2021-05-26T20:27:41,817 Created temporary directory: /tmp/pip-ephem-wheel-cache-qjj1ehz0
2021-05-26T20:27:41,821 Created temporary directory: /tmp/pip-req-tracker-g_d7f1qb
2021-05-26T20:27:41,821 Initialized build tracking at /tmp/pip-req-tracker-g_d7f1qb
2021-05-26T20:27:41,821 Created build tracker: /tmp/pip-req-tracker-g_d7f1qb
2021-05-26T20:27:41,822 Entered build tracker: /tmp/pip-req-tracker-g_d7f1qb
2021-05-26T20:27:41,822 Created temporary directory: /tmp/pip-wheel-6pnmtlfc
2021-05-26T20:27:41,865 1 location(s) to search for versions of pdb-eda:
2021-05-26T20:27:41,865 * https://pypi.org/simple/pdb-eda/
2021-05-26T20:27:41,865 Fetching project page and analyzing links: https://pypi.org/simple/pdb-eda/
2021-05-26T20:27:41,866 Getting page https://pypi.org/simple/pdb-eda/
2021-05-26T20:27:41,868 Found index url https://pypi.org/simple
2021-05-26T20:27:41,958   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
2021-05-26T20:27:41,958   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
2021-05-26T20:27:41,958   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
2021-05-26T20:27:41,959   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
2021-05-26T20:27:41,959   Found link https://files.pythonhosted.org/packages/73/cc/69df8716ed8a3f0391fd7525a48fe1a64984c3b38e8deea27f03f84c64b7/pdb_eda-2.1.3.tar.gz#sha256=34bc648660cafa35dba05540aa04c381af7d75a95d3638ce53cc5a7602841ea8 (from https://pypi.org/simple/pdb-eda/), version: 2.1.3
2021-05-26T20:27:41,959 Skipping link: not a file: https://pypi.org/simple/pdb-eda/
2021-05-26T20:27:41,974 Given no hashes to check 1 links for project 'pdb-eda': discarding no candidates
2021-05-26T20:27:41,989 Collecting pdb-eda==2.1.3
2021-05-26T20:27:41,990   Created temporary directory: /tmp/pip-unpack-blbdla33
2021-05-26T20:27:42,039   Downloading pdb_eda-2.1.3.tar.gz (2.7 MB)
2021-05-26T20:27:42,486   Added pdb-eda==2.1.3 from https://files.pythonhosted.org/packages/73/cc/69df8716ed8a3f0391fd7525a48fe1a64984c3b38e8deea27f03f84c64b7/pdb_eda-2.1.3.tar.gz#sha256=34bc648660cafa35dba05540aa04c381af7d75a95d3638ce53cc5a7602841ea8 to build tracker '/tmp/pip-req-tracker-g_d7f1qb'
2021-05-26T20:27:42,487     Running setup.py (path:/tmp/pip-wheel-6pnmtlfc/pdb-eda_ef3e6dd880e74d2d8b991c4b221f1cc5/setup.py) egg_info for package pdb-eda
2021-05-26T20:27:42,488     Created temporary directory: /tmp/pip-pip-egg-info-dj76xfsk
2021-05-26T20:27:42,489     Running command python setup.py egg_info
2021-05-26T20:27:44,119     running egg_info
2021-05-26T20:27:44,122     creating /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info
2021-05-26T20:27:44,123     writing /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/PKG-INFO
2021-05-26T20:27:44,126     writing dependency_links to /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/dependency_links.txt
2021-05-26T20:27:44,128     writing entry points to /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/entry_points.txt
2021-05-26T20:27:44,130     writing requirements to /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/requires.txt
2021-05-26T20:27:44,131     writing top-level names to /tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/top_level.txt
2021-05-26T20:27:44,134     writing manifest file '/tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/SOURCES.txt'
2021-05-26T20:27:44,304     adding license file 'LICENSE' (matched pattern 'LICEN[CS]E*')
2021-05-26T20:27:44,307     reading manifest file '/tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/SOURCES.txt'
2021-05-26T20:27:44,309     reading manifest template 'MANIFEST.in'
2021-05-26T20:27:44,310     warning: no files found matching 'docs/Makefile'
2021-05-26T20:27:44,310     warning: no files found matching '*.rst' under directory 'docs'
2021-05-26T20:27:44,310     warning: no files found matching '*.txt' under directory 'docs'
2021-05-26T20:27:44,311     warning: no files found matching '*.py' under directory 'docs'
2021-05-26T20:27:44,311     warning: no files found matching '*.png' under directory 'docs'
2021-05-26T20:27:44,330     warning: no previously-included files found matching 'pdb_eda/test*.py'
2021-05-26T20:27:44,331     warning: no previously-included files found matching 'pdb_eda/pdb_eda/cutils_setup.py'
2021-05-26T20:27:44,334     writing manifest file '/tmp/pip-pip-egg-info-dj76xfsk/pdb_eda.egg-info/SOURCES.txt'
2021-05-26T20:27:44,437   Source in /tmp/pip-wheel-6pnmtlfc/pdb-eda_ef3e6dd880e74d2d8b991c4b221f1cc5 has version 2.1.3, which satisfies requirement pdb-eda==2.1.3 from https://files.pythonhosted.org/packages/73/cc/69df8716ed8a3f0391fd7525a48fe1a64984c3b38e8deea27f03f84c64b7/pdb_eda-2.1.3.tar.gz#sha256=34bc648660cafa35dba05540aa04c381af7d75a95d3638ce53cc5a7602841ea8
2021-05-26T20:27:44,438   Removed pdb-eda==2.1.3 from https://files.pythonhosted.org/packages/73/cc/69df8716ed8a3f0391fd7525a48fe1a64984c3b38e8deea27f03f84c64b7/pdb_eda-2.1.3.tar.gz#sha256=34bc648660cafa35dba05540aa04c381af7d75a95d3638ce53cc5a7602841ea8 from build tracker '/tmp/pip-req-tracker-g_d7f1qb'
2021-05-26T20:27:44,443 Created temporary directory: /tmp/pip-unpack-jtug3jeo
2021-05-26T20:27:44,444 Building wheels for collected packages: pdb-eda
2021-05-26T20:27:44,449   Created temporary directory: /tmp/pip-wheel-e19p1xrn
2021-05-26T20:27:44,450   Building wheel for pdb-eda (setup.py): started
2021-05-26T20:27:44,451   Destination directory: /tmp/pip-wheel-e19p1xrn
2021-05-26T20:27:44,451   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-6pnmtlfc/pdb-eda_ef3e6dd880e74d2d8b991c4b221f1cc5/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-6pnmtlfc/pdb-eda_ef3e6dd880e74d2d8b991c4b221f1cc5/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-e19p1xrn
2021-05-26T20:27:46,026   running bdist_wheel
2021-05-26T20:27:46,031   running build
2021-05-26T20:27:46,031   running build_py
2021-05-26T20:27:46,177   creating build
2021-05-26T20:27:46,178   creating build/lib.linux-armv7l-3.7
2021-05-26T20:27:46,179   creating build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,180   copying pdb_eda/__main__.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,182   copying pdb_eda/ccp4.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,185   copying pdb_eda/__init__.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,186   copying pdb_eda/utils.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,189   copying pdb_eda/multipleStructures.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,191   copying pdb_eda/singleStructure.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,193   copying pdb_eda/optimizeParams.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,196   copying pdb_eda/pdbParser.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,199   copying pdb_eda/densityAnalysis.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,202   copying pdb_eda/generateParams.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,205   copying pdb_eda/crystalContacts.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,207   copying pdb_eda/cutils_setup.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,209   copying pdb_eda/fileUtils.py -> build/lib.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:46,212   creating build/lib.linux-armv7l-3.7/tests
2021-05-26T20:27:46,213   copying tests/__init__.py -> build/lib.linux-armv7l-3.7/tests
2021-05-26T20:27:46,216   copying tests/test_pdb.py -> build/lib.linux-armv7l-3.7/tests
2021-05-26T20:27:46,218   copying tests/test_ccp4.py -> build/lib.linux-armv7l-3.7/tests
2021-05-26T20:27:46,222   creating build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-05-26T20:27:46,223   copying pdb_eda/conf/f000_parameters.json.gz -> build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-05-26T20:27:46,284   copying pdb_eda/conf/optimized_params.json -> build/lib.linux-armv7l-3.7/pdb_eda/conf
2021-05-26T20:27:46,290   running build_ext
2021-05-26T20:27:46,296   cythoning pdb_eda/cutils.pyx to pdb_eda/cutils.c
2021-05-26T20:27:46,906   /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-6pnmtlfc/pdb-eda_ef3e6dd880e74d2d8b991c4b221f1cc5/pdb_eda/cutils.pyx
2021-05-26T20:27:46,906     tree = Parsing.p_module(s, pxd, full_module_name)
2021-05-26T20:27:47,540   building 'pdb_eda.cutils' extension
2021-05-26T20:27:47,540   creating build/temp.linux-armv7l-3.7
2021-05-26T20:27:47,541   creating build/temp.linux-armv7l-3.7/pdb_eda
2021-05-26T20:27:47,542   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
2021-05-26T20:28:04,928   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
2021-05-26T20:28:05,131   installing to build/bdist.linux-armv7l/wheel
2021-05-26T20:28:05,131   running install
2021-05-26T20:28:05,132   running install_lib
2021-05-26T20:28:05,137   creating build/bdist.linux-armv7l
2021-05-26T20:28:05,138   creating build/bdist.linux-armv7l/wheel
2021-05-26T20:28:05,140   creating build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,141   copying build/lib.linux-armv7l-3.7/pdb_eda/__main__.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,144   copying build/lib.linux-armv7l-3.7/pdb_eda/ccp4.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,148   copying build/lib.linux-armv7l-3.7/pdb_eda/__init__.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,151   copying build/lib.linux-armv7l-3.7/pdb_eda/utils.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,155   copying build/lib.linux-armv7l-3.7/pdb_eda/multipleStructures.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,158   copying build/lib.linux-armv7l-3.7/pdb_eda/singleStructure.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,161   copying build/lib.linux-armv7l-3.7/pdb_eda/optimizeParams.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,164   copying build/lib.linux-armv7l-3.7/pdb_eda/pdbParser.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,168   creating build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-05-26T20:28:05,169   copying build/lib.linux-armv7l-3.7/pdb_eda/conf/f000_parameters.json.gz -> build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-05-26T20:28:05,237   copying build/lib.linux-armv7l-3.7/pdb_eda/conf/optimized_params.json -> build/bdist.linux-armv7l/wheel/pdb_eda/conf
2021-05-26T20:28:05,241   copying build/lib.linux-armv7l-3.7/pdb_eda/densityAnalysis.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,245   copying build/lib.linux-armv7l-3.7/pdb_eda/cutils.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,273   copying build/lib.linux-armv7l-3.7/pdb_eda/generateParams.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,278   copying build/lib.linux-armv7l-3.7/pdb_eda/crystalContacts.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,281   copying build/lib.linux-armv7l-3.7/pdb_eda/cutils_setup.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,284   copying build/lib.linux-armv7l-3.7/pdb_eda/fileUtils.py -> build/bdist.linux-armv7l/wheel/pdb_eda
2021-05-26T20:28:05,287   creating build/bdist.linux-armv7l/wheel/tests
2021-05-26T20:28:05,288   copying build/lib.linux-armv7l-3.7/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2021-05-26T20:28:05,291   copying build/lib.linux-armv7l-3.7/tests/test_pdb.py -> build/bdist.linux-armv7l/wheel/tests
2021-05-26T20:28:05,294   copying build/lib.linux-armv7l-3.7/tests/test_ccp4.py -> build/bdist.linux-armv7l/wheel/tests
2021-05-26T20:28:05,297   running install_egg_info
2021-05-26T20:28:05,323   running egg_info
2021-05-26T20:28:05,325   writing pdb_eda.egg-info/PKG-INFO
2021-05-26T20:28:05,328   writing dependency_links to pdb_eda.egg-info/dependency_links.txt
2021-05-26T20:28:05,330   writing entry points to pdb_eda.egg-info/entry_points.txt
2021-05-26T20:28:05,332   writing requirements to pdb_eda.egg-info/requires.txt
2021-05-26T20:28:05,334   writing top-level names to pdb_eda.egg-info/top_level.txt
2021-05-26T20:28:05,345   adding license file 'LICENSE' (matched pattern 'LICEN[CS]E*')
2021-05-26T20:28:05,348   reading manifest file 'pdb_eda.egg-info/SOURCES.txt'
2021-05-26T20:28:05,352   reading manifest template 'MANIFEST.in'
2021-05-26T20:28:05,353   warning: no files found matching 'docs/Makefile'
2021-05-26T20:28:05,354   warning: no files found matching '*.rst' under directory 'docs'
2021-05-26T20:28:05,354   warning: no files found matching '*.txt' under directory 'docs'
2021-05-26T20:28:05,354   warning: no files found matching '*.py' under directory 'docs'
2021-05-26T20:28:05,355   warning: no files found matching '*.png' under directory 'docs'
2021-05-26T20:28:05,377   warning: no previously-included files found matching 'pdb_eda/test*.py'
2021-05-26T20:28:05,378   warning: no previously-included files found matching 'pdb_eda/pdb_eda/cutils_setup.py'
2021-05-26T20:28:05,382   writing manifest file 'pdb_eda.egg-info/SOURCES.txt'
2021-05-26T20:28:05,385   Copying pdb_eda.egg-info to build/bdist.linux-armv7l/wheel/pdb_eda-2.1.3-py3.7.egg-info
2021-05-26T20:28:05,403   running install_scripts
2021-05-26T20:28:05,466   adding license file "LICENSE" (matched pattern "LICEN[CS]E*")
2021-05-26T20:28:05,473   creating build/bdist.linux-armv7l/wheel/pdb_eda-2.1.3.dist-info/WHEEL
2021-05-26T20:28:05,476   creating '/tmp/pip-wheel-e19p1xrn/pdb_eda-2.1.3-cp37-cp37m-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-05-26T20:28:05,480   adding 'pdb_eda/__init__.py'
2021-05-26T20:28:05,482   adding 'pdb_eda/__main__.py'
2021-05-26T20:28:05,486   adding 'pdb_eda/ccp4.py'
2021-05-26T20:28:05,488   adding 'pdb_eda/crystalContacts.py'
2021-05-26T20:28:05,684   adding 'pdb_eda/cutils.cpython-37m-arm-linux-gnueabihf.so'
2021-05-26T20:28:05,691   adding 'pdb_eda/cutils_setup.py'
2021-05-26T20:28:05,697   adding 'pdb_eda/densityAnalysis.py'
2021-05-26T20:28:05,699   adding 'pdb_eda/fileUtils.py'
2021-05-26T20:28:05,702   adding 'pdb_eda/generateParams.py'
2021-05-26T20:28:05,705   adding 'pdb_eda/multipleStructures.py'
2021-05-26T20:28:05,709   adding 'pdb_eda/optimizeParams.py'
2021-05-26T20:28:05,711   adding 'pdb_eda/pdbParser.py'
2021-05-26T20:28:05,713   adding 'pdb_eda/singleStructure.py'
2021-05-26T20:28:05,715   adding 'pdb_eda/utils.py'
2021-05-26T20:28:06,045   adding 'pdb_eda/conf/f000_parameters.json.gz'
2021-05-26T20:28:06,069   adding 'pdb_eda/conf/optimized_params.json'
2021-05-26T20:28:06,073   adding 'tests/__init__.py'
2021-05-26T20:28:06,075   adding 'tests/test_ccp4.py'
2021-05-26T20:28:06,076   adding 'tests/test_pdb.py'
2021-05-26T20:28:06,078   adding 'pdb_eda-2.1.3.dist-info/LICENSE'
2021-05-26T20:28:06,080   adding 'pdb_eda-2.1.3.dist-info/METADATA'
2021-05-26T20:28:06,081   adding 'pdb_eda-2.1.3.dist-info/WHEEL'
2021-05-26T20:28:06,082   adding 'pdb_eda-2.1.3.dist-info/entry_points.txt'
2021-05-26T20:28:06,084   adding 'pdb_eda-2.1.3.dist-info/top_level.txt'
2021-05-26T20:28:06,084   adding 'pdb_eda-2.1.3.dist-info/RECORD'
2021-05-26T20:28:06,130   removing build/bdist.linux-armv7l/wheel
2021-05-26T20:28:06,333   Building wheel for pdb-eda (setup.py): finished with status 'done'
2021-05-26T20:28:06,368   Created wheel for pdb-eda: filename=pdb_eda-2.1.3-cp37-cp37m-linux_armv7l.whl size=3070160 sha256=1079a944c45916446b9f4c2e1465320321b816e036adadff4034c5e4bd181aab
2021-05-26T20:28:06,368   Stored in directory: /tmp/pip-ephem-wheel-cache-qjj1ehz0/wheels/27/d2/f3/ba7a2f2e7f5ad96cca8eab83d69f2b1e5d7e50d1dbf55d34e8
2021-05-26T20:28:06,381 Successfully built pdb-eda
2021-05-26T20:28:06,484 Removed build tracker: '/tmp/pip-req-tracker-g_d7f1qb'