2021-07-14T23:03:09,987 Created temporary directory: /tmp/pip-ephem-wheel-cache-h9_lduql
2021-07-14T23:03:09,991 Created temporary directory: /tmp/pip-req-tracker-w2zpz25a
2021-07-14T23:03:09,991 Initialized build tracking at /tmp/pip-req-tracker-w2zpz25a
2021-07-14T23:03:09,991 Created build tracker: /tmp/pip-req-tracker-w2zpz25a
2021-07-14T23:03:09,991 Entered build tracker: /tmp/pip-req-tracker-w2zpz25a
2021-07-14T23:03:09,992 Created temporary directory: /tmp/pip-wheel-8gpt3shp
2021-07-14T23:03:10,022 1 location(s) to search for versions of hits:
2021-07-14T23:03:10,022 * https://pypi.org/simple/hits/
2021-07-14T23:03:10,022 Fetching project page and analyzing links: https://pypi.org/simple/hits/
2021-07-14T23:03:10,023 Getting page https://pypi.org/simple/hits/
2021-07-14T23:03:10,025 Found index url https://pypi.org/simple
2021-07-14T23:03:10,123   Found link https://files.pythonhosted.org/packages/bd/a4/dab4eb36d5c301d6f60030768d14deae128e5baa9d6344eda764825d5ab7/hits-0.0.2.tar.gz#sha256=c290e0adae5371b003d2b222fe20a107f5e48fee64e3ff34207020df27a2b640 (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.0.2
2021-07-14T23:03:10,124   Found link https://files.pythonhosted.org/packages/4f/da/e8976e983ced405ede20b732db2cc427af7c93d14dcaf62147303742d7ec/hits-0.0.4.tar.gz#sha256=c42363838f385054dec09818e867cecf074e844d508d0ecdb24a35e33e025c37 (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.0.4
2021-07-14T23:03:10,125   Found link https://files.pythonhosted.org/packages/3b/b9/f2184537f182cb3456dbe14209b08019a80f064c5ec76ca0e29c01e85b45/hits-0.0.5.tar.gz#sha256=2e28072c28c056e43576bd5c8161aa94b0358d81a01795f8d1f9dd75763f0d92 (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.0.5
2021-07-14T23:03:10,125   Found link https://files.pythonhosted.org/packages/bc/d3/e1c183519ed10a4c5aecb860080c4d0178419ded77dbfd10b249f991dbca/hits-0.0.6.tar.gz#sha256=5ded6559414f41a88a4e5ff6e9b3b333f6c0257717c083c85a6b5bec6322101f (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.0.6
2021-07-14T23:03:10,126   Found link https://files.pythonhosted.org/packages/36/12/1e518a921f843e31b49c74080310bd0a99d4bc5701bb9c26e74e4d7e293d/hits-0.0.7.tar.gz#sha256=289008535d0c7dfc0690f26d0b798fc015f9d202a942176f56292851ad9667a7 (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.0.7
2021-07-14T23:03:10,126   Found link https://files.pythonhosted.org/packages/16/eb/7875f9d6728a25ea1ebf15e1b1fd7f17956b6bd984247a9402d3a3354530/hits-0.1.tar.gz#sha256=d522045c7c5f7bb68645c99bf5fde7601ecfb8f13d7c0d94090a5fd84bb86feb (from https://pypi.org/simple/hits/) (requires-python:>=3.6), version: 0.1
2021-07-14T23:03:10,127 Skipping link: not a file: https://pypi.org/simple/hits/
2021-07-14T23:03:10,145 Given no hashes to check 1 links for project 'hits': discarding no candidates
2021-07-14T23:03:10,167 Collecting hits==0.0.7
2021-07-14T23:03:10,169   Created temporary directory: /tmp/pip-unpack-xlevygz5
2021-07-14T23:03:10,807   Downloading hits-0.0.7.tar.gz (1.1 MB)
2021-07-14T23:03:11,223   Added hits==0.0.7 from https://files.pythonhosted.org/packages/36/12/1e518a921f843e31b49c74080310bd0a99d4bc5701bb9c26e74e4d7e293d/hits-0.0.7.tar.gz#sha256=289008535d0c7dfc0690f26d0b798fc015f9d202a942176f56292851ad9667a7 to build tracker '/tmp/pip-req-tracker-w2zpz25a'
2021-07-14T23:03:11,224     Running setup.py (path:/tmp/pip-wheel-8gpt3shp/hits_2935e304057447d49e90091de22fb710/setup.py) egg_info for package hits
2021-07-14T23:03:11,225     Created temporary directory: /tmp/pip-pip-egg-info-cgf9rdrc
2021-07-14T23:03:11,226     Running command python setup.py egg_info
2021-07-14T23:03:12,502     running egg_info
2021-07-14T23:03:12,505     creating /tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info
2021-07-14T23:03:12,506     writing /tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/PKG-INFO
2021-07-14T23:03:12,508     writing dependency_links to /tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/dependency_links.txt
2021-07-14T23:03:12,510     writing requirements to /tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/requires.txt
2021-07-14T23:03:12,512     writing top-level names to /tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/top_level.txt
2021-07-14T23:03:12,514     writing manifest file '/tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/SOURCES.txt'
2021-07-14T23:03:12,878     reading manifest file '/tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/SOURCES.txt'
2021-07-14T23:03:12,885     writing manifest file '/tmp/pip-pip-egg-info-cgf9rdrc/hits.egg-info/SOURCES.txt'
2021-07-14T23:03:12,974   Source in /tmp/pip-wheel-8gpt3shp/hits_2935e304057447d49e90091de22fb710 has version 0.0.7, which satisfies requirement hits==0.0.7 from https://files.pythonhosted.org/packages/36/12/1e518a921f843e31b49c74080310bd0a99d4bc5701bb9c26e74e4d7e293d/hits-0.0.7.tar.gz#sha256=289008535d0c7dfc0690f26d0b798fc015f9d202a942176f56292851ad9667a7
2021-07-14T23:03:12,975   Removed hits==0.0.7 from https://files.pythonhosted.org/packages/36/12/1e518a921f843e31b49c74080310bd0a99d4bc5701bb9c26e74e4d7e293d/hits-0.0.7.tar.gz#sha256=289008535d0c7dfc0690f26d0b798fc015f9d202a942176f56292851ad9667a7 from build tracker '/tmp/pip-req-tracker-w2zpz25a'
2021-07-14T23:03:12,981 Created temporary directory: /tmp/pip-unpack-0ygffimv
2021-07-14T23:03:12,981 Building wheels for collected packages: hits
2021-07-14T23:03:12,986   Created temporary directory: /tmp/pip-wheel-179q1n0r
2021-07-14T23:03:12,986   Building wheel for hits (setup.py): started
2021-07-14T23:03:12,987   Destination directory: /tmp/pip-wheel-179q1n0r
2021-07-14T23:03:12,987   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-8gpt3shp/hits_2935e304057447d49e90091de22fb710/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-8gpt3shp/hits_2935e304057447d49e90091de22fb710/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-179q1n0r
2021-07-14T23:03:14,314   running bdist_wheel
2021-07-14T23:03:14,477   running build
2021-07-14T23:03:14,477   running build_py
2021-07-14T23:03:14,618   creating build
2021-07-14T23:03:14,619   creating build/lib.linux-armv7l-3.9
2021-07-14T23:03:14,620   creating build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,621   copying hits/utilities.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,623   copying hits/fasta.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,625   copying hits/visualize_structure.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,628   copying hits/fastq.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,631   copying hits/genetic_code.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,632   copying hits/external_sort.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,634   copying hits/adapters.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,637   copying hits/annotation.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,639   copying hits/mapping_tools.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,642   copying hits/bus.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,644   copying hits/sam.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,648   copying hits/variants.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,651   copying hits/interval.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,654   copying hits/__init__.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,656   copying hits/gff.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,659   copying hits/sw.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,663   copying hits/genomes.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,666   copying hits/ipython.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,668   copying hits/intensities_illumina.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,671   copying hits/paired_end.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T23:03:14,675   creating build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T23:03:14,676   copying hits/visualize/fastq.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T23:03:14,679   copying hits/visualize/define_igv_colors.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T23:03:14,681   copying hits/visualize/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T23:03:14,684   copying hits/visualize/gels.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T23:03:14,689   creating build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,690   copying hits/visualize/interactive/pc.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,693   copying hits/visualize/interactive/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,697   copying hits/visualize/interactive/external_coffeescript.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,705   copying hits/visualize/interactive/scatter_case_sensitive.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,707   copying hits/visualize/interactive/scatter_label.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,710   copying hits/visualize/interactive/pc_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,713   copying hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,716   copying hits/visualize/interactive/scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,718   copying hits/visualize/interactive/scatter_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,721   copying hits/visualize/interactive/scatter_grid.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,723   copying hits/visualize/interactive/pc_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,726   copying hits/visualize/interactive/pc_hover.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,728   copying hits/visualize/interactive/scatter_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,731   copying hits/visualize/interactive/screen_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,734   copying hits/visualize/interactive/pc_box_select.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,737   copying hits/visualize/interactive/scatter_alpha.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,740   copying hits/visualize/interactive/scatter_heatmap.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,743   copying hits/visualize/interactive/scatter_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,745   copying hits/visualize/interactive/scatter_subset_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,748   copying hits/visualize/interactive/screen_errorbars_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,750   copying hits/visualize/interactive/screen_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,753   copying hits/visualize/interactive/scatter_two_level_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,756   copying hits/visualize/interactive/scatter_annotation_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,758   copying hits/visualize/interactive/screen_significance_filter.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,761   copying hits/visualize/interactive/scatter_color.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,764   copying hits/visualize/interactive/scatter_save_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,766   copying hits/visualize/interactive/scatter_cluster_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,769   copying hits/visualize/interactive/pc_clear.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,772   copying hits/visualize/interactive/screen_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,774   copying hits/visualize/interactive/scatter_size_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,777   copying hits/visualize/interactive/scatter_size.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,779   copying hits/visualize/interactive/scatter_label_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,782   copying hits/visualize/interactive/screen_scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,785   copying hits/visualize/interactive/example_df.txt -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T23:03:14,850   running build_ext
2021-07-14T23:03:14,855   cythoning hits/adapters_cython.pyx to hits/adapters_cython.c
2021-07-14T23:03:15,710   cythoning hits/fastq_cython.pyx to hits/fastq_cython.c
2021-07-14T23:03:22,462   cythoning hits/sw_cython.pyx to hits/sw_cython.c
2021-07-14T23:03:28,072   building 'adapters_cython' extension
2021-07-14T23:03:28,073   creating build/temp.linux-armv7l-3.9
2021-07-14T23:03:28,073   creating build/temp.linux-armv7l-3.9/hits
2021-07-14T23:03:28,074   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 hits/adapters_cython.c -o build/temp.linux-armv7l-3.9/hits/adapters_cython.o
2021-07-14T23:03:29,922   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -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 build/temp.linux-armv7l-3.9/hits/adapters_cython.o -o build/lib.linux-armv7l-3.9/hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so
2021-07-14T23:03:30,042   building 'fastq_cython' extension
2021-07-14T23:03:30,042   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 hits/fastq_cython.c -o build/temp.linux-armv7l-3.9/hits/fastq_cython.o
2021-07-14T23:03:30,458   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_2process_read’:
2021-07-14T23:03:30,460   hits/fastq_cython.c:2645:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-14T23:03:30,460    2645 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-14T23:03:30,460         |                             ^~
2021-07-14T23:03:30,465   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_4process_Alignment’:
2021-07-14T23:03:30,467   hits/fastq_cython.c:2919:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-14T23:03:30,467    2919 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-14T23:03:30,467         |                             ^~
2021-07-14T23:03:42,505   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -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 build/temp.linux-armv7l-3.9/hits/fastq_cython.o -o build/lib.linux-armv7l-3.9/hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so
2021-07-14T23:03:42,671   building 'sw_cython' extension
2021-07-14T23:03:42,672   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 hits/sw_cython.c -o build/temp.linux-armv7l-3.9/hits/sw_cython.o
2021-07-14T23:03:43,093   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_generate_matrices’:
2021-07-14T23:03:43,095   hits/sw_cython.c:2675:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,095    2675 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T23:03:43,095         |                                     ^
2021-07-14T23:03:43,099   hits/sw_cython.c:2736:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,099    2736 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T23:03:43,099         |                                     ^
2021-07-14T23:03:43,103   hits/sw_cython.c:2811:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,104    2811 |   for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T23:03:43,104         |                                   ^
2021-07-14T23:03:43,105   hits/sw_cython.c:2824:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,105    2824 |     for (__pyx_t_18 = 1; __pyx_t_18 < __pyx_t_17; __pyx_t_18+=1) {
2021-07-14T23:03:43,106         |                                     ^
2021-07-14T23:03:43,158   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_4extend_perfect_seed’:
2021-07-14T23:03:43,160   hits/sw_cython.c:4880:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T23:03:43,160    4880 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_3) != 0);
2021-07-14T23:03:43,161         |                                     ^
2021-07-14T23:03:43,163   hits/sw_cython.c:4887:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T23:03:43,163    4887 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_3) != 0);
2021-07-14T23:03:43,164         |                                      ^
2021-07-14T23:03:43,172   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_6extend_perfect_seed_with_one_nt_deletion’:
2021-07-14T23:03:43,175   hits/sw_cython.c:5202:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T23:03:43,175    5202 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_4) != 0);
2021-07-14T23:03:43,176         |                                     ^
2021-07-14T23:03:43,178   hits/sw_cython.c:5209:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T23:03:43,179    5209 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_4) != 0);
2021-07-14T23:03:43,179         |                                      ^
2021-07-14T23:03:43,187   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_8mismatches_at_offset’:
2021-07-14T23:03:43,190   hits/sw_cython.c:5495:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,190    5495 |   for (__pyx_t_12 = 0; __pyx_t_12 < __pyx_t_11; __pyx_t_12+=1) {
2021-07-14T23:03:43,190         |                                   ^
2021-07-14T23:03:43,193   hits/sw_cython.c:5507:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T23:03:43,194    5507 |     for (__pyx_t_14 = 0; __pyx_t_14 < __pyx_t_13; __pyx_t_14+=1) {
2021-07-14T23:03:43,194         |                                     ^
2021-07-14T23:03:57,859   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -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 build/temp.linux-armv7l-3.9/hits/sw_cython.o -o build/lib.linux-armv7l-3.9/hits/sw_cython.cpython-39-arm-linux-gnueabihf.so
2021-07-14T23:03:58,041   installing to build/bdist.linux-armv7l/wheel
2021-07-14T23:03:58,041   running install
2021-07-14T23:03:58,043   running install_lib
2021-07-14T23:03:58,048   creating build/bdist.linux-armv7l
2021-07-14T23:03:58,048   creating build/bdist.linux-armv7l/wheel
2021-07-14T23:03:58,051   creating build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,052   copying build/lib.linux-armv7l-3.9/hits/utilities.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,055   copying build/lib.linux-armv7l-3.9/hits/fasta.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,057   copying build/lib.linux-armv7l-3.9/hits/visualize_structure.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,060   copying build/lib.linux-armv7l-3.9/hits/fastq.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,063   copying build/lib.linux-armv7l-3.9/hits/genetic_code.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,065   copying build/lib.linux-armv7l-3.9/hits/external_sort.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,067   copying build/lib.linux-armv7l-3.9/hits/adapters.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,070   copying build/lib.linux-armv7l-3.9/hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,094   copying build/lib.linux-armv7l-3.9/hits/annotation.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,096   copying build/lib.linux-armv7l-3.9/hits/mapping_tools.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,099   creating build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T23:03:58,101   creating build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,102   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_case_sensitive.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,104   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,106   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,108   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,110   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,112   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,114   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_grid.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,116   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,118   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_hover.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,120   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,122   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,124   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_box_select.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,126   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_alpha.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,128   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_heatmap.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,130   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,132   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,135   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_subset_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,137   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_errorbars_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,139   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,141   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_two_level_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,144   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,147   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_annotation_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,149   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_significance_filter.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,151   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_color.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,154   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_save_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,156   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_cluster_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,158   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_clear.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,160   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,162   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,164   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,166   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/example_df.txt -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,227   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,229   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,231   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/external_coffeescript.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T23:03:58,234   copying build/lib.linux-armv7l-3.9/hits/visualize/fastq.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T23:03:58,237   copying build/lib.linux-armv7l-3.9/hits/visualize/define_igv_colors.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T23:03:58,239   copying build/lib.linux-armv7l-3.9/hits/visualize/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T23:03:58,243   copying build/lib.linux-armv7l-3.9/hits/visualize/gels.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T23:03:58,246   copying build/lib.linux-armv7l-3.9/hits/bus.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,249   copying build/lib.linux-armv7l-3.9/hits/sam.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,253   copying build/lib.linux-armv7l-3.9/hits/variants.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,257   copying build/lib.linux-armv7l-3.9/hits/interval.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,260   copying build/lib.linux-armv7l-3.9/hits/__init__.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,262   copying build/lib.linux-armv7l-3.9/hits/gff.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,265   copying build/lib.linux-armv7l-3.9/hits/sw.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,269   copying build/lib.linux-armv7l-3.9/hits/genomes.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,272   copying build/lib.linux-armv7l-3.9/hits/ipython.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,275   copying build/lib.linux-armv7l-3.9/hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,281   copying build/lib.linux-armv7l-3.9/hits/intensities_illumina.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,284   copying build/lib.linux-armv7l-3.9/hits/paired_end.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,287   copying build/lib.linux-armv7l-3.9/hits/sw_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T23:03:58,315   running install_egg_info
2021-07-14T23:03:58,342   running egg_info
2021-07-14T23:03:58,343   writing hits.egg-info/PKG-INFO
2021-07-14T23:03:58,345   writing dependency_links to hits.egg-info/dependency_links.txt
2021-07-14T23:03:58,347   writing requirements to hits.egg-info/requires.txt
2021-07-14T23:03:58,348   writing top-level names to hits.egg-info/top_level.txt
2021-07-14T23:03:58,401   reading manifest file 'hits.egg-info/SOURCES.txt'
2021-07-14T23:03:58,414   writing manifest file 'hits.egg-info/SOURCES.txt'
2021-07-14T23:03:58,416   Copying hits.egg-info to build/bdist.linux-armv7l/wheel/hits-0.0.7-py3.9.egg-info
2021-07-14T23:03:58,429   running install_scripts
2021-07-14T23:03:58,493   creating build/bdist.linux-armv7l/wheel/hits-0.0.7.dist-info/WHEEL
2021-07-14T23:03:58,496   creating '/tmp/pip-wheel-179q1n0r/hits-0.0.7-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-14T23:03:58,500   adding 'hits/__init__.py'
2021-07-14T23:03:58,501   adding 'hits/adapters.py'
2021-07-14T23:03:58,529   adding 'hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T23:03:58,532   adding 'hits/annotation.py'
2021-07-14T23:03:58,534   adding 'hits/bus.py'
2021-07-14T23:03:58,535   adding 'hits/external_sort.py'
2021-07-14T23:03:58,537   adding 'hits/fasta.py'
2021-07-14T23:03:58,539   adding 'hits/fastq.py'
2021-07-14T23:03:58,712   adding 'hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T23:03:58,720   adding 'hits/genetic_code.py'
2021-07-14T23:03:58,722   adding 'hits/genomes.py'
2021-07-14T23:03:58,724   adding 'hits/gff.py'
2021-07-14T23:03:58,726   adding 'hits/intensities_illumina.py'
2021-07-14T23:03:58,729   adding 'hits/interval.py'
2021-07-14T23:03:58,730   adding 'hits/ipython.py'
2021-07-14T23:03:58,734   adding 'hits/mapping_tools.py'
2021-07-14T23:03:58,738   adding 'hits/paired_end.py'
2021-07-14T23:03:58,746   adding 'hits/sam.py'
2021-07-14T23:03:58,751   adding 'hits/sw.py'
2021-07-14T23:03:58,959   adding 'hits/sw_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T23:03:58,969   adding 'hits/utilities.py'
2021-07-14T23:03:58,972   adding 'hits/variants.py'
2021-07-14T23:03:58,976   adding 'hits/visualize_structure.py'
2021-07-14T23:03:58,979   adding 'hits/visualize/__init__.py'
2021-07-14T23:03:58,981   adding 'hits/visualize/define_igv_colors.py'
2021-07-14T23:03:58,983   adding 'hits/visualize/fastq.py'
2021-07-14T23:03:58,987   adding 'hits/visualize/gels.py'
2021-07-14T23:03:58,995   adding 'hits/visualize/interactive/__init__.py'
2021-07-14T23:03:59,448   adding 'hits/visualize/interactive/example_df.txt'
2021-07-14T23:03:59,471   adding 'hits/visualize/interactive/external_coffeescript.py'
2021-07-14T23:03:59,474   adding 'hits/visualize/interactive/pc.py'
2021-07-14T23:03:59,475   adding 'hits/visualize/interactive/pc_box_select.coffee'
2021-07-14T23:03:59,477   adding 'hits/visualize/interactive/pc_clear.coffee'
2021-07-14T23:03:59,478   adding 'hits/visualize/interactive/pc_hover.coffee'
2021-07-14T23:03:59,480   adding 'hits/visualize/interactive/pc_search.coffee'
2021-07-14T23:03:59,481   adding 'hits/visualize/interactive/pc_selection.coffee'
2021-07-14T23:03:59,483   adding 'hits/visualize/interactive/scatter_alpha.coffee'
2021-07-14T23:03:59,484   adding 'hits/visualize/interactive/scatter_annotation_button.coffee'
2021-07-14T23:03:59,486   adding 'hits/visualize/interactive/scatter_case_sensitive.coffee'
2021-07-14T23:03:59,487   adding 'hits/visualize/interactive/scatter_cluster_button.coffee'
2021-07-14T23:03:59,489   adding 'hits/visualize/interactive/scatter_color.coffee'
2021-07-14T23:03:59,490   adding 'hits/visualize/interactive/scatter_grid.coffee'
2021-07-14T23:03:59,492   adding 'hits/visualize/interactive/scatter_heatmap.coffee'
2021-07-14T23:03:59,493   adding 'hits/visualize/interactive/scatter_label.coffee'
2021-07-14T23:03:59,495   adding 'hits/visualize/interactive/scatter_label_button.coffee'
2021-07-14T23:03:59,496   adding 'hits/visualize/interactive/scatter_menu.coffee'
2021-07-14T23:03:59,498   adding 'hits/visualize/interactive/scatter_range.coffee'
2021-07-14T23:03:59,499   adding 'hits/visualize/interactive/scatter_save_button.coffee'
2021-07-14T23:03:59,501   adding 'hits/visualize/interactive/scatter_search.coffee'
2021-07-14T23:03:59,503   adding 'hits/visualize/interactive/scatter_selection.coffee'
2021-07-14T23:03:59,504   adding 'hits/visualize/interactive/scatter_size.coffee'
2021-07-14T23:03:59,506   adding 'hits/visualize/interactive/scatter_size_menu.coffee'
2021-07-14T23:03:59,507   adding 'hits/visualize/interactive/scatter_subset_menu.coffee'
2021-07-14T23:03:59,509   adding 'hits/visualize/interactive/scatter_two_level_menu.coffee'
2021-07-14T23:03:59,511   adding 'hits/visualize/interactive/scatter_zoom_to_data.coffee'
2021-07-14T23:03:59,512   adding 'hits/visualize/interactive/screen_errorbars_button.coffee'
2021-07-14T23:03:59,514   adding 'hits/visualize/interactive/screen_menu.coffee'
2021-07-14T23:03:59,515   adding 'hits/visualize/interactive/screen_range.coffee'
2021-07-14T23:03:59,516   adding 'hits/visualize/interactive/screen_scatter_selection.coffee'
2021-07-14T23:03:59,518   adding 'hits/visualize/interactive/screen_search.coffee'
2021-07-14T23:03:59,520   adding 'hits/visualize/interactive/screen_significance_filter.coffee'
2021-07-14T23:03:59,522   adding 'hits-0.0.7.dist-info/METADATA'
2021-07-14T23:03:59,524   adding 'hits-0.0.7.dist-info/WHEEL'
2021-07-14T23:03:59,525   adding 'hits-0.0.7.dist-info/top_level.txt'
2021-07-14T23:03:59,527   adding 'hits-0.0.7.dist-info/RECORD'
2021-07-14T23:03:59,552   removing build/bdist.linux-armv7l/wheel
2021-07-14T23:03:59,881   Building wheel for hits (setup.py): finished with status 'done'
2021-07-14T23:03:59,906   Created wheel for hits: filename=hits-0.0.7-cp39-cp39-linux_armv7l.whl size=1798046 sha256=0c6ce76b05fe639231140af7df579dfeb88ab52734a436dd97df8efb3ea6e06a
2021-07-14T23:03:59,907   Stored in directory: /tmp/pip-ephem-wheel-cache-h9_lduql/wheels/09/6b/82/4c27fc7fab0c6afdc401c103043ede1bc511ba8d76548411dc
2021-07-14T23:03:59,918 Successfully built hits
2021-07-14T23:03:59,978 Removed build tracker: '/tmp/pip-req-tracker-w2zpz25a'