2019-07-17T03:22:34 Created temporary directory: /tmp/pip-ephem-wheel-cache-y8fr3rot
2019-07-17T03:22:34 Created temporary directory: /tmp/pip-req-tracker-kb5tu9j_
2019-07-17T03:22:34 Created requirements tracker '/tmp/pip-req-tracker-kb5tu9j_'
2019-07-17T03:22:34 Created temporary directory: /tmp/pip-wheel-e6yp1riq
2019-07-17T03:22:34 Collecting ld-estimator==1.0.4
2019-07-17T03:22:34   1 location(s) to search for versions of ld-estimator:
2019-07-17T03:22:34   * https://pypi.org/simple/ld-estimator/
2019-07-17T03:22:34   Getting page https://pypi.org/simple/ld-estimator/
2019-07-17T03:22:34   Analyzing links from page https://pypi.org/simple/ld-estimator/
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/ec/08/e7efe451732eb38f0df979b779d57b0f9f2d65ae3a5c54d91b8ef1f00155/ld_estimator-1.0.0.tar.gz#sha256=4bccee9d0ee071c93251c9cf83f49c3fd694a54e614b324e579eaea623544b0f (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.0
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/68/de/dd32c64d0155b2adcad94aaea5e9a18a509be7bc0cb2e0b25e143b5b67f0/ld_estimator-1.0.1.tar.gz#sha256=3c4756f950490fe16082a1d6755fe4ff15db7d16e66a397304a51f18f639066c (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.1
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/49/b9/a5da72cf83f50a32ae15e2356358d3e454b8095a9d252d9bda83a3e2eb2b/ld_estimator-1.0.2.tar.gz#sha256=a1847a727c7092a7932086a8b4d45cd7440160b4c506f27de3fcd89e4df98c7e (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.2
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/29/65/065f3eca02028744bcdd8446abeb88ab1287c738062d25b759259bc5502c/ld_estimator-1.0.3.tar.gz#sha256=4c7ff2b9f8cc628a08f377e72e65db8988db1b7a81f06a3423532046aca3b491 (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.3
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz#sha256=de1543ca307e011819237e81ac2d41de49d28cd94ca2e1a896f87de62853cac7 (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.4
2019-07-17T03:22:34     Found link https://files.pythonhosted.org/packages/ec/e0/94c5050125b17473f953fe2c922e7fc6693ab3a12e3197ea6487e694f36a/ld_estimator-1.0.5.tar.gz#sha256=8da7cd1c368ed7feb18acb6a41f748db0dd1cba4d126f3848e1bfd12301bd445 (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0), version: 1.0.5
2019-07-17T03:22:34   Using version 1.0.4 (newest of versions: 1.0.4)
2019-07-17T03:22:34   Created temporary directory: /tmp/pip-unpack-9ullfkqu
2019-07-17T03:22:34   Downloading https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz (96kB)
2019-07-17T03:22:34   Downloading from URL https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz#sha256=de1543ca307e011819237e81ac2d41de49d28cd94ca2e1a896f87de62853cac7 (from https://pypi.org/simple/ld-estimator/) (requires-python:>3.6.0)
2019-07-17T03:22:34   Added ld-estimator==1.0.4 from https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz#sha256=de1543ca307e011819237e81ac2d41de49d28cd94ca2e1a896f87de62853cac7 to build tracker '/tmp/pip-req-tracker-kb5tu9j_'
2019-07-17T03:22:34     Running setup.py (path:/tmp/pip-wheel-e6yp1riq/ld-estimator/setup.py) egg_info for package ld-estimator
2019-07-17T03:22:34     Running command python setup.py egg_info
2019-07-17T03:22:37     running egg_info
2019-07-17T03:22:37     creating pip-egg-info/ld_estimator.egg-info
2019-07-17T03:22:37     writing pip-egg-info/ld_estimator.egg-info/PKG-INFO
2019-07-17T03:22:37     writing dependency_links to pip-egg-info/ld_estimator.egg-info/dependency_links.txt
2019-07-17T03:22:37     writing requirements to pip-egg-info/ld_estimator.egg-info/requires.txt
2019-07-17T03:22:37     writing top-level names to pip-egg-info/ld_estimator.egg-info/top_level.txt
2019-07-17T03:22:37     writing manifest file 'pip-egg-info/ld_estimator.egg-info/SOURCES.txt'
2019-07-17T03:22:37     reading manifest file 'pip-egg-info/ld_estimator.egg-info/SOURCES.txt'
2019-07-17T03:22:37     reading manifest template 'MANIFEST.in'
2019-07-17T03:22:37     writing manifest file 'pip-egg-info/ld_estimator.egg-info/SOURCES.txt'
2019-07-17T03:22:38   Source in /tmp/pip-wheel-e6yp1riq/ld-estimator has version 1.0.4, which satisfies requirement ld-estimator==1.0.4 from https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz#sha256=de1543ca307e011819237e81ac2d41de49d28cd94ca2e1a896f87de62853cac7
2019-07-17T03:22:38   Removed ld-estimator==1.0.4 from https://files.pythonhosted.org/packages/8a/d1/564412c4454fa8127bea8b86a55200d6ba4d6b55839d85a78a8c55828b12/ld_estimator-1.0.4.tar.gz#sha256=de1543ca307e011819237e81ac2d41de49d28cd94ca2e1a896f87de62853cac7 from build tracker '/tmp/pip-req-tracker-kb5tu9j_'
2019-07-17T03:22:38 Building wheels for collected packages: ld-estimator
2019-07-17T03:22:38   Created temporary directory: /tmp/pip-wheel-t1u13ien
2019-07-17T03:22:38   Building wheel for ld-estimator (setup.py): started
2019-07-17T03:22:38   Destination directory: /tmp/pip-wheel-t1u13ien
2019-07-17T03:22:38   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-e6yp1riq/ld-estimator/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-t1u13ien
2019-07-17T03:22:40   running bdist_wheel
2019-07-17T03:22:40   running build
2019-07-17T03:22:40   running build_py
2019-07-17T03:22:40   creating build
2019-07-17T03:22:40   creating build/lib.linux-armv7l-3.7
2019-07-17T03:22:40   creating build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   copying ld_estimator/__init__.py -> build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   copying ld_estimator/region.py -> build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   copying ld_estimator/utils.py -> build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   copying ld_estimator/site.py -> build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   copying ld_estimator/linkage.py -> build/lib.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   running build_ext
2019-07-17T03:22:40   building 'ld_estimator.pairwise' extension
2019-07-17T03:22:40   creating build/temp.linux-armv7l-3.7
2019-07-17T03:22:40   creating build/temp.linux-armv7l-3.7/ld_estimator
2019-07-17T03:22:40   creating build/temp.linux-armv7l-3.7/src
2019-07-17T03:22:40   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 -Isrc/ -I/usr/include/python3.7m -c ld_estimator/pairwise.cpp -o build/temp.linux-armv7l-3.7/ld_estimator/pairwise.o -std=c++11
2019-07-17T03:22:55   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 -Isrc/ -I/usr/include/python3.7m -c src/ld.cpp -o build/temp.linux-armv7l-3.7/src/ld.o -std=c++11
2019-07-17T03:23:00   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 -Isrc/ -I/usr/include/python3.7m -c src/af.cpp -o build/temp.linux-armv7l-3.7/src/af.o -std=c++11
2019-07-17T03:23:01   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 -Isrc/ -I/usr/include/python3.7m -c src/confidence.cpp -o build/temp.linux-armv7l-3.7/src/confidence.o -std=c++11
2019-07-17T03:23:02   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 -Isrc/ -I/usr/include/python3.7m -c src/dprime.cpp -o build/temp.linux-armv7l-3.7/src/dprime.o -std=c++11
2019-07-17T03:23:03   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 -Isrc/ -I/usr/include/python3.7m -c src/flip.cpp -o build/temp.linux-armv7l-3.7/src/flip.o -std=c++11
2019-07-17T03:23:03   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 -Isrc/ -I/usr/include/python3.7m -c src/frequencies.cpp -o build/temp.linux-armv7l-3.7/src/frequencies.o -std=c++11
2019-07-17T03:23:04   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 -Isrc/ -I/usr/include/python3.7m -c src/likelihoods.cpp -o build/temp.linux-armv7l-3.7/src/likelihoods.o -std=c++11
2019-07-17T03:23:05   In file included from /usr/include/c++/8/vector:69,
2019-07-17T03:23:05                    from src/likelihoods.h:4,
2019-07-17T03:23:05                    from src/likelihoods.cpp:2:
2019-07-17T03:23:05   /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]’:
2019-07-17T03:23:05   /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector<double>::iterator’ {aka ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’} changed in GCC 7.1
2019-07-17T03:23:05          vector<_Tp, _Alloc>::
2019-07-17T03:23:05          ^~~~~~~~~~~~~~~~~~~
2019-07-17T03:23:05   In file included from /usr/include/c++/8/vector:64,
2019-07-17T03:23:05                    from src/likelihoods.h:4,
2019-07-17T03:23:05                    from src/likelihoods.cpp:2:
2019-07-17T03:23:05   /usr/include/c++/8/bits/stl_vector.h: In function ‘std::vector<double> ld_estimator::get_lsurface(double, double, double, double, ld_estimator::Haps<int>, int)’:
2019-07-17T03:23:05   /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator<double*, std::vector<double> >’ changed in GCC 7.1
2019-07-17T03:23:05       _M_realloc_insert(end(), __x);
2019-07-17T03:23:05       ^~~~~~~~~~~~~~~~~
2019-07-17T03:23:05   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 -Isrc/ -I/usr/include/python3.7m -c src/optimize.cpp -o build/temp.linux-armv7l-3.7/src/optimize.o -std=c++11
2019-07-17T03:23:06   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 -Isrc/ -I/usr/include/python3.7m -c src/tallies.cpp -o build/temp.linux-armv7l-3.7/src/tallies.o -std=c++11
2019-07-17T03:23:14   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 -Isrc/ -I/usr/include/python3.7m -c src/utils.cpp -o build/temp.linux-armv7l-3.7/src/utils.o -std=c++11
2019-07-17T03:23:21   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/ld_estimator/pairwise.o build/temp.linux-armv7l-3.7/src/ld.o build/temp.linux-armv7l-3.7/src/af.o build/temp.linux-armv7l-3.7/src/confidence.o build/temp.linux-armv7l-3.7/src/dprime.o build/temp.linux-armv7l-3.7/src/flip.o build/temp.linux-armv7l-3.7/src/frequencies.o build/temp.linux-armv7l-3.7/src/likelihoods.o build/temp.linux-armv7l-3.7/src/optimize.o build/temp.linux-armv7l-3.7/src/tallies.o build/temp.linux-armv7l-3.7/src/utils.o -o build/lib.linux-armv7l-3.7/ld_estimator/pairwise.cpython-37m-arm-linux-gnueabihf.so
2019-07-17T03:23:21   installing to build/bdist.linux-armv7l/wheel
2019-07-17T03:23:21   running install
2019-07-17T03:23:21   running install_lib
2019-07-17T03:23:21   creating build/bdist.linux-armv7l
2019-07-17T03:23:21   creating build/bdist.linux-armv7l/wheel
2019-07-17T03:23:21   creating build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:21   copying build/lib.linux-armv7l-3.7/ld_estimator/__init__.py -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:21   copying build/lib.linux-armv7l-3.7/ld_estimator/pairwise.cpython-37m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:22   copying build/lib.linux-armv7l-3.7/ld_estimator/region.py -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:22   copying build/lib.linux-armv7l-3.7/ld_estimator/utils.py -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:22   copying build/lib.linux-armv7l-3.7/ld_estimator/site.py -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:22   copying build/lib.linux-armv7l-3.7/ld_estimator/linkage.py -> build/bdist.linux-armv7l/wheel/ld_estimator
2019-07-17T03:23:22   running install_egg_info
2019-07-17T03:23:22   running egg_info
2019-07-17T03:23:22   writing ld_estimator.egg-info/PKG-INFO
2019-07-17T03:23:22   writing dependency_links to ld_estimator.egg-info/dependency_links.txt
2019-07-17T03:23:22   writing requirements to ld_estimator.egg-info/requires.txt
2019-07-17T03:23:22   writing top-level names to ld_estimator.egg-info/top_level.txt
2019-07-17T03:23:22   reading manifest file 'ld_estimator.egg-info/SOURCES.txt'
2019-07-17T03:23:22   reading manifest template 'MANIFEST.in'
2019-07-17T03:23:22   writing manifest file 'ld_estimator.egg-info/SOURCES.txt'
2019-07-17T03:23:22   Copying ld_estimator.egg-info to build/bdist.linux-armv7l/wheel/ld_estimator-1.0.4-py3.7.egg-info
2019-07-17T03:23:22   running install_scripts
2019-07-17T03:23:22   creating build/bdist.linux-armv7l/wheel/ld_estimator-1.0.4.dist-info/WHEEL
2019-07-17T03:23:22   creating '/tmp/pip-wheel-t1u13ien/ld_estimator-1.0.4-cp37-cp37m-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2019-07-17T03:23:22   adding 'ld_estimator/__init__.py'
2019-07-17T03:23:22   adding 'ld_estimator/linkage.py'
2019-07-17T03:23:22   adding 'ld_estimator/pairwise.cpython-37m-arm-linux-gnueabihf.so'
2019-07-17T03:23:22   adding 'ld_estimator/region.py'
2019-07-17T03:23:22   adding 'ld_estimator/site.py'
2019-07-17T03:23:22   adding 'ld_estimator/utils.py'
2019-07-17T03:23:22   adding 'ld_estimator-1.0.4.dist-info/METADATA'
2019-07-17T03:23:22   adding 'ld_estimator-1.0.4.dist-info/WHEEL'
2019-07-17T03:23:22   adding 'ld_estimator-1.0.4.dist-info/top_level.txt'
2019-07-17T03:23:22   adding 'ld_estimator-1.0.4.dist-info/RECORD'
2019-07-17T03:23:22   removing build/bdist.linux-armv7l/wheel
2019-07-17T03:23:23   Building wheel for ld-estimator (setup.py): finished with status 'done'
2019-07-17T03:23:23   Stored in directory: /tmp/tmpl9gu52k3
2019-07-17T03:23:23 Successfully built ld-estimator
2019-07-17T03:23:23 Cleaning up...
2019-07-17T03:23:23   Removing source in /tmp/pip-wheel-e6yp1riq/ld-estimator
2019-07-17T03:23:23 Removed build tracker '/tmp/pip-req-tracker-kb5tu9j_'