2021-03-15T19:27:02,280 Created temporary directory: /tmp/pip-ephem-wheel-cache-agq6jlee
2021-03-15T19:27:02,283 Created temporary directory: /tmp/pip-req-tracker-up64h_k1
2021-03-15T19:27:02,283 Initialized build tracking at /tmp/pip-req-tracker-up64h_k1
2021-03-15T19:27:02,284 Created build tracker: /tmp/pip-req-tracker-up64h_k1
2021-03-15T19:27:02,284 Entered build tracker: /tmp/pip-req-tracker-up64h_k1
2021-03-15T19:27:02,284 Created temporary directory: /tmp/pip-wheel-r0jhlou7
2021-03-15T19:27:02,313 1 location(s) to search for versions of pdb-eda:
2021-03-15T19:27:02,313 * https://pypi.org/simple/pdb-eda/
2021-03-15T19:27:02,314 Fetching project page and analyzing links: https://pypi.org/simple/pdb-eda/
2021-03-15T19:27:02,314 Getting page https://pypi.org/simple/pdb-eda/
2021-03-15T19:27:02,316 Found index url https://pypi.org/simple
2021-03-15T19:27:02,427   Found link https://files.pythonhosted.org/packages/66/48/f597cf02f85a30d59122839b54c94fb1ed8303738a8ce497347c9504786b/pdb_eda-1.0.0.tar.gz#sha256=d8eb054f552f2d9a3db9b0c980e619bb2fe88d03acf9efe7178f89e8a1795cb0 (from https://pypi.org/simple/pdb-eda/), version: 1.0.0
2021-03-15T19:27:02,428   Found link https://files.pythonhosted.org/packages/3d/15/17f047cc5d129f8abcbc49dddafeebe41f5fe5ee1cdf5099b2c2ef98dc77/pdb_eda-1.0.1.tar.gz#sha256=d357d4809ae3b451bc4f243c88edca122fa1e60916034d9d7104b1148e449e40 (from https://pypi.org/simple/pdb-eda/), version: 1.0.1
2021-03-15T19:27:02,428   Found link https://files.pythonhosted.org/packages/5a/97/714641fae5988010cbb8b61673407ab3464472781853a2d43f5a0342d226/pdb_eda-1.1.0.tar.gz#sha256=d746ffe86ca6dfcc74efd7ad01effd387672a010f733db2d76a894293f17a278 (from https://pypi.org/simple/pdb-eda/), version: 1.1.0
2021-03-15T19:27:02,428   Found link https://files.pythonhosted.org/packages/19/a9/58b456c4b723294624aab177b72a089ede9daf36086cc36bc3f29800b6da/pdb_eda-2.1.2.tar.gz#sha256=dec7dbe675ed3ebd6cadcc66139c780f11321bfa0280d7d3bda8b7b4cc95f833 (from https://pypi.org/simple/pdb-eda/), version: 2.1.2
2021-03-15T19:27:02,442 Given no hashes to check 1 links for project 'pdb-eda': discarding no candidates
2021-03-15T19:27:02,457 Collecting pdb-eda==2.1.2
2021-03-15T19:27:02,459   Created temporary directory: /tmp/pip-unpack-7qf_90zv
2021-03-15T19:27:02,502   Downloading pdb_eda-2.1.2.tar.gz (2.7 MB)
2021-03-15T19:27:02,921   Added pdb-eda==2.1.2 from https://files.pythonhosted.org/packages/19/a9/58b456c4b723294624aab177b72a089ede9daf36086cc36bc3f29800b6da/pdb_eda-2.1.2.tar.gz#sha256=dec7dbe675ed3ebd6cadcc66139c780f11321bfa0280d7d3bda8b7b4cc95f833 to build tracker '/tmp/pip-req-tracker-up64h_k1'
2021-03-15T19:27:02,922     Running setup.py (path:/tmp/pip-wheel-r0jhlou7/pdb-eda_ae47c12eea2a46aa8963390caf7396db/setup.py) egg_info for package pdb-eda
2021-03-15T19:27:02,923     Created temporary directory: /tmp/pip-pip-egg-info-yqiayk2t
2021-03-15T19:27:02,923     Running command python setup.py egg_info
2021-03-15T19:27:04,398     running egg_info
2021-03-15T19:27:04,400     creating /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info
2021-03-15T19:27:04,401     writing /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/PKG-INFO
2021-03-15T19:27:04,405     writing dependency_links to /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/dependency_links.txt
2021-03-15T19:27:04,406     writing entry points to /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/entry_points.txt
2021-03-15T19:27:04,408     writing requirements to /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/requires.txt
2021-03-15T19:27:04,409     writing top-level names to /tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/top_level.txt
2021-03-15T19:27:04,411     writing manifest file '/tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/SOURCES.txt'
2021-03-15T19:27:04,546     reading manifest file '/tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/SOURCES.txt'
2021-03-15T19:27:04,548     reading manifest template 'MANIFEST.in'
2021-03-15T19:27:04,549     warning: no files found matching 'docs/Makefile'
2021-03-15T19:27:04,549     warning: no files found matching '*.rst' under directory 'docs'
2021-03-15T19:27:04,550     warning: no files found matching '*.txt' under directory 'docs'
2021-03-15T19:27:04,550     warning: no files found matching '*.py' under directory 'docs'
2021-03-15T19:27:04,550     warning: no files found matching '*.png' under directory 'docs'
2021-03-15T19:27:04,569     warning: no previously-included files found matching 'pdb_eda/test*.py'
2021-03-15T19:27:04,570     warning: no previously-included files found matching 'pdb_eda/pdb_eda/cutils_setup.py'
2021-03-15T19:27:04,573     writing manifest file '/tmp/pip-pip-egg-info-yqiayk2t/pdb_eda.egg-info/SOURCES.txt'
2021-03-15T19:27:04,674   Source in /tmp/pip-wheel-r0jhlou7/pdb-eda_ae47c12eea2a46aa8963390caf7396db has version 2.1.2, which satisfies requirement pdb-eda==2.1.2 from https://files.pythonhosted.org/packages/19/a9/58b456c4b723294624aab177b72a089ede9daf36086cc36bc3f29800b6da/pdb_eda-2.1.2.tar.gz#sha256=dec7dbe675ed3ebd6cadcc66139c780f11321bfa0280d7d3bda8b7b4cc95f833
2021-03-15T19:27:04,676   Removed pdb-eda==2.1.2 from https://files.pythonhosted.org/packages/19/a9/58b456c4b723294624aab177b72a089ede9daf36086cc36bc3f29800b6da/pdb_eda-2.1.2.tar.gz#sha256=dec7dbe675ed3ebd6cadcc66139c780f11321bfa0280d7d3bda8b7b4cc95f833 from build tracker '/tmp/pip-req-tracker-up64h_k1'
2021-03-15T19:27:04,682 Created temporary directory: /tmp/pip-unpack-_7vw7hwv
2021-03-15T19:27:04,682 Building wheels for collected packages: pdb-eda
2021-03-15T19:27:04,686   Created temporary directory: /tmp/pip-wheel-492or8y_
2021-03-15T19:27:04,687   Building wheel for pdb-eda (setup.py): started
2021-03-15T19:27:04,687   Destination directory: /tmp/pip-wheel-492or8y_
2021-03-15T19:27:04,687   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-r0jhlou7/pdb-eda_ae47c12eea2a46aa8963390caf7396db/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-r0jhlou7/pdb-eda_ae47c12eea2a46aa8963390caf7396db/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-492or8y_
2021-03-15T19:27:06,162   running bdist_wheel
2021-03-15T19:27:06,168   running build
2021-03-15T19:27:06,168   running build_py
2021-03-15T19:27:06,296   creating build
2021-03-15T19:27:06,297   creating build/lib.linux-armv7l-3.7
2021-03-15T19:27:06,298   creating build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,299   copying pdb_eda/__main__.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,302   copying pdb_eda/ccp4.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,305   copying pdb_eda/__init__.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,307   copying pdb_eda/utils.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,310   copying pdb_eda/multipleStructures.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,313   copying pdb_eda/singleStructure.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,316   copying pdb_eda/optimizeParams.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,320   copying pdb_eda/pdbParser.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,323   copying pdb_eda/densityAnalysis.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,328   copying pdb_eda/generateParams.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,331   copying pdb_eda/crystalContacts.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,334   copying pdb_eda/cutils_setup.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,337   copying pdb_eda/fileUtils.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:06,340   creating build/lib.linux-armv7l-3.7/tests
2021-03-15T19:27:06,342   copying tests/__init__.py -> build/lib.linux-armv7l-3.7/tests
2021-03-15T19:27:06,345   copying tests/test_pdb.py -> build/lib.linux-armv7l-3.7/tests
2021-03-15T19:27:06,347   copying tests/test_ccp4.py -> build/lib.linux-armv7l-3.7/tests
2021-03-15T19:27:06,352   creating build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-03-15T19:27:06,353   copying pdb_eda/conf/f000_parameters.json.gz -> build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-03-15T19:27:06,410   copying pdb_eda/conf/optimized_params.json -> build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-03-15T19:27:06,416   running build_ext
2021-03-15T19:27:06,422   cythoning pdb_eda/cutils.pyx to pdb_eda/cutils.c
2021-03-15T19:27:07,059   /usr/local/lib/python3.7/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-r0jhlou7/pdb-eda_ae47c12eea2a46aa8963390caf7396db/pdb_eda/cutils.pyx
2021-03-15T19:27:07,059     tree = Parsing.p_module(s, pxd, full_module_name)
2021-03-15T19:27:08,069   building 'pdb_eda.cutils' extension
2021-03-15T19:27:08,070   creating build/temp.linux-armv7l-3.7
2021-03-15T19:27:08,071   creating build/temp.linux-armv7l-3.7/pdb_eda
2021-03-15T19:27:08,072   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/local/lib/python3.7/dist-packages/numpy/core/include -I/usr/include/python3.7m -c pdb_eda/cutils.c -o build/temp.linux-armv7l-3.7/pdb_eda/cutils.o
2021-03-15T19:27:25,373   arm-linux-gnueabihf-gcc -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/pdb_eda/cutils.o -o build/lib.linux-armv7l-3.7/pdb_eda/cutils.cpython-37m-arm-linux-gnueabihf.so
2021-03-15T19:27:25,569   installing to build/bdist.linux-armv7l/wheel
2021-03-15T19:27:25,570   running install
2021-03-15T19:27:25,572   running install_lib
2021-03-15T19:27:25,578   creating build/bdist.linux-armv7l
2021-03-15T19:27:25,579   creating build/bdist.linux-armv7l/wheel
2021-03-15T19:27:25,581   creating build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,582   copying build/lib.linux-armv7l-3.7/pdb_eda/__main__.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,585   copying build/lib.linux-armv7l-3.7/pdb_eda/ccp4.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,589   copying build/lib.linux-armv7l-3.7/pdb_eda/__init__.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,591   copying build/lib.linux-armv7l-3.7/pdb_eda/utils.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,594   copying build/lib.linux-armv7l-3.7/pdb_eda/multipleStructures.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,597   copying build/lib.linux-armv7l-3.7/pdb_eda/singleStructure.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,600   copying build/lib.linux-armv7l-3.7/pdb_eda/optimizeParams.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,604   copying build/lib.linux-armv7l-3.7/pdb_eda/pdbParser.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,608   creating build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-03-15T19:27:25,610   copying build/lib.linux-armv7l-3.7/pdb_eda/conf/f000_parameters.json.gz -> build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-03-15T19:27:25,679   copying build/lib.linux-armv7l-3.7/pdb_eda/conf/optimized_params.json -> build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-03-15T19:27:25,684   copying build/lib.linux-armv7l-3.7/pdb_eda/densityAnalysis.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,688   copying build/lib.linux-armv7l-3.7/pdb_eda/cutils.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,718   copying build/lib.linux-armv7l-3.7/pdb_eda/generateParams.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,722   copying build/lib.linux-armv7l-3.7/pdb_eda/crystalContacts.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,725   copying build/lib.linux-armv7l-3.7/pdb_eda/cutils_setup.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,728   copying build/lib.linux-armv7l-3.7/pdb_eda/fileUtils.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-03-15T19:27:25,731   creating build/bdist.linux-armv7l/wheel/tests
2021-03-15T19:27:25,733   copying build/lib.linux-armv7l-3.7/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2021-03-15T19:27:25,737   copying build/lib.linux-armv7l-3.7/tests/test_pdb.py -> build/bdist.linux-armv7l/wheel/tests
2021-03-15T19:27:25,740   copying build/lib.linux-armv7l-3.7/tests/test_ccp4.py -> build/bdist.linux-armv7l/wheel/tests
2021-03-15T19:27:25,743   running install_egg_info
2021-03-15T19:27:25,770   running egg_info
2021-03-15T19:27:25,771   writing pdb_eda.egg-info/PKG-INFO
2021-03-15T19:27:25,774   writing dependency_links to pdb_eda.egg-info/dependency_links.txt
2021-03-15T19:27:25,777   writing entry points to pdb_eda.egg-info/entry_points.txt
2021-03-15T19:27:25,778   writing requirements to pdb_eda.egg-info/requires.txt
2021-03-15T19:27:25,780   writing top-level names to pdb_eda.egg-info/top_level.txt
2021-03-15T19:27:25,790   reading manifest file 'pdb_eda.egg-info/SOURCES.txt'
2021-03-15T19:27:25,793   reading manifest template 'MANIFEST.in'
2021-03-15T19:27:25,795   warning: no files found matching 'docs/Makefile'
2021-03-15T19:27:25,795   warning: no files found matching '*.rst' under directory 'docs'
2021-03-15T19:27:25,796   warning: no files found matching '*.txt' under directory 'docs'
2021-03-15T19:27:25,797   warning: no files found matching '*.py' under directory 'docs'
2021-03-15T19:27:25,797   warning: no files found matching '*.png' under directory 'docs'
2021-03-15T19:27:25,819   warning: no previously-included files found matching 'pdb_eda/test*.py'
2021-03-15T19:27:25,820   warning: no previously-included files found matching 'pdb_eda/pdb_eda/cutils_setup.py'
2021-03-15T19:27:25,824   writing manifest file 'pdb_eda.egg-info/SOURCES.txt'
2021-03-15T19:27:25,826   Copying pdb_eda.egg-info to build/bdist.linux-armv7l/wheel/pdb_eda-2.1.2-py3.7.egg-info
2021-03-15T19:27:25,844   running install_scripts
2021-03-15T19:27:25,904   adding license file "LICENSE" (matched pattern "LICEN[CS]E*")
2021-03-15T19:27:25,912   creating build/bdist.linux-armv7l/wheel/pdb_eda-2.1.2.dist-info/WHEEL
2021-03-15T19:27:25,915   creating '/tmp/pip-wheel-492or8y_/pdb_eda-2.1.2-cp37-cp37m-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-03-15T19:27:25,919   adding 'pdb_eda/__init__.py'
2021-03-15T19:27:25,921   adding 'pdb_eda/__main__.py'
2021-03-15T19:27:25,924   adding 'pdb_eda/ccp4.py'
2021-03-15T19:27:25,927   adding 'pdb_eda/crystalContacts.py'
2021-03-15T19:27:26,116   adding 'pdb_eda/cutils.cpython-37m-arm-linux-gnueabihf.so'
2021-03-15T19:27:26,124   adding 'pdb_eda/cutils_setup.py'
2021-03-15T19:27:26,129   adding 'pdb_eda/densityAnalysis.py'
2021-03-15T19:27:26,131   adding 'pdb_eda/fileUtils.py'
2021-03-15T19:27:26,134   adding 'pdb_eda/generateParams.py'
2021-03-15T19:27:26,137   adding 'pdb_eda/multipleStructures.py'
2021-03-15T19:27:26,141   adding 'pdb_eda/optimizeParams.py'
2021-03-15T19:27:26,143   adding 'pdb_eda/pdbParser.py'
2021-03-15T19:27:26,145   adding 'pdb_eda/singleStructure.py'
2021-03-15T19:27:26,148   adding 'pdb_eda/utils.py'
2021-03-15T19:27:26,477   adding 'pdb_eda/conf/f000_parameters.json.gz'
2021-03-15T19:27:26,501   adding 'pdb_eda/conf/optimized_params.json'
2021-03-15T19:27:26,505   adding 'tests/__init__.py'
2021-03-15T19:27:26,507   adding 'tests/test_ccp4.py'
2021-03-15T19:27:26,508   adding 'tests/test_pdb.py'
2021-03-15T19:27:26,510   adding 'pdb_eda-2.1.2.dist-info/LICENSE'
2021-03-15T19:27:26,512   adding 'pdb_eda-2.1.2.dist-info/METADATA'
2021-03-15T19:27:26,514   adding 'pdb_eda-2.1.2.dist-info/WHEEL'
2021-03-15T19:27:26,515   adding 'pdb_eda-2.1.2.dist-info/entry_points.txt'
2021-03-15T19:27:26,516   adding 'pdb_eda-2.1.2.dist-info/top_level.txt'
2021-03-15T19:27:26,517   adding 'pdb_eda-2.1.2.dist-info/RECORD'
2021-03-15T19:27:26,569   removing build/bdist.linux-armv7l/wheel
2021-03-15T19:27:26,744   Building wheel for pdb-eda (setup.py): finished with status 'done'
2021-03-15T19:27:26,784   Created wheel for pdb-eda: filename=pdb_eda-2.1.2-cp37-cp37m-linux_armv7l.whl size=3070063 sha256=aa17b7d6822826f796ca781db4a49a65f1be9aff63da1274dff6c3e32b7a5d72
2021-03-15T19:27:26,784   Stored in directory: /tmp/pip-ephem-wheel-cache-agq6jlee/wheels/44/5e/2e/8d6885f166cb330d0cd9714a1c68178983d395c7d68161cb75
2021-03-15T19:27:26,795 Successfully built pdb-eda
2021-03-15T19:27:26,906 Removed build tracker: '/tmp/pip-req-tracker-up64h_k1'