2021-07-14T18:28:36,347 Created temporary directory: /tmp/pip-ephem-wheel-cache-zovgm3nl
2021-07-14T18:28:36,351 Created temporary directory: /tmp/pip-req-tracker-tc86c22i
2021-07-14T18:28:36,351 Initialized build tracking at /tmp/pip-req-tracker-tc86c22i
2021-07-14T18:28:36,351 Created build tracker: /tmp/pip-req-tracker-tc86c22i
2021-07-14T18:28:36,351 Entered build tracker: /tmp/pip-req-tracker-tc86c22i
2021-07-14T18:28:36,352 Created temporary directory: /tmp/pip-wheel-xaoe0uq5
2021-07-14T18:28:36,389 1 location(s) to search for versions of hits:
2021-07-14T18:28:36,389 * https://pypi.org/simple/hits/
2021-07-14T18:28:36,390 Fetching project page and analyzing links: https://pypi.org/simple/hits/
2021-07-14T18:28:36,390 Getting page https://pypi.org/simple/hits/
2021-07-14T18:28:36,392 Found index url https://pypi.org/simple
2021-07-14T18:28:36,494   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
2021-07-14T18:28:36,495   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
2021-07-14T18:28:36,495   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
2021-07-14T18:28:36,496   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
2021-07-14T18:28:36,497   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
2021-07-14T18:28:36,498   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
2021-07-14T18:28:36,498 Skipping link: not a file: https://pypi.org/simple/hits/
2021-07-14T18:28:36,520 Given no hashes to check 1 links for project 'hits': discarding no candidates
2021-07-14T18:28:36,542 Collecting hits==0.0.6
2021-07-14T18:28:36,544   Created temporary directory: /tmp/pip-unpack-5k4ypm6y
2021-07-14T18:28:37,490   Downloading hits-0.0.6.tar.gz (1.1 MB)
2021-07-14T18:28:37,949   Added hits==0.0.6 from https://files.pythonhosted.org/packages/bc/d3/e1c183519ed10a4c5aecb860080c4d0178419ded77dbfd10b249f991dbca/hits-0.0.6.tar.gz#sha256=5ded6559414f41a88a4e5ff6e9b3b333f6c0257717c083c85a6b5bec6322101f to build tracker '/tmp/pip-req-tracker-tc86c22i'
2021-07-14T18:28:37,950     Running setup.py (path:/tmp/pip-wheel-xaoe0uq5/hits_a859c4855ccc4334915309548ef89c88/setup.py) egg_info for package hits
2021-07-14T18:28:37,951     Created temporary directory: /tmp/pip-pip-egg-info-jluo3kdy
2021-07-14T18:28:37,951     Running command python setup.py egg_info
2021-07-14T18:28:39,383     running egg_info
2021-07-14T18:28:39,385     creating /tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info
2021-07-14T18:28:39,387     writing /tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/PKG-INFO
2021-07-14T18:28:39,389     writing dependency_links to /tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/dependency_links.txt
2021-07-14T18:28:39,392     writing requirements to /tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/requires.txt
2021-07-14T18:28:39,393     writing top-level names to /tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/top_level.txt
2021-07-14T18:28:39,394     writing manifest file '/tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/SOURCES.txt'
2021-07-14T18:28:39,812     reading manifest file '/tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/SOURCES.txt'
2021-07-14T18:28:39,820     writing manifest file '/tmp/pip-pip-egg-info-jluo3kdy/hits.egg-info/SOURCES.txt'
2021-07-14T18:28:39,918   Source in /tmp/pip-wheel-xaoe0uq5/hits_a859c4855ccc4334915309548ef89c88 has version 0.0.6, which satisfies requirement hits==0.0.6 from https://files.pythonhosted.org/packages/bc/d3/e1c183519ed10a4c5aecb860080c4d0178419ded77dbfd10b249f991dbca/hits-0.0.6.tar.gz#sha256=5ded6559414f41a88a4e5ff6e9b3b333f6c0257717c083c85a6b5bec6322101f
2021-07-14T18:28:39,919   Removed hits==0.0.6 from https://files.pythonhosted.org/packages/bc/d3/e1c183519ed10a4c5aecb860080c4d0178419ded77dbfd10b249f991dbca/hits-0.0.6.tar.gz#sha256=5ded6559414f41a88a4e5ff6e9b3b333f6c0257717c083c85a6b5bec6322101f from build tracker '/tmp/pip-req-tracker-tc86c22i'
2021-07-14T18:28:39,925 Created temporary directory: /tmp/pip-unpack-7tnsqyol
2021-07-14T18:28:39,926 Building wheels for collected packages: hits
2021-07-14T18:28:39,930   Created temporary directory: /tmp/pip-wheel-8t5v71u5
2021-07-14T18:28:39,931   Building wheel for hits (setup.py): started
2021-07-14T18:28:39,931   Destination directory: /tmp/pip-wheel-8t5v71u5
2021-07-14T18:28:39,931   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-xaoe0uq5/hits_a859c4855ccc4334915309548ef89c88/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-xaoe0uq5/hits_a859c4855ccc4334915309548ef89c88/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-8t5v71u5
2021-07-14T18:28:41,390   running bdist_wheel
2021-07-14T18:28:41,579   running build
2021-07-14T18:28:41,579   running build_py
2021-07-14T18:28:41,730   creating build
2021-07-14T18:28:41,730   creating build/lib.linux-armv7l-3.9
2021-07-14T18:28:41,731   creating build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,732   copying hits/sam.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,736   copying hits/interval.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,738   copying hits/variants.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,741   copying hits/fasta.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,743   copying hits/intensities_illumina.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,746   copying hits/__init__.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,748   copying hits/mapping_tools.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,751   copying hits/genomes.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,754   copying hits/sw.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,757   copying hits/gff.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,759   copying hits/external_sort.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,761   copying hits/fastq.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,764   copying hits/bus.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,767   copying hits/adapters.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,769   copying hits/genetic_code.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,772   copying hits/paired_end.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,775   copying hits/utilities.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,778   copying hits/visualize_structure.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,781   copying hits/annotation.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,784   copying hits/ipython.py -> build/lib.linux-armv7l-3.9/hits
2021-07-14T18:28:41,787   creating build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T18:28:41,788   copying hits/visualize/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T18:28:41,791   copying hits/visualize/gels.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T18:28:41,794   copying hits/visualize/fastq.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T18:28:41,797   copying hits/visualize/define_igv_colors.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-14T18:28:41,800   creating build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,801   copying hits/visualize/interactive/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,805   copying hits/visualize/interactive/pc.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,808   copying hits/visualize/interactive/external_coffeescript.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,816   copying hits/visualize/interactive/pc_clear.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,819   copying hits/visualize/interactive/scatter_heatmap.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,821   copying hits/visualize/interactive/scatter_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,824   copying hits/visualize/interactive/scatter_case_sensitive.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,826   copying hits/visualize/interactive/pc_hover.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,829   copying hits/visualize/interactive/scatter_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,832   copying hits/visualize/interactive/scatter_alpha.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,834   copying hits/visualize/interactive/scatter_cluster_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,837   copying hits/visualize/interactive/screen_errorbars_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,840   copying hits/visualize/interactive/pc_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,843   copying hits/visualize/interactive/screen_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,845   copying hits/visualize/interactive/pc_box_select.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,848   copying hits/visualize/interactive/screen_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,851   copying hits/visualize/interactive/scatter_label_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,854   copying hits/visualize/interactive/scatter_save_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,857   copying hits/visualize/interactive/scatter_size_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,860   copying hits/visualize/interactive/scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,863   copying hits/visualize/interactive/scatter_two_level_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,866   copying hits/visualize/interactive/scatter_grid.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,868   copying hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,871   copying hits/visualize/interactive/scatter_label.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,992   copying hits/visualize/interactive/scatter_subset_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:41,996   copying hits/visualize/interactive/scatter_annotation_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,000   copying hits/visualize/interactive/scatter_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,004   copying hits/visualize/interactive/pc_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,008   copying hits/visualize/interactive/screen_scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,011   copying hits/visualize/interactive/screen_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,013   copying hits/visualize/interactive/scatter_color.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,016   copying hits/visualize/interactive/screen_significance_filter.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,019   copying hits/visualize/interactive/scatter_size.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,022   copying hits/visualize/interactive/example_df.txt -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-14T18:28:42,093   running build_ext
2021-07-14T18:28:42,104   cythoning hits/adapters_cython.pyx to hits/adapters_cython.c
2021-07-14T18:28:43,060   cythoning hits/fastq_cython.pyx to hits/fastq_cython.c
2021-07-14T18:28:50,417   cythoning hits/sw_cython.pyx to hits/sw_cython.c
2021-07-14T18:28:56,491   building 'adapters_cython' extension
2021-07-14T18:28:56,492   creating build/temp.linux-armv7l-3.9
2021-07-14T18:28:56,493   creating build/temp.linux-armv7l-3.9/hits
2021-07-14T18:28:56,494   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
2021-07-14T18:28:58,567   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
2021-07-14T18:28:58,693   building 'fastq_cython' extension
2021-07-14T18:28:58,694   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
2021-07-14T18:28:59,129   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_2process_read’:
2021-07-14T18:28:59,131   hits/fastq_cython.c:2645:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-14T18:28:59,131    2645 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-14T18:28:59,131         |                             ^~
2021-07-14T18:28:59,136   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_4process_Alignment’:
2021-07-14T18:28:59,138   hits/fastq_cython.c:2919:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-14T18:28:59,138    2919 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-14T18:28:59,138         |                             ^~
2021-07-14T18:29:12,602   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
2021-07-14T18:29:12,778   building 'sw_cython' extension
2021-07-14T18:29:12,779   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
2021-07-14T18:29:13,220   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_generate_matrices’:
2021-07-14T18:29:13,221   hits/sw_cython.c:2660:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T18:29:13,222    2660 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T18:29:13,222         |                                     ^
2021-07-14T18:29:13,225   hits/sw_cython.c:2721:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T18:29:13,225    2721 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T18:29:13,226         |                                     ^
2021-07-14T18:29:13,229   hits/sw_cython.c:2796:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T18:29:13,230    2796 |   for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-14T18:29:13,230         |                                   ^
2021-07-14T18:29:13,231   hits/sw_cython.c:2809:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-14T18:29:13,231    2809 |     for (__pyx_t_18 = 1; __pyx_t_18 < __pyx_t_17; __pyx_t_18+=1) {
2021-07-14T18:29:13,231         |                                     ^
2021-07-14T18:29:13,288   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_4extend_perfect_seed’:
2021-07-14T18:29:13,290   hits/sw_cython.c:4865:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T18:29:13,291    4865 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_3) != 0);
2021-07-14T18:29:13,291         |                                     ^
2021-07-14T18:29:13,293   hits/sw_cython.c:4872:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T18:29:13,293    4872 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_3) != 0);
2021-07-14T18:29:13,293         |                                      ^
2021-07-14T18:29:13,302   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_6extend_perfect_seed_with_one_nt_deletion’:
2021-07-14T18:29:13,305   hits/sw_cython.c:5187:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T18:29:13,305    5187 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_4) != 0);
2021-07-14T18:29:13,305         |                                     ^
2021-07-14T18:29:13,307   hits/sw_cython.c:5194:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-14T18:29:13,308    5194 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_4) != 0);
2021-07-14T18:29:13,308         |                                      ^
2021-07-14T18:29:29,276   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
2021-07-14T18:29:29,470   installing to build/bdist.linux-armv7l/wheel
2021-07-14T18:29:29,470   running install
2021-07-14T18:29:29,471   running install_lib
2021-07-14T18:29:29,476   creating build/bdist.linux-armv7l
2021-07-14T18:29:29,477   creating build/bdist.linux-armv7l/wheel
2021-07-14T18:29:29,479   creating build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,480   copying build/lib.linux-armv7l-3.9/hits/sam.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,484   copying build/lib.linux-armv7l-3.9/hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,489   copying build/lib.linux-armv7l-3.9/hits/interval.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,492   copying build/lib.linux-armv7l-3.9/hits/variants.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,495   copying build/lib.linux-armv7l-3.9/hits/fasta.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,497   copying build/lib.linux-armv7l-3.9/hits/intensities_illumina.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,500   copying build/lib.linux-armv7l-3.9/hits/sw_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,529   copying build/lib.linux-armv7l-3.9/hits/__init__.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,531   copying build/lib.linux-armv7l-3.9/hits/mapping_tools.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,534   copying build/lib.linux-armv7l-3.9/hits/genomes.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,537   creating build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T18:29:29,539   creating build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,541   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_clear.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,543   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/example_df.txt -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,609   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_heatmap.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,612   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,616   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_case_sensitive.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,619   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_hover.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,623   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,629   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,631   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_alpha.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,633   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_cluster_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,636   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_errorbars_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,638   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,640   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,643   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_box_select.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,645   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,648   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,651   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_save_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,653   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,655   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,658   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_two_level_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,660   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_grid.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,662   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,665   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,667   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,671   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_subset_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,673   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_annotation_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,675   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,678   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,680   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,682   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,685   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_color.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,687   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/external_coffeescript.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,689   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_significance_filter.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,692   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-14T18:29:29,694   copying build/lib.linux-armv7l-3.9/hits/visualize/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T18:29:29,697   copying build/lib.linux-armv7l-3.9/hits/visualize/gels.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T18:29:29,701   copying build/lib.linux-armv7l-3.9/hits/visualize/fastq.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T18:29:29,704   copying build/lib.linux-armv7l-3.9/hits/visualize/define_igv_colors.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-14T18:29:29,706   copying build/lib.linux-armv7l-3.9/hits/sw.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,710   copying build/lib.linux-armv7l-3.9/hits/gff.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,712   copying build/lib.linux-armv7l-3.9/hits/external_sort.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,715   copying build/lib.linux-armv7l-3.9/hits/fastq.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,718   copying build/lib.linux-armv7l-3.9/hits/bus.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,720   copying build/lib.linux-armv7l-3.9/hits/adapters.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,723   copying build/lib.linux-armv7l-3.9/hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,745   copying build/lib.linux-armv7l-3.9/hits/genetic_code.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,748   copying build/lib.linux-armv7l-3.9/hits/paired_end.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,751   copying build/lib.linux-armv7l-3.9/hits/utilities.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,754   copying build/lib.linux-armv7l-3.9/hits/visualize_structure.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,757   copying build/lib.linux-armv7l-3.9/hits/annotation.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,760   copying build/lib.linux-armv7l-3.9/hits/ipython.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-14T18:29:29,762   running install_egg_info
2021-07-14T18:29:29,811   running egg_info
2021-07-14T18:29:29,813   writing hits.egg-info/PKG-INFO
2021-07-14T18:29:29,815   writing dependency_links to hits.egg-info/dependency_links.txt
2021-07-14T18:29:29,817   writing requirements to hits.egg-info/requires.txt
2021-07-14T18:29:29,818   writing top-level names to hits.egg-info/top_level.txt
2021-07-14T18:29:29,869   reading manifest file 'hits.egg-info/SOURCES.txt'
2021-07-14T18:29:29,881   writing manifest file 'hits.egg-info/SOURCES.txt'
2021-07-14T18:29:29,883   Copying hits.egg-info to build/bdist.linux-armv7l/wheel/hits-0.0.6-py3.9.egg-info
2021-07-14T18:29:29,895   running install_scripts
2021-07-14T18:29:29,962   creating build/bdist.linux-armv7l/wheel/hits-0.0.6.dist-info/WHEEL
2021-07-14T18:29:29,965   creating '/tmp/pip-wheel-8t5v71u5/hits-0.0.6-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-14T18:29:29,968   adding 'hits/__init__.py'
2021-07-14T18:29:29,971   adding 'hits/adapters.py'
2021-07-14T18:29:30,000   adding 'hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T18:29:30,002   adding 'hits/annotation.py'
2021-07-14T18:29:30,004   adding 'hits/bus.py'
2021-07-14T18:29:30,005   adding 'hits/external_sort.py'
2021-07-14T18:29:30,007   adding 'hits/fasta.py'
2021-07-14T18:29:30,010   adding 'hits/fastq.py'
2021-07-14T18:29:30,192   adding 'hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T18:29:30,201   adding 'hits/genetic_code.py'
2021-07-14T18:29:30,202   adding 'hits/genomes.py'
2021-07-14T18:29:30,204   adding 'hits/gff.py'
2021-07-14T18:29:30,207   adding 'hits/intensities_illumina.py'
2021-07-14T18:29:30,209   adding 'hits/interval.py'
2021-07-14T18:29:30,211   adding 'hits/ipython.py'
2021-07-14T18:29:30,214   adding 'hits/mapping_tools.py'
2021-07-14T18:29:30,219   adding 'hits/paired_end.py'
2021-07-14T18:29:30,227   adding 'hits/sam.py'
2021-07-14T18:29:30,231   adding 'hits/sw.py'
2021-07-14T18:29:30,442   adding 'hits/sw_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-14T18:29:30,452   adding 'hits/utilities.py'
2021-07-14T18:29:30,456   adding 'hits/variants.py'
2021-07-14T18:29:30,459   adding 'hits/visualize_structure.py'
2021-07-14T18:29:30,463   adding 'hits/visualize/__init__.py'
2021-07-14T18:29:30,464   adding 'hits/visualize/define_igv_colors.py'
2021-07-14T18:29:30,466   adding 'hits/visualize/fastq.py'
2021-07-14T18:29:30,470   adding 'hits/visualize/gels.py'
2021-07-14T18:29:30,477   adding 'hits/visualize/interactive/__init__.py'
2021-07-14T18:29:30,947   adding 'hits/visualize/interactive/example_df.txt'
2021-07-14T18:29:30,971   adding 'hits/visualize/interactive/external_coffeescript.py'
2021-07-14T18:29:30,980   adding 'hits/visualize/interactive/pc.py'
2021-07-14T18:29:30,982   adding 'hits/visualize/interactive/pc_box_select.coffee'
2021-07-14T18:29:30,983   adding 'hits/visualize/interactive/pc_clear.coffee'
2021-07-14T18:29:30,985   adding 'hits/visualize/interactive/pc_hover.coffee'
2021-07-14T18:29:30,987   adding 'hits/visualize/interactive/pc_search.coffee'
2021-07-14T18:29:30,988   adding 'hits/visualize/interactive/pc_selection.coffee'
2021-07-14T18:29:30,990   adding 'hits/visualize/interactive/scatter_alpha.coffee'
2021-07-14T18:29:30,992   adding 'hits/visualize/interactive/scatter_annotation_button.coffee'
2021-07-14T18:29:30,994   adding 'hits/visualize/interactive/scatter_case_sensitive.coffee'
2021-07-14T18:29:30,996   adding 'hits/visualize/interactive/scatter_cluster_button.coffee'
2021-07-14T18:29:30,997   adding 'hits/visualize/interactive/scatter_color.coffee'
2021-07-14T18:29:30,999   adding 'hits/visualize/interactive/scatter_grid.coffee'
2021-07-14T18:29:31,001   adding 'hits/visualize/interactive/scatter_heatmap.coffee'
2021-07-14T18:29:31,003   adding 'hits/visualize/interactive/scatter_label.coffee'
2021-07-14T18:29:31,005   adding 'hits/visualize/interactive/scatter_label_button.coffee'
2021-07-14T18:29:31,007   adding 'hits/visualize/interactive/scatter_menu.coffee'
2021-07-14T18:29:31,009   adding 'hits/visualize/interactive/scatter_range.coffee'
2021-07-14T18:29:31,010   adding 'hits/visualize/interactive/scatter_save_button.coffee'
2021-07-14T18:29:31,012   adding 'hits/visualize/interactive/scatter_search.coffee'
2021-07-14T18:29:31,014   adding 'hits/visualize/interactive/scatter_selection.coffee'
2021-07-14T18:29:31,016   adding 'hits/visualize/interactive/scatter_size.coffee'
2021-07-14T18:29:31,017   adding 'hits/visualize/interactive/scatter_size_menu.coffee'
2021-07-14T18:29:31,019   adding 'hits/visualize/interactive/scatter_subset_menu.coffee'
2021-07-14T18:29:31,020   adding 'hits/visualize/interactive/scatter_two_level_menu.coffee'
2021-07-14T18:29:31,022   adding 'hits/visualize/interactive/scatter_zoom_to_data.coffee'
2021-07-14T18:29:31,023   adding 'hits/visualize/interactive/screen_errorbars_button.coffee'
2021-07-14T18:29:31,025   adding 'hits/visualize/interactive/screen_menu.coffee'
2021-07-14T18:29:31,026   adding 'hits/visualize/interactive/screen_range.coffee'
2021-07-14T18:29:31,028   adding 'hits/visualize/interactive/screen_scatter_selection.coffee'
2021-07-14T18:29:31,029   adding 'hits/visualize/interactive/screen_search.coffee'
2021-07-14T18:29:31,031   adding 'hits/visualize/interactive/screen_significance_filter.coffee'
2021-07-14T18:29:31,033   adding 'hits-0.0.6.dist-info/METADATA'
2021-07-14T18:29:31,035   adding 'hits-0.0.6.dist-info/WHEEL'
2021-07-14T18:29:31,036   adding 'hits-0.0.6.dist-info/top_level.txt'
2021-07-14T18:29:31,038   adding 'hits-0.0.6.dist-info/RECORD'
2021-07-14T18:29:31,070   removing build/bdist.linux-armv7l/wheel
2021-07-14T18:29:31,482   Building wheel for hits (setup.py): finished with status 'done'
2021-07-14T18:29:31,509   Created wheel for hits: filename=hits-0.0.6-cp39-cp39-linux_armv7l.whl size=1790678 sha256=152dfc6ae3dec61dd8c836318552cf407f6cfcd8d53d40d6cf09fa170bfaefef
2021-07-14T18:29:31,509   Stored in directory: /tmp/pip-ephem-wheel-cache-zovgm3nl/wheels/50/8e/51/03de22ceef773cb2e13b13f14c88ba04ebba01d2cffba96f0b
2021-07-14T18:29:31,522 Successfully built hits
2021-07-14T18:29:31,591 Removed build tracker: '/tmp/pip-req-tracker-tc86c22i'