2021-07-29T10:53:39,937 Created temporary directory: /tmp/pip-ephem-wheel-cache-ml4uql65 2021-07-29T10:53:39,940 Created temporary directory: /tmp/pip-req-tracker-7dspasui 2021-07-29T10:53:39,940 Initialized build tracking at /tmp/pip-req-tracker-7dspasui 2021-07-29T10:53:39,941 Created build tracker: /tmp/pip-req-tracker-7dspasui 2021-07-29T10:53:39,941 Entered build tracker: /tmp/pip-req-tracker-7dspasui 2021-07-29T10:53:39,942 Created temporary directory: /tmp/pip-wheel-0kkb56kw 2021-07-29T10:53:39,972 WARNING: The index url "/" seems invalid, please provide a scheme. 2021-07-29T10:53:39,973 WARNING: The index url "t" seems invalid, please provide a scheme. 2021-07-29T10:53:39,973 WARNING: The index url "m" seems invalid, please provide a scheme. 2021-07-29T10:53:39,973 WARNING: The index url "p" seems invalid, please provide a scheme. 2021-07-29T10:53:39,973 Looking in indexes: https://pypi.org/simple, /, t, m, p 2021-07-29T10:53:39,976 WARNING: Location '/cytohmm/' is ignored: it is either a non-existing path or lacks a specific scheme. 2021-07-29T10:53:39,976 WARNING: Location 't/cytohmm/' is ignored: it is either a non-existing path or lacks a specific scheme. 2021-07-29T10:53:39,977 WARNING: Location 'm/cytohmm/' is ignored: it is either a non-existing path or lacks a specific scheme. 2021-07-29T10:53:39,977 WARNING: Location 'p/cytohmm/' is ignored: it is either a non-existing path or lacks a specific scheme. 2021-07-29T10:53:39,977 1 location(s) to search for versions of cytohmm: 2021-07-29T10:53:39,977 * https://pypi.org/simple/cytohmm/ 2021-07-29T10:53:39,977 Fetching project page and analyzing links: https://pypi.org/simple/cytohmm/ 2021-07-29T10:53:39,978 Getting page https://pypi.org/simple/cytohmm/ 2021-07-29T10:53:39,979 Found index url https://pypi.org/simple 2021-07-29T10:53:40,068 Found link https://files.pythonhosted.org/packages/39/b7/66f96e238de940ee4fe5d86048689df8c105f56b57d5cb052b5f4a255328/cytohmm-0.0.1.tar.gz#sha256=f51f92e9d34fa64bf27055977cb93167e23ac6113a3816977a724d5bfa2c750e (from https://pypi.org/simple/cytohmm/), version: 0.0.1 2021-07-29T10:53:40,069 Found link https://files.pythonhosted.org/packages/0f/1d/f92e919a35149774961020a922374bf7e0c245104aa9816c1896ec621dfe/cytohmm-0.0.2.tar.gz#sha256=8e02e8e8e35cdf8578837d12cfee9399218b7e449f407c1e66532420f928dd32 (from https://pypi.org/simple/cytohmm/), version: 0.0.2 2021-07-29T10:53:40,069 Found link https://files.pythonhosted.org/packages/54/56/2a327392bbe1450b4bfb07a2ba62ea7f49ce383a76aae62fa9c0e546e128/cytohmm-0.0.3.tar.gz#sha256=89c6fc98532f317233c0a43390717736211d728d1a6c2b6320b8f38d14047449 (from https://pypi.org/simple/cytohmm/), version: 0.0.3 2021-07-29T10:53:40,070 Found link https://files.pythonhosted.org/packages/7e/7e/77b89a6a5bde0a85c69c82e16bc4bb1629c09a1b831048c99d0d71522e43/cytohmm-0.1.0.tar.gz#sha256=0c00df6c5ad19913469470dec4848206230cc8ab29f3ef67b70e122711bb2253 (from https://pypi.org/simple/cytohmm/) (requires-python:<4,>=3.6), version: 0.1.0 2021-07-29T10:53:40,071 Found link https://files.pythonhosted.org/packages/b2/77/9364dab7843667e4689977bd019ffcb649e066e0684c480b26cc757ea091/cytohmm-0.1.1.tar.gz#sha256=c47c234655a0478502bb52e879fecc905c04d834bc3b40523024a134f9073cf6 (from https://pypi.org/simple/cytohmm/) (requires-python:<4,>=3.6), version: 0.1.1 2021-07-29T10:53:40,071 Skipping link: not a file: https://pypi.org/simple/cytohmm/ 2021-07-29T10:53:40,089 Given no hashes to check 1 links for project 'cytohmm': discarding no candidates 2021-07-29T10:53:40,107 Collecting cytohmm==0.0.3 2021-07-29T10:53:40,109 Created temporary directory: /tmp/pip-unpack-20yy557v 2021-07-29T10:53:40,295 Downloading cytohmm-0.0.3.tar.gz (103 kB) 2021-07-29T10:53:40,398 Added cytohmm==0.0.3 from https://files.pythonhosted.org/packages/54/56/2a327392bbe1450b4bfb07a2ba62ea7f49ce383a76aae62fa9c0e546e128/cytohmm-0.0.3.tar.gz#sha256=89c6fc98532f317233c0a43390717736211d728d1a6c2b6320b8f38d14047449 to build tracker '/tmp/pip-req-tracker-7dspasui' 2021-07-29T10:53:40,399 Running setup.py (path:/tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04/setup.py) egg_info for package cytohmm 2021-07-29T10:53:40,399 Created temporary directory: /tmp/pip-pip-egg-info-e9p3nvrl 2021-07-29T10:53:40,400 Running command python setup.py egg_info 2021-07-29T10:53:42,241 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04/src/cytohmm/likelihood.pyx 2021-07-29T10:53:42,242 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-29T10:53:43,884 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04/src/cytohmm/markov_chain.pyx 2021-07-29T10:53:43,884 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-29T10:53:45,757 Compiling src/cytohmm/markov_chain.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-29T10:53:45,757 Compiling src/cytohmm/likelihood.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libc/string.pxd. 2021-07-29T10:53:45,757 [1/2] Cythonizing src/cytohmm/likelihood.pyx 2021-07-29T10:53:45,757 [2/2] Cythonizing src/cytohmm/markov_chain.pyx 2021-07-29T10:53:45,904 running egg_info 2021-07-29T10:53:45,906 creating /tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info 2021-07-29T10:53:45,907 writing /tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/PKG-INFO 2021-07-29T10:53:45,910 writing dependency_links to /tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/dependency_links.txt 2021-07-29T10:53:45,912 writing top-level names to /tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/top_level.txt 2021-07-29T10:53:45,913 writing manifest file '/tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/SOURCES.txt' 2021-07-29T10:53:46,063 reading manifest file '/tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/SOURCES.txt' 2021-07-29T10:53:46,064 reading manifest template 'MANIFEST.in' 2021-07-29T10:53:46,072 adding license file 'LICENSE' 2021-07-29T10:53:46,074 writing manifest file '/tmp/pip-pip-egg-info-e9p3nvrl/cytohmm.egg-info/SOURCES.txt' 2021-07-29T10:53:46,278 Source in /tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04 has version 0.0.3, which satisfies requirement cytohmm==0.0.3 from https://files.pythonhosted.org/packages/54/56/2a327392bbe1450b4bfb07a2ba62ea7f49ce383a76aae62fa9c0e546e128/cytohmm-0.0.3.tar.gz#sha256=89c6fc98532f317233c0a43390717736211d728d1a6c2b6320b8f38d14047449 2021-07-29T10:53:46,279 Removed cytohmm==0.0.3 from https://files.pythonhosted.org/packages/54/56/2a327392bbe1450b4bfb07a2ba62ea7f49ce383a76aae62fa9c0e546e128/cytohmm-0.0.3.tar.gz#sha256=89c6fc98532f317233c0a43390717736211d728d1a6c2b6320b8f38d14047449 from build tracker '/tmp/pip-req-tracker-7dspasui' 2021-07-29T10:53:46,283 Created temporary directory: /tmp/pip-unpack-yc6nuwfg 2021-07-29T10:53:46,283 Building wheels for collected packages: cytohmm 2021-07-29T10:53:46,287 Created temporary directory: /tmp/pip-wheel-3nqfhe5v 2021-07-29T10:53:46,288 Building wheel for cytohmm (setup.py): started 2021-07-29T10:53:46,289 Destination directory: /tmp/pip-wheel-3nqfhe5v 2021-07-29T10:53:46,289 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-0kkb56kw/cytohmm_260ea48fc7834ffc86eb20aa4f8b5e04/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-3nqfhe5v 2021-07-29T10:53:48,042 running bdist_wheel 2021-07-29T10:53:48,047 running build 2021-07-29T10:53:48,047 running build_py 2021-07-29T10:53:48,181 creating build 2021-07-29T10:53:48,181 creating build/lib.linux-armv7l-3.9 2021-07-29T10:53:48,182 creating build/lib.linux-armv7l-3.9/cytohmm 2021-07-29T10:53:48,183 copying src/cytohmm/sequence_segmenter.py -> build/lib.linux-armv7l-3.9/cytohmm 2021-07-29T10:53:48,185 copying src/cytohmm/__init__.py -> build/lib.linux-armv7l-3.9/cytohmm 2021-07-29T10:53:48,187 running build_ext 2021-07-29T10:53:48,192 building 'cytohmm.markov_chain' extension 2021-07-29T10:53:48,193 creating build/temp.linux-armv7l-3.9 2021-07-29T10:53:48,194 creating build/temp.linux-armv7l-3.9/src 2021-07-29T10:53:48,194 creating build/temp.linux-armv7l-3.9/src/cytohmm 2021-07-29T10:53:48,195 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/cytohmm/markov_chain.c -o build/temp.linux-armv7l-3.9/src/cytohmm/markov_chain.o 2021-07-29T10:53:48,571 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-29T10:53:48,571 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-29T10:53:48,571 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-29T10:53:48,572 from src/cytohmm/markov_chain.c:634: 2021-07-29T10:53:48,572 /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] 2021-07-29T10:53:48,572 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-29T10:53:48,572 | ^~~~~~~ 2021-07-29T10:53:58,837 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/src/cytohmm/markov_chain.o -o build/lib.linux-armv7l-3.9/cytohmm/markov_chain.cpython-39-arm-linux-gnueabihf.so 2021-07-29T10:53:58,978 building 'cytohmm.likelihood' extension 2021-07-29T10:53:58,978 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c src/cytohmm/likelihood.c -o build/temp.linux-armv7l-3.9/src/cytohmm/likelihood.o 2021-07-29T10:53:59,350 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-29T10:53:59,351 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-29T10:53:59,351 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-29T10:53:59,351 from src/cytohmm/likelihood.c:634: 2021-07-29T10:53:59,351 /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] 2021-07-29T10:53:59,351 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-29T10:53:59,351 | ^~~~~~~ 2021-07-29T10:54:06,100 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/src/cytohmm/likelihood.o -o build/lib.linux-armv7l-3.9/cytohmm/likelihood.cpython-39-arm-linux-gnueabihf.so 2021-07-29T10:54:06,247 installing to build/bdist.linux-armv7l/wheel 2021-07-29T10:54:06,247 running install 2021-07-29T10:54:06,249 running install_lib 2021-07-29T10:54:06,253 creating build/bdist.linux-armv7l 2021-07-29T10:54:06,254 creating build/bdist.linux-armv7l/wheel 2021-07-29T10:54:06,256 creating build/bdist.linux-armv7l/wheel/cytohmm 2021-07-29T10:54:06,257 copying build/lib.linux-armv7l-3.9/cytohmm/sequence_segmenter.py -> build/bdist.linux-armv7l/wheel/cytohmm 2021-07-29T10:54:06,259 copying build/lib.linux-armv7l-3.9/cytohmm/markov_chain.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/cytohmm 2021-07-29T10:54:06,275 copying build/lib.linux-armv7l-3.9/cytohmm/likelihood.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/cytohmm 2021-07-29T10:54:06,287 copying build/lib.linux-armv7l-3.9/cytohmm/__init__.py -> build/bdist.linux-armv7l/wheel/cytohmm 2021-07-29T10:54:06,289 running install_egg_info 2021-07-29T10:54:06,315 running egg_info 2021-07-29T10:54:06,316 writing cytohmm.egg-info/PKG-INFO 2021-07-29T10:54:06,318 writing dependency_links to cytohmm.egg-info/dependency_links.txt 2021-07-29T10:54:06,321 writing top-level names to cytohmm.egg-info/top_level.txt 2021-07-29T10:54:06,326 reading manifest file 'cytohmm.egg-info/SOURCES.txt' 2021-07-29T10:54:06,329 reading manifest template 'MANIFEST.in' 2021-07-29T10:54:06,339 adding license file 'LICENSE' 2021-07-29T10:54:06,342 writing manifest file 'cytohmm.egg-info/SOURCES.txt' 2021-07-29T10:54:06,344 Copying cytohmm.egg-info to build/bdist.linux-armv7l/wheel/cytohmm-0.0.3-py3.9.egg-info 2021-07-29T10:54:06,358 running install_scripts 2021-07-29T10:54:06,395 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-07-29T10:54:06,400 creating build/bdist.linux-armv7l/wheel/cytohmm-0.0.3.dist-info/WHEEL 2021-07-29T10:54:06,403 creating '/tmp/pip-wheel-3nqfhe5v/cytohmm-0.0.3-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-29T10:54:06,406 adding 'cytohmm/__init__.py' 2021-07-29T10:54:06,494 adding 'cytohmm/likelihood.cpython-39-arm-linux-gnueabihf.so' 2021-07-29T10:54:06,617 adding 'cytohmm/markov_chain.cpython-39-arm-linux-gnueabihf.so' 2021-07-29T10:54:06,627 adding 'cytohmm/sequence_segmenter.py' 2021-07-29T10:54:06,635 adding 'cytohmm-0.0.3.dist-info/LICENSE' 2021-07-29T10:54:06,638 adding 'cytohmm-0.0.3.dist-info/METADATA' 2021-07-29T10:54:06,641 adding 'cytohmm-0.0.3.dist-info/WHEEL' 2021-07-29T10:54:06,645 adding 'cytohmm-0.0.3.dist-info/top_level.txt' 2021-07-29T10:54:06,646 adding 'cytohmm-0.0.3.dist-info/RECORD' 2021-07-29T10:54:06,660 removing build/bdist.linux-armv7l/wheel 2021-07-29T10:54:06,826 Building wheel for cytohmm (setup.py): finished with status 'done' 2021-07-29T10:54:06,833 Created wheel for cytohmm: filename=cytohmm-0.0.3-cp39-cp39-linux_armv7l.whl size=364367 sha256=09ac7faee1b9f3a66e0fa66c8170c206dbe45116c86386e01b9b0a895a4b0732 2021-07-29T10:54:06,834 Stored in directory: /tmp/pip-ephem-wheel-cache-ml4uql65/wheels/56/0d/fa/0ced6cdf21a11e1767533578522f9f2a55fc4b5f5d2faa1f39 2021-07-29T10:54:06,844 Successfully built cytohmm 2021-07-29T10:54:06,863 Removed build tracker: '/tmp/pip-req-tracker-7dspasui'