2021-07-15T02:42:39,189 Created temporary directory: /tmp/pip-ephem-wheel-cache-cicbyull
2021-07-15T02:42:39,192 Created temporary directory: /tmp/pip-req-tracker-yr_hiamo
2021-07-15T02:42:39,192 Initialized build tracking at /tmp/pip-req-tracker-yr_hiamo
2021-07-15T02:42:39,193 Created build tracker: /tmp/pip-req-tracker-yr_hiamo
2021-07-15T02:42:39,193 Entered build tracker: /tmp/pip-req-tracker-yr_hiamo
2021-07-15T02:42:39,193 Created temporary directory: /tmp/pip-wheel-04eu923e
2021-07-15T02:42:39,223 1 location(s) to search for versions of hits:
2021-07-15T02:42:39,223 * https://pypi.org/simple/hits/
2021-07-15T02:42:39,224 Fetching project page and analyzing links: https://pypi.org/simple/hits/
2021-07-15T02:42:39,225 Getting page https://pypi.org/simple/hits/
2021-07-15T02:42:39,226 Found index url https://pypi.org/simple
2021-07-15T02:42:39,324   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
2021-07-15T02:42:39,325   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
2021-07-15T02:42:39,325   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
2021-07-15T02:42:39,326   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
2021-07-15T02:42:39,326   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
2021-07-15T02:42:39,327   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
2021-07-15T02:42:39,327 Skipping link: not a file: https://pypi.org/simple/hits/
2021-07-15T02:42:39,345 Given no hashes to check 1 links for project 'hits': discarding no candidates
2021-07-15T02:42:39,364 Collecting hits==0.1
2021-07-15T02:42:39,367   Created temporary directory: /tmp/pip-unpack-ku69qoty
2021-07-15T02:42:40,123   Downloading hits-0.1.tar.gz (1.1 MB)
2021-07-15T02:42:40,560   Added hits==0.1 from https://files.pythonhosted.org/packages/16/eb/7875f9d6728a25ea1ebf15e1b1fd7f17956b6bd984247a9402d3a3354530/hits-0.1.tar.gz#sha256=d522045c7c5f7bb68645c99bf5fde7601ecfb8f13d7c0d94090a5fd84bb86feb to build tracker '/tmp/pip-req-tracker-yr_hiamo'
2021-07-15T02:42:40,561     Running setup.py (path:/tmp/pip-wheel-04eu923e/hits_d4d7defc5d5b404eb8563453843230cc/setup.py) egg_info for package hits
2021-07-15T02:42:40,562     Created temporary directory: /tmp/pip-pip-egg-info-p7ix5uhp
2021-07-15T02:42:40,562     Running command python setup.py egg_info
2021-07-15T02:42:42,676     running egg_info
2021-07-15T02:42:42,678     creating /tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info
2021-07-15T02:42:42,679     writing /tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/PKG-INFO
2021-07-15T02:42:42,681     writing dependency_links to /tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/dependency_links.txt
2021-07-15T02:42:42,683     writing requirements to /tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/requires.txt
2021-07-15T02:42:42,684     writing top-level names to /tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/top_level.txt
2021-07-15T02:42:42,686     writing manifest file '/tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/SOURCES.txt'
2021-07-15T02:42:43,046     reading manifest file '/tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/SOURCES.txt'
2021-07-15T02:42:43,054     writing manifest file '/tmp/pip-pip-egg-info-p7ix5uhp/hits.egg-info/SOURCES.txt'
2021-07-15T02:42:43,140   Source in /tmp/pip-wheel-04eu923e/hits_d4d7defc5d5b404eb8563453843230cc has version 0.1, which satisfies requirement hits==0.1 from https://files.pythonhosted.org/packages/16/eb/7875f9d6728a25ea1ebf15e1b1fd7f17956b6bd984247a9402d3a3354530/hits-0.1.tar.gz#sha256=d522045c7c5f7bb68645c99bf5fde7601ecfb8f13d7c0d94090a5fd84bb86feb
2021-07-15T02:42:43,141   Removed hits==0.1 from https://files.pythonhosted.org/packages/16/eb/7875f9d6728a25ea1ebf15e1b1fd7f17956b6bd984247a9402d3a3354530/hits-0.1.tar.gz#sha256=d522045c7c5f7bb68645c99bf5fde7601ecfb8f13d7c0d94090a5fd84bb86feb from build tracker '/tmp/pip-req-tracker-yr_hiamo'
2021-07-15T02:42:43,147 Created temporary directory: /tmp/pip-unpack-p7d29o7b
2021-07-15T02:42:43,148 Building wheels for collected packages: hits
2021-07-15T02:42:43,152   Created temporary directory: /tmp/pip-wheel-zw9u63x4
2021-07-15T02:42:43,153   Building wheel for hits (setup.py): started
2021-07-15T02:42:43,153   Destination directory: /tmp/pip-wheel-zw9u63x4
2021-07-15T02:42:43,153   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-04eu923e/hits_d4d7defc5d5b404eb8563453843230cc/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-04eu923e/hits_d4d7defc5d5b404eb8563453843230cc/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-zw9u63x4
2021-07-15T02:42:44,597   running bdist_wheel
2021-07-15T02:42:44,762   running build
2021-07-15T02:42:44,762   running build_py
2021-07-15T02:42:44,901   creating build
2021-07-15T02:42:44,901   creating build/lib.linux-armv7l-3.9
2021-07-15T02:42:44,902   creating build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,903   copying hits/ipython.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,905   copying hits/utilities.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,908   copying hits/sw.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,911   copying hits/external_sort.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,913   copying hits/adapters.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,915   copying hits/fasta.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,916   copying hits/visualize_structure.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,919   copying hits/fastq.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,922   copying hits/gff.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,924   copying hits/__init__.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,926   copying hits/annotation.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,928   copying hits/bus.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,930   copying hits/paired_end.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,933   copying hits/mapping_tools.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,936   copying hits/interval.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,939   copying hits/variants.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,943   copying hits/genomes.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,945   copying hits/genetic_code.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,947   copying hits/sam.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,951   copying hits/intensities_illumina.py -> build/lib.linux-armv7l-3.9/hits
2021-07-15T02:42:44,954   creating build/lib.linux-armv7l-3.9/hits/visualize
2021-07-15T02:42:44,955   copying hits/visualize/gels.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-15T02:42:44,958   copying hits/visualize/define_igv_colors.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-15T02:42:44,960   copying hits/visualize/fastq.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-15T02:42:44,962   copying hits/visualize/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize
2021-07-15T02:42:44,966   creating build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,966   copying hits/visualize/interactive/pc.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,969   copying hits/visualize/interactive/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,972   copying hits/visualize/interactive/external_coffeescript.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,979   copying hits/visualize/interactive/screen_errorbars_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,981   copying hits/visualize/interactive/scatter_subset_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,983   copying hits/visualize/interactive/scatter_label_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,985   copying hits/visualize/interactive/scatter_label.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,988   copying hits/visualize/interactive/scatter_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,990   copying hits/visualize/interactive/scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,992   copying hits/visualize/interactive/scatter_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,994   copying hits/visualize/interactive/pc_clear.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,996   copying hits/visualize/interactive/pc_box_select.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:44,998   copying hits/visualize/interactive/scatter_alpha.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,000   copying hits/visualize/interactive/scatter_size_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,002   copying hits/visualize/interactive/scatter_heatmap.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,004   copying hits/visualize/interactive/scatter_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,007   copying hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,009   copying hits/visualize/interactive/scatter_size.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,011   copying hits/visualize/interactive/screen_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,014   copying hits/visualize/interactive/screen_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,016   copying hits/visualize/interactive/scatter_case_sensitive.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,018   copying hits/visualize/interactive/scatter_save_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,020   copying hits/visualize/interactive/screen_scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,022   copying hits/visualize/interactive/screen_significance_filter.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,025   copying hits/visualize/interactive/pc_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,027   copying hits/visualize/interactive/scatter_grid.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,029   copying hits/visualize/interactive/pc_hover.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,031   copying hits/visualize/interactive/scatter_two_level_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,033   copying hits/visualize/interactive/scatter_annotation_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,035   copying hits/visualize/interactive/pc_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,037   copying hits/visualize/interactive/scatter_color.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,040   copying hits/visualize/interactive/scatter_cluster_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,042   copying hits/visualize/interactive/screen_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,044   copying hits/visualize/interactive/example_df.txt -> build/lib.linux-armv7l-3.9/hits/visualize/interactive
2021-07-15T02:42:45,110   running build_ext
2021-07-15T02:42:45,115   cythoning hits/adapters_cython.pyx to hits/adapters_cython.c
2021-07-15T02:42:45,950   cythoning hits/fastq_cython.pyx to hits/fastq_cython.c
2021-07-15T02:42:52,746   cythoning hits/sw_cython.pyx to hits/sw_cython.c
2021-07-15T02:42:58,400   building 'adapters_cython' extension
2021-07-15T02:42:58,400   creating build/temp.linux-armv7l-3.9
2021-07-15T02:42:58,401   creating build/temp.linux-armv7l-3.9/hits
2021-07-15T02:42:58,401   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
2021-07-15T02:43:00,225   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
2021-07-15T02:43:00,338   building 'fastq_cython' extension
2021-07-15T02:43:00,338   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
2021-07-15T02:43:00,949   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_2process_read’:
2021-07-15T02:43:00,950   hits/fastq_cython.c:2645:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-15T02:43:00,950    2645 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-15T02:43:00,950         |                             ^~
2021-07-15T02:43:00,956   hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_4process_Alignment’:
2021-07-15T02:43:00,957   hits/fastq_cython.c:2919:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-15T02:43:00,957    2919 |     __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0);
2021-07-15T02:43:00,957         |                             ^~
2021-07-15T02:43:12,818   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
2021-07-15T02:43:12,980   building 'sw_cython' extension
2021-07-15T02:43:12,981   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
2021-07-15T02:43:13,447   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_generate_matrices’:
2021-07-15T02:43:13,448   hits/sw_cython.c:2675:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,449    2675 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-15T02:43:13,449         |                                     ^
2021-07-15T02:43:13,452   hits/sw_cython.c:2736:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,453    2736 |     for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-15T02:43:13,453         |                                     ^
2021-07-15T02:43:13,456   hits/sw_cython.c:2811:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,456    2811 |   for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) {
2021-07-15T02:43:13,457         |                                   ^
2021-07-15T02:43:13,457   hits/sw_cython.c:2824:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,458    2824 |     for (__pyx_t_18 = 1; __pyx_t_18 < __pyx_t_17; __pyx_t_18+=1) {
2021-07-15T02:43:13,458         |                                     ^
2021-07-15T02:43:13,509   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_4extend_perfect_seed’:
2021-07-15T02:43:13,511   hits/sw_cython.c:4880:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-15T02:43:13,511    4880 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_3) != 0);
2021-07-15T02:43:13,511         |                                     ^
2021-07-15T02:43:13,514   hits/sw_cython.c:4887:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-15T02:43:13,514    4887 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_3) != 0);
2021-07-15T02:43:13,514         |                                      ^
2021-07-15T02:43:13,522   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_6extend_perfect_seed_with_one_nt_deletion’:
2021-07-15T02:43:13,524   hits/sw_cython.c:5202:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-15T02:43:13,525    5202 |     __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_4) != 0);
2021-07-15T02:43:13,525         |                                     ^
2021-07-15T02:43:13,527   hits/sw_cython.c:5209:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-15T02:43:13,527    5209 |     __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_4) != 0);
2021-07-15T02:43:13,527         |                                      ^
2021-07-15T02:43:13,535   hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_8mismatches_at_offset’:
2021-07-15T02:43:13,538   hits/sw_cython.c:5495:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,538    5495 |   for (__pyx_t_12 = 0; __pyx_t_12 < __pyx_t_11; __pyx_t_12+=1) {
2021-07-15T02:43:13,538         |                                   ^
2021-07-15T02:43:13,541   hits/sw_cython.c:5507:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-15T02:43:13,541    5507 |     for (__pyx_t_14 = 0; __pyx_t_14 < __pyx_t_13; __pyx_t_14+=1) {
2021-07-15T02:43:13,541         |                                     ^
2021-07-15T02:43:28,164   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
2021-07-15T02:43:28,345   installing to build/bdist.linux-armv7l/wheel
2021-07-15T02:43:28,345   running install
2021-07-15T02:43:28,347   running install_lib
2021-07-15T02:43:28,352   creating build/bdist.linux-armv7l
2021-07-15T02:43:28,352   creating build/bdist.linux-armv7l/wheel
2021-07-15T02:43:28,355   creating build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,356   copying build/lib.linux-armv7l-3.9/hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,362   copying build/lib.linux-armv7l-3.9/hits/ipython.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,364   copying build/lib.linux-armv7l-3.9/hits/utilities.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,367   copying build/lib.linux-armv7l-3.9/hits/sw.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,370   copying build/lib.linux-armv7l-3.9/hits/external_sort.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,372   copying build/lib.linux-armv7l-3.9/hits/adapters.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,374   copying build/lib.linux-armv7l-3.9/hits/fasta.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,376   copying build/lib.linux-armv7l-3.9/hits/visualize_structure.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,379   copying build/lib.linux-armv7l-3.9/hits/fastq.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,381   copying build/lib.linux-armv7l-3.9/hits/gff.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,384   copying build/lib.linux-armv7l-3.9/hits/__init__.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,386   copying build/lib.linux-armv7l-3.9/hits/annotation.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,388   copying build/lib.linux-armv7l-3.9/hits/bus.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,390   creating build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-15T02:43:28,391   copying build/lib.linux-armv7l-3.9/hits/visualize/gels.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-15T02:43:28,395   copying build/lib.linux-armv7l-3.9/hits/visualize/define_igv_colors.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-15T02:43:28,397   copying build/lib.linux-armv7l-3.9/hits/visualize/fastq.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-15T02:43:28,399   copying build/lib.linux-armv7l-3.9/hits/visualize/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize
2021-07-15T02:43:28,403   creating build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,404   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_errorbars_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,406   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_subset_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,408   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,410   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,412   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,414   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,416   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,418   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_clear.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,420   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,422   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_box_select.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,424   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_alpha.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,426   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,429   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_heatmap.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,431   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,435   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/example_df.txt -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,507   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,514   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/external_coffeescript.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,517   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,521   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,524   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,526   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,528   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_case_sensitive.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,533   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_save_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,535   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,537   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_significance_filter.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,539   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,541   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_grid.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,543   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_hover.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,545   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_two_level_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,547   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_annotation_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,549   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,551   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_color.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,553   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_cluster_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,555   copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive
2021-07-15T02:43:28,557   copying build/lib.linux-armv7l-3.9/hits/paired_end.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,560   copying build/lib.linux-armv7l-3.9/hits/mapping_tools.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,564   copying build/lib.linux-armv7l-3.9/hits/interval.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,566   copying build/lib.linux-armv7l-3.9/hits/variants.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,569   copying build/lib.linux-armv7l-3.9/hits/genomes.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,572   copying build/lib.linux-armv7l-3.9/hits/sw_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,597   copying build/lib.linux-armv7l-3.9/hits/genetic_code.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,600   copying build/lib.linux-armv7l-3.9/hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,620   copying build/lib.linux-armv7l-3.9/hits/sam.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,624   copying build/lib.linux-armv7l-3.9/hits/intensities_illumina.py -> build/bdist.linux-armv7l/wheel/hits
2021-07-15T02:43:28,626   running install_egg_info
2021-07-15T02:43:28,651   running egg_info
2021-07-15T02:43:28,652   writing hits.egg-info/PKG-INFO
2021-07-15T02:43:28,654   writing dependency_links to hits.egg-info/dependency_links.txt
2021-07-15T02:43:28,656   writing requirements to hits.egg-info/requires.txt
2021-07-15T02:43:28,657   writing top-level names to hits.egg-info/top_level.txt
2021-07-15T02:43:28,704   reading manifest file 'hits.egg-info/SOURCES.txt'
2021-07-15T02:43:28,714   writing manifest file 'hits.egg-info/SOURCES.txt'
2021-07-15T02:43:28,716   Copying hits.egg-info to build/bdist.linux-armv7l/wheel/hits-0.1-py3.9.egg-info
2021-07-15T02:43:28,727   running install_scripts
2021-07-15T02:43:28,870   creating build/bdist.linux-armv7l/wheel/hits-0.1.dist-info/WHEEL
2021-07-15T02:43:28,873   creating '/tmp/pip-wheel-zw9u63x4/hits-0.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-15T02:43:28,876   adding 'hits/__init__.py'
2021-07-15T02:43:28,878   adding 'hits/adapters.py'
2021-07-15T02:43:28,903   adding 'hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-15T02:43:28,906   adding 'hits/annotation.py'
2021-07-15T02:43:28,907   adding 'hits/bus.py'
2021-07-15T02:43:28,908   adding 'hits/external_sort.py'
2021-07-15T02:43:28,909   adding 'hits/fasta.py'
2021-07-15T02:43:28,911   adding 'hits/fastq.py'
2021-07-15T02:43:29,082   adding 'hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-15T02:43:29,090   adding 'hits/genetic_code.py'
2021-07-15T02:43:29,091   adding 'hits/genomes.py'
2021-07-15T02:43:29,093   adding 'hits/gff.py'
2021-07-15T02:43:29,095   adding 'hits/intensities_illumina.py'
2021-07-15T02:43:29,097   adding 'hits/interval.py'
2021-07-15T02:43:29,098   adding 'hits/ipython.py'
2021-07-15T02:43:29,101   adding 'hits/mapping_tools.py'
2021-07-15T02:43:29,105   adding 'hits/paired_end.py'
2021-07-15T02:43:29,112   adding 'hits/sam.py'
2021-07-15T02:43:29,116   adding 'hits/sw.py'
2021-07-15T02:43:29,319   adding 'hits/sw_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-15T02:43:29,329   adding 'hits/utilities.py'
2021-07-15T02:43:29,332   adding 'hits/variants.py'
2021-07-15T02:43:29,335   adding 'hits/visualize_structure.py'
2021-07-15T02:43:29,338   adding 'hits/visualize/__init__.py'
2021-07-15T02:43:29,340   adding 'hits/visualize/define_igv_colors.py'
2021-07-15T02:43:29,342   adding 'hits/visualize/fastq.py'
2021-07-15T02:43:29,345   adding 'hits/visualize/gels.py'
2021-07-15T02:43:29,352   adding 'hits/visualize/interactive/__init__.py'
2021-07-15T02:43:29,799   adding 'hits/visualize/interactive/example_df.txt'
2021-07-15T02:43:29,823   adding 'hits/visualize/interactive/external_coffeescript.py'
2021-07-15T02:43:29,825   adding 'hits/visualize/interactive/pc.py'
2021-07-15T02:43:29,826   adding 'hits/visualize/interactive/pc_box_select.coffee'
2021-07-15T02:43:29,827   adding 'hits/visualize/interactive/pc_clear.coffee'
2021-07-15T02:43:29,828   adding 'hits/visualize/interactive/pc_hover.coffee'
2021-07-15T02:43:29,830   adding 'hits/visualize/interactive/pc_search.coffee'
2021-07-15T02:43:29,831   adding 'hits/visualize/interactive/pc_selection.coffee'
2021-07-15T02:43:29,832   adding 'hits/visualize/interactive/scatter_alpha.coffee'
2021-07-15T02:43:29,833   adding 'hits/visualize/interactive/scatter_annotation_button.coffee'
2021-07-15T02:43:29,834   adding 'hits/visualize/interactive/scatter_case_sensitive.coffee'
2021-07-15T02:43:29,835   adding 'hits/visualize/interactive/scatter_cluster_button.coffee'
2021-07-15T02:43:29,837   adding 'hits/visualize/interactive/scatter_color.coffee'
2021-07-15T02:43:29,838   adding 'hits/visualize/interactive/scatter_grid.coffee'
2021-07-15T02:43:29,839   adding 'hits/visualize/interactive/scatter_heatmap.coffee'
2021-07-15T02:43:29,840   adding 'hits/visualize/interactive/scatter_label.coffee'
2021-07-15T02:43:29,841   adding 'hits/visualize/interactive/scatter_label_button.coffee'
2021-07-15T02:43:29,842   adding 'hits/visualize/interactive/scatter_menu.coffee'
2021-07-15T02:43:29,844   adding 'hits/visualize/interactive/scatter_range.coffee'
2021-07-15T02:43:29,845   adding 'hits/visualize/interactive/scatter_save_button.coffee'
2021-07-15T02:43:29,846   adding 'hits/visualize/interactive/scatter_search.coffee'
2021-07-15T02:43:29,847   adding 'hits/visualize/interactive/scatter_selection.coffee'
2021-07-15T02:43:29,849   adding 'hits/visualize/interactive/scatter_size.coffee'
2021-07-15T02:43:29,850   adding 'hits/visualize/interactive/scatter_size_menu.coffee'
2021-07-15T02:43:29,851   adding 'hits/visualize/interactive/scatter_subset_menu.coffee'
2021-07-15T02:43:29,852   adding 'hits/visualize/interactive/scatter_two_level_menu.coffee'
2021-07-15T02:43:29,854   adding 'hits/visualize/interactive/scatter_zoom_to_data.coffee'
2021-07-15T02:43:29,855   adding 'hits/visualize/interactive/screen_errorbars_button.coffee'
2021-07-15T02:43:29,856   adding 'hits/visualize/interactive/screen_menu.coffee'
2021-07-15T02:43:29,857   adding 'hits/visualize/interactive/screen_range.coffee'
2021-07-15T02:43:29,858   adding 'hits/visualize/interactive/screen_scatter_selection.coffee'
2021-07-15T02:43:30,067   adding 'hits/visualize/interactive/screen_search.coffee'
2021-07-15T02:43:30,070   adding 'hits/visualize/interactive/screen_significance_filter.coffee'
2021-07-15T02:43:30,075   adding 'hits-0.1.dist-info/METADATA'
2021-07-15T02:43:30,076   adding 'hits-0.1.dist-info/WHEEL'
2021-07-15T02:43:30,078   adding 'hits-0.1.dist-info/top_level.txt'
2021-07-15T02:43:30,081   adding 'hits-0.1.dist-info/RECORD'
2021-07-15T02:43:30,124   removing build/bdist.linux-armv7l/wheel
2021-07-15T02:43:30,451   Building wheel for hits (setup.py): finished with status 'done'
2021-07-15T02:43:30,478   Created wheel for hits: filename=hits-0.1-cp39-cp39-linux_armv7l.whl size=1798164 sha256=c0a82b4ea4e5c8542c40fa409ad64937628be2e5f3258a2430ac2b3cc7ab1a5d
2021-07-15T02:43:30,478   Stored in directory: /tmp/pip-ephem-wheel-cache-cicbyull/wheels/c9/b7/fc/53a1b78c27e06b013ede7d5821c7ca7b85fba1ec5feeabb814
2021-07-15T02:43:30,490 Successfully built hits
2021-07-15T02:43:30,776 Removed build tracker: '/tmp/pip-req-tracker-yr_hiamo'