T12:50:35,250 m += self.ndihedrals 2021-07-15T12:50:35,250 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,250 ^ 2021-07-15T12:50:35,250 ------------------------------------------------------------ 2021-07-15T12:50:35,250 sella/internal/int_classes.pyx:1051:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,251 Error compiling Cython file: 2021-07-15T12:50:35,251 ------------------------------------------------------------ 2021-07-15T12:50:35,251 ... 2021-07-15T12:50:35,251 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,251 m += self.nangles 2021-07-15T12:50:35,251 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,251 v1, res) 2021-07-15T12:50:35,252 m += self.ndihedrals 2021-07-15T12:50:35,252 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,252 ^ 2021-07-15T12:50:35,252 ------------------------------------------------------------ 2021-07-15T12:50:35,252 sella/internal/int_classes.pyx:1051:49: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,253 Error compiling Cython file: 2021-07-15T12:50:35,253 ------------------------------------------------------------ 2021-07-15T12:50:35,253 ... 2021-07-15T12:50:35,253 self._rd(m, self.nangles, 3, self.angles, self.Dangles, v1, res) 2021-07-15T12:50:35,253 m += self.nangles 2021-07-15T12:50:35,253 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,254 v1, res) 2021-07-15T12:50:35,254 m += self.ndihedrals 2021-07-15T12:50:35,254 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,254 ^ 2021-07-15T12:50:35,254 ------------------------------------------------------------ 2021-07-15T12:50:35,254 sella/internal/int_classes.pyx:1051:66: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,255 Error compiling Cython file: 2021-07-15T12:50:35,255 ------------------------------------------------------------ 2021-07-15T12:50:35,255 ... 2021-07-15T12:50:35,255 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,255 v1, res) 2021-07-15T12:50:35,255 m += self.ndihedrals 2021-07-15T12:50:35,256 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,256 v1, res) 2021-07-15T12:50:35,256 m += self.nangle_sums 2021-07-15T12:50:35,256 ^ 2021-07-15T12:50:35,256 ------------------------------------------------------------ 2021-07-15T12:50:35,256 sella/internal/int_classes.pyx:1053:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,257 Error compiling Cython file: 2021-07-15T12:50:35,257 ------------------------------------------------------------ 2021-07-15T12:50:35,257 ... 2021-07-15T12:50:35,257 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,257 v1, res) 2021-07-15T12:50:35,257 m += self.ndihedrals 2021-07-15T12:50:35,258 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,258 v1, res) 2021-07-15T12:50:35,258 m += self.nangle_sums 2021-07-15T12:50:35,258 ^ 2021-07-15T12:50:35,258 ------------------------------------------------------------ 2021-07-15T12:50:35,258 sella/internal/int_classes.pyx:1053:12: Operation not allowed without gil 2021-07-15T12:50:35,259 Error compiling Cython file: 2021-07-15T12:50:35,259 ------------------------------------------------------------ 2021-07-15T12:50:35,259 ... 2021-07-15T12:50:35,259 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,259 v1, res) 2021-07-15T12:50:35,259 m += self.ndihedrals 2021-07-15T12:50:35,260 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,260 v1, res) 2021-07-15T12:50:35,260 m += self.nangle_sums 2021-07-15T12:50:35,260 ^ 2021-07-15T12:50:35,260 ------------------------------------------------------------ 2021-07-15T12:50:35,260 sella/internal/int_classes.pyx:1053:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,261 Error compiling Cython file: 2021-07-15T12:50:35,261 ------------------------------------------------------------ 2021-07-15T12:50:35,261 ... 2021-07-15T12:50:35,261 self._rd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,261 v1, res) 2021-07-15T12:50:35,261 m += self.ndihedrals 2021-07-15T12:50:35,262 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,262 v1, res) 2021-07-15T12:50:35,262 m += self.nangle_sums 2021-07-15T12:50:35,262 ^ 2021-07-15T12:50:35,262 ------------------------------------------------------------ 2021-07-15T12:50:35,262 sella/internal/int_classes.pyx:1053:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,263 Error compiling Cython file: 2021-07-15T12:50:35,263 ------------------------------------------------------------ 2021-07-15T12:50:35,263 ... 2021-07-15T12:50:35,263 v1, res) 2021-07-15T12:50:35,263 m += self.ndihedrals 2021-07-15T12:50:35,263 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,264 v1, res) 2021-07-15T12:50:35,264 m += self.nangle_sums 2021-07-15T12:50:35,264 self._rd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,264 ^ 2021-07-15T12:50:35,264 ------------------------------------------------------------ 2021-07-15T12:50:35,264 sella/internal/int_classes.pyx:1054:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,265 Error compiling Cython file: 2021-07-15T12:50:35,265 ------------------------------------------------------------ 2021-07-15T12:50:35,265 ... 2021-07-15T12:50:35,265 v1, res) 2021-07-15T12:50:35,265 m += self.ndihedrals 2021-07-15T12:50:35,266 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,266 v1, res) 2021-07-15T12:50:35,266 m += self.nangle_sums 2021-07-15T12:50:35,266 self._rd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,266 ^ 2021-07-15T12:50:35,266 ------------------------------------------------------------ 2021-07-15T12:50:35,267 sella/internal/int_classes.pyx:1054:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,267 Error compiling Cython file: 2021-07-15T12:50:35,267 ------------------------------------------------------------ 2021-07-15T12:50:35,267 ... 2021-07-15T12:50:35,267 v1, res) 2021-07-15T12:50:35,267 m += self.ndihedrals 2021-07-15T12:50:35,268 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,268 v1, res) 2021-07-15T12:50:35,268 m += self.nangle_sums 2021-07-15T12:50:35,268 self._rd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,268 ^ 2021-07-15T12:50:35,268 ------------------------------------------------------------ 2021-07-15T12:50:35,269 sella/internal/int_classes.pyx:1054:50: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,269 Error compiling Cython file: 2021-07-15T12:50:35,269 ------------------------------------------------------------ 2021-07-15T12:50:35,269 ... 2021-07-15T12:50:35,269 m += self.ndihedrals 2021-07-15T12:50:35,269 self._rd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,270 v1, res) 2021-07-15T12:50:35,270 m += self.nangle_sums 2021-07-15T12:50:35,270 self._rd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,270 self.Dangle_diffs, v1, res) 2021-07-15T12:50:35,270 ^ 2021-07-15T12:50:35,270 ------------------------------------------------------------ 2021-07-15T12:50:35,271 sella/internal/int_classes.pyx:1055:25: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,271 Error compiling Cython file: 2021-07-15T12:50:35,271 ------------------------------------------------------------ 2021-07-15T12:50:35,271 ... 2021-07-15T12:50:35,271 cdef int dim = 3 * nind 2021-07-15T12:50:35,271 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,272 for n in range(nq): 2021-07-15T12:50:35,272 for a in range(nind): 2021-07-15T12:50:35,272 ai = q[n, a] 2021-07-15T12:50:35,272 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,272 ^ 2021-07-15T12:50:35,272 ------------------------------------------------------------ 2021-07-15T12:50:35,273 sella/internal/int_classes.pyx:1075:26: Indexing Python object not allowed without gil 2021-07-15T12:50:35,273 Error compiling Cython file: 2021-07-15T12:50:35,273 ------------------------------------------------------------ 2021-07-15T12:50:35,273 ... 2021-07-15T12:50:35,273 cdef int dim = 3 * nind 2021-07-15T12:50:35,273 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,274 for n in range(nq): 2021-07-15T12:50:35,274 for a in range(nind): 2021-07-15T12:50:35,274 ai = q[n, a] 2021-07-15T12:50:35,274 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,274 ^ 2021-07-15T12:50:35,274 ------------------------------------------------------------ 2021-07-15T12:50:35,275 sella/internal/int_classes.pyx:1075:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,275 Error compiling Cython file: 2021-07-15T12:50:35,275 ------------------------------------------------------------ 2021-07-15T12:50:35,275 ... 2021-07-15T12:50:35,275 cdef int dim = 3 * nind 2021-07-15T12:50:35,275 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,276 for n in range(nq): 2021-07-15T12:50:35,276 for a in range(nind): 2021-07-15T12:50:35,276 ai = q[n, a] 2021-07-15T12:50:35,276 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,276 ^ 2021-07-15T12:50:35,276 ------------------------------------------------------------ 2021-07-15T12:50:35,277 sella/internal/int_classes.pyx:1075:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,277 Error compiling Cython file: 2021-07-15T12:50:35,277 ------------------------------------------------------------ 2021-07-15T12:50:35,277 ... 2021-07-15T12:50:35,277 cdef int dim = 3 * nind 2021-07-15T12:50:35,278 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,278 for n in range(nq): 2021-07-15T12:50:35,278 for a in range(nind): 2021-07-15T12:50:35,278 ai = q[n, a] 2021-07-15T12:50:35,278 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,278 ^ 2021-07-15T12:50:35,278 ------------------------------------------------------------ 2021-07-15T12:50:35,279 sella/internal/int_classes.pyx:1075:27: Converting to Python object not allowed without gil 2021-07-15T12:50:35,279 Error compiling Cython file: 2021-07-15T12:50:35,279 ------------------------------------------------------------ 2021-07-15T12:50:35,279 ... 2021-07-15T12:50:35,279 cdef int dim = 3 * nind 2021-07-15T12:50:35,280 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,280 for n in range(nq): 2021-07-15T12:50:35,280 for a in range(nind): 2021-07-15T12:50:35,280 ai = q[n, a] 2021-07-15T12:50:35,280 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,280 ^ 2021-07-15T12:50:35,280 ------------------------------------------------------------ 2021-07-15T12:50:35,281 sella/internal/int_classes.pyx:1075:26: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,281 Error compiling Cython file: 2021-07-15T12:50:35,281 ------------------------------------------------------------ 2021-07-15T12:50:35,281 ... 2021-07-15T12:50:35,281 cdef int dim = 3 * nind 2021-07-15T12:50:35,282 cdef int ldD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,282 for n in range(nq): 2021-07-15T12:50:35,282 for a in range(nind): 2021-07-15T12:50:35,282 ai = q[n, a] 2021-07-15T12:50:35,282 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,282 ^ 2021-07-15T12:50:35,282 ------------------------------------------------------------ 2021-07-15T12:50:35,283 sella/internal/int_classes.pyx:1075:36: Converting to Python object not allowed without gil 2021-07-15T12:50:35,283 Error compiling Cython file: 2021-07-15T12:50:35,283 ------------------------------------------------------------ 2021-07-15T12:50:35,283 ... 2021-07-15T12:50:35,283 for n in range(nq): 2021-07-15T12:50:35,284 for a in range(nind): 2021-07-15T12:50:35,284 ai = q[n, a] 2021-07-15T12:50:35,284 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,284 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,284 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,284 ^ 2021-07-15T12:50:35,285 ------------------------------------------------------------ 2021-07-15T12:50:35,285 sella/internal/int_classes.pyx:1077:29: Indexing Python object not allowed without gil 2021-07-15T12:50:35,285 Error compiling Cython file: 2021-07-15T12:50:35,285 ------------------------------------------------------------ 2021-07-15T12:50:35,286 ... 2021-07-15T12:50:35,286 for n in range(nq): 2021-07-15T12:50:35,286 for a in range(nind): 2021-07-15T12:50:35,286 ai = q[n, a] 2021-07-15T12:50:35,286 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,286 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,286 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,287 ^ 2021-07-15T12:50:35,287 ------------------------------------------------------------ 2021-07-15T12:50:35,287 sella/internal/int_classes.pyx:1077:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,287 Error compiling Cython file: 2021-07-15T12:50:35,287 ------------------------------------------------------------ 2021-07-15T12:50:35,288 ... 2021-07-15T12:50:35,288 for n in range(nq): 2021-07-15T12:50:35,288 for a in range(nind): 2021-07-15T12:50:35,288 ai = q[n, a] 2021-07-15T12:50:35,288 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,288 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,288 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,289 ^ 2021-07-15T12:50:35,289 ------------------------------------------------------------ 2021-07-15T12:50:35,289 sella/internal/int_classes.pyx:1077:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,289 Error compiling Cython file: 2021-07-15T12:50:35,290 ------------------------------------------------------------ 2021-07-15T12:50:35,290 ... 2021-07-15T12:50:35,290 for n in range(nq): 2021-07-15T12:50:35,290 for a in range(nind): 2021-07-15T12:50:35,290 ai = q[n, a] 2021-07-15T12:50:35,290 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,290 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,291 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,291 ^ 2021-07-15T12:50:35,291 ------------------------------------------------------------ 2021-07-15T12:50:35,291 sella/internal/int_classes.pyx:1077:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,292 Error compiling Cython file: 2021-07-15T12:50:35,292 ------------------------------------------------------------ 2021-07-15T12:50:35,292 ... 2021-07-15T12:50:35,292 for a in range(nind): 2021-07-15T12:50:35,292 ai = q[n, a] 2021-07-15T12:50:35,292 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,292 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,293 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,293 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,293 ^ 2021-07-15T12:50:35,293 ------------------------------------------------------------ 2021-07-15T12:50:35,293 sella/internal/int_classes.pyx:1078:29: Indexing Python object not allowed without gil 2021-07-15T12:50:35,294 Error compiling Cython file: 2021-07-15T12:50:35,294 ------------------------------------------------------------ 2021-07-15T12:50:35,294 ... 2021-07-15T12:50:35,294 for a in range(nind): 2021-07-15T12:50:35,294 ai = q[n, a] 2021-07-15T12:50:35,294 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,295 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,295 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,295 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,295 ^ 2021-07-15T12:50:35,295 ------------------------------------------------------------ 2021-07-15T12:50:35,295 sella/internal/int_classes.pyx:1078:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,296 Error compiling Cython file: 2021-07-15T12:50:35,296 ------------------------------------------------------------ 2021-07-15T12:50:35,296 ... 2021-07-15T12:50:35,296 for a in range(nind): 2021-07-15T12:50:35,296 ai = q[n, a] 2021-07-15T12:50:35,296 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,297 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,297 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,297 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,297 ^ 2021-07-15T12:50:35,297 ------------------------------------------------------------ 2021-07-15T12:50:35,297 sella/internal/int_classes.pyx:1078:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,298 Error compiling Cython file: 2021-07-15T12:50:35,298 ------------------------------------------------------------ 2021-07-15T12:50:35,298 ... 2021-07-15T12:50:35,298 for a in range(nind): 2021-07-15T12:50:35,298 ai = q[n, a] 2021-07-15T12:50:35,298 self.work1[a, :] = v[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,299 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,299 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,299 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,299 ^ 2021-07-15T12:50:35,299 ------------------------------------------------------------ 2021-07-15T12:50:35,300 sella/internal/int_classes.pyx:1078:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,300 Error compiling Cython file: 2021-07-15T12:50:35,300 ------------------------------------------------------------ 2021-07-15T12:50:35,300 ... 2021-07-15T12:50:35,300 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,300 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,301 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,301 for a in range(nind): 2021-07-15T12:50:35,301 ai = q[n, a] 2021-07-15T12:50:35,301 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,301 ^ 2021-07-15T12:50:35,301 ------------------------------------------------------------ 2021-07-15T12:50:35,302 sella/internal/int_classes.pyx:1081:50: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,302 Error compiling Cython file: 2021-07-15T12:50:35,302 ------------------------------------------------------------ 2021-07-15T12:50:35,302 ... 2021-07-15T12:50:35,302 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,303 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,303 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,303 for a in range(nind): 2021-07-15T12:50:35,303 ai = q[n, a] 2021-07-15T12:50:35,303 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,303 ^ 2021-07-15T12:50:35,303 ------------------------------------------------------------ 2021-07-15T12:50:35,304 sella/internal/int_classes.pyx:1081:50: Indexing Python object not allowed without gil 2021-07-15T12:50:35,304 Error compiling Cython file: 2021-07-15T12:50:35,304 ------------------------------------------------------------ 2021-07-15T12:50:35,304 ... 2021-07-15T12:50:35,305 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,305 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,305 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,305 for a in range(nind): 2021-07-15T12:50:35,305 ai = q[n, a] 2021-07-15T12:50:35,305 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,305 ^ 2021-07-15T12:50:35,306 ------------------------------------------------------------ 2021-07-15T12:50:35,306 sella/internal/int_classes.pyx:1081:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,306 Error compiling Cython file: 2021-07-15T12:50:35,306 ------------------------------------------------------------ 2021-07-15T12:50:35,307 ... 2021-07-15T12:50:35,307 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,307 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,307 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,307 for a in range(nind): 2021-07-15T12:50:35,307 ai = q[n, a] 2021-07-15T12:50:35,307 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,308 ^ 2021-07-15T12:50:35,308 ------------------------------------------------------------ 2021-07-15T12:50:35,308 sella/internal/int_classes.pyx:1081:50: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,308 Error compiling Cython file: 2021-07-15T12:50:35,308 ------------------------------------------------------------ 2021-07-15T12:50:35,309 ... 2021-07-15T12:50:35,309 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,309 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,309 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,309 for a in range(nind): 2021-07-15T12:50:35,309 ai = q[n, a] 2021-07-15T12:50:35,310 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,310 ^ 2021-07-15T12:50:35,310 ------------------------------------------------------------ 2021-07-15T12:50:35,310 sella/internal/int_classes.pyx:1081:51: Converting to Python object not allowed without gil 2021-07-15T12:50:35,310 Error compiling Cython file: 2021-07-15T12:50:35,311 ------------------------------------------------------------ 2021-07-15T12:50:35,311 ... 2021-07-15T12:50:35,311 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &ldD2, 2021-07-15T12:50:35,311 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,311 &self.work2[0, 0], &self.sw2) 2021-07-15T12:50:35,311 for a in range(nind): 2021-07-15T12:50:35,311 ai = q[n, a] 2021-07-15T12:50:35,312 res[start + n, ai, :] = self.work2[a, :] 2021-07-15T12:50:35,312 ^ 2021-07-15T12:50:35,312 ------------------------------------------------------------ 2021-07-15T12:50:35,312 sella/internal/int_classes.pyx:1081:50: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,313 Error compiling Cython file: 2021-07-15T12:50:35,313 ------------------------------------------------------------ 2021-07-15T12:50:35,313 ... 2021-07-15T12:50:35,313 assert len(v2) == self.nx 2021-07-15T12:50:35,313 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,313 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,314 with nogil: 2021-07-15T12:50:35,314 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,314 ^ 2021-07-15T12:50:35,314 ------------------------------------------------------------ 2021-07-15T12:50:35,314 sella/internal/int_classes.pyx:1092:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,315 Error compiling Cython file: 2021-07-15T12:50:35,315 ------------------------------------------------------------ 2021-07-15T12:50:35,315 ... 2021-07-15T12:50:35,315 assert len(v2) == self.nx 2021-07-15T12:50:35,315 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,316 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,316 with nogil: 2021-07-15T12:50:35,316 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,316 ^ 2021-07-15T12:50:35,316 ------------------------------------------------------------ 2021-07-15T12:50:35,317 sella/internal/int_classes.pyx:1092:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,317 Error compiling Cython file: 2021-07-15T12:50:35,317 ------------------------------------------------------------ 2021-07-15T12:50:35,317 ... 2021-07-15T12:50:35,317 assert len(v2) == self.nx 2021-07-15T12:50:35,318 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,318 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,318 with nogil: 2021-07-15T12:50:35,318 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,318 ^ 2021-07-15T12:50:35,318 ------------------------------------------------------------ 2021-07-15T12:50:35,319 sella/internal/int_classes.pyx:1092:44: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,319 Error compiling Cython file: 2021-07-15T12:50:35,319 ------------------------------------------------------------ 2021-07-15T12:50:35,319 ... 2021-07-15T12:50:35,319 assert len(v2) == self.nx 2021-07-15T12:50:35,320 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,320 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,320 with nogil: 2021-07-15T12:50:35,320 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,320 ^ 2021-07-15T12:50:35,320 ------------------------------------------------------------ 2021-07-15T12:50:35,321 sella/internal/int_classes.pyx:1092:56: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,321 Error compiling Cython file: 2021-07-15T12:50:35,321 ------------------------------------------------------------ 2021-07-15T12:50:35,321 ... 2021-07-15T12:50:35,322 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,322 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,322 with nogil: 2021-07-15T12:50:35,322 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,322 m += self.nbonds 2021-07-15T12:50:35,322 ^ 2021-07-15T12:50:35,322 ------------------------------------------------------------ 2021-07-15T12:50:35,323 sella/internal/int_classes.pyx:1093:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,323 Error compiling Cython file: 2021-07-15T12:50:35,323 ------------------------------------------------------------ 2021-07-15T12:50:35,323 ... 2021-07-15T12:50:35,324 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,324 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,324 with nogil: 2021-07-15T12:50:35,324 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,324 m += self.nbonds 2021-07-15T12:50:35,324 ^ 2021-07-15T12:50:35,325 ------------------------------------------------------------ 2021-07-15T12:50:35,325 sella/internal/int_classes.pyx:1093:12: Operation not allowed without gil 2021-07-15T12:50:35,325 Error compiling Cython file: 2021-07-15T12:50:35,325 ------------------------------------------------------------ 2021-07-15T12:50:35,325 ... 2021-07-15T12:50:35,326 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,326 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,326 with nogil: 2021-07-15T12:50:35,326 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,326 m += self.nbonds 2021-07-15T12:50:35,326 ^ 2021-07-15T12:50:35,327 ------------------------------------------------------------ 2021-07-15T12:50:35,327 sella/internal/int_classes.pyx:1093:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,327 Error compiling Cython file: 2021-07-15T12:50:35,327 ------------------------------------------------------------ 2021-07-15T12:50:35,327 ... 2021-07-15T12:50:35,328 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,328 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,328 with nogil: 2021-07-15T12:50:35,328 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,328 m += self.nbonds 2021-07-15T12:50:35,329 ^ 2021-07-15T12:50:35,329 ------------------------------------------------------------ 2021-07-15T12:50:35,329 sella/internal/int_classes.pyx:1093:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,329 Error compiling Cython file: 2021-07-15T12:50:35,329 ------------------------------------------------------------ 2021-07-15T12:50:35,330 ... 2021-07-15T12:50:35,330 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,330 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,330 with nogil: 2021-07-15T12:50:35,330 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,330 m += self.nbonds 2021-07-15T12:50:35,330 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,331 ^ 2021-07-15T12:50:35,331 ------------------------------------------------------------ 2021-07-15T12:50:35,331 sella/internal/int_classes.pyx:1094:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,331 Error compiling Cython file: 2021-07-15T12:50:35,331 ------------------------------------------------------------ 2021-07-15T12:50:35,332 ... 2021-07-15T12:50:35,332 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,332 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,332 with nogil: 2021-07-15T12:50:35,332 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,332 m += self.nbonds 2021-07-15T12:50:35,332 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,333 ^ 2021-07-15T12:50:35,333 ------------------------------------------------------------ 2021-07-15T12:50:35,333 sella/internal/int_classes.pyx:1094:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,333 Error compiling Cython file: 2021-07-15T12:50:35,333 ------------------------------------------------------------ 2021-07-15T12:50:35,334 ... 2021-07-15T12:50:35,334 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,334 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,334 with nogil: 2021-07-15T12:50:35,334 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,334 m += self.nbonds 2021-07-15T12:50:35,334 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,335 ^ 2021-07-15T12:50:35,335 ------------------------------------------------------------ 2021-07-15T12:50:35,335 sella/internal/int_classes.pyx:1094:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,335 Error compiling Cython file: 2021-07-15T12:50:35,335 ------------------------------------------------------------ 2021-07-15T12:50:35,336 ... 2021-07-15T12:50:35,336 result_np = np.zeros(self.nq, dtype=np.float64) 2021-07-15T12:50:35,336 cdef double[:] res = memoryview(result_np) 2021-07-15T12:50:35,336 with nogil: 2021-07-15T12:50:35,336 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,336 m += self.nbonds 2021-07-15T12:50:35,336 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,337 ^ 2021-07-15T12:50:35,337 ------------------------------------------------------------ 2021-07-15T12:50:35,337 sella/internal/int_classes.pyx:1094:58: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,337 Error compiling Cython file: 2021-07-15T12:50:35,338 ------------------------------------------------------------ 2021-07-15T12:50:35,338 ... 2021-07-15T12:50:35,338 with nogil: 2021-07-15T12:50:35,338 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,338 m += self.nbonds 2021-07-15T12:50:35,338 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,338 res) 2021-07-15T12:50:35,339 m += self.nangles 2021-07-15T12:50:35,339 ^ 2021-07-15T12:50:35,339 ------------------------------------------------------------ 2021-07-15T12:50:35,339 sella/internal/int_classes.pyx:1096:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,339 Error compiling Cython file: 2021-07-15T12:50:35,340 ------------------------------------------------------------ 2021-07-15T12:50:35,340 ... 2021-07-15T12:50:35,340 with nogil: 2021-07-15T12:50:35,340 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,340 m += self.nbonds 2021-07-15T12:50:35,340 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,340 res) 2021-07-15T12:50:35,341 m += self.nangles 2021-07-15T12:50:35,341 ^ 2021-07-15T12:50:35,341 ------------------------------------------------------------ 2021-07-15T12:50:35,341 sella/internal/int_classes.pyx:1096:12: Operation not allowed without gil 2021-07-15T12:50:35,341 Error compiling Cython file: 2021-07-15T12:50:35,342 ------------------------------------------------------------ 2021-07-15T12:50:35,342 ... 2021-07-15T12:50:35,342 with nogil: 2021-07-15T12:50:35,342 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,342 m += self.nbonds 2021-07-15T12:50:35,342 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,342 res) 2021-07-15T12:50:35,343 m += self.nangles 2021-07-15T12:50:35,343 ^ 2021-07-15T12:50:35,343 ------------------------------------------------------------ 2021-07-15T12:50:35,343 sella/internal/int_classes.pyx:1096:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,343 Error compiling Cython file: 2021-07-15T12:50:35,344 ------------------------------------------------------------ 2021-07-15T12:50:35,344 ... 2021-07-15T12:50:35,344 with nogil: 2021-07-15T12:50:35,344 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,344 m += self.nbonds 2021-07-15T12:50:35,344 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,344 res) 2021-07-15T12:50:35,345 m += self.nangles 2021-07-15T12:50:35,345 ^ 2021-07-15T12:50:35,345 ------------------------------------------------------------ 2021-07-15T12:50:35,345 sella/internal/int_classes.pyx:1096:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,346 Error compiling Cython file: 2021-07-15T12:50:35,346 ------------------------------------------------------------ 2021-07-15T12:50:35,346 ... 2021-07-15T12:50:35,346 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,346 m += self.nbonds 2021-07-15T12:50:35,346 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,347 res) 2021-07-15T12:50:35,347 m += self.nangles 2021-07-15T12:50:35,347 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,347 ^ 2021-07-15T12:50:35,347 ------------------------------------------------------------ 2021-07-15T12:50:35,347 sella/internal/int_classes.pyx:1097:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,348 Error compiling Cython file: 2021-07-15T12:50:35,348 ------------------------------------------------------------ 2021-07-15T12:50:35,348 ... 2021-07-15T12:50:35,348 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,348 m += self.nbonds 2021-07-15T12:50:35,349 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,349 res) 2021-07-15T12:50:35,349 m += self.nangles 2021-07-15T12:50:35,349 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,349 ^ 2021-07-15T12:50:35,349 ------------------------------------------------------------ 2021-07-15T12:50:35,350 sella/internal/int_classes.pyx:1097:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,350 Error compiling Cython file: 2021-07-15T12:50:35,350 ------------------------------------------------------------ 2021-07-15T12:50:35,350 ... 2021-07-15T12:50:35,350 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,350 m += self.nbonds 2021-07-15T12:50:35,351 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,351 res) 2021-07-15T12:50:35,351 m += self.nangles 2021-07-15T12:50:35,351 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,351 ^ 2021-07-15T12:50:35,351 ------------------------------------------------------------ 2021-07-15T12:50:35,352 sella/internal/int_classes.pyx:1097:48: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,352 Error compiling Cython file: 2021-07-15T12:50:35,352 ------------------------------------------------------------ 2021-07-15T12:50:35,352 ... 2021-07-15T12:50:35,352 self._dd(m, self.nbonds, 2, self.bonds, self.Dbonds, v1, v2, res) 2021-07-15T12:50:35,353 m += self.nbonds 2021-07-15T12:50:35,353 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,353 res) 2021-07-15T12:50:35,353 m += self.nangles 2021-07-15T12:50:35,353 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,353 ^ 2021-07-15T12:50:35,353 ------------------------------------------------------------ 2021-07-15T12:50:35,354 sella/internal/int_classes.pyx:1097:64: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,354 Error compiling Cython file: 2021-07-15T12:50:35,354 ------------------------------------------------------------ 2021-07-15T12:50:35,354 ... 2021-07-15T12:50:35,354 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,355 res) 2021-07-15T12:50:35,355 m += self.nangles 2021-07-15T12:50:35,355 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,355 v1, v2, res) 2021-07-15T12:50:35,355 m += self.ndihedrals 2021-07-15T12:50:35,355 ^ 2021-07-15T12:50:35,355 ------------------------------------------------------------ 2021-07-15T12:50:35,356 sella/internal/int_classes.pyx:1099:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,356 Error compiling Cython file: 2021-07-15T12:50:35,356 ------------------------------------------------------------ 2021-07-15T12:50:35,356 ... 2021-07-15T12:50:35,356 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,357 res) 2021-07-15T12:50:35,357 m += self.nangles 2021-07-15T12:50:35,357 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,357 v1, v2, res) 2021-07-15T12:50:35,357 m += self.ndihedrals 2021-07-15T12:50:35,357 ^ 2021-07-15T12:50:35,357 ------------------------------------------------------------ 2021-07-15T12:50:35,358 sella/internal/int_classes.pyx:1099:12: Operation not allowed without gil 2021-07-15T12:50:35,358 Error compiling Cython file: 2021-07-15T12:50:35,358 ------------------------------------------------------------ 2021-07-15T12:50:35,358 ... 2021-07-15T12:50:35,359 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,359 res) 2021-07-15T12:50:35,359 m += self.nangles 2021-07-15T12:50:35,359 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,359 v1, v2, res) 2021-07-15T12:50:35,359 m += self.ndihedrals 2021-07-15T12:50:35,359 ^ 2021-07-15T12:50:35,360 ------------------------------------------------------------ 2021-07-15T12:50:35,360 sella/internal/int_classes.pyx:1099:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,360 Error compiling Cython file: 2021-07-15T12:50:35,360 ------------------------------------------------------------ 2021-07-15T12:50:35,360 ... 2021-07-15T12:50:35,361 self._dd(m, self.nangles, 3, self.angles, self.Dangles, v1, v2, 2021-07-15T12:50:35,361 res) 2021-07-15T12:50:35,361 m += self.nangles 2021-07-15T12:50:35,361 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,361 v1, v2, res) 2021-07-15T12:50:35,361 m += self.ndihedrals 2021-07-15T12:50:35,361 ^ 2021-07-15T12:50:35,362 ------------------------------------------------------------ 2021-07-15T12:50:35,362 sella/internal/int_classes.pyx:1099:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,362 Error compiling Cython file: 2021-07-15T12:50:35,362 ------------------------------------------------------------ 2021-07-15T12:50:35,363 ... 2021-07-15T12:50:35,363 res) 2021-07-15T12:50:35,363 m += self.nangles 2021-07-15T12:50:35,363 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,363 v1, v2, res) 2021-07-15T12:50:35,363 m += self.ndihedrals 2021-07-15T12:50:35,363 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,364 ^ 2021-07-15T12:50:35,364 ------------------------------------------------------------ 2021-07-15T12:50:35,364 sella/internal/int_classes.pyx:1100:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,364 Error compiling Cython file: 2021-07-15T12:50:35,364 ------------------------------------------------------------ 2021-07-15T12:50:35,365 ... 2021-07-15T12:50:35,365 res) 2021-07-15T12:50:35,365 m += self.nangles 2021-07-15T12:50:35,365 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,365 v1, v2, res) 2021-07-15T12:50:35,365 m += self.ndihedrals 2021-07-15T12:50:35,365 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,366 ^ 2021-07-15T12:50:35,366 ------------------------------------------------------------ 2021-07-15T12:50:35,366 sella/internal/int_classes.pyx:1100:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,366 Error compiling Cython file: 2021-07-15T12:50:35,366 ------------------------------------------------------------ 2021-07-15T12:50:35,367 ... 2021-07-15T12:50:35,367 res) 2021-07-15T12:50:35,367 m += self.nangles 2021-07-15T12:50:35,367 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,367 v1, v2, res) 2021-07-15T12:50:35,367 m += self.ndihedrals 2021-07-15T12:50:35,367 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,368 ^ 2021-07-15T12:50:35,368 ------------------------------------------------------------ 2021-07-15T12:50:35,368 sella/internal/int_classes.pyx:1100:49: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,368 Error compiling Cython file: 2021-07-15T12:50:35,369 ------------------------------------------------------------ 2021-07-15T12:50:35,369 ... 2021-07-15T12:50:35,369 res) 2021-07-15T12:50:35,369 m += self.nangles 2021-07-15T12:50:35,369 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,369 v1, v2, res) 2021-07-15T12:50:35,369 m += self.ndihedrals 2021-07-15T12:50:35,370 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,370 ^ 2021-07-15T12:50:35,370 ------------------------------------------------------------ 2021-07-15T12:50:35,370 sella/internal/int_classes.pyx:1100:66: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,370 Error compiling Cython file: 2021-07-15T12:50:35,371 ------------------------------------------------------------ 2021-07-15T12:50:35,371 ... 2021-07-15T12:50:35,371 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,371 v1, v2, res) 2021-07-15T12:50:35,371 m += self.ndihedrals 2021-07-15T12:50:35,371 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,371 v1, v2, res) 2021-07-15T12:50:35,372 m += self.nangle_sums 2021-07-15T12:50:35,372 ^ 2021-07-15T12:50:35,372 ------------------------------------------------------------ 2021-07-15T12:50:35,372 sella/internal/int_classes.pyx:1102:12: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,372 Error compiling Cython file: 2021-07-15T12:50:35,373 ------------------------------------------------------------ 2021-07-15T12:50:35,373 ... 2021-07-15T12:50:35,373 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,373 v1, v2, res) 2021-07-15T12:50:35,373 m += self.ndihedrals 2021-07-15T12:50:35,373 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,373 v1, v2, res) 2021-07-15T12:50:35,374 m += self.nangle_sums 2021-07-15T12:50:35,374 ^ 2021-07-15T12:50:35,374 ------------------------------------------------------------ 2021-07-15T12:50:35,374 sella/internal/int_classes.pyx:1102:12: Operation not allowed without gil 2021-07-15T12:50:35,375 Error compiling Cython file: 2021-07-15T12:50:35,375 ------------------------------------------------------------ 2021-07-15T12:50:35,375 ... 2021-07-15T12:50:35,375 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,375 v1, v2, res) 2021-07-15T12:50:35,375 m += self.ndihedrals 2021-07-15T12:50:35,375 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,376 v1, v2, res) 2021-07-15T12:50:35,376 m += self.nangle_sums 2021-07-15T12:50:35,376 ^ 2021-07-15T12:50:35,376 ------------------------------------------------------------ 2021-07-15T12:50:35,376 sella/internal/int_classes.pyx:1102:12: Converting to Python object not allowed without gil 2021-07-15T12:50:35,377 Error compiling Cython file: 2021-07-15T12:50:35,377 ------------------------------------------------------------ 2021-07-15T12:50:35,377 ... 2021-07-15T12:50:35,377 self._dd(m, self.ndihedrals, 4, self.dihedrals, self.Ddihedrals, 2021-07-15T12:50:35,377 v1, v2, res) 2021-07-15T12:50:35,378 m += self.ndihedrals 2021-07-15T12:50:35,378 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,378 v1, v2, res) 2021-07-15T12:50:35,378 m += self.nangle_sums 2021-07-15T12:50:35,378 ^ 2021-07-15T12:50:35,378 ------------------------------------------------------------ 2021-07-15T12:50:35,379 sella/internal/int_classes.pyx:1102:21: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,379 Error compiling Cython file: 2021-07-15T12:50:35,379 ------------------------------------------------------------ 2021-07-15T12:50:35,379 ... 2021-07-15T12:50:35,379 v1, v2, res) 2021-07-15T12:50:35,379 m += self.ndihedrals 2021-07-15T12:50:35,380 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,380 v1, v2, res) 2021-07-15T12:50:35,380 m += self.nangle_sums 2021-07-15T12:50:35,380 self._dd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,380 ^ 2021-07-15T12:50:35,380 ------------------------------------------------------------ 2021-07-15T12:50:35,381 sella/internal/int_classes.pyx:1103:28: Coercion from Python not allowed without the GIL 2021-07-15T12:50:35,381 Error compiling Cython file: 2021-07-15T12:50:35,381 ------------------------------------------------------------ 2021-07-15T12:50:35,381 ... 2021-07-15T12:50:35,381 v1, v2, res) 2021-07-15T12:50:35,381 m += self.ndihedrals 2021-07-15T12:50:35,382 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,382 v1, v2, res) 2021-07-15T12:50:35,382 m += self.nangle_sums 2021-07-15T12:50:35,382 self._dd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,382 ^ 2021-07-15T12:50:35,382 ------------------------------------------------------------ 2021-07-15T12:50:35,383 sella/internal/int_classes.pyx:1103:28: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,383 Error compiling Cython file: 2021-07-15T12:50:35,383 ------------------------------------------------------------ 2021-07-15T12:50:35,383 ... 2021-07-15T12:50:35,383 v1, v2, res) 2021-07-15T12:50:35,384 m += self.ndihedrals 2021-07-15T12:50:35,384 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,384 v1, v2, res) 2021-07-15T12:50:35,384 m += self.nangle_sums 2021-07-15T12:50:35,384 self._dd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,384 ^ 2021-07-15T12:50:35,384 ------------------------------------------------------------ 2021-07-15T12:50:35,385 sella/internal/int_classes.pyx:1103:50: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,385 Error compiling Cython file: 2021-07-15T12:50:35,385 ------------------------------------------------------------ 2021-07-15T12:50:35,385 ... 2021-07-15T12:50:35,385 m += self.ndihedrals 2021-07-15T12:50:35,386 self._dd(m, self.nangle_sums, 4, self.angle_sums, self.Dangle_sums, 2021-07-15T12:50:35,386 v1, v2, res) 2021-07-15T12:50:35,386 m += self.nangle_sums 2021-07-15T12:50:35,386 self._dd(m, self.nangle_diffs, 4, self.angle_diffs, 2021-07-15T12:50:35,386 self.Dangle_diffs, v1, v2, res) 2021-07-15T12:50:35,386 ^ 2021-07-15T12:50:35,386 ------------------------------------------------------------ 2021-07-15T12:50:35,387 sella/internal/int_classes.pyx:1104:25: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,387 Error compiling Cython file: 2021-07-15T12:50:35,387 ------------------------------------------------------------ 2021-07-15T12:50:35,387 ... 2021-07-15T12:50:35,387 cdef int dim = 3 * nind 2021-07-15T12:50:35,388 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,388 for n in range(nq): 2021-07-15T12:50:35,388 for a in range(nind): 2021-07-15T12:50:35,388 ai = q[n, a] 2021-07-15T12:50:35,388 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,388 ^ 2021-07-15T12:50:35,389 ------------------------------------------------------------ 2021-07-15T12:50:35,389 sella/internal/int_classes.pyx:1124:26: Indexing Python object not allowed without gil 2021-07-15T12:50:35,389 Error compiling Cython file: 2021-07-15T12:50:35,389 ------------------------------------------------------------ 2021-07-15T12:50:35,389 ... 2021-07-15T12:50:35,390 cdef int dim = 3 * nind 2021-07-15T12:50:35,390 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,390 for n in range(nq): 2021-07-15T12:50:35,390 for a in range(nind): 2021-07-15T12:50:35,390 ai = q[n, a] 2021-07-15T12:50:35,390 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,390 ^ 2021-07-15T12:50:35,391 ------------------------------------------------------------ 2021-07-15T12:50:35,391 sella/internal/int_classes.pyx:1124:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,391 Error compiling Cython file: 2021-07-15T12:50:35,391 ------------------------------------------------------------ 2021-07-15T12:50:35,391 ... 2021-07-15T12:50:35,392 cdef int dim = 3 * nind 2021-07-15T12:50:35,392 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,392 for n in range(nq): 2021-07-15T12:50:35,392 for a in range(nind): 2021-07-15T12:50:35,392 ai = q[n, a] 2021-07-15T12:50:35,392 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,392 ^ 2021-07-15T12:50:35,393 ------------------------------------------------------------ 2021-07-15T12:50:35,393 sella/internal/int_classes.pyx:1124:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,393 Error compiling Cython file: 2021-07-15T12:50:35,393 ------------------------------------------------------------ 2021-07-15T12:50:35,393 ... 2021-07-15T12:50:35,394 cdef int dim = 3 * nind 2021-07-15T12:50:35,394 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,394 for n in range(nq): 2021-07-15T12:50:35,394 for a in range(nind): 2021-07-15T12:50:35,394 ai = q[n, a] 2021-07-15T12:50:35,394 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,394 ^ 2021-07-15T12:50:35,395 ------------------------------------------------------------ 2021-07-15T12:50:35,395 sella/internal/int_classes.pyx:1124:27: Converting to Python object not allowed without gil 2021-07-15T12:50:35,395 Error compiling Cython file: 2021-07-15T12:50:35,395 ------------------------------------------------------------ 2021-07-15T12:50:35,395 ... 2021-07-15T12:50:35,396 cdef int dim = 3 * nind 2021-07-15T12:50:35,396 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,396 for n in range(nq): 2021-07-15T12:50:35,396 for a in range(nind): 2021-07-15T12:50:35,396 ai = q[n, a] 2021-07-15T12:50:35,396 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,397 ^ 2021-07-15T12:50:35,397 ------------------------------------------------------------ 2021-07-15T12:50:35,397 sella/internal/int_classes.pyx:1124:26: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,398 Error compiling Cython file: 2021-07-15T12:50:35,398 ------------------------------------------------------------ 2021-07-15T12:50:35,398 ... 2021-07-15T12:50:35,399 cdef int dim = 3 * nind 2021-07-15T12:50:35,399 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,399 for n in range(nq): 2021-07-15T12:50:35,399 for a in range(nind): 2021-07-15T12:50:35,399 ai = q[n, a] 2021-07-15T12:50:35,400 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,400 ^ 2021-07-15T12:50:35,400 ------------------------------------------------------------ 2021-07-15T12:50:35,401 sella/internal/int_classes.pyx:1124:37: Converting to Python object not allowed without gil 2021-07-15T12:50:35,401 Error compiling Cython file: 2021-07-15T12:50:35,401 ------------------------------------------------------------ 2021-07-15T12:50:35,402 ... 2021-07-15T12:50:35,402 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,402 for n in range(nq): 2021-07-15T12:50:35,402 for a in range(nind): 2021-07-15T12:50:35,403 ai = q[n, a] 2021-07-15T12:50:35,403 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,403 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,403 ^ 2021-07-15T12:50:35,403 ------------------------------------------------------------ 2021-07-15T12:50:35,404 sella/internal/int_classes.pyx:1125:26: Indexing Python object not allowed without gil 2021-07-15T12:50:35,404 Error compiling Cython file: 2021-07-15T12:50:35,404 ------------------------------------------------------------ 2021-07-15T12:50:35,404 ... 2021-07-15T12:50:35,405 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,405 for n in range(nq): 2021-07-15T12:50:35,405 for a in range(nind): 2021-07-15T12:50:35,405 ai = q[n, a] 2021-07-15T12:50:35,405 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,405 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,406 ^ 2021-07-15T12:50:35,406 ------------------------------------------------------------ 2021-07-15T12:50:35,406 sella/internal/int_classes.pyx:1125:20: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,406 Error compiling Cython file: 2021-07-15T12:50:35,406 ------------------------------------------------------------ 2021-07-15T12:50:35,407 ... 2021-07-15T12:50:35,407 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,407 for n in range(nq): 2021-07-15T12:50:35,407 for a in range(nind): 2021-07-15T12:50:35,407 ai = q[n, a] 2021-07-15T12:50:35,407 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,407 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,408 ^ 2021-07-15T12:50:35,408 ------------------------------------------------------------ 2021-07-15T12:50:35,408 sella/internal/int_classes.pyx:1125:26: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,408 Error compiling Cython file: 2021-07-15T12:50:35,408 ------------------------------------------------------------ 2021-07-15T12:50:35,409 ... 2021-07-15T12:50:35,409 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,409 for n in range(nq): 2021-07-15T12:50:35,409 for a in range(nind): 2021-07-15T12:50:35,409 ai = q[n, a] 2021-07-15T12:50:35,409 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,409 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,410 ^ 2021-07-15T12:50:35,410 ------------------------------------------------------------ 2021-07-15T12:50:35,410 sella/internal/int_classes.pyx:1125:27: Converting to Python object not allowed without gil 2021-07-15T12:50:35,410 Error compiling Cython file: 2021-07-15T12:50:35,410 ------------------------------------------------------------ 2021-07-15T12:50:35,411 ... 2021-07-15T12:50:35,411 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,411 for n in range(nq): 2021-07-15T12:50:35,411 for a in range(nind): 2021-07-15T12:50:35,411 ai = q[n, a] 2021-07-15T12:50:35,411 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,412 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,412 ^ 2021-07-15T12:50:35,412 ------------------------------------------------------------ 2021-07-15T12:50:35,412 sella/internal/int_classes.pyx:1125:26: Constructing Python slice object not allowed without gil 2021-07-15T12:50:35,412 Error compiling Cython file: 2021-07-15T12:50:35,413 ------------------------------------------------------------ 2021-07-15T12:50:35,413 ... 2021-07-15T12:50:35,413 cdef int sD2 = dim * (D2.strides[4] >> 3) 2021-07-15T12:50:35,413 for n in range(nq): 2021-07-15T12:50:35,413 for a in range(nind): 2021-07-15T12:50:35,413 ai = q[n, a] 2021-07-15T12:50:35,413 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,414 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,414 ^ 2021-07-15T12:50:35,414 ------------------------------------------------------------ 2021-07-15T12:50:35,414 sella/internal/int_classes.pyx:1125:37: Converting to Python object not allowed without gil 2021-07-15T12:50:35,414 Error compiling Cython file: 2021-07-15T12:50:35,415 ------------------------------------------------------------ 2021-07-15T12:50:35,415 ... 2021-07-15T12:50:35,415 for a in range(nind): 2021-07-15T12:50:35,415 ai = q[n, a] 2021-07-15T12:50:35,415 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,415 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,416 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,416 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,416 ^ 2021-07-15T12:50:35,416 ------------------------------------------------------------ 2021-07-15T12:50:35,416 sella/internal/int_classes.pyx:1127:29: Indexing Python object not allowed without gil 2021-07-15T12:50:35,417 Error compiling Cython file: 2021-07-15T12:50:35,417 ------------------------------------------------------------ 2021-07-15T12:50:35,417 ... 2021-07-15T12:50:35,417 for a in range(nind): 2021-07-15T12:50:35,417 ai = q[n, a] 2021-07-15T12:50:35,417 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,417 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,418 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,418 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,418 ^ 2021-07-15T12:50:35,418 ------------------------------------------------------------ 2021-07-15T12:50:35,418 sella/internal/int_classes.pyx:1127:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,419 Error compiling Cython file: 2021-07-15T12:50:35,419 ------------------------------------------------------------ 2021-07-15T12:50:35,419 ... 2021-07-15T12:50:35,419 for a in range(nind): 2021-07-15T12:50:35,419 ai = q[n, a] 2021-07-15T12:50:35,419 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,419 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,420 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,420 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,420 ^ 2021-07-15T12:50:35,420 ------------------------------------------------------------ 2021-07-15T12:50:35,420 sella/internal/int_classes.pyx:1127:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,421 Error compiling Cython file: 2021-07-15T12:50:35,421 ------------------------------------------------------------ 2021-07-15T12:50:35,421 ... 2021-07-15T12:50:35,421 for a in range(nind): 2021-07-15T12:50:35,421 ai = q[n, a] 2021-07-15T12:50:35,421 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,421 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,422 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,422 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,422 ^ 2021-07-15T12:50:35,422 ------------------------------------------------------------ 2021-07-15T12:50:35,422 sella/internal/int_classes.pyx:1127:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,423 Error compiling Cython file: 2021-07-15T12:50:35,423 ------------------------------------------------------------ 2021-07-15T12:50:35,423 ... 2021-07-15T12:50:35,423 ai = q[n, a] 2021-07-15T12:50:35,423 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,423 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,424 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,424 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,424 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,424 ^ 2021-07-15T12:50:35,424 ------------------------------------------------------------ 2021-07-15T12:50:35,424 sella/internal/int_classes.pyx:1128:29: Indexing Python object not allowed without gil 2021-07-15T12:50:35,425 Error compiling Cython file: 2021-07-15T12:50:35,425 ------------------------------------------------------------ 2021-07-15T12:50:35,425 ... 2021-07-15T12:50:35,425 ai = q[n, a] 2021-07-15T12:50:35,425 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,425 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,426 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,426 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,426 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,426 ^ 2021-07-15T12:50:35,426 ------------------------------------------------------------ 2021-07-15T12:50:35,427 sella/internal/int_classes.pyx:1128:23: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,427 Error compiling Cython file: 2021-07-15T12:50:35,427 ------------------------------------------------------------ 2021-07-15T12:50:35,427 ... 2021-07-15T12:50:35,427 ai = q[n, a] 2021-07-15T12:50:35,427 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,428 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,428 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,428 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,428 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,428 ^ 2021-07-15T12:50:35,428 ------------------------------------------------------------ 2021-07-15T12:50:35,429 sella/internal/int_classes.pyx:1128:29: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,429 Error compiling Cython file: 2021-07-15T12:50:35,429 ------------------------------------------------------------ 2021-07-15T12:50:35,429 ... 2021-07-15T12:50:35,429 ai = q[n, a] 2021-07-15T12:50:35,429 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,430 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,430 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,430 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,430 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,430 ^ 2021-07-15T12:50:35,430 ------------------------------------------------------------ 2021-07-15T12:50:35,431 sella/internal/int_classes.pyx:1128:42: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,431 Error compiling Cython file: 2021-07-15T12:50:35,431 ------------------------------------------------------------ 2021-07-15T12:50:35,431 ... 2021-07-15T12:50:35,431 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,431 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,432 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,432 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,432 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,432 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,432 ^ 2021-07-15T12:50:35,432 ------------------------------------------------------------ 2021-07-15T12:50:35,433 sella/internal/int_classes.pyx:1129:51: Indexing Python object not allowed without gil 2021-07-15T12:50:35,433 Error compiling Cython file: 2021-07-15T12:50:35,433 ------------------------------------------------------------ 2021-07-15T12:50:35,433 ... 2021-07-15T12:50:35,433 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,433 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,434 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,434 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,434 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,434 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,434 ^ 2021-07-15T12:50:35,434 ------------------------------------------------------------ 2021-07-15T12:50:35,435 sella/internal/int_classes.pyx:1129:45: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,435 Error compiling Cython file: 2021-07-15T12:50:35,435 ------------------------------------------------------------ 2021-07-15T12:50:35,435 ... 2021-07-15T12:50:35,435 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,436 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,436 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,436 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,436 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,436 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,436 ^ 2021-07-15T12:50:35,436 ------------------------------------------------------------ 2021-07-15T12:50:35,437 sella/internal/int_classes.pyx:1129:51: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,437 Error compiling Cython file: 2021-07-15T12:50:35,437 ------------------------------------------------------------ 2021-07-15T12:50:35,437 ... 2021-07-15T12:50:35,437 self.work1[a, :] = v1[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,438 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,438 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,438 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,438 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,438 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,438 ^ 2021-07-15T12:50:35,438 ------------------------------------------------------------ 2021-07-15T12:50:35,439 sella/internal/int_classes.pyx:1129:64: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,439 Error compiling Cython file: 2021-07-15T12:50:35,439 ------------------------------------------------------------ 2021-07-15T12:50:35,439 ... 2021-07-15T12:50:35,440 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,440 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,440 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,440 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,440 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,440 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,441 ^ 2021-07-15T12:50:35,441 ------------------------------------------------------------ 2021-07-15T12:50:35,441 sella/internal/int_classes.pyx:1130:45: Indexing Python object not allowed without gil 2021-07-15T12:50:35,441 Error compiling Cython file: 2021-07-15T12:50:35,441 ------------------------------------------------------------ 2021-07-15T12:50:35,442 ... 2021-07-15T12:50:35,442 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,442 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,442 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,442 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,442 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,442 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,443 ^ 2021-07-15T12:50:35,443 ------------------------------------------------------------ 2021-07-15T12:50:35,443 sella/internal/int_classes.pyx:1130:39: Accessing Python attribute not allowed without gil 2021-07-15T12:50:35,443 Error compiling Cython file: 2021-07-15T12:50:35,443 ------------------------------------------------------------ 2021-07-15T12:50:35,444 ... 2021-07-15T12:50:35,444 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,444 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,444 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,444 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,444 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,444 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,445 ^ 2021-07-15T12:50:35,445 ------------------------------------------------------------ 2021-07-15T12:50:35,445 sella/internal/int_classes.pyx:1130:45: Constructing Python tuple not allowed without gil 2021-07-15T12:50:35,445 Error compiling Cython file: 2021-07-15T12:50:35,446 ------------------------------------------------------------ 2021-07-15T12:50:35,446 ... 2021-07-15T12:50:35,446 self.work2[a, :] = v2[3*ai : 3*(ai+1)] 2021-07-15T12:50:35,446 dgemv('N', &dim, &dim, &DUNITY, &D2[n, 0, 0, 0, 0], &sD2, 2021-07-15T12:50:35,446 &self.work1[0, 0], &self.sw1, &DZERO, 2021-07-15T12:50:35,446 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,446 res[start + n] = ddot(&dim, &self.work2[0, 0], &self.sw2, 2021-07-15T12:50:35,447 &self.work3[0, 0], &self.sw3) 2021-07-15T12:50:35,447 ^ 2021-07-15T12:50:35,447 ------------------------------------------------------------ 2021-07-15T12:50:35,447 sella/internal/int_classes.pyx:1130:58: Accessing Python attribute not allowed without gil 2021-07-15T12:50:37,521 Traceback (most recent call last): 2021-07-15T12:50:37,521 File "", line 1, in 2021-07-15T12:50:37,521 File "/tmp/pip-wheel-ealg8x57/sella_cdc506934cea4c408cca5cd6bc76cce1/setup.py", line 40, in 2021-07-15T12:50:37,522 ext_modules = cythonize(ext_modules, compiler_directives=compdir) 2021-07-15T12:50:37,522 File "/usr/local/lib/python3.9/dist-packages/Cython/Build/Dependencies.py", line 1102, in cythonize 2021-07-15T12:50:37,523 cythonize_one(*args) 2021-07-15T12:50:37,523 File "/usr/local/lib/python3.9/dist-packages/Cython/Build/Dependencies.py", line 1225, in cythonize_one 2021-07-15T12:50:37,524 raise CompileError(None, pyx_file) 2021-07-15T12:50:37,524 Cython.Compiler.Errors.CompileError: sella/internal/int_classes.pyx 2021-07-15T12:50:37,525 Compiling sella/force_match.pyx because it depends on /home/piwheels/.local/lib/python3.9/site-packages/numpy/__init__.pxd. 2021-07-15T12:50:37,525 Compiling sella/internal/int_eval.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-15T12:50:37,526 Compiling sella/internal/int_find.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-15T12:50:37,526 Compiling sella/internal/int_classes.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-15T12:50:37,526 Compiling sella/utilities/blas.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/math.pxd. 2021-07-15T12:50:37,527 Compiling sella/utilities/math.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-15T12:50:37,527 [1/6] Cythonizing sella/force_match.pyx 2021-07-15T12:50:37,528 [2/6] Cythonizing sella/internal/int_classes.pyx 2021-07-15T12:50:38,013 WARNING: Discarding https://files.pythonhosted.org/packages/67/22/3f973084ce70e6522920dc0b63747c8fd28b26f8b25e4882a919a201b3d6/Sella-1.0.0.tar.gz#sha256=c4d7bc34efecfd6375ae33a666d16181f7aefc23ac1489ff50361d1e63e7f19a (from https://pypi.org/simple/sella/) (requires-python:>=3.5). Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output. 2021-07-15T12:50:38,015 ERROR: Could not find a version that satisfies the requirement sella==1.0.0 (from versions: 1.0.1.linux-x86_64, 1.0.2.linux-x86_64, 1.0.3.linux-x86_64, 0.1.0, 0.1.1, 1.0.0, 2.0.0, 2.0.1, 2.0.2) 2021-07-15T12:50:38,015 ERROR: No matching distribution found for sella==1.0.0 2021-07-15T12:50:38,016 Exception information: 2021-07-15T12:50:38,016 Traceback (most recent call last): 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_vendor/resolvelib/resolvers.py", line 341, in resolve 2021-07-15T12:50:38,016 name, crit = self._merge_into_criterion(r, parent=None) 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_vendor/resolvelib/resolvers.py", line 173, in _merge_into_criterion 2021-07-15T12:50:38,016 raise RequirementsConflicted(criterion) 2021-07-15T12:50:38,016 pip._vendor.resolvelib.resolvers.RequirementsConflicted: Requirements conflict: SpecifierRequirement('sella==1.0.0') 2021-07-15T12:50:38,016 2021-07-15T12:50:38,016 During handling of the above exception, another exception occurred: 2021-07-15T12:50:38,016 2021-07-15T12:50:38,016 Traceback (most recent call last): 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 127, in resolve 2021-07-15T12:50:38,016 result = self._result = resolver.resolve( 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_vendor/resolvelib/resolvers.py", line 473, in resolve 2021-07-15T12:50:38,016 state = resolution.resolve(requirements, max_rounds=max_rounds) 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_vendor/resolvelib/resolvers.py", line 343, in resolve 2021-07-15T12:50:38,016 raise ResolutionImpossible(e.criterion.information) 2021-07-15T12:50:38,016 pip._vendor.resolvelib.resolvers.ResolutionImpossible: [RequirementInformation(requirement=SpecifierRequirement('sella==1.0.0'), parent=None)] 2021-07-15T12:50:38,016 2021-07-15T12:50:38,016 The above exception was the direct cause of the following exception: 2021-07-15T12:50:38,016 2021-07-15T12:50:38,016 Traceback (most recent call last): 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-15T12:50:38,016 status = self.run(options, args) 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-15T12:50:38,016 return func(self, options, args) 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/commands/wheel.py", line 142, in run 2021-07-15T12:50:38,016 requirement_set = resolver.resolve( 2021-07-15T12:50:38,016 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 136, in resolve 2021-07-15T12:50:38,016 raise error from e 2021-07-15T12:50:38,016 pip._internal.exceptions.DistributionNotFound: No matching distribution found for sella==1.0.0 2021-07-15T12:50:38,026 Removed sella==1.0.0 from https://files.pythonhosted.org/packages/67/22/3f973084ce70e6522920dc0b63747c8fd28b26f8b25e4882a919a201b3d6/Sella-1.0.0.tar.gz#sha256=c4d7bc34efecfd6375ae33a666d16181f7aefc23ac1489ff50361d1e63e7f19a from build tracker '/tmp/pip-req-tracker-rjb5tnz1' 2021-07-15T12:50:38,027 Removed build tracker: '/tmp/pip-req-tracker-rjb5tnz1'