2022-06-12T22:55:51,953 Created temporary directory: /tmp/pip-ephem-wheel-cache-l8pgn540
2022-06-12T22:55:51,959 Created temporary directory: /tmp/pip-build-tracker-afsd920a
2022-06-12T22:55:51,959 Initialized build tracking at /tmp/pip-build-tracker-afsd920a
2022-06-12T22:55:51,960 Created build tracker: /tmp/pip-build-tracker-afsd920a
2022-06-12T22:55:51,960 Entered build tracker: /tmp/pip-build-tracker-afsd920a
2022-06-12T22:55:51,961 Created temporary directory: /tmp/pip-wheel-6_ep8z5m
2022-06-12T22:55:52,032 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-06-12T22:55:52,041 2 location(s) to search for versions of pgenlib:
2022-06-12T22:55:52,041 * https://pypi.org/simple/pgenlib/
2022-06-12T22:55:52,041 * https://www.piwheels.org/simple/pgenlib/
2022-06-12T22:55:52,042 Fetching project page and analyzing links: https://pypi.org/simple/pgenlib/
2022-06-12T22:55:52,043 Getting page https://pypi.org/simple/pgenlib/
2022-06-12T22:55:52,046 Found index url https://pypi.org/simple
2022-06-12T22:55:52,160   Found link https://files.pythonhosted.org/packages/d9/cc/f3bbaa8da897e9a04e1a885183a0c533ba563bb3a1dbfba6680704473336/Pgenlib-0.81.1.tar.gz#sha256=6fcde4c14d8a28033f1401fceb30e7d38140ff0cf24295114ef00b7ebfe904a8 (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.81.1
2022-06-12T22:55:52,161 Fetching project page and analyzing links: https://www.piwheels.org/simple/pgenlib/
2022-06-12T22:55:52,162 Getting page https://www.piwheels.org/simple/pgenlib/
2022-06-12T22:55:52,164 Found index url https://www.piwheels.org/simple
2022-06-12T22:55:52,397 Skipping link: not a file: https://www.piwheels.org/simple/pgenlib/
2022-06-12T22:55:52,398 Skipping link: not a file: https://pypi.org/simple/pgenlib/
2022-06-12T22:55:52,442 Given no hashes to check 1 links for project 'pgenlib': discarding no candidates
2022-06-12T22:55:52,484 Collecting pgenlib==0.81.1
2022-06-12T22:55:52,488   Created temporary directory: /tmp/pip-unpack-v90pccuf
2022-06-12T22:55:52,579   Downloading Pgenlib-0.81.1.tar.gz (384 kB)
2022-06-12T22:55:53,055   Added pgenlib==0.81.1 from https://files.pythonhosted.org/packages/d9/cc/f3bbaa8da897e9a04e1a885183a0c533ba563bb3a1dbfba6680704473336/Pgenlib-0.81.1.tar.gz#sha256=6fcde4c14d8a28033f1401fceb30e7d38140ff0cf24295114ef00b7ebfe904a8 to build tracker '/tmp/pip-build-tracker-afsd920a'
2022-06-12T22:55:53,074   Created temporary directory: /tmp/pip-build-env-f55z07ic
2022-06-12T22:55:53,095   Created temporary directory: /tmp/pip-standalone-pip-lvyv_tbl
2022-06-12T22:55:55,474   Installing build dependencies: started
2022-06-12T22:55:55,476   Running command pip subprocess to install build dependencies
2022-06-12T22:56:06,478   Using pip 22.1 from /tmp/pip-standalone-pip-lvyv_tbl/__env_pip__.zip/pip (python 3.9)
2022-06-12T22:56:07,928   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-06-12T22:56:12,102   Collecting setuptools
2022-06-12T22:56:12,347     Using cached https://www.piwheels.org/simple/setuptools/setuptools-62.3.4-py3-none-any.whl (1.2 MB)
2022-06-12T22:56:13,016   Collecting wheel
2022-06-12T22:56:13,048     Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB)
2022-06-12T22:56:16,726   Collecting numpy>=1.19.0
2022-06-12T22:56:19,309     Using cached https://www.piwheels.org/simple/numpy/numpy-1.22.4-cp39-cp39-linux_armv7l.whl (13.0 MB)
2022-06-12T22:56:24,078   Collecting Cython>=0.29.21
2022-06-12T22:56:25,195     Using cached https://www.piwheels.org/simple/cython/Cython-0.29.30-cp39-cp39-linux_armv7l.whl (5.0 MB)
2022-06-12T22:56:29,706   Installing collected packages: wheel, setuptools, numpy, Cython
2022-06-12T22:56:30,023     Creating /tmp/pip-build-env-f55z07ic/overlay/bin
2022-06-12T22:56:30,028     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/wheel to 755
2022-06-12T22:56:53,719     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/f2py to 755
2022-06-12T22:56:53,723     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/f2py3 to 755
2022-06-12T22:56:53,728     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/f2py3.9 to 755
2022-06-12T22:56:59,892     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/cygdb to 755
2022-06-12T22:56:59,897     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/cython to 755
2022-06-12T22:56:59,901     changing mode of /tmp/pip-build-env-f55z07ic/overlay/bin/cythonize to 755
2022-06-12T22:56:59,955   Successfully installed Cython-0.29.30 numpy-1.22.4 setuptools-62.3.4 wheel-0.37.1
2022-06-12T22:57:00,156   WARNING: There was an error checking the latest version of pip.
2022-06-12T22:57:00,906   Installing build dependencies: finished with status 'done'
2022-06-12T22:57:00,936   Getting requirements to build wheel: started
2022-06-12T22:57:00,938   Running command Getting requirements to build wheel
2022-06-12T22:57:08,774   running egg_info
2022-06-12T22:57:09,432   writing src/Pgenlib.egg-info/PKG-INFO
2022-06-12T22:57:09,989   writing dependency_links to src/Pgenlib.egg-info/dependency_links.txt
2022-06-12T22:57:13,350   writing top-level names to src/Pgenlib.egg-info/top_level.txt
2022-06-12T22:57:14,014   reading manifest file 'src/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:57:14,022   reading manifest template 'MANIFEST.in'
2022-06-12T22:57:14,027   adding license file 'LICENSE'
2022-06-12T22:57:14,033   writing manifest file 'src/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:57:14,362   Getting requirements to build wheel: finished with status 'done'
2022-06-12T22:57:14,385   Created temporary directory: /tmp/pip-modern-metadata-ra5dj69d
2022-06-12T22:57:14,391   Preparing metadata (pyproject.toml): started
2022-06-12T22:57:14,393   Running command Preparing metadata (pyproject.toml)
2022-06-12T22:57:22,200   running dist_info
2022-06-12T22:57:22,829   creating /tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info
2022-06-12T22:57:23,486   writing /tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/PKG-INFO
2022-06-12T22:57:24,056   writing dependency_links to /tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/dependency_links.txt
2022-06-12T22:57:27,468   writing top-level names to /tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/top_level.txt
2022-06-12T22:57:27,470   writing manifest file '/tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:57:28,145   reading manifest file '/tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:57:28,148   reading manifest template 'MANIFEST.in'
2022-06-12T22:57:28,154   adding license file 'LICENSE'
2022-06-12T22:57:28,160   writing manifest file '/tmp/pip-modern-metadata-ra5dj69d/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:57:28,163   creating '/tmp/pip-modern-metadata-ra5dj69d/Pgenlib-0.81.1.dist-info'
2022-06-12T22:57:28,344   adding license file "LICENSE" (matched pattern "LICEN[CS]E*")
2022-06-12T22:57:28,684   Preparing metadata (pyproject.toml): finished with status 'done'
2022-06-12T22:57:28,698   Source in /tmp/pip-wheel-6_ep8z5m/pgenlib_b6e9d4d0bf234d5ba8e7d9a11da78049 has version 0.81.1, which satisfies requirement pgenlib==0.81.1 from https://files.pythonhosted.org/packages/d9/cc/f3bbaa8da897e9a04e1a885183a0c533ba563bb3a1dbfba6680704473336/Pgenlib-0.81.1.tar.gz#sha256=6fcde4c14d8a28033f1401fceb30e7d38140ff0cf24295114ef00b7ebfe904a8
2022-06-12T22:57:28,700   Removed pgenlib==0.81.1 from https://files.pythonhosted.org/packages/d9/cc/f3bbaa8da897e9a04e1a885183a0c533ba563bb3a1dbfba6680704473336/Pgenlib-0.81.1.tar.gz#sha256=6fcde4c14d8a28033f1401fceb30e7d38140ff0cf24295114ef00b7ebfe904a8 from build tracker '/tmp/pip-build-tracker-afsd920a'
2022-06-12T22:57:28,713 Created temporary directory: /tmp/pip-unpack-o_4a7j1d
2022-06-12T22:57:28,714 Building wheels for collected packages: pgenlib
2022-06-12T22:57:28,724   Created temporary directory: /tmp/pip-wheel-8qu5znux
2022-06-12T22:57:28,725   Destination directory: /tmp/pip-wheel-8qu5znux
2022-06-12T22:57:28,730   Building wheel for pgenlib (pyproject.toml): started
2022-06-12T22:57:28,731   Running command Building wheel for pgenlib (pyproject.toml)
2022-06-12T22:57:35,723   running bdist_wheel
2022-06-12T22:57:36,470   running build
2022-06-12T22:57:36,471   running build_ext
2022-06-12T22:57:36,482   building 'pgenlib' extension
2022-06-12T22:57:36,484   creating build
2022-06-12T22:57:36,485   creating build/temp.linux-armv7l-cpython-39
2022-06-12T22:57:36,487   creating build/temp.linux-armv7l-cpython-39/src
2022-06-12T22:57:36,488   creating build/temp.linux-armv7l-cpython-39/src/pgenlib
2022-06-12T22:57:36,491   creating build/temp.linux-armv7l-cpython-39/src/plink2
2022-06-12T22:57:36,492   creating build/temp.linux-armv7l-cpython-39/src/plink2/include
2022-06-12T22:57:36,495   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/pgenlib/pgenlib.cpp -o build/temp.linux-armv7l-cpython-39/src/pgenlib/pgenlib.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:57:37,168   In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960,
2022-06-12T22:57:37,169                    from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
2022-06-12T22:57:37,169                    from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5,
2022-06-12T22:57:37,170                    from src/pgenlib/pgenlib.cpp:754:
2022-06-12T22:57:37,170   /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
2022-06-12T22:57:37,170      17 | #warning "Using deprecated NumPy API, disable it with " \
2022-06-12T22:57:37,171         |  ^~~~~~~
2022-06-12T22:57:37,311   src/pgenlib/pgenlib.cpp:952: warning: "likely" redefined
2022-06-12T22:57:37,311     952 |   #define likely(x)   __builtin_expect(!!(x), 1)
2022-06-12T22:57:37,312         |
2022-06-12T22:57:37,312   In file included from src/pgenlib/../plink2/include/plink2_bits.h:23,
2022-06-12T22:57:37,312                    from src/pgenlib/../plink2/include/pgenlib_misc.h:77,
2022-06-12T22:57:37,313                    from src/pgenlib/../plink2/pgenlib_ffi_support.h:20,
2022-06-12T22:57:37,313                    from src/pgenlib/pgenlib.cpp:762:
2022-06-12T22:57:37,313   src/pgenlib/../plink2/include/plink2_base.h:252: note: this is the location of the previous definition
2022-06-12T22:57:37,314     252 | #  define likely(expr) __builtin_expect(!!(expr), 1)
2022-06-12T22:57:37,314         |
2022-06-12T22:57:37,315   src/pgenlib/pgenlib.cpp:953: warning: "unlikely" redefined
2022-06-12T22:57:37,315     953 |   #define unlikely(x) __builtin_expect(!!(x), 0)
2022-06-12T22:57:37,315         |
2022-06-12T22:57:37,316   In file included from src/pgenlib/../plink2/include/plink2_bits.h:23,
2022-06-12T22:57:37,316                    from src/pgenlib/../plink2/include/pgenlib_misc.h:77,
2022-06-12T22:57:37,316                    from src/pgenlib/../plink2/pgenlib_ffi_support.h:20,
2022-06-12T22:57:37,317                    from src/pgenlib/pgenlib.cpp:762:
2022-06-12T22:57:37,317   src/pgenlib/../plink2/include/plink2_base.h:253: note: this is the location of the previous definition
2022-06-12T22:57:37,317     253 | #  define unlikely(expr) __builtin_expect(!!(expr), 0)
2022-06-12T22:57:37,317         |
2022-06-12T22:57:39,550   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read*)’:
2022-06-12T22:57:39,551   src/pgenlib/pgenlib.cpp:5272:55: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,551    5272 |   __pyx_t_9 = (((__pyx_v_geno_int_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,551         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,618   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages*)’:
2022-06-12T22:57:39,618   src/pgenlib/pgenlib.cpp:5926:55: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,619    5926 |   __pyx_t_9 = (((__pyx_v_floatarr_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,619         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,680   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int)’:
2022-06-12T22:57:39,681   src/pgenlib/pgenlib.cpp:6486:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,681    6486 |   __pyx_t_8 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,682         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,737   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, PyArrayObject*, int)’:
2022-06-12T22:57:39,737   src/pgenlib/pgenlib.cpp:6982:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,738    6982 |   __pyx_t_8 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,738         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,744   src/pgenlib/pgenlib.cpp:7038:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,744    7038 |   __pyx_t_8 = (((__pyx_v_phasepresent_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,745         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,797   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal8(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal8*)’:
2022-06-12T22:57:39,798   src/pgenlib/pgenlib.cpp:7528:58: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,798    7528 |     __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,798         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,804   src/pgenlib/pgenlib.cpp:7584:58: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,805    7584 |     __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,805         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,824   src/pgenlib/pgenlib.cpp:7809:56: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,824    7809 |   __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,825         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,831   src/pgenlib/pgenlib.cpp:7865:56: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,831    7865 |   __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,831         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,863   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal32(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal32*)’:
2022-06-12T22:57:39,863   src/pgenlib/pgenlib.cpp:8464:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,864    8464 |     __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,864         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,870   src/pgenlib/pgenlib.cpp:8520:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,870    8520 |     __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,871         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,889   src/pgenlib/pgenlib.cpp:8745:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,890    8745 |   __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,890         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,897   src/pgenlib/pgenlib.cpp:8801:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,897    8801 |   __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,898         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,929   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal64(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal64*)’:
2022-06-12T22:57:39,929   src/pgenlib/pgenlib.cpp:9400:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,930    9400 |     __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,930         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,936   src/pgenlib/pgenlib.cpp:9456:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,937    9456 |     __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,937         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,955   src/pgenlib/pgenlib.cpp:9681:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,956    9681 |   __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:39,956         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:39,963   src/pgenlib/pgenlib.cpp:9737:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:39,963    9737 |   __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:39,963         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,060   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal8(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal8*)’:
2022-06-12T22:57:40,060   src/pgenlib/pgenlib.cpp:10889:58: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,061   10889 |     __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,061         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,067   src/pgenlib/pgenlib.cpp:10945:58: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,068   10945 |     __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,068         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,089   src/pgenlib/pgenlib.cpp:11186:56: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,089   11186 |   __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,090         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,096   src/pgenlib/pgenlib.cpp:11242:56: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,097   11242 |   __pyx_t_5 = (((__pyx_v_geno_int8_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,097         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,140   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal32(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal32*)’:
2022-06-12T22:57:40,141   src/pgenlib/pgenlib.cpp:11937:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,141   11937 |     __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,141         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,148   src/pgenlib/pgenlib.cpp:11993:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,148   11993 |     __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,148         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,169   src/pgenlib/pgenlib.cpp:12234:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,169   12234 |   __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,170         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,176   src/pgenlib/pgenlib.cpp:12290:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,176   12290 |   __pyx_t_5 = (((__pyx_v_geno_int32_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,177         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,221   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal64(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal64*)’:
2022-06-12T22:57:40,221   src/pgenlib/pgenlib.cpp:12985:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,222   12985 |     __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,222         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,228   src/pgenlib/pgenlib.cpp:13041:59: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,229   13041 |     __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,229         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,249   src/pgenlib/pgenlib.cpp:13282:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,250   13282 |   __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[0]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,250         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,257   src/pgenlib/pgenlib.cpp:13338:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,257   13338 |   __pyx_t_5 = (((__pyx_v_geno_int64_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,257         |                 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,377   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_range(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_range*)’:
2022-06-12T22:57:40,377   src/pgenlib/pgenlib.cpp:14682:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,378   14682 |     __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,378         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,384   src/pgenlib/pgenlib.cpp:14738:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,384   14738 |     __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,385         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,406   src/pgenlib/pgenlib.cpp:14975:60: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,407   14975 |   __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[0]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,407         |                  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,413   src/pgenlib/pgenlib.cpp:15031:60: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,414   15031 |   __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,414         |                  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,505   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_list(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_list*)’:
2022-06-12T22:57:40,506   src/pgenlib/pgenlib.cpp:16090:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,506   16090 |     __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,506         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,512   src/pgenlib/pgenlib.cpp:16146:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,513   16146 |     __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,513         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,533   src/pgenlib/pgenlib.cpp:16387:60: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,533   16387 |   __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[0]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,534         |                  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,540   src/pgenlib/pgenlib.cpp:16443:60: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,540   16443 |   __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[1]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,541         |                  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,631   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent_range(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_and_phasepresent_range*)’:
2022-06-12T22:57:40,631   src/pgenlib/pgenlib.cpp:17580:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,632   17580 |     __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,632         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,638   src/pgenlib/pgenlib.cpp:17636:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,639   17636 |     __pyx_t_10 = (((__pyx_v_phasepresent_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,639         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,645   src/pgenlib/pgenlib.cpp:17692:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,645   17692 |     __pyx_t_10 = (((__pyx_v_allele_int32_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,646         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,652   src/pgenlib/pgenlib.cpp:17748:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,652   17748 |     __pyx_t_10 = (((__pyx_v_phasepresent_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,653         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,729   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent_list(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_and_phasepresent_list*)’:
2022-06-12T22:57:40,730   src/pgenlib/pgenlib.cpp:18444:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,730   18444 |     __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,730         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,736   src/pgenlib/pgenlib.cpp:18500:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,737   18500 |     __pyx_t_12 = (((__pyx_v_phasepresent_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,737         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,743   src/pgenlib/pgenlib.cpp:18556:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,744   18556 |     __pyx_t_12 = (((__pyx_v_allele_int32_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,744         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,750   src/pgenlib/pgenlib.cpp:18612:62: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,751   18612 |     __pyx_t_12 = (((__pyx_v_phasepresent_out->dimensions[1]) < (2 * __pyx_v_subset_size)) != 0);
2022-06-12T22:57:40,751         |                    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,907   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages_list_internal32(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages_list_internal32*)’:
2022-06-12T22:57:40,908   src/pgenlib/pgenlib.cpp:20371:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,908   20371 |     __pyx_t_6 = (((__pyx_v_floatarr_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,908         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,914   src/pgenlib/pgenlib.cpp:20427:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,915   20427 |     __pyx_t_6 = (((__pyx_v_floatarr_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,915         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,950   src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages_list_internal64(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages_list_internal64*)’:
2022-06-12T22:57:40,950   src/pgenlib/pgenlib.cpp:20888:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,951   20888 |     __pyx_t_6 = (((__pyx_v_floatarr_out->dimensions[0]) < __pyx_v_variant_idx_ct) != 0);
2022-06-12T22:57:40,951         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:57:40,957   src/pgenlib/pgenlib.cpp:20944:57: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2022-06-12T22:57:40,957   20944 |     __pyx_t_6 = (((__pyx_v_floatarr_out->dimensions[1]) < __pyx_v_subset_size) != 0);
2022-06-12T22:57:40,958         |                   ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~
2022-06-12T22:58:42,922   At global scope:
2022-06-12T22:58:42,923   cc1plus: note: unrecognized command-line option ‘-Wno-macro-redefined’ may have been intended to silence earlier diagnostics
2022-06-12T22:58:48,464   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/include/pgenlib_misc.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_misc.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:58:55,956   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/include/pgenlib_read.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_read.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:59:27,598   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/include/pgenlib_write.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_write.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:59:35,304   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/include/plink2_base.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/include/plink2_base.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:59:36,214   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/include/plink2_bits.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/include/plink2_bits.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:59:40,410   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/plink2/pgenlib_ffi_support.cc -o build/temp.linux-armv7l-cpython-39/src/plink2/pgenlib_ffi_support.o -std=c++98 -Wno-unused-function -Wno-macro-redefined
2022-06-12T22:59:42,856   creating build/lib.linux-armv7l-cpython-39
2022-06-12T22:59:42,858   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/src/pgenlib/pgenlib.o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_misc.o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_read.o build/temp.linux-armv7l-cpython-39/src/plink2/include/pgenlib_write.o build/temp.linux-armv7l-cpython-39/src/plink2/include/plink2_base.o build/temp.linux-armv7l-cpython-39/src/plink2/include/plink2_bits.o build/temp.linux-armv7l-cpython-39/src/plink2/pgenlib_ffi_support.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/pgenlib.cpython-39-arm-linux-gnueabihf.so -std=c++98
2022-06-12T22:59:44,943   installing to build/bdist.linux-armv7l/wheel
2022-06-12T22:59:44,944   running install
2022-06-12T22:59:45,008   running install_lib
2022-06-12T22:59:45,607   creating build/bdist.linux-armv7l
2022-06-12T22:59:45,609   creating build/bdist.linux-armv7l/wheel
2022-06-12T22:59:45,611   copying build/lib.linux-armv7l-cpython-39/pgenlib.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2022-06-12T22:59:45,792   running install_egg_info
2022-06-12T22:59:47,025   running egg_info
2022-06-12T22:59:47,623   writing src/Pgenlib.egg-info/PKG-INFO
2022-06-12T22:59:48,181   writing dependency_links to src/Pgenlib.egg-info/dependency_links.txt
2022-06-12T22:59:51,543   writing top-level names to src/Pgenlib.egg-info/top_level.txt
2022-06-12T22:59:51,582   reading manifest file 'src/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:59:51,587   reading manifest template 'MANIFEST.in'
2022-06-12T22:59:51,591   adding license file 'LICENSE'
2022-06-12T22:59:51,598   writing manifest file 'src/Pgenlib.egg-info/SOURCES.txt'
2022-06-12T22:59:51,600   Copying src/Pgenlib.egg-info to build/bdist.linux-armv7l/wheel/Pgenlib-0.81.1-py3.9.egg-info
2022-06-12T22:59:51,616   running install_scripts
2022-06-12T22:59:51,725   adding license file "LICENSE" (matched pattern "LICEN[CS]E*")
2022-06-12T22:59:51,775   creating build/bdist.linux-armv7l/wheel/Pgenlib-0.81.1.dist-info/WHEEL
2022-06-12T22:59:51,780   creating '/tmp/pip-wheel-8qu5znux/tmp0k750rxm/Pgenlib-0.81.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2022-06-12T22:59:53,442   adding 'pgenlib.cpython-39-arm-linux-gnueabihf.so'
2022-06-12T22:59:53,518   adding 'Pgenlib-0.81.1.dist-info/LICENSE'
2022-06-12T22:59:53,521   adding 'Pgenlib-0.81.1.dist-info/METADATA'
2022-06-12T22:59:53,523   adding 'Pgenlib-0.81.1.dist-info/WHEEL'
2022-06-12T22:59:53,524   adding 'Pgenlib-0.81.1.dist-info/top_level.txt'
2022-06-12T22:59:53,526   adding 'Pgenlib-0.81.1.dist-info/RECORD'
2022-06-12T22:59:53,577   removing build/bdist.linux-armv7l/wheel
2022-06-12T22:59:53,973   Building wheel for pgenlib (pyproject.toml): finished with status 'done'
2022-06-12T22:59:54,045   Created wheel for pgenlib: filename=Pgenlib-0.81.1-cp39-cp39-linux_armv7l.whl size=1241260 sha256=7fe4ecefc0464d30dc029a926937523d919f28fa0320e6522fa229764a168909
2022-06-12T22:59:54,047   Stored in directory: /tmp/pip-ephem-wheel-cache-l8pgn540/wheels/ec/da/c6/6079162abbe64ed60a20a26879200a6bf73e4872176af86ae5
2022-06-12T22:59:54,070 Successfully built pgenlib
2022-06-12T22:59:54,167 Removed build tracker: '/tmp/pip-build-tracker-afsd920a'