2021-07-12T12:15:10,705 Created temporary directory: /tmp/pip-ephem-wheel-cache-d_rqtrmc
2021-07-12T12:15:10,707 Created temporary directory: /tmp/pip-req-tracker-3bpnalf2
2021-07-12T12:15:10,708 Initialized build tracking at /tmp/pip-req-tracker-3bpnalf2
2021-07-12T12:15:10,708 Created build tracker: /tmp/pip-req-tracker-3bpnalf2
2021-07-12T12:15:10,709 Entered build tracker: /tmp/pip-req-tracker-3bpnalf2
2021-07-12T12:15:10,709 Created temporary directory: /tmp/pip-wheel-85u7rdk3
2021-07-12T12:15:10,739 1 location(s) to search for versions of seqlib:
2021-07-12T12:15:10,739 * https://pypi.org/simple/seqlib/
2021-07-12T12:15:10,739 Fetching project page and analyzing links: https://pypi.org/simple/seqlib/
2021-07-12T12:15:10,740 Getting page https://pypi.org/simple/seqlib/
2021-07-12T12:15:10,741 Found index url https://pypi.org/simple
2021-07-12T12:15:10,830   Found link https://files.pythonhosted.org/packages/f4/6d/d435e3b52eac85931b422fb91c0072499fd6bf2407113b678a1fc7b45af3/seqlib-0.0.2.tar.gz#sha256=8cdebb37cfb507352026b08d97c84ca044d968c09b3cbe4a2fcec7a75745d108 (from https://pypi.org/simple/seqlib/), version: 0.0.2
2021-07-12T12:15:10,830   Found link https://files.pythonhosted.org/packages/92/c5/5e920fe60a3122bcf29e71c61e829f4282a80dd74be60fd0d0d41b199403/seqlib-0.0.3.tar.gz#sha256=1ef7389d3a2bf74472b77d77c28b5dd4b1f48488bb1a3f2ff5e64ea481003789 (from https://pypi.org/simple/seqlib/), version: 0.0.3
2021-07-12T12:15:10,847   Skipping link: none of the wheel's tags (cp36-cp36m-macosx_10_9_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/f0/04/ff9d870e2c374d0fa0b8127b0ab225c241fa6cbe28cb9cc58ad901fa0dd5/seqlib-0.0.5-cp36-cp36m-macosx_10_9_x86_64.whl#sha256=81e611485e82d85a1bc6f3107fe5c0cb0e2646490b54e51c38af8174a23dfd45 (from https://pypi.org/simple/seqlib/)
2021-07-12T12:15:10,848   Found link https://files.pythonhosted.org/packages/98/24/83eecf315d536649ef65bfa3f99cf3115674f5ab46217e6a8126256d96a2/seqlib-0.0.5.tar.gz#sha256=894079eb3845d680ced3358150c872508943af7c67d589bd42bce2f1d4a88a22 (from https://pypi.org/simple/seqlib/), version: 0.0.5
2021-07-12T12:15:10,848   Skipping link: none of the wheel's tags (cp36-cp36m-macosx_10_9_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/07/06/4177555c0421661b1d3d8a6d60c25df7527a4653792f76f6077a217f9e2b/seqlib-0.0.6-cp36-cp36m-macosx_10_9_x86_64.whl#sha256=3d06a237f1573c6f6c6b8150997d712f7b3f8ed5fdfb867ebe627329c5eb1148 (from https://pypi.org/simple/seqlib/)
2021-07-12T12:15:10,849   Found link https://files.pythonhosted.org/packages/62/35/8b843ab21b0a4cd669088097615d2a4008d683137485825f925bb3cb753b/seqlib-0.0.6.tar.gz#sha256=aa802c120213cd5b4a035bc57683766d766267e82a0ce918e019bc896c28a97e (from https://pypi.org/simple/seqlib/), version: 0.0.6
2021-07-12T12:15:10,849 Skipping link: not a file: https://pypi.org/simple/seqlib/
2021-07-12T12:15:10,850 Given no hashes to check 1 links for project 'seqlib': discarding no candidates
2021-07-12T12:15:10,869 Collecting seqlib==0.0.3
2021-07-12T12:15:10,870   Created temporary directory: /tmp/pip-unpack-era0j2hy
2021-07-12T12:15:11,890   Downloading seqlib-0.0.3.tar.gz (1.8 MB)
2021-07-12T12:15:13,267   Added seqlib==0.0.3 from https://files.pythonhosted.org/packages/92/c5/5e920fe60a3122bcf29e71c61e829f4282a80dd74be60fd0d0d41b199403/seqlib-0.0.3.tar.gz#sha256=1ef7389d3a2bf74472b77d77c28b5dd4b1f48488bb1a3f2ff5e64ea481003789 to build tracker '/tmp/pip-req-tracker-3bpnalf2'
2021-07-12T12:15:13,268     Running setup.py (path:/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py) egg_info for package seqlib
2021-07-12T12:15:13,269     Created temporary directory: /tmp/pip-pip-egg-info-p4isylhr
2021-07-12T12:15:13,269     Running command python setup.py egg_info
2021-07-12T12:15:14,426     running egg_info
2021-07-12T12:15:14,427     creating /tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info
2021-07-12T12:15:14,428     writing /tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/PKG-INFO
2021-07-12T12:15:14,431     writing dependency_links to /tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/dependency_links.txt
2021-07-12T12:15:14,433     writing requirements to /tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/requires.txt
2021-07-12T12:15:14,434     writing top-level names to /tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/top_level.txt
2021-07-12T12:15:14,435     writing manifest file '/tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/SOURCES.txt'
2021-07-12T12:15:14,587     reading manifest file '/tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/SOURCES.txt'
2021-07-12T12:15:14,588     reading manifest template 'MANIFEST.in'
2021-07-12T12:15:14,787     writing manifest file '/tmp/pip-pip-egg-info-p4isylhr/seqlib.egg-info/SOURCES.txt'
2021-07-12T12:15:14,863   Source in /tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3 has version 0.0.3, which satisfies requirement seqlib==0.0.3 from https://files.pythonhosted.org/packages/92/c5/5e920fe60a3122bcf29e71c61e829f4282a80dd74be60fd0d0d41b199403/seqlib-0.0.3.tar.gz#sha256=1ef7389d3a2bf74472b77d77c28b5dd4b1f48488bb1a3f2ff5e64ea481003789
2021-07-12T12:15:14,864   Removed seqlib==0.0.3 from https://files.pythonhosted.org/packages/92/c5/5e920fe60a3122bcf29e71c61e829f4282a80dd74be60fd0d0d41b199403/seqlib-0.0.3.tar.gz#sha256=1ef7389d3a2bf74472b77d77c28b5dd4b1f48488bb1a3f2ff5e64ea481003789 from build tracker '/tmp/pip-req-tracker-3bpnalf2'
2021-07-12T12:15:14,868 Created temporary directory: /tmp/pip-unpack-5t7vg1st
2021-07-12T12:15:14,869 Building wheels for collected packages: seqlib
2021-07-12T12:15:14,872   Created temporary directory: /tmp/pip-wheel-ztci02b6
2021-07-12T12:15:14,873   Building wheel for seqlib (setup.py): started
2021-07-12T12:15:14,873   Destination directory: /tmp/pip-wheel-ztci02b6
2021-07-12T12:15:14,873   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/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-ztci02b6
2021-07-12T12:15:16,037   running bdist_wheel
2021-07-12T12:15:16,043   running build
2021-07-12T12:15:16,043   running build_py
2021-07-12T12:15:16,183   creating build
2021-07-12T12:15:16,183   creating build/lib.linux-armv7l-3.9
2021-07-12T12:15:16,184   creating build/lib.linux-armv7l-3.9/seqlib
2021-07-12T12:15:16,185   copying src/seqlib/__init__.py -> build/lib.linux-armv7l-3.9/seqlib
2021-07-12T12:15:16,187   running build_ext
2021-07-12T12:15:16,195   creating tmp
2021-07-12T12:15:16,195   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/include/python3.9 -c /tmp/tmpxiqkazmv.cpp -o tmp/tmpxiqkazmv.o -std=c++14
2021-07-12T12:15:16,283   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/include/python3.9 -c /tmp/tmpva4dh7uu.cpp -o tmp/tmpva4dh7uu.o -fvisibility=hidden
2021-07-12T12:15:16,381   Running command: ./configure CFLAGS=-fPIC CXXFLAGS=-fPIC
2021-07-12T12:15:16,945   checking for a BSD-compatible install... /usr/bin/install -c
2021-07-12T12:15:16,964   checking whether build environment is sane... yes
2021-07-12T12:15:17,003   /tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib/missing: Unknown `--is-lightweight' option
2021-07-12T12:15:17,003   Try `/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib/missing --help' for more information
2021-07-12T12:15:17,004   configure: WARNING: 'missing' script is too old or missing
2021-07-12T12:15:17,018   checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
2021-07-12T12:15:17,021   checking for gawk... gawk
2021-07-12T12:15:17,060   checking whether make sets $(MAKE)... yes
2021-07-12T12:15:17,093   checking whether make supports nested variables... yes
2021-07-12T12:15:17,130   checking whether to enable maintainer-specific portions of Makefiles... no
2021-07-12T12:15:17,134   checking for g++... g++
2021-07-12T12:15:17,525   checking whether the C++ compiler works... yes
2021-07-12T12:15:17,527   checking for C++ compiler default output file name... a.out
2021-07-12T12:15:17,764   checking for suffix of executables...
2021-07-12T12:15:18,055   checking whether we are cross compiling... no
2021-07-12T12:15:18,168   checking for suffix of object files... o
2021-07-12T12:15:18,275   checking whether we are using the GNU C++ compiler... yes
2021-07-12T12:15:18,380   checking whether g++ accepts -g... yes
2021-07-12T12:15:18,406   checking for style of include used by make... GNU
2021-07-12T12:15:18,628   checking dependency style of g++... gcc3
2021-07-12T12:15:18,631   checking for gcc... gcc
2021-07-12T12:15:18,851   checking whether we are using the GNU C compiler... yes
2021-07-12T12:15:18,948   checking whether gcc accepts -g... yes
2021-07-12T12:15:19,071   checking for gcc option to accept ISO C89... none needed
2021-07-12T12:15:19,242   checking whether gcc understands -c and -o together... yes
2021-07-12T12:15:19,445   checking dependency style of gcc... gcc3
2021-07-12T12:15:19,448   checking for ranlib... ranlib
2021-07-12T12:15:19,606   checking how to run the C++ preprocessor... g++ -E
2021-07-12T12:15:19,773   checking for grep that handles long lines and -e... /usr/bin/grep
2021-07-12T12:15:19,783   checking for egrep... /usr/bin/grep -E
2021-07-12T12:15:20,388   checking for ANSI C header files... yes
2021-07-12T12:15:20,558   checking for sys/types.h... yes
2021-07-12T12:15:20,763   checking for sys/stat.h... yes
2021-07-12T12:15:20,965   checking for stdlib.h... yes
2021-07-12T12:15:21,177   checking for string.h... yes
2021-07-12T12:15:21,385   checking for memory.h... yes
2021-07-12T12:15:21,592   checking for strings.h... yes
2021-07-12T12:15:21,812   checking for inttypes.h... yes
2021-07-12T12:15:22,026   checking for stdint.h... yes
2021-07-12T12:15:22,252   checking for unistd.h... yes
2021-07-12T12:15:22,474   checking zlib.h usability... yes
2021-07-12T12:15:22,570   checking zlib.h presence... yes
2021-07-12T12:15:22,572   checking for zlib.h... yes
2021-07-12T12:15:23,169   checking for library containing gzopen... -lz
2021-07-12T12:15:23,435   checking for library containing clock_gettime... none required
2021-07-12T12:15:23,518   checking that generated files are newer than configure... done
2021-07-12T12:15:23,519   configure: creating ./config.status
2021-07-12T12:15:23,998   config.status: creating Makefile
2021-07-12T12:15:24,065   config.status: creating src/Makefile
2021-07-12T12:15:24,153   config.status: creating src/seqtools/Makefile
2021-07-12T12:15:24,240   config.status: creating config.h
2021-07-12T12:15:24,296   config.status: executing depfiles commands
2021-07-12T12:15:24,786   Running command: make
2021-07-12T12:15:24,824   make  all-recursive
2021-07-12T12:15:24,845   make[1]: Entering directory '/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib'
2021-07-12T12:15:24,871   Making all in bwa
2021-07-12T12:15:24,882   make[2]: Entering directory '/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib/bwa'
2021-07-12T12:15:24,893   gcc -c -g -Wall -Wno-unused-function -O2 -fPIC -DHAVE_PTHREAD -DUSE_MALLOC_WRAPPERS  utils.c -o utils.o
2021-07-12T12:15:26,346   gcc -c -g -Wall -Wno-unused-function -O2 -fPIC -DHAVE_PTHREAD -DUSE_MALLOC_WRAPPERS  kthread.c -o kthread.o
2021-07-12T12:15:26,632   gcc -c -g -Wall -Wno-unused-function -O2 -fPIC -DHAVE_PTHREAD -DUSE_MALLOC_WRAPPERS  ksw.c -o ksw.o
2021-07-12T12:15:26,708   ksw.c:29:10: fatal error: emmintrin.h: No such file or directory
2021-07-12T12:15:26,708      29 | #include <emmintrin.h>
2021-07-12T12:15:26,708         |          ^~~~~~~~~~~~~
2021-07-12T12:15:26,709   compilation terminated.
2021-07-12T12:15:26,711   make[2]: *** [Makefile:26: ksw.o] Error 1
2021-07-12T12:15:26,711   make[2]: Leaving directory '/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib/bwa'
2021-07-12T12:15:26,714   make[1]: *** [Makefile:358: all-recursive] Error 1
2021-07-12T12:15:26,714   make[1]: Leaving directory '/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/lib/SeqLib'
2021-07-12T12:15:26,714   make: *** [Makefile:299: all] Error 2
2021-07-12T12:15:26,716   Traceback (most recent call last):
2021-07-12T12:15:26,716     File "<string>", line 1, in <module>
2021-07-12T12:15:26,717     File "/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py", line 212, in <module>
2021-07-12T12:15:26,717       setup(
2021-07-12T12:15:26,718     File "/usr/local/lib/python3.9/dist-packages/setuptools/__init__.py", line 153, in setup
2021-07-12T12:15:26,718       return distutils.core.setup(**attrs)
2021-07-12T12:15:26,718     File "/usr/lib/python3.9/distutils/core.py", line 148, in setup
2021-07-12T12:15:26,718       dist.run_commands()
2021-07-12T12:15:26,719     File "/usr/lib/python3.9/distutils/dist.py", line 966, in run_commands
2021-07-12T12:15:26,720       self.run_command(cmd)
2021-07-12T12:15:26,720     File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
2021-07-12T12:15:26,721       cmd_obj.run()
2021-07-12T12:15:26,721     File "/usr/lib/python3/dist-packages/wheel/bdist_wheel.py", line 223, in run
2021-07-12T12:15:26,721       self.run_command('build')
2021-07-12T12:15:26,721     File "/usr/lib/python3.9/distutils/cmd.py", line 313, in run_command
2021-07-12T12:15:26,722       self.distribution.run_command(command)
2021-07-12T12:15:26,722     File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
2021-07-12T12:15:26,723       cmd_obj.run()
2021-07-12T12:15:26,723     File "/usr/lib/python3.9/distutils/command/build.py", line 135, in run
2021-07-12T12:15:26,724       self.run_command(cmd_name)
2021-07-12T12:15:26,724     File "/usr/lib/python3.9/distutils/cmd.py", line 313, in run_command
2021-07-12T12:15:26,724       self.distribution.run_command(command)
2021-07-12T12:15:26,724     File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
2021-07-12T12:15:26,725       cmd_obj.run()
2021-07-12T12:15:26,726     File "/usr/local/lib/python3.9/dist-packages/setuptools/command/build_ext.py", line 79, in run
2021-07-12T12:15:26,726       _build_ext.run(self)
2021-07-12T12:15:26,726     File "/usr/local/lib/python3.9/dist-packages/Cython/Distutils/old_build_ext.py", line 186, in run
2021-07-12T12:15:26,726       _build_ext.build_ext.run(self)
2021-07-12T12:15:26,727     File "/usr/lib/python3.9/distutils/command/build_ext.py", line 340, in run
2021-07-12T12:15:26,727       self.build_extensions()
2021-07-12T12:15:26,727     File "/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py", line 152, in build_extensions
2021-07-12T12:15:26,728       build_ext.build_extensions(self)
2021-07-12T12:15:26,728     File "/usr/local/lib/python3.9/dist-packages/Cython/Distutils/old_build_ext.py", line 195, in build_extensions
2021-07-12T12:15:26,728       _build_ext.build_ext.build_extensions(self)
2021-07-12T12:15:26,728     File "/usr/lib/python3.9/distutils/command/build_ext.py", line 449, in build_extensions
2021-07-12T12:15:26,729       self._build_extensions_serial()
2021-07-12T12:15:26,729     File "/usr/lib/python3.9/distutils/command/build_ext.py", line 474, in _build_extensions_serial
2021-07-12T12:15:26,730       self.build_extension(ext)
2021-07-12T12:15:26,730     File "/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py", line 157, in build_extension
2021-07-12T12:15:26,730       compile_seqlib()
2021-07-12T12:15:26,730     File "/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py", line 74, in compile_seqlib
2021-07-12T12:15:26,730       check_call("make")
2021-07-12T12:15:26,731     File "/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py", line 26, in check_call
2021-07-12T12:15:26,731       subprocess.check_call(command, shell=True)
2021-07-12T12:15:26,731     File "/usr/lib/python3.9/subprocess.py", line 373, in check_call
2021-07-12T12:15:26,732       raise CalledProcessError(retcode, cmd)
2021-07-12T12:15:26,732   subprocess.CalledProcessError: Command 'make' returned non-zero exit status 2.
2021-07-12T12:15:26,816   Building wheel for seqlib (setup.py): finished with status 'error'
2021-07-12T12:15:26,816   ERROR: Failed building wheel for seqlib
2021-07-12T12:15:26,817   Running setup.py clean for seqlib
2021-07-12T12:15:26,817   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-85u7rdk3/seqlib_f45ba8bc094b42f9bba51b057edfaca3/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'"'"'))' clean --all
2021-07-12T12:15:27,962   running clean
2021-07-12T12:15:27,964   removing 'build/lib.linux-armv7l-3.9' (and everything under it)
2021-07-12T12:15:27,966   'build/bdist.linux-armv7l' does not exist -- can't clean it
2021-07-12T12:15:27,967   'build/scripts-3.9' does not exist -- can't clean it
2021-07-12T12:15:27,967   removing 'build'
2021-07-12T12:15:28,035 Failed to build seqlib
2021-07-12T12:15:28,035 ERROR: Failed to build one or more wheels
2021-07-12T12:15:28,036 Exception information:
2021-07-12T12:15:28,036 Traceback (most recent call last):
2021-07-12T12:15:28,036   File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/base_command.py", line 180, in _main
2021-07-12T12:15:28,036     status = self.run(options, args)
2021-07-12T12:15:28,036   File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/req_command.py", line 205, in wrapper
2021-07-12T12:15:28,036     return func(self, options, args)
2021-07-12T12:15:28,036   File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/commands/wheel.py", line 174, in run
2021-07-12T12:15:28,036     raise CommandError(
2021-07-12T12:15:28,036 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2021-07-12T12:15:28,038 Removed build tracker: '/tmp/pip-req-tracker-3bpnalf2'