2019-10-30T01:52:45 Created temporary directory: /tmp/pip-ephem-wheel-cache-nq_99rhx
2019-10-30T01:52:45 Created temporary directory: /tmp/pip-req-tracker-uus1lkl8
2019-10-30T01:52:45 Created requirements tracker '/tmp/pip-req-tracker-uus1lkl8'
2019-10-30T01:52:45 Created temporary directory: /tmp/pip-wheel-1t5s6t7y
2019-10-30T01:52:45 Collecting cistem==0.9.0b0
2019-10-30T01:52:45   1 location(s) to search for versions of cistem:
2019-10-30T01:52:45   * https://pypi.org/simple/cistem/
2019-10-30T01:52:45   Getting page https://pypi.org/simple/cistem/
2019-10-30T01:52:45   Analyzing links from page https://pypi.org/simple/cistem/
2019-10-30T01:52:45     Found link https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz#sha256=ae13c9dc411993314526fcdd3d182200dcffa28c2f6733f0231e8fb6c7ee6915 (from https://pypi.org/simple/cistem/), version: 0.9.0b0
2019-10-30T01:52:45     Found link https://files.pythonhosted.org/packages/8a/44/eed9bb6462b9af74ea23ce8a76b396bfa945028cc7da7aa4c4a4547bb10a/cistem-0.9.0.tar.gz#sha256=ec8b23ebf0ddf29f260d37739c854194c68538d4b15b1cf6baa6904db4ce002d (from https://pypi.org/simple/cistem/), version: 0.9.0
2019-10-30T01:52:45   Using version 0.9.0b0 (newest of versions: 0.9.0b0)
2019-10-30T01:52:45   Created temporary directory: /tmp/pip-unpack-z7f1hc0_
2019-10-30T01:52:46   Downloading https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz (934kB)
2019-10-30T01:52:46   Downloading from URL https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz#sha256=ae13c9dc411993314526fcdd3d182200dcffa28c2f6733f0231e8fb6c7ee6915 (from https://pypi.org/simple/cistem/)
2019-10-30T01:52:46   Added cistem==0.9.0b0 from https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz#sha256=ae13c9dc411993314526fcdd3d182200dcffa28c2f6733f0231e8fb6c7ee6915 to build tracker '/tmp/pip-req-tracker-uus1lkl8'
2019-10-30T01:52:46     Running setup.py (path:/tmp/pip-wheel-1t5s6t7y/cistem/setup.py) egg_info for package cistem
2019-10-30T01:52:46     Running command python setup.py egg_info
2019-10-30T01:52:48     running egg_info
2019-10-30T01:52:48     creating pip-egg-info/cistem.egg-info
2019-10-30T01:52:48     writing pip-egg-info/cistem.egg-info/PKG-INFO
2019-10-30T01:52:48     writing dependency_links to pip-egg-info/cistem.egg-info/dependency_links.txt
2019-10-30T01:52:48     writing top-level names to pip-egg-info/cistem.egg-info/top_level.txt
2019-10-30T01:52:48     writing manifest file 'pip-egg-info/cistem.egg-info/SOURCES.txt'
2019-10-30T01:52:49     reading manifest file 'pip-egg-info/cistem.egg-info/SOURCES.txt'
2019-10-30T01:52:49     writing manifest file 'pip-egg-info/cistem.egg-info/SOURCES.txt'
2019-10-30T01:52:49     /usr/lib/python3.7/distutils/extension.py:131: UserWarning: Unknown Extension options: 'build_dir'
2019-10-30T01:52:49       warnings.warn(msg)
2019-10-30T01:52:49     /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:472: UserWarning: Normalizing '0.9.0b' to '0.9.0b0'
2019-10-30T01:52:49       normalized_version,
2019-10-30T01:52:49   Source in /tmp/pip-wheel-1t5s6t7y/cistem has version 0.9.0b0, which satisfies requirement cistem==0.9.0b0 from https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz#sha256=ae13c9dc411993314526fcdd3d182200dcffa28c2f6733f0231e8fb6c7ee6915
2019-10-30T01:52:49   Removed cistem==0.9.0b0 from https://files.pythonhosted.org/packages/61/61/83192c4c503abfcdf036b2855cf7e9c5385e87c2b03ec720cd20d126ff6e/cistem-0.9.0b0.tar.gz#sha256=ae13c9dc411993314526fcdd3d182200dcffa28c2f6733f0231e8fb6c7ee6915 from build tracker '/tmp/pip-req-tracker-uus1lkl8'
2019-10-30T01:52:49 Building wheels for collected packages: cistem
2019-10-30T01:52:49   Created temporary directory: /tmp/pip-wheel-4dakosz_
2019-10-30T01:52:49   Building wheel for cistem (setup.py): started
2019-10-30T01:52:49   Destination directory: /tmp/pip-wheel-4dakosz_
2019-10-30T01:52:49   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-1t5s6t7y/cistem/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-4dakosz_
2019-10-30T01:52:50   /usr/lib/python3.7/distutils/extension.py:131: UserWarning: Unknown Extension options: 'build_dir'
2019-10-30T01:52:50     warnings.warn(msg)
2019-10-30T01:52:50   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:472: UserWarning: Normalizing '0.9.0b' to '0.9.0b0'
2019-10-30T01:52:50     normalized_version,
2019-10-30T01:52:50   running bdist_wheel
2019-10-30T01:52:50   running build
2019-10-30T01:52:50   running build_py
2019-10-30T01:52:51   creating build
2019-10-30T01:52:51   creating build/lib.linux-armv7l-3.7
2019-10-30T01:52:51   creating build/lib.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   copying cistem/about.py -> build/lib.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   copying cistem/sklearnModelsOpt.py -> build/lib.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   copying cistem/sklearnModels.py -> build/lib.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   copying cistem/__init__.py -> build/lib.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   running build_ext
2019-10-30T01:52:51   building 'biomarkers' extension
2019-10-30T01:52:51   creating build/temp.linux-armv7l-3.7
2019-10-30T01:52:51   creating build/temp.linux-armv7l-3.7/cistem
2019-10-30T01:52:51   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/biomarkers.cpp -o build/temp.linux-armv7l-3.7/cistem/biomarkers.o
2019-10-30T01:53:07   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/biomarkers.o -o build/lib.linux-armv7l-3.7/biomarkers.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:53:08   building 'common' extension
2019-10-30T01:53:08   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/common.cpp -o build/temp.linux-armv7l-3.7/cistem/common.o
2019-10-30T01:53:18   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/common.o -o build/lib.linux-armv7l-3.7/common.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:53:19   building 'features' extension
2019-10-30T01:53:19   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/features.cpp -o build/temp.linux-armv7l-3.7/cistem/features.o
2019-10-30T01:54:16   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/features.o -o build/lib.linux-armv7l-3.7/features.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:54:17   building 'models' extension
2019-10-30T01:54:17   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/models.cpp -o build/temp.linux-armv7l-3.7/cistem/models.o
2019-10-30T01:55:29   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/models.o -o build/lib.linux-armv7l-3.7/models.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:55:29   building 'motifs' extension
2019-10-30T01:55:29   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/motifs.cpp -o build/temp.linux-armv7l-3.7/cistem/motifs.o
2019-10-30T01:56:11   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/motifs.o -o build/lib.linux-armv7l-3.7/motifs.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:56:12   building 'regions' extension
2019-10-30T01:56:12   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/regions.cpp -o build/temp.linux-armv7l-3.7/cistem/regions.o
2019-10-30T01:57:11   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/regions.o -o build/lib.linux-armv7l-3.7/regions.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:57:11   building 'sequences' extension
2019-10-30T01:57:11   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/sequences.cpp -o build/temp.linux-armv7l-3.7/cistem/sequences.o
2019-10-30T01:57:13   cistem/sequences.cpp: In function ‘PyObject* __pyx_gb_6cistem_9sequences_18sequenceStream2bit_4generator5(__pyx_CoroutineObject*, PyThreadState*, PyObject*)’:
2019-10-30T01:57:13   cistem/sequences.cpp:18779:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
2019-10-30T01:57:13              for (__pyx_t_10 = 0; __pyx_t_10 < __pyx_t_15; __pyx_t_10+=1) {
2019-10-30T01:57:13                                   ~~~~~~~~~~~^~~~~~~~~~~~
2019-10-30T01:58:36   cistem/sequences.cpp: In function ‘PyObject* __pyx_pw_6cistem_9sequences_20generatorMarkovChain_13generate(PyObject*, PyObject*)’:
2019-10-30T01:58:36   cistem/sequences.cpp:28486:78: warning: ‘__pyx_v_nnt’ may be used uninitialized in this function [-Wmaybe-uninitialized]
2019-10-30T01:58:36        __pyx_cur_scope->__pyx_v_state = (((__pyx_cur_scope->__pyx_v_state << 2) | __pyx_v_nnt) & __pyx_v_andMask);
2019-10-30T01:58:36                                          ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
2019-10-30T01:58:36   cistem/sequences.cpp:27973:7: note: ‘__pyx_v_nnt’ was declared here
2019-10-30T01:58:36      int __pyx_v_nnt;
2019-10-30T01:58:36          ^~~~~~~~~~~
2019-10-30T01:58:54   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/sequences.o -o build/lib.linux-armv7l-3.7/sequences.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:58:55   building 'validation' extension
2019-10-30T01:58:55   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.7m -c cistem/validation.cpp -o build/temp.linux-armv7l-3.7/cistem/validation.o
2019-10-30T01:59:16   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.7/cistem/validation.o -o build/lib.linux-armv7l-3.7/validation.cpython-37m-arm-linux-gnueabihf.so
2019-10-30T01:59:16   installing to build/bdist.linux-armv7l/wheel
2019-10-30T01:59:16   running install
2019-10-30T01:59:16   running install_lib
2019-10-30T01:59:16   creating build/bdist.linux-armv7l
2019-10-30T01:59:16   creating build/bdist.linux-armv7l/wheel
2019-10-30T01:59:16   copying build/lib.linux-armv7l-3.7/motifs.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:16   copying build/lib.linux-armv7l-3.7/features.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:16   copying build/lib.linux-armv7l-3.7/common.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:16   copying build/lib.linux-armv7l-3.7/validation.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/models.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/regions.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:17   creating build/bdist.linux-armv7l/wheel/cistem
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/cistem/about.py -> build/bdist.linux-armv7l/wheel/cistem
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/cistem/sklearnModelsOpt.py -> build/bdist.linux-armv7l/wheel/cistem
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/cistem/sklearnModels.py -> build/bdist.linux-armv7l/wheel/cistem
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/cistem/__init__.py -> build/bdist.linux-armv7l/wheel/cistem
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/sequences.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:17   copying build/lib.linux-armv7l-3.7/biomarkers.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel
2019-10-30T01:59:17   running install_egg_info
2019-10-30T01:59:17   running egg_info
2019-10-30T01:59:17   writing cistem.egg-info/PKG-INFO
2019-10-30T01:59:17   writing dependency_links to cistem.egg-info/dependency_links.txt
2019-10-30T01:59:17   writing top-level names to cistem.egg-info/top_level.txt
2019-10-30T01:59:17   reading manifest file 'cistem.egg-info/SOURCES.txt'
2019-10-30T01:59:17   writing manifest file 'cistem.egg-info/SOURCES.txt'
2019-10-30T01:59:17   Copying cistem.egg-info to build/bdist.linux-armv7l/wheel/cistem-0.9.0b0-py3.7.egg-info
2019-10-30T01:59:17   running install_scripts
2019-10-30T01:59:17   creating build/bdist.linux-armv7l/wheel/cistem-0.9.0b0.dist-info/WHEEL
2019-10-30T01:59:17   creating '/tmp/pip-wheel-4dakosz_/cistem-0.9.0b0-cp37-cp37m-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2019-10-30T01:59:17   adding 'biomarkers.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:17   adding 'common.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:18   adding 'features.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:18   adding 'models.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:19   adding 'motifs.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:19   adding 'regions.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:20   adding 'sequences.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:20   adding 'validation.cpython-37m-arm-linux-gnueabihf.so'
2019-10-30T01:59:20   adding 'cistem/__init__.py'
2019-10-30T01:59:20   adding 'cistem/about.py'
2019-10-30T01:59:20   adding 'cistem/sklearnModels.py'
2019-10-30T01:59:20   adding 'cistem/sklearnModelsOpt.py'
2019-10-30T01:59:20   adding 'cistem-0.9.0b0.dist-info/METADATA'
2019-10-30T01:59:20   adding 'cistem-0.9.0b0.dist-info/WHEEL'
2019-10-30T01:59:20   adding 'cistem-0.9.0b0.dist-info/top_level.txt'
2019-10-30T01:59:20   adding 'cistem-0.9.0b0.dist-info/RECORD'
2019-10-30T01:59:20   removing build/bdist.linux-armv7l/wheel
2019-10-30T01:59:20   Building wheel for cistem (setup.py): finished with status 'done'
2019-10-30T01:59:20   Stored in directory: /tmp/tmpqr4xvywo
2019-10-30T01:59:20 Successfully built cistem
2019-10-30T01:59:20 Cleaning up...
2019-10-30T01:59:20   Removing source in /tmp/pip-wheel-1t5s6t7y/cistem
2019-10-30T01:59:21 Removed build tracker '/tmp/pip-req-tracker-uus1lkl8'