2021-07-14T15:13:06,601 Created temporary directory: /tmp/pip-ephem-wheel-cache-3jfqxbv4 2021-07-14T15:13:06,604 Created temporary directory: /tmp/pip-req-tracker-xw_g27si 2021-07-14T15:13:06,604 Initialized build tracking at /tmp/pip-req-tracker-xw_g27si 2021-07-14T15:13:06,604 Created build tracker: /tmp/pip-req-tracker-xw_g27si 2021-07-14T15:13:06,604 Entered build tracker: /tmp/pip-req-tracker-xw_g27si 2021-07-14T15:13:06,605 Created temporary directory: /tmp/pip-wheel-7opo95bj 2021-07-14T15:13:06,634 1 location(s) to search for versions of hits: 2021-07-14T15:13:06,634 * https://pypi.org/simple/hits/ 2021-07-14T15:13:06,635 Fetching project page and analyzing links: https://pypi.org/simple/hits/ 2021-07-14T15:13:06,635 Getting page https://pypi.org/simple/hits/ 2021-07-14T15:13:06,637 Found index url https://pypi.org/simple 2021-07-14T15:13:06,819 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 2021-07-14T15:13:06,820 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 2021-07-14T15:13:06,821 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 2021-07-14T15:13:06,821 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 2021-07-14T15:13:06,822 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 2021-07-14T15:13:06,822 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 2021-07-14T15:13:06,822 Skipping link: not a file: https://pypi.org/simple/hits/ 2021-07-14T15:13:06,841 Given no hashes to check 1 links for project 'hits': discarding no candidates 2021-07-14T15:13:06,862 Collecting hits==0.0.2 2021-07-14T15:13:06,864 Created temporary directory: /tmp/pip-unpack-xxrl48dm 2021-07-14T15:13:07,076 Downloading hits-0.0.2.tar.gz (1.1 MB) 2021-07-14T15:13:07,480 Added hits==0.0.2 from https://files.pythonhosted.org/packages/bd/a4/dab4eb36d5c301d6f60030768d14deae128e5baa9d6344eda764825d5ab7/hits-0.0.2.tar.gz#sha256=c290e0adae5371b003d2b222fe20a107f5e48fee64e3ff34207020df27a2b640 to build tracker '/tmp/pip-req-tracker-xw_g27si' 2021-07-14T15:13:07,481 Running setup.py (path:/tmp/pip-wheel-7opo95bj/hits_47c407a372864428bc8ecaf159294ebb/setup.py) egg_info for package hits 2021-07-14T15:13:07,481 Created temporary directory: /tmp/pip-pip-egg-info-xea6daz6 2021-07-14T15:13:07,482 Running command python setup.py egg_info 2021-07-14T15:13:08,719 running egg_info 2021-07-14T15:13:08,721 creating /tmp/pip-pip-egg-info-xea6daz6/hits.egg-info 2021-07-14T15:13:08,722 writing /tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/PKG-INFO 2021-07-14T15:13:08,724 writing dependency_links to /tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/dependency_links.txt 2021-07-14T15:13:08,726 writing requirements to /tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/requires.txt 2021-07-14T15:13:08,727 writing top-level names to /tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/top_level.txt 2021-07-14T15:13:08,728 writing manifest file '/tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/SOURCES.txt' 2021-07-14T15:13:09,081 reading manifest file '/tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/SOURCES.txt' 2021-07-14T15:13:09,087 writing manifest file '/tmp/pip-pip-egg-info-xea6daz6/hits.egg-info/SOURCES.txt' 2021-07-14T15:13:09,175 Source in /tmp/pip-wheel-7opo95bj/hits_47c407a372864428bc8ecaf159294ebb has version 0.0.2, which satisfies requirement hits==0.0.2 from https://files.pythonhosted.org/packages/bd/a4/dab4eb36d5c301d6f60030768d14deae128e5baa9d6344eda764825d5ab7/hits-0.0.2.tar.gz#sha256=c290e0adae5371b003d2b222fe20a107f5e48fee64e3ff34207020df27a2b640 2021-07-14T15:13:09,176 Removed hits==0.0.2 from https://files.pythonhosted.org/packages/bd/a4/dab4eb36d5c301d6f60030768d14deae128e5baa9d6344eda764825d5ab7/hits-0.0.2.tar.gz#sha256=c290e0adae5371b003d2b222fe20a107f5e48fee64e3ff34207020df27a2b640 from build tracker '/tmp/pip-req-tracker-xw_g27si' 2021-07-14T15:13:09,182 Created temporary directory: /tmp/pip-unpack-qgd0acb_ 2021-07-14T15:13:09,183 Building wheels for collected packages: hits 2021-07-14T15:13:09,187 Created temporary directory: /tmp/pip-wheel-1959p2lm 2021-07-14T15:13:09,187 Building wheel for hits (setup.py): started 2021-07-14T15:13:09,187 Destination directory: /tmp/pip-wheel-1959p2lm 2021-07-14T15:13:09,188 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-7opo95bj/hits_47c407a372864428bc8ecaf159294ebb/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-7opo95bj/hits_47c407a372864428bc8ecaf159294ebb/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-1959p2lm 2021-07-14T15:13:10,459 running bdist_wheel 2021-07-14T15:13:10,620 running build 2021-07-14T15:13:10,620 running build_py 2021-07-14T15:13:10,761 creating build 2021-07-14T15:13:10,761 creating build/lib.linux-armv7l-3.9 2021-07-14T15:13:10,762 creating build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,763 copying hits/gff.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,765 copying hits/annotation.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,767 copying hits/adapters.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,769 copying hits/fasta.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,771 copying hits/interval.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,773 copying hits/external_sort.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,775 copying hits/ipython.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,777 copying hits/paired_end.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,779 copying hits/fastq.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,782 copying hits/visualize_structure.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,784 copying hits/intensities_illumina.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,787 copying hits/genomes.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,789 copying hits/sam.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,793 copying hits/variants.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,797 copying hits/mapping_tools.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,800 copying hits/sw.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,803 copying hits/genetic_code.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,805 copying hits/utilities.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,807 copying hits/__init__.py -> build/lib.linux-armv7l-3.9/hits 2021-07-14T15:13:10,810 creating build/lib.linux-armv7l-3.9/hits/visualize 2021-07-14T15:13:10,811 copying hits/visualize/define_igv_colors.py -> build/lib.linux-armv7l-3.9/hits/visualize 2021-07-14T15:13:10,813 copying hits/visualize/fastq.py -> build/lib.linux-armv7l-3.9/hits/visualize 2021-07-14T15:13:10,815 copying hits/visualize/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize 2021-07-14T15:13:10,818 copying hits/visualize/gels.py -> build/lib.linux-armv7l-3.9/hits/visualize 2021-07-14T15:13:10,822 creating build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,823 copying hits/visualize/interactive/external_coffeescript.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,826 copying hits/visualize/interactive/pc.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,828 copying hits/visualize/interactive/__init__.py -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,838 copying hits/visualize/interactive/pc_hover.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,840 copying hits/visualize/interactive/scatter_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,843 copying hits/visualize/interactive/scatter_label_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,845 copying hits/visualize/interactive/scatter_cluster_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,847 copying hits/visualize/interactive/pc_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,849 copying hits/visualize/interactive/scatter_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,851 copying hits/visualize/interactive/pc_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,853 copying hits/visualize/interactive/scatter_grid.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,856 copying hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,858 copying hits/visualize/interactive/screen_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,860 copying hits/visualize/interactive/screen_significance_filter.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,862 copying hits/visualize/interactive/scatter_size.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,865 copying hits/visualize/interactive/scatter_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,867 copying hits/visualize/interactive/pc_box_select.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,869 copying hits/visualize/interactive/scatter_case_sensitive.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,871 copying hits/visualize/interactive/scatter_two_level_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,873 copying hits/visualize/interactive/screen_search.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,876 copying hits/visualize/interactive/screen_scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,878 copying hits/visualize/interactive/pc_clear.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,880 copying hits/visualize/interactive/screen_range.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,882 copying hits/visualize/interactive/scatter_label.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,885 copying hits/visualize/interactive/scatter_save_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,887 copying hits/visualize/interactive/scatter_subset_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,889 copying hits/visualize/interactive/scatter_color.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,891 copying hits/visualize/interactive/scatter_selection.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,894 copying hits/visualize/interactive/scatter_size_menu.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,896 copying hits/visualize/interactive/scatter_heatmap.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,898 copying hits/visualize/interactive/screen_errorbars_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,900 copying hits/visualize/interactive/scatter_alpha.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,903 copying hits/visualize/interactive/scatter_annotation_button.coffee -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,905 copying hits/visualize/interactive/example_df.txt -> build/lib.linux-armv7l-3.9/hits/visualize/interactive 2021-07-14T15:13:10,969 running build_ext 2021-07-14T15:13:10,975 cythoning hits/adapters_cython.pyx to hits/adapters_cython.c 2021-07-14T15:13:11,806 cythoning hits/fastq_cython.pyx to hits/fastq_cython.c 2021-07-14T15:13:18,585 cythoning hits/sw_cython.pyx to hits/sw_cython.c 2021-07-14T15:13:24,158 building 'adapters_cython' extension 2021-07-14T15:13:24,158 creating build/temp.linux-armv7l-3.9 2021-07-14T15:13:24,159 creating build/temp.linux-armv7l-3.9/hits 2021-07-14T15:13:24,159 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 2021-07-14T15:13:25,995 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 2021-07-14T15:13:26,106 building 'fastq_cython' extension 2021-07-14T15:13:26,107 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 2021-07-14T15:13:26,496 hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_2process_read’: 2021-07-14T15:13:26,497 hits/fastq_cython.c:2645:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T15:13:26,497 2645 | __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0); 2021-07-14T15:13:26,497 | ^~ 2021-07-14T15:13:26,502 hits/fastq_cython.c: In function ‘__pyx_pf_12fastq_cython_4process_Alignment’: 2021-07-14T15:13:26,503 hits/fastq_cython.c:2919:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T15:13:26,503 2919 | __pyx_t_6 = ((__pyx_v_q >= __pyx_v_min_q) != 0); 2021-07-14T15:13:26,503 | ^~ 2021-07-14T15:13:38,343 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 2021-07-14T15:13:38,504 building 'sw_cython' extension 2021-07-14T15:13:38,504 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 2021-07-14T15:13:38,912 hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_generate_matrices’: 2021-07-14T15:13:38,914 hits/sw_cython.c:2660:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-14T15:13:38,914 2660 | for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) { 2021-07-14T15:13:38,914 | ^ 2021-07-14T15:13:38,918 hits/sw_cython.c:2721:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-14T15:13:38,918 2721 | for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) { 2021-07-14T15:13:38,918 | ^ 2021-07-14T15:13:38,922 hits/sw_cython.c:2796:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-14T15:13:38,923 2796 | for (__pyx_t_11 = 1; __pyx_t_11 < __pyx_t_10; __pyx_t_11+=1) { 2021-07-14T15:13:38,923 | ^ 2021-07-14T15:13:38,924 hits/sw_cython.c:2809:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-14T15:13:38,925 2809 | for (__pyx_t_18 = 1; __pyx_t_18 < __pyx_t_17; __pyx_t_18+=1) { 2021-07-14T15:13:38,925 | ^ 2021-07-14T15:13:38,976 hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_4extend_perfect_seed’: 2021-07-14T15:13:38,979 hits/sw_cython.c:4865:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T15:13:38,979 4865 | __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_3) != 0); 2021-07-14T15:13:38,979 | ^ 2021-07-14T15:13:38,982 hits/sw_cython.c:4872:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T15:13:38,982 4872 | __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_3) != 0); 2021-07-14T15:13:38,982 | ^ 2021-07-14T15:13:38,991 hits/sw_cython.c: In function ‘__pyx_pf_9sw_cython_6extend_perfect_seed_with_one_nt_deletion’: 2021-07-14T15:13:38,994 hits/sw_cython.c:5187:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T15:13:38,994 5187 | __pyx_t_2 = ((__pyx_v_query_end < __pyx_t_4) != 0); 2021-07-14T15:13:38,994 | ^ 2021-07-14T15:13:38,997 hits/sw_cython.c:5194:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T15:13:38,997 5194 | __pyx_t_2 = ((__pyx_v_target_end < __pyx_t_4) != 0); 2021-07-14T15:13:38,997 | ^ 2021-07-14T15:13:53,288 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 2021-07-14T15:13:53,476 installing to build/bdist.linux-armv7l/wheel 2021-07-14T15:13:53,476 running install 2021-07-14T15:13:53,478 running install_lib 2021-07-14T15:13:53,483 creating build/bdist.linux-armv7l 2021-07-14T15:13:53,483 creating build/bdist.linux-armv7l/wheel 2021-07-14T15:13:53,485 creating build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,486 copying build/lib.linux-armv7l-3.9/hits/gff.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,489 copying build/lib.linux-armv7l-3.9/hits/annotation.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,491 copying build/lib.linux-armv7l-3.9/hits/adapters.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,494 copying build/lib.linux-armv7l-3.9/hits/fasta.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,496 copying build/lib.linux-armv7l-3.9/hits/interval.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,498 copying build/lib.linux-armv7l-3.9/hits/external_sort.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,501 creating build/bdist.linux-armv7l/wheel/hits/visualize 2021-07-14T15:13:53,502 copying build/lib.linux-armv7l-3.9/hits/visualize/define_igv_colors.py -> build/bdist.linux-armv7l/wheel/hits/visualize 2021-07-14T15:13:53,504 copying build/lib.linux-armv7l-3.9/hits/visualize/fastq.py -> build/bdist.linux-armv7l/wheel/hits/visualize 2021-07-14T15:13:53,508 creating build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,508 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_hover.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,510 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,512 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,514 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_cluster_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,516 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,518 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/example_df.txt -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,575 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,577 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,579 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_grid.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,581 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_zoom_to_data.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,582 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,584 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/external_coffeescript.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,586 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_significance_filter.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,588 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,590 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,591 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_box_select.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,594 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_case_sensitive.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,596 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_two_level_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,597 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_search.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,599 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,601 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc_clear.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,603 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_range.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,605 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_label.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,607 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_save_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,609 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_subset_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,612 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/pc.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,614 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_color.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,616 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_selection.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,618 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_size_menu.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,620 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_heatmap.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,622 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/screen_errorbars_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,624 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_alpha.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,626 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/scatter_annotation_button.coffee -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,628 copying build/lib.linux-armv7l-3.9/hits/visualize/interactive/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize/interactive 2021-07-14T15:13:53,632 copying build/lib.linux-armv7l-3.9/hits/visualize/__init__.py -> build/bdist.linux-armv7l/wheel/hits/visualize 2021-07-14T15:13:53,635 copying build/lib.linux-armv7l-3.9/hits/visualize/gels.py -> build/bdist.linux-armv7l/wheel/hits/visualize 2021-07-14T15:13:53,638 copying build/lib.linux-armv7l-3.9/hits/ipython.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,640 copying build/lib.linux-armv7l-3.9/hits/paired_end.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,643 copying build/lib.linux-armv7l-3.9/hits/sw_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,667 copying build/lib.linux-armv7l-3.9/hits/fastq.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,670 copying build/lib.linux-armv7l-3.9/hits/visualize_structure.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,673 copying build/lib.linux-armv7l-3.9/hits/intensities_illumina.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,675 copying build/lib.linux-armv7l-3.9/hits/genomes.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,677 copying build/lib.linux-armv7l-3.9/hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,684 copying build/lib.linux-armv7l-3.9/hits/sam.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,688 copying build/lib.linux-armv7l-3.9/hits/variants.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,691 copying build/lib.linux-armv7l-3.9/hits/mapping_tools.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,694 copying build/lib.linux-armv7l-3.9/hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,714 copying build/lib.linux-armv7l-3.9/hits/sw.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,717 copying build/lib.linux-armv7l-3.9/hits/genetic_code.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,720 copying build/lib.linux-armv7l-3.9/hits/utilities.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,723 copying build/lib.linux-armv7l-3.9/hits/__init__.py -> build/bdist.linux-armv7l/wheel/hits 2021-07-14T15:13:53,725 running install_egg_info 2021-07-14T15:13:53,750 running egg_info 2021-07-14T15:13:53,752 writing hits.egg-info/PKG-INFO 2021-07-14T15:13:53,754 writing dependency_links to hits.egg-info/dependency_links.txt 2021-07-14T15:13:53,757 writing requirements to hits.egg-info/requires.txt 2021-07-14T15:13:53,758 writing top-level names to hits.egg-info/top_level.txt 2021-07-14T15:13:53,805 reading manifest file 'hits.egg-info/SOURCES.txt' 2021-07-14T15:13:53,815 writing manifest file 'hits.egg-info/SOURCES.txt' 2021-07-14T15:13:53,818 Copying hits.egg-info to build/bdist.linux-armv7l/wheel/hits-0.0.2-py3.9.egg-info 2021-07-14T15:13:53,829 running install_scripts 2021-07-14T15:13:53,888 creating build/bdist.linux-armv7l/wheel/hits-0.0.2.dist-info/WHEEL 2021-07-14T15:13:53,891 creating '/tmp/pip-wheel-1959p2lm/hits-0.0.2-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-14T15:13:53,894 adding 'hits/__init__.py' 2021-07-14T15:13:53,895 adding 'hits/adapters.py' 2021-07-14T15:13:53,921 adding 'hits/adapters_cython.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T15:13:53,924 adding 'hits/annotation.py' 2021-07-14T15:13:53,925 adding 'hits/external_sort.py' 2021-07-14T15:13:53,927 adding 'hits/fasta.py' 2021-07-14T15:13:53,929 adding 'hits/fastq.py' 2021-07-14T15:13:54,100 adding 'hits/fastq_cython.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T15:13:54,108 adding 'hits/genetic_code.py' 2021-07-14T15:13:54,109 adding 'hits/genomes.py' 2021-07-14T15:13:54,111 adding 'hits/gff.py' 2021-07-14T15:13:54,114 adding 'hits/intensities_illumina.py' 2021-07-14T15:13:54,116 adding 'hits/interval.py' 2021-07-14T15:13:54,117 adding 'hits/ipython.py' 2021-07-14T15:13:54,120 adding 'hits/mapping_tools.py' 2021-07-14T15:13:54,124 adding 'hits/paired_end.py' 2021-07-14T15:13:54,132 adding 'hits/sam.py' 2021-07-14T15:13:54,136 adding 'hits/sw.py' 2021-07-14T15:13:54,335 adding 'hits/sw_cython.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T15:13:54,344 adding 'hits/utilities.py' 2021-07-14T15:13:54,348 adding 'hits/variants.py' 2021-07-14T15:13:54,351 adding 'hits/visualize_structure.py' 2021-07-14T15:13:54,354 adding 'hits/visualize/__init__.py' 2021-07-14T15:13:54,356 adding 'hits/visualize/define_igv_colors.py' 2021-07-14T15:13:54,358 adding 'hits/visualize/fastq.py' 2021-07-14T15:13:54,362 adding 'hits/visualize/gels.py' 2021-07-14T15:13:54,369 adding 'hits/visualize/interactive/__init__.py' 2021-07-14T15:13:54,815 adding 'hits/visualize/interactive/example_df.txt' 2021-07-14T15:13:54,839 adding 'hits/visualize/interactive/external_coffeescript.py' 2021-07-14T15:13:54,840 adding 'hits/visualize/interactive/pc.py' 2021-07-14T15:13:54,842 adding 'hits/visualize/interactive/pc_box_select.coffee' 2021-07-14T15:13:54,843 adding 'hits/visualize/interactive/pc_clear.coffee' 2021-07-14T15:13:54,845 adding 'hits/visualize/interactive/pc_hover.coffee' 2021-07-14T15:13:54,846 adding 'hits/visualize/interactive/pc_search.coffee' 2021-07-14T15:13:54,848 adding 'hits/visualize/interactive/pc_selection.coffee' 2021-07-14T15:13:54,849 adding 'hits/visualize/interactive/scatter_alpha.coffee' 2021-07-14T15:13:54,850 adding 'hits/visualize/interactive/scatter_annotation_button.coffee' 2021-07-14T15:13:54,852 adding 'hits/visualize/interactive/scatter_case_sensitive.coffee' 2021-07-14T15:13:54,853 adding 'hits/visualize/interactive/scatter_cluster_button.coffee' 2021-07-14T15:13:54,854 adding 'hits/visualize/interactive/scatter_color.coffee' 2021-07-14T15:13:54,856 adding 'hits/visualize/interactive/scatter_grid.coffee' 2021-07-14T15:13:54,857 adding 'hits/visualize/interactive/scatter_heatmap.coffee' 2021-07-14T15:13:54,859 adding 'hits/visualize/interactive/scatter_label.coffee' 2021-07-14T15:13:54,860 adding 'hits/visualize/interactive/scatter_label_button.coffee' 2021-07-14T15:13:54,862 adding 'hits/visualize/interactive/scatter_menu.coffee' 2021-07-14T15:13:54,863 adding 'hits/visualize/interactive/scatter_range.coffee' 2021-07-14T15:13:54,864 adding 'hits/visualize/interactive/scatter_save_button.coffee' 2021-07-14T15:13:54,866 adding 'hits/visualize/interactive/scatter_search.coffee' 2021-07-14T15:13:54,867 adding 'hits/visualize/interactive/scatter_selection.coffee' 2021-07-14T15:13:54,869 adding 'hits/visualize/interactive/scatter_size.coffee' 2021-07-14T15:13:54,870 adding 'hits/visualize/interactive/scatter_size_menu.coffee' 2021-07-14T15:13:54,872 adding 'hits/visualize/interactive/scatter_subset_menu.coffee' 2021-07-14T15:13:54,873 adding 'hits/visualize/interactive/scatter_two_level_menu.coffee' 2021-07-14T15:13:54,875 adding 'hits/visualize/interactive/scatter_zoom_to_data.coffee' 2021-07-14T15:13:54,876 adding 'hits/visualize/interactive/screen_errorbars_button.coffee' 2021-07-14T15:13:54,877 adding 'hits/visualize/interactive/screen_menu.coffee' 2021-07-14T15:13:54,879 adding 'hits/visualize/interactive/screen_range.coffee' 2021-07-14T15:13:54,880 adding 'hits/visualize/interactive/screen_scatter_selection.coffee' 2021-07-14T15:13:54,882 adding 'hits/visualize/interactive/screen_search.coffee' 2021-07-14T15:13:54,883 adding 'hits/visualize/interactive/screen_significance_filter.coffee' 2021-07-14T15:13:54,885 adding 'hits-0.0.2.dist-info/METADATA' 2021-07-14T15:13:54,887 adding 'hits-0.0.2.dist-info/WHEEL' 2021-07-14T15:13:54,888 adding 'hits-0.0.2.dist-info/top_level.txt' 2021-07-14T15:13:54,889 adding 'hits-0.0.2.dist-info/RECORD' 2021-07-14T15:13:54,922 removing build/bdist.linux-armv7l/wheel 2021-07-14T15:13:55,242 Building wheel for hits (setup.py): finished with status 'done' 2021-07-14T15:13:55,268 Created wheel for hits: filename=hits-0.0.2-cp39-cp39-linux_armv7l.whl size=1789195 sha256=0d4ee3c8d0aa80ae0513a1d48a5cabbe4fbd428ab8c95f06151e5e0e413d7217 2021-07-14T15:13:55,269 Stored in directory: /tmp/pip-ephem-wheel-cache-3jfqxbv4/wheels/c7/8c/97/67c1a3a09edbc43865aeca581f47eb4c8e6f10d0795ad27014 2021-07-14T15:13:55,280 Successfully built hits 2021-07-14T15:13:55,357 Removed build tracker: '/tmp/pip-req-tracker-xw_g27si'