2021-07-15T22:44:58,280 Created temporary directory: /tmp/pip-ephem-wheel-cache-ax5i7rup 2021-07-15T22:44:58,283 Created temporary directory: /tmp/pip-req-tracker-i_vq7mk0 2021-07-15T22:44:58,284 Initialized build tracking at /tmp/pip-req-tracker-i_vq7mk0 2021-07-15T22:44:58,284 Created build tracker: /tmp/pip-req-tracker-i_vq7mk0 2021-07-15T22:44:58,284 Entered build tracker: /tmp/pip-req-tracker-i_vq7mk0 2021-07-15T22:44:58,285 Created temporary directory: /tmp/pip-wheel-m8itgv2v 2021-07-15T22:44:58,315 1 location(s) to search for versions of mikado: 2021-07-15T22:44:58,315 * https://pypi.org/simple/mikado/ 2021-07-15T22:44:58,315 Fetching project page and analyzing links: https://pypi.org/simple/mikado/ 2021-07-15T22:44:58,316 Getting page https://pypi.org/simple/mikado/ 2021-07-15T22:44:58,317 Found index url https://pypi.org/simple 2021-07-15T22:44:58,511 Found link https://files.pythonhosted.org/packages/e0/9f/c6c5da77e4164c37427bc069d92e83c8269cdf779a43501403ae837a24b3/Mikado-1.0.0b5.post1.tar.gz#sha256=a0e3b57aaec61721c4288cade4cf5386aa069710cc947faaecbae6e3eddb6be6 (from https://pypi.org/simple/mikado/), version: 1.0.0b5.post1 2021-07-15T22:44:58,511 Found link https://files.pythonhosted.org/packages/8f/6c/ee9884cd930db5bfbee812ad1592a32127edbedf01cf28713eda06d5a9b1/Mikado-1.0.0b9.tar.gz#sha256=7d69a3202ee654421d1ef78b9ddabb2c60c2b830454406205c9bf253cc7c5f59 (from https://pypi.org/simple/mikado/), version: 1.0.0b9 2021-07-15T22:44:58,512 Found link https://files.pythonhosted.org/packages/7d/c9/edc669907250923ca1113fa140d1965eb25691f57aaff891642d34aaf217/Mikado-1.0.0b10.tar.gz#sha256=6062fa4c50cc8726f2fb1a37e202478142708b97fcc60d5bb33d3eaa1896d7ab (from https://pypi.org/simple/mikado/), version: 1.0.0b10 2021-07-15T22:44:58,512 Found link https://files.pythonhosted.org/packages/69/15/3551e2856f041aefdd1505656aa8af26b1af04f8e1b4c0448f133724e1f4/Mikado-1.0.tar.gz#sha256=7c4ffaf359f7a0f509f1670c0bd8c9bcd3ed84ade45df15aa55a636021280ac4 (from https://pypi.org/simple/mikado/), version: 1.0 2021-07-15T22:44:58,512 Found link https://files.pythonhosted.org/packages/c2/b9/41d0a6f2ebad5eab5bc183beca8de854b4187266c6674ae6da0d86053f63/Mikado-1.1.tar.gz#sha256=aca1a822799de45494b56a0a2bf66e7eac49eb25cde6642f5da7aeb6515e573e (from https://pypi.org/simple/mikado/), version: 1.1 2021-07-15T22:44:58,513 Found link https://files.pythonhosted.org/packages/40/3d/1158abded48d747b982a77c1badd0d718a174470cdecde82a313f3eb9d4f/Mikado-1.2.tar.gz#sha256=43b2734aee61c437fd6d2c8645e10c1a9f723fa60505e3065bfea1f4a771e44e (from https://pypi.org/simple/mikado/), version: 1.2 2021-07-15T22:44:58,513 Found link https://files.pythonhosted.org/packages/9a/07/5d0790de2c40a36826ac078bf4f7bf62e1fd5848411a784e7eef9fd673c4/Mikado-1.2.1.tar.gz#sha256=3ce7626bfe43a0753ea7a9bcfc1c47ecb59e6616efd2bb0cfe7d373b9bec22c0 (from https://pypi.org/simple/mikado/), version: 1.2.1 2021-07-15T22:44:58,513 Found link https://files.pythonhosted.org/packages/35/a8/73f0dfa3062e3744b27ba7dd4c0bfc6af9b23da38c4c0ce8c7d5b27b0757/Mikado-1.2.2.tar.gz#sha256=5bd12d1563dc85f369f002cfbcc8023b9df71094547fa68589a6339da8688e08 (from https://pypi.org/simple/mikado/), version: 1.2.2 2021-07-15T22:44:58,531 Skipping link: none of the wheel's tags (cp36-cp36m-macosx_10_7_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/f6/7f/d791fd6b5667bf18f4e167803a05fe5c389722ca954dea524259e08121e1/Mikado-1.2.4-cp36-cp36m-macosx_10_7_x86_64.whl#sha256=86046d7c1d80363ae0bdea8adbaa73a499d288c1540ed7b7ef6cf2df8db2b809 (from https://pypi.org/simple/mikado/) 2021-07-15T22:44:58,531 Found link https://files.pythonhosted.org/packages/fc/2d/cc88561deaa5c1b4425855cd821253c68353ed787c7c63dc0f4ea155927e/Mikado-1.2.4.tar.gz#sha256=c0485dba3b7c285599809e058c83f33b5efa9522d20d9f980423410604207f61 (from https://pypi.org/simple/mikado/), version: 1.2.4 2021-07-15T22:44:58,532 Found link https://files.pythonhosted.org/packages/36/12/08d60892041a13f4bd13a486fb510844a8ed99961df828e7509e394904e6/Mikado-2.0rc1.tar.gz#sha256=745ffb74e62d1d1e777f1b6fc84acb8aae2f27290d40301fec0971560e6ba054 (from https://pypi.org/simple/mikado/), version: 2.0rc1 2021-07-15T22:44:58,532 Found link https://files.pythonhosted.org/packages/ba/bf/b9a01f43d67eacafe2deea77708497e8523b9cbc9c08d1da4bade64fdb99/Mikado-2.0rc2.tar.gz#sha256=3cbf2465f9e42dc7a02f8c4aff8625e5421010e3df7a6b3f98d87e82f5534e26 (from https://pypi.org/simple/mikado/), version: 2.0rc2 2021-07-15T22:44:58,533 Found link https://files.pythonhosted.org/packages/86/6d/f8b099f9637b38fd94c3f164f2c996765b579d2eae62cda48a04f108edb1/Mikado-2.0.tar.gz#sha256=f4736adb1014c70758f12904bf7dfe10e153b9497bdb82903d231540a23b8d57 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.0 2021-07-15T22:44:58,533 Found link https://files.pythonhosted.org/packages/2e/33/25f4ffb7a3fb20eb2d68ebbb4547dc7c2a26f6c5576a29cca8ba3981a753/Mikado-2.0.1.tar.gz#sha256=d77bf5ca843d8cea35208c52750d014d704d46889633d5ac0f12edba6b5aa131 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.0.1 2021-07-15T22:44:58,534 Found link https://files.pythonhosted.org/packages/3a/6e/c589e961b797498aa99fe23634edda75166679cd2a381b0354a2d1d7b46f/Mikado-2.0.2.tar.gz#sha256=6c58ccab055f95cdbb0fb0273397ce72186ff7d99fd5ba4bdeb812ea4c18f1a6 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.0.2 2021-07-15T22:44:58,534 Found link https://files.pythonhosted.org/packages/96/ff/815427acc6fb277fe387f6bf7509ad8e374be65f557bbf1f8c7741b21e02/Mikado-2.1.0.tar.gz#sha256=b8ca7cecead9e30430de2c205e65c961b3d704d9351b85d6108577f9ffaba58f (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.1.0 2021-07-15T22:44:58,535 Found link https://files.pythonhosted.org/packages/13/49/571306c6f821dc029a1cb70472498bd9d25525d126f2084798a774f9e4ce/Mikado-2.1.1.tar.gz#sha256=2107de041d57cac81b1ff52da2b1d029f6c66f7fde78adc66cfbafd57a5215b7 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.1.1 2021-07-15T22:44:58,535 Found link https://files.pythonhosted.org/packages/88/25/93f4d40e98702547602916000e9e8dee101c4e072c29306fcbf9cb6a0797/Mikado-2.2.0.tar.gz#sha256=0892dce8b07c655c63918933aaf4a47292bc5602f6be4b226756106c21c53177 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.2.0 2021-07-15T22:44:58,536 Found link https://files.pythonhosted.org/packages/f5/4a/ea11bafcbd376966836c1a70d6500fc63839fe529e8d103df8771057750a/Mikado-2.2.1.tar.gz#sha256=2f8d410340e39b0fced63ee523391eae8f18751f3a0910de1cf1a27e1129d210 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.2.1 2021-07-15T22:44:58,536 Found link https://files.pythonhosted.org/packages/d0/ba/88df54116a8a68de82bd668d6fa2189d4a26045b7e0437cdc50bfccf7002/Mikado-2.2.2.tar.gz#sha256=cb9705ff46b6e67279e27ac1836443782e128619b6ea78676364d11a097a21a9 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.2.2 2021-07-15T22:44:58,537 Found link https://files.pythonhosted.org/packages/28/dd/dec1ae4c7519971dc80a780dde045fce221adffba00535e3ff26de7c29ba/Mikado-2.2.3.tar.gz#sha256=bdbdbdeb56bab4a4d633a0be36aea1aac3c025763a5d6721c98982ac1bd17bf9 (from https://pypi.org/simple/mikado/) (requires-python:>=3.6), version: 2.2.3 2021-07-15T22:44:58,538 Found link https://files.pythonhosted.org/packages/26/c2/021f128fc8733aa031191d140d26c992a0f62dbd0f974913c7245f208bcf/Mikado-2.2.4.tar.gz#sha256=d7eeecb13334dcfee2e8b484e3aa4c31990a7e1f1e0001cabe5a669ef7c9f433 (from https://pypi.org/simple/mikado/) (requires-python:>3.6), version: 2.2.4 2021-07-15T22:44:58,538 Found link https://files.pythonhosted.org/packages/30/57/69347e6f46b8845741045f2782a5f59bd1a650167bb6be3ddbd38c8c73c5/Mikado-2.2.5.tar.gz#sha256=ea10960477612dd0a387b2135ed76dbc23e2957b3241c8726559541b88b9ee2e (from https://pypi.org/simple/mikado/) (requires-python:>3.6), version: 2.2.5 2021-07-15T22:44:58,539 Found link https://files.pythonhosted.org/packages/09/d8/c98c1549bcbb7f37b93d69625d4228b6b6a29a0676e9dece16e3a6061ff6/Mikado-2.3.0.tar.gz#sha256=c785197f0b6e6f8597100a63181a0d39109bec914e9691a0a972a5244da5cd32 (from https://pypi.org/simple/mikado/) (requires-python:>3.6), version: 2.3.0 2021-07-15T22:44:58,539 Skipping link: not a file: https://pypi.org/simple/mikado/ 2021-07-15T22:44:58,543 Given no hashes to check 1 links for project 'mikado': discarding no candidates 2021-07-15T22:44:58,562 Collecting mikado==2.0rc1 2021-07-15T22:44:58,564 Created temporary directory: /tmp/pip-unpack-tcifzalu 2021-07-15T22:44:58,604 Downloading Mikado-2.0rc1.tar.gz (22.8 MB) 2021-07-15T22:45:03,055 Added mikado==2.0rc1 from https://files.pythonhosted.org/packages/36/12/08d60892041a13f4bd13a486fb510844a8ed99961df828e7509e394904e6/Mikado-2.0rc1.tar.gz#sha256=745ffb74e62d1d1e777f1b6fc84acb8aae2f27290d40301fec0971560e6ba054 to build tracker '/tmp/pip-req-tracker-i_vq7mk0' 2021-07-15T22:45:03,056 Running setup.py (path:/tmp/pip-wheel-m8itgv2v/mikado_e1f03ebae8fc4b3cb5f8028fd6f318d0/setup.py) egg_info for package mikado 2021-07-15T22:45:03,057 Created temporary directory: /tmp/pip-pip-egg-info-t9uusbr1 2021-07-15T22:45:03,057 Running command python setup.py egg_info 2021-07-15T22:45:22,796 Compiling Mikado/utilities/intervaltree.pyx because it depends on /usr/local/lib/python3.9/dist-packages/Cython/Includes/libcpp/vector.pxd. 2021-07-15T22:45:22,797 Compiling Mikado/serializers/blast_serializer/btop_parser.pyx because it depends on /home/piwheels/.local/lib/python3.9/site-packages/numpy/__init__.pxd. 2021-07-15T22:45:22,797 Compiling Mikado/serializers/blast_serializer/aln_string_parser.pyx because it depends on /home/piwheels/.local/lib/python3.9/site-packages/numpy/__init__.pxd. 2021-07-15T22:45:22,797 [1/3] Cythonizing Mikado/serializers/blast_serializer/aln_string_parser.pyx 2021-07-15T22:45:22,797 [2/3] Cythonizing Mikado/serializers/blast_serializer/btop_parser.pyx 2021-07-15T22:45:22,797 [3/3] Cythonizing Mikado/utilities/intervaltree.pyx 2021-07-15T22:45:26,288 running egg_info 2021-07-15T22:45:26,291 creating /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info 2021-07-15T22:45:26,293 writing /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/PKG-INFO 2021-07-15T22:45:26,296 writing dependency_links to /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/dependency_links.txt 2021-07-15T22:45:26,298 writing entry points to /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/entry_points.txt 2021-07-15T22:45:26,300 writing requirements to /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/requires.txt 2021-07-15T22:45:26,301 writing top-level names to /tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/top_level.txt 2021-07-15T22:45:26,303 writing manifest file '/tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/SOURCES.txt' 2021-07-15T22:45:26,520 reading manifest file '/tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/SOURCES.txt' 2021-07-15T22:45:26,523 reading manifest template 'MANIFEST.in' 2021-07-15T22:45:26,809 warning: no previously-included files found matching 'util/analyse_metrics.py' 2021-07-15T22:45:26,810 warning: no previously-included files found matching 'util/create_model.py' 2021-07-15T22:45:26,812 warning: no previously-included files found matching 'util/self_training.py' 2021-07-15T22:45:27,305 warning: no previously-included files matching '*' found under directory 'docs/' 2021-07-15T22:45:27,306 adding license file 'AUTHORS' 2021-07-15T22:45:27,323 writing manifest file '/tmp/pip-pip-egg-info-t9uusbr1/Mikado.egg-info/SOURCES.txt' 2021-07-15T22:45:27,773 Source in /tmp/pip-wheel-m8itgv2v/mikado_e1f03ebae8fc4b3cb5f8028fd6f318d0 has version 2.0rc1, which satisfies requirement mikado==2.0rc1 from https://files.pythonhosted.org/packages/36/12/08d60892041a13f4bd13a486fb510844a8ed99961df828e7509e394904e6/Mikado-2.0rc1.tar.gz#sha256=745ffb74e62d1d1e777f1b6fc84acb8aae2f27290d40301fec0971560e6ba054 2021-07-15T22:45:27,774 Removed mikado==2.0rc1 from https://files.pythonhosted.org/packages/36/12/08d60892041a13f4bd13a486fb510844a8ed99961df828e7509e394904e6/Mikado-2.0rc1.tar.gz#sha256=745ffb74e62d1d1e777f1b6fc84acb8aae2f27290d40301fec0971560e6ba054 from build tracker '/tmp/pip-req-tracker-i_vq7mk0' 2021-07-15T22:45:27,779 Created temporary directory: /tmp/pip-unpack-92d7u5hs 2021-07-15T22:45:27,779 Building wheels for collected packages: mikado 2021-07-15T22:45:27,783 Created temporary directory: /tmp/pip-wheel-dqy5iydo 2021-07-15T22:45:27,784 Building wheel for mikado (setup.py): started 2021-07-15T22:45:27,784 Destination directory: /tmp/pip-wheel-dqy5iydo 2021-07-15T22:45:27,784 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-m8itgv2v/mikado_e1f03ebae8fc4b3cb5f8028fd6f318d0/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-m8itgv2v/mikado_e1f03ebae8fc4b3cb5f8028fd6f318d0/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-dqy5iydo 2021-07-15T22:45:30,931 running bdist_wheel 2021-07-15T22:45:30,937 running build 2021-07-15T22:45:30,938 running build_py 2021-07-15T22:45:31,073 creating build 2021-07-15T22:45:31,074 creating build/lib.linux-armv7l-3.9 2021-07-15T22:45:31,074 creating build/lib.linux-armv7l-3.9/Mikado 2021-07-15T22:45:31,076 copying Mikado/__init__.py -> build/lib.linux-armv7l-3.9/Mikado 2021-07-15T22:45:31,078 copying Mikado/version.py -> build/lib.linux-armv7l-3.9/Mikado 2021-07-15T22:45:31,080 copying Mikado/exceptions.py -> build/lib.linux-armv7l-3.9/Mikado 2021-07-15T22:45:31,082 creating build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,083 copying Mikado/parsers/gfannotation.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,086 copying Mikado/parsers/bed12.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,089 copying Mikado/parsers/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,091 copying Mikado/parsers/GFF.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,094 copying Mikado/parsers/bam_parser.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,096 copying Mikado/parsers/blast_utils.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,099 copying Mikado/parsers/GTF.py -> build/lib.linux-armv7l-3.9/Mikado/parsers 2021-07-15T22:45:31,102 creating build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:31,103 copying Mikado/daijin/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:31,108 creating build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:31,109 copying Mikado/utilities/dbutils.py -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:31,112 copying Mikado/utilities/log_utils.py -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:31,114 copying Mikado/utilities/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:31,117 copying Mikado/utilities/file_type.py -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:31,120 creating build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,120 copying Mikado/transcripts/transcript.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,128 copying Mikado/transcripts/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,130 copying Mikado/transcripts/transcriptchecker.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,133 copying Mikado/transcripts/transcriptcomputer.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,135 copying Mikado/transcripts/clique_methods.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts 2021-07-15T22:45:31,138 creating build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,139 copying Mikado/subprograms/compare.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,141 copying Mikado/subprograms/pick.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,144 copying Mikado/subprograms/serialise.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,147 copying Mikado/subprograms/prepare.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,150 copying Mikado/subprograms/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,151 copying Mikado/subprograms/__main__.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,153 copying Mikado/subprograms/configure.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms 2021-07-15T22:45:31,159 creating build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,160 copying Mikado/tests/test_gene.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,162 copying Mikado/tests/intervaltree_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,164 copying Mikado/tests/utilities_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,167 copying Mikado/tests/test_splitting.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,170 copying Mikado/tests/test_clique_methods.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,172 copying Mikado/tests/locus_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,178 copying Mikado/tests/test_configurators.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,181 copying Mikado/tests/test_transcript_positive.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,185 copying Mikado/tests/test_serialise_external.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,187 copying Mikado/tests/test_bed12.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,190 copying Mikado/tests/test_scores.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,193 copying Mikado/tests/test_modifications.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,195 copying Mikado/tests/parser_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,198 copying Mikado/tests/test_transcript_methods.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,201 copying Mikado/tests/orf_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,204 copying Mikado/tests/test_utils.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,206 copying Mikado/tests/test_transcript_negative.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,209 copying Mikado/tests/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,211 copying Mikado/tests/test_invalid_orfs.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,213 copying Mikado/tests/assigner_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,217 copying Mikado/tests/test_transcript_single.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,220 copying Mikado/tests/test_serialise_junctions.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,223 copying Mikado/tests/test_external_scores.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,225 copying Mikado/tests/test_transcript_checker.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,228 copying Mikado/tests/test_metrics.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,231 copying Mikado/tests/test_system_calls.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,237 copying Mikado/tests/test_json.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,239 copying Mikado/tests/prepare_misc_test.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,242 copying Mikado/tests/test_db_utils.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,244 copying Mikado/tests/test_blast_related.py -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:31,248 creating build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,249 copying Mikado/loci/excluded.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,251 copying Mikado/loci/monosublocusholder.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,254 copying Mikado/loci/locus.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,259 copying Mikado/loci/reference_gene.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,261 copying Mikado/loci/sublocus.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,264 copying Mikado/loci/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,266 copying Mikado/loci/abstractlocus.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,271 copying Mikado/loci/monosublocus.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,273 copying Mikado/loci/superlocus.py -> build/lib.linux-armv7l-3.9/Mikado/loci 2021-07-15T22:45:31,278 creating build/lib.linux-armv7l-3.9/Mikado/preparation 2021-07-15T22:45:31,279 copying Mikado/preparation/annotation_parser.py -> build/lib.linux-armv7l-3.9/Mikado/preparation 2021-07-15T22:45:31,283 copying Mikado/preparation/prepare.py -> build/lib.linux-armv7l-3.9/Mikado/preparation 2021-07-15T22:45:31,286 copying Mikado/preparation/checking.py -> build/lib.linux-armv7l-3.9/Mikado/preparation 2021-07-15T22:45:31,289 copying Mikado/preparation/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/preparation 2021-07-15T22:45:31,291 creating build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:31,292 copying Mikado/configuration/configurator.py -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:31,295 copying Mikado/configuration/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:31,298 copying Mikado/configuration/daijin_configurator.py -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:31,301 creating build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,302 copying Mikado/picking/_merge_loci_utils.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,305 copying Mikado/picking/loci_processer.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,308 copying Mikado/picking/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,309 copying Mikado/picking/_locus_line_creator.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,311 copying Mikado/picking/_loci_serialiser.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,313 copying Mikado/picking/_locus_single_printer.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,315 copying Mikado/picking/picker.py -> build/lib.linux-armv7l-3.9/Mikado/picking 2021-07-15T22:45:31,320 creating build/lib.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:45:31,321 copying Mikado/serializers/junction.py -> build/lib.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:45:31,323 copying Mikado/serializers/external.py -> build/lib.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:45:31,326 copying Mikado/serializers/orf.py -> build/lib.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:45:31,329 copying Mikado/serializers/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:45:31,332 creating build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,333 copying Mikado/scales/gene_dict.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,335 copying Mikado/scales/accountant.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,339 copying Mikado/scales/compare.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,342 copying Mikado/scales/assigner.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,346 copying Mikado/scales/class_codes.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,349 copying Mikado/scales/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,351 copying Mikado/scales/resultstorer.py -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:31,354 creating build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,355 copying Mikado/transcripts/transcript_methods/printing.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,358 copying Mikado/transcripts/transcript_methods/finalizing.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,361 copying Mikado/transcripts/transcript_methods/splitting.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,364 copying Mikado/transcripts/transcript_methods/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,366 copying Mikado/transcripts/transcript_methods/retrieval.py -> build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods 2021-07-15T22:45:31,371 creating build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,372 copying Mikado/subprograms/util/awk_gtf.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,374 copying Mikado/subprograms/util/class_codes.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,376 copying Mikado/subprograms/util/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,378 copying Mikado/subprograms/util/trim.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,381 copying Mikado/subprograms/util/stats.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,385 copying Mikado/subprograms/util/convert.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,387 copying Mikado/subprograms/util/metrics.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,390 copying Mikado/subprograms/util/grep.py -> build/lib.linux-armv7l-3.9/Mikado/subprograms/util 2021-07-15T22:45:31,394 creating build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,395 copying Mikado/serializers/blast_serializer/utils.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,397 copying Mikado/serializers/blast_serializer/hit.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,400 copying Mikado/serializers/blast_serializer/xml_utils.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,403 copying Mikado/serializers/blast_serializer/xml_serialiser.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,406 copying Mikado/serializers/blast_serializer/tab_serialiser.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,408 copying Mikado/serializers/blast_serializer/hsp.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,410 copying Mikado/serializers/blast_serializer/target.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,412 copying Mikado/serializers/blast_serializer/query.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,415 copying Mikado/serializers/blast_serializer/__init__.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,416 copying Mikado/serializers/blast_serializer/blast_serialiser.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,419 copying Mikado/serializers/blast_serializer/tabular_utils.py -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:31,422 running egg_info 2021-07-15T22:45:31,427 writing Mikado.egg-info/PKG-INFO 2021-07-15T22:45:31,429 writing dependency_links to Mikado.egg-info/dependency_links.txt 2021-07-15T22:45:31,431 writing entry points to Mikado.egg-info/entry_points.txt 2021-07-15T22:45:31,432 writing requirements to Mikado.egg-info/requires.txt 2021-07-15T22:45:31,434 writing top-level names to Mikado.egg-info/top_level.txt 2021-07-15T22:45:31,493 reading manifest file 'Mikado.egg-info/SOURCES.txt' 2021-07-15T22:45:31,505 reading manifest template 'MANIFEST.in' 2021-07-15T22:45:31,788 warning: no previously-included files found matching 'util/analyse_metrics.py' 2021-07-15T22:45:31,789 warning: no previously-included files found matching 'util/create_model.py' 2021-07-15T22:45:31,790 warning: no previously-included files found matching 'util/self_training.py' 2021-07-15T22:45:32,264 warning: no previously-included files matching '*' found under directory 'docs/' 2021-07-15T22:45:32,265 adding license file 'AUTHORS' 2021-07-15T22:45:32,287 writing manifest file 'Mikado.egg-info/SOURCES.txt' 2021-07-15T22:45:32,309 copying Mikado/daijin/assemble.smk -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:32,313 copying Mikado/daijin/example_config.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:32,315 copying Mikado/daijin/hpc.json -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:32,318 copying Mikado/daijin/hpc.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:32,320 copying Mikado/daijin/mikado.smk -> build/lib.linux-armv7l-3.9/Mikado/daijin 2021-07-15T22:45:32,324 creating build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,325 copying Mikado/daijin/envs/blast.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,329 copying Mikado/daijin/envs/cufflinks.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,332 copying Mikado/daijin/envs/diamond.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,335 copying Mikado/daijin/envs/gmap.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,338 copying Mikado/daijin/envs/gnuplot.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,340 copying Mikado/daijin/envs/hisat2.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,344 copying Mikado/daijin/envs/portcullis.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,346 copying Mikado/daijin/envs/prodigal.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,349 copying Mikado/daijin/envs/samtools.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,352 copying Mikado/daijin/envs/scallop.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,354 copying Mikado/daijin/envs/star.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,357 copying Mikado/daijin/envs/stringtie.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,360 copying Mikado/daijin/envs/tophat2.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,363 copying Mikado/daijin/envs/transdecoder.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,365 copying Mikado/daijin/envs/trinity.yaml -> build/lib.linux-armv7l-3.9/Mikado/daijin/envs 2021-07-15T22:45:32,368 copying Mikado/utilities/intervaltree.cpp -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,393 copying Mikado/utilities/intervaltree.pxd -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,396 copying Mikado/utilities/intervaltree.pyx -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,399 copying Mikado/utilities/overlap.c -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,406 copying Mikado/utilities/overlap.pxd -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,408 copying Mikado/utilities/overlap.pyx -> build/lib.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:32,411 copying Mikado/tests/Chrysemys_picta_bellii_problematic.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,414 copying Mikado/tests/Chrysemys_picta_bellii_problematic.list.txt -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,417 copying Mikado/tests/Chrysemys_picta_bellii_problematic.txt -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,420 copying Mikado/tests/annotation.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,423 copying Mikado/tests/annotation.gff3.stats -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,426 copying Mikado/tests/cds_test_1.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,429 copying Mikado/tests/cds_test_2.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,432 copying Mikado/tests/check_seed.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,435 copying Mikado/tests/check_seed.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,439 copying Mikado/tests/chr5.fas.gz -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,598 copying Mikado/tests/chr5.fas.gz.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,601 copying Mikado/tests/chr5.fas.gz.gzi -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,604 copying Mikado/tests/chunk-001-proteins.xml.gz -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,609 copying Mikado/tests/complete_padding.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,611 copying Mikado/tests/configuration.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,615 copying Mikado/tests/cufflinks.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,619 copying Mikado/tests/cufflinks.no_transcript.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,623 copying Mikado/tests/genome.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,627 copying Mikado/tests/gtf_check.gtf.gz -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,630 copying Mikado/tests/junctions.bed -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,635 copying Mikado/tests/mikado.blast.asn.gz -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,643 copying Mikado/tests/mikado.blast.xml -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:32,935 copying Mikado/tests/mikado.db -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,062 copying Mikado/tests/mikado_prepared.fasta -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,068 copying Mikado/tests/mikado_prepared.fasta.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,070 copying Mikado/tests/mikado_prepared.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,074 copying Mikado/tests/neg_pad.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,077 copying Mikado/tests/neg_pad.fa -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,081 copying Mikado/tests/neg_pad.fa.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,084 copying Mikado/tests/pad_three_neg.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,087 copying Mikado/tests/pad_utr.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,089 copying Mikado/tests/padding_test.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,092 copying Mikado/tests/padding_test.fa -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,097 copying Mikado/tests/padding_test.fa.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,100 copying Mikado/tests/padding_test.rev_compl.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,102 copying Mikado/tests/padding_test.rev_compl.fa -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,107 copying Mikado/tests/padding_test.rev_compl.fa.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,110 copying Mikado/tests/phasing_padding.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,113 copying Mikado/tests/plants.suspicious_requirement.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,116 copying Mikado/tests/scoring_only_cds.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,119 copying Mikado/tests/test_mRNA.bam -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,127 copying Mikado/tests/test_truncated_cds.fa -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,131 copying Mikado/tests/test_truncated_cds.fa.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,134 copying Mikado/tests/test_truncated_cds.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,137 copying Mikado/tests/transcripts.fasta.prodigal.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,141 copying Mikado/tests/trinity.bed12 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,145 copying Mikado/tests/trinity.cDNA_match.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,148 copying Mikado/tests/trinity.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,152 copying Mikado/tests/trinity.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,156 copying Mikado/tests/trinity.ids -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,158 copying Mikado/tests/trinity.match_matchpart.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,162 copying Mikado/tests/trinity.minimap2.bam -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,166 copying Mikado/tests/trinity.no_transcript_feature.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,169 copying Mikado/tests/trinity_stats.txt -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,172 copying Mikado/tests/uniprot_sprot_plants.fasta.gz -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,320 copying Mikado/tests/uniprot_sprot_plants.fasta.gz.fai -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,345 copying Mikado/tests/uniprot_sprot_plants.fasta.gz.gzi -> build/lib.linux-armv7l-3.9/Mikado/tests 2021-07-15T22:45:33,349 creating build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,349 copying Mikado/tests/__pycache__/__init__.cpython-36.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,352 copying Mikado/tests/__pycache__/__init__.cpython-37.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,354 copying Mikado/tests/__pycache__/assigner_test.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,357 copying Mikado/tests/__pycache__/assigner_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,361 copying Mikado/tests/__pycache__/intervaltree_test.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,363 copying Mikado/tests/__pycache__/intervaltree_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,366 copying Mikado/tests/__pycache__/locus_test.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,372 copying Mikado/tests/__pycache__/locus_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,377 copying Mikado/tests/__pycache__/orf_test.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,380 copying Mikado/tests/__pycache__/orf_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,384 copying Mikado/tests/__pycache__/parser_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,387 copying Mikado/tests/__pycache__/prepare_misc_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,390 copying Mikado/tests/__pycache__/test_bed12.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,392 copying Mikado/tests/__pycache__/test_bed12.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,395 copying Mikado/tests/__pycache__/test_blast_related.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,398 copying Mikado/tests/__pycache__/test_blast_related.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,401 copying Mikado/tests/__pycache__/test_clique_methods.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,403 copying Mikado/tests/__pycache__/test_clique_methods.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,406 copying Mikado/tests/__pycache__/test_configurators.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,408 copying Mikado/tests/__pycache__/test_db_utils.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,410 copying Mikado/tests/__pycache__/test_db_utils.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,413 copying Mikado/tests/__pycache__/test_external_scores.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,415 copying Mikado/tests/__pycache__/test_external_scores.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,417 copying Mikado/tests/__pycache__/test_gene.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,420 copying Mikado/tests/__pycache__/test_gene.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,422 copying Mikado/tests/__pycache__/test_invalid_orfs.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,425 copying Mikado/tests/__pycache__/test_invalid_orfs.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,427 copying Mikado/tests/__pycache__/test_json.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,430 copying Mikado/tests/__pycache__/test_json.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,432 copying Mikado/tests/__pycache__/test_metrics.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,435 copying Mikado/tests/__pycache__/test_metrics.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,437 copying Mikado/tests/__pycache__/test_modifications.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,440 copying Mikado/tests/__pycache__/test_modifications.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,442 copying Mikado/tests/__pycache__/test_scores.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,445 copying Mikado/tests/__pycache__/test_scores.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,448 copying Mikado/tests/__pycache__/test_serialise_external.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,451 copying Mikado/tests/__pycache__/test_serialise_junctions.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,454 copying Mikado/tests/__pycache__/test_serialise_junctions.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,457 copying Mikado/tests/__pycache__/test_splitting.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,461 copying Mikado/tests/__pycache__/test_splitting.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,464 copying Mikado/tests/__pycache__/test_system_calls.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,469 copying Mikado/tests/__pycache__/test_system_calls.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,473 copying Mikado/tests/__pycache__/test_transcript_checker.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,476 copying Mikado/tests/__pycache__/test_transcript_checker.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,480 copying Mikado/tests/__pycache__/test_transcript_methods.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,484 copying Mikado/tests/__pycache__/test_transcript_methods.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,487 copying Mikado/tests/__pycache__/test_transcript_negative.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,491 copying Mikado/tests/__pycache__/test_transcript_negative.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,495 copying Mikado/tests/__pycache__/test_transcript_positive.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,500 copying Mikado/tests/__pycache__/test_transcript_positive.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,504 copying Mikado/tests/__pycache__/test_transcript_single.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,508 copying Mikado/tests/__pycache__/test_transcript_single.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,512 copying Mikado/tests/__pycache__/test_utils.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,515 copying Mikado/tests/__pycache__/test_utils.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,517 copying Mikado/tests/__pycache__/utilities_test.cpython-36-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,520 copying Mikado/tests/__pycache__/utilities_test.cpython-37-pytest-5.4.1.pyc -> build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__ 2021-07-15T22:45:33,523 creating build/lib.linux-armv7l-3.9/Mikado/tests/blast_data 2021-07-15T22:45:33,524 copying Mikado/tests/blast_data/diamond.0.9.30.tsv.gz -> build/lib.linux-armv7l-3.9/Mikado/tests/blast_data 2021-07-15T22:45:33,528 copying Mikado/tests/blast_data/diamond.0.9.30.xml.gz -> build/lib.linux-armv7l-3.9/Mikado/tests/blast_data 2021-07-15T22:45:33,534 copying Mikado/tests/blast_data/transcripts.fasta -> build/lib.linux-armv7l-3.9/Mikado/tests/blast_data 2021-07-15T22:45:33,542 copying Mikado/tests/blast_data/transcripts.fasta.fai -> build/lib.linux-armv7l-3.9/Mikado/tests/blast_data 2021-07-15T22:45:33,545 creating build/lib.linux-armv7l-3.9/Mikado/tests/fusion_test 2021-07-15T22:45:33,546 copying Mikado/tests/fusion_test/fusion_test_pred.gtf -> build/lib.linux-armv7l-3.9/Mikado/tests/fusion_test 2021-07-15T22:45:33,550 copying Mikado/tests/fusion_test/fusion_test_ref.gff3 -> build/lib.linux-armv7l-3.9/Mikado/tests/fusion_test 2021-07-15T22:45:33,552 creating build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,554 copying Mikado/tests/test_external/annotation_run1.metrics.testds.txt -> build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,556 copying Mikado/tests/test_external/aphid.scoring.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,560 copying Mikado/tests/test_external/mikado.configuration.testds.yaml -> build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,563 copying Mikado/tests/test_external/mikado_prepared.testds.fasta -> build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,565 copying Mikado/tests/test_external/mikado_prepared.testds.fasta.fai -> build/lib.linux-armv7l-3.9/Mikado/tests/test_external 2021-07-15T22:45:33,568 copying Mikado/configuration/configuration_blueprint.json -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:33,572 copying Mikado/configuration/daijin_schema.json -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:33,575 copying Mikado/configuration/requirements_blueprint.json -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:33,578 copying Mikado/configuration/scoring_blueprint.json -> build/lib.linux-armv7l-3.9/Mikado/configuration 2021-07-15T22:45:33,580 creating build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files 2021-07-15T22:45:33,582 copying Mikado/configuration/scoring_files/mammalian.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files 2021-07-15T22:45:33,585 copying Mikado/configuration/scoring_files/plant.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files 2021-07-15T22:45:33,587 creating build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,589 copying Mikado/configuration/scoring_files/HISTORIC/athaliana_scoring.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,592 copying Mikado/configuration/scoring_files/HISTORIC/celegans_scoring.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,594 copying Mikado/configuration/scoring_files/HISTORIC/dmelanogaster_scoring.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,597 copying Mikado/configuration/scoring_files/HISTORIC/hsapiens_scoring.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,600 copying Mikado/configuration/scoring_files/HISTORIC/human.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,603 copying Mikado/configuration/scoring_files/HISTORIC/insects.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,606 copying Mikado/configuration/scoring_files/HISTORIC/plants.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,608 copying Mikado/configuration/scoring_files/HISTORIC/scerevisiae.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,611 copying Mikado/configuration/scoring_files/HISTORIC/worm.yaml -> build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:45:33,614 copying Mikado/scales/contrast.cpp -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,628 copying Mikado/scales/contrast.pxd -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,631 copying Mikado/scales/contrast.pyx -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,634 copying Mikado/scales/f1.c -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,641 copying Mikado/scales/f1.pxd -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,643 copying Mikado/scales/f1.pyx -> build/lib.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:33,646 copying Mikado/serializers/blast_serializer/aln_string_parser.cpp -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:33,674 copying Mikado/serializers/blast_serializer/aln_string_parser.pyx -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:33,676 copying Mikado/serializers/blast_serializer/btop_parser.cpp -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:33,700 copying Mikado/serializers/blast_serializer/btop_parser.pxd -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:33,702 copying Mikado/serializers/blast_serializer/btop_parser.pyx -> build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:45:33,718 running build_ext 2021-07-15T22:45:33,721 building 'Mikado.utilities.overlap' extension 2021-07-15T22:45:33,800 C compiler: 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 2021-07-15T22:45:33,801 creating build/temp.linux-armv7l-3.9 2021-07-15T22:45:33,801 creating build/temp.linux-armv7l-3.9/Mikado 2021-07-15T22:45:33,802 creating build/temp.linux-armv7l-3.9/Mikado/utilities 2021-07-15T22:45:33,802 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/usr/include/python3.9 -c' 2021-07-15T22:45:33,803 arm-linux-gnueabihf-gcc: Mikado/utilities/overlap.c 2021-07-15T22:45:34,235 Mikado/utilities/overlap.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-15T22:45:34,237 Mikado/utilities/overlap.c:2860:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,237 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,237 | ^ 2021-07-15T22:45:34,238 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,238 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,238 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,238 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,239 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,239 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,241 Mikado/utilities/overlap.c:2860:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,241 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,241 | ^ 2021-07-15T22:45:34,241 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,241 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,242 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,242 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:34,242 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:34,242 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,244 Mikado/utilities/overlap.c:2860:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,244 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,244 | ^ 2021-07-15T22:45:34,244 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,245 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,245 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,245 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,245 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,245 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,247 Mikado/utilities/overlap.c:2860:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,247 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,247 | ^ 2021-07-15T22:45:34,248 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,248 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,248 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,248 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,248 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,248 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,250 Mikado/utilities/overlap.c:2860:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,250 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,251 | ^ 2021-07-15T22:45:34,251 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,251 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,251 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,251 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:34,251 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:34,251 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,253 Mikado/utilities/overlap.c:2860:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,254 2860 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,254 | ^ 2021-07-15T22:45:34,254 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,254 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,254 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,254 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,254 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,255 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,257 Mikado/utilities/overlap.c:2876:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,258 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,258 | ^ 2021-07-15T22:45:34,258 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,258 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,258 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,258 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,258 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,259 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,261 Mikado/utilities/overlap.c:2876:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,261 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,261 | ^ 2021-07-15T22:45:34,261 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,261 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,261 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,262 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:34,262 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:34,262 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,264 Mikado/utilities/overlap.c:2876:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,264 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,264 | ^ 2021-07-15T22:45:34,264 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,264 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,265 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,265 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,265 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,265 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,267 Mikado/utilities/overlap.c:2876:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,267 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,267 | ^ 2021-07-15T22:45:34,267 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,268 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,268 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,268 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,268 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,268 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,270 Mikado/utilities/overlap.c:2876:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,270 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,270 | ^ 2021-07-15T22:45:34,271 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,271 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,271 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,271 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:34,271 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:34,271 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:34,273 Mikado/utilities/overlap.c:2876:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:34,273 2876 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:34,273 | ^ 2021-07-15T22:45:34,274 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:34,274 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:34,274 from Mikado/utilities/overlap.c:22: 2021-07-15T22:45:34,274 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:34,274 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:34,274 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:35,988 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/Mikado/utilities/overlap.o -o build/lib.linux-armv7l-3.9/Mikado/utilities/overlap.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:45:36,106 building 'Mikado.scales.f1' extension 2021-07-15T22:45:36,107 C compiler: 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 2021-07-15T22:45:36,107 creating build/temp.linux-armv7l-3.9/Mikado/scales 2021-07-15T22:45:36,108 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/usr/include/python3.9 -c' 2021-07-15T22:45:36,108 arm-linux-gnueabihf-gcc: Mikado/scales/f1.c 2021-07-15T22:45:36,505 Mikado/scales/f1.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-15T22:45:36,506 Mikado/scales/f1.c:2699:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,507 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,507 | ^ 2021-07-15T22:45:36,507 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,507 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,507 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,507 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,508 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,508 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,508 Mikado/scales/f1.c:2699:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,509 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,509 | ^ 2021-07-15T22:45:36,509 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,509 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,509 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,509 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:36,509 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:36,509 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,510 Mikado/scales/f1.c:2699:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,510 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,510 | ^ 2021-07-15T22:45:36,510 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,510 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,510 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,511 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,511 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,511 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,511 Mikado/scales/f1.c:2699:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,511 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,512 | ^ 2021-07-15T22:45:36,512 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,512 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,512 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,512 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,512 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,512 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,513 Mikado/scales/f1.c:2699:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,513 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,513 | ^ 2021-07-15T22:45:36,513 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,513 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,513 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,513 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:36,514 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:36,514 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,514 Mikado/scales/f1.c:2699:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,514 2699 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,514 | ^ 2021-07-15T22:45:36,514 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,515 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,515 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,515 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,515 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,515 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,516 Mikado/scales/f1.c:2715:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,516 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,516 | ^ 2021-07-15T22:45:36,517 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,517 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,517 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,517 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,517 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,517 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,518 Mikado/scales/f1.c:2715:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,518 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,518 | ^ 2021-07-15T22:45:36,518 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,518 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,518 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,518 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:36,518 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:36,518 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,519 Mikado/scales/f1.c:2715:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,519 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,519 | ^ 2021-07-15T22:45:36,519 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,519 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,520 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,520 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,520 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,520 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,520 Mikado/scales/f1.c:2715:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,520 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,521 | ^ 2021-07-15T22:45:36,521 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,521 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,521 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,521 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,521 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,521 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,522 Mikado/scales/f1.c:2715:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,522 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,522 | ^ 2021-07-15T22:45:36,522 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,522 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,522 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,522 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:36,523 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:36,523 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:36,523 Mikado/scales/f1.c:2715:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:36,523 2715 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:36,523 | ^ 2021-07-15T22:45:36,524 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:36,524 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:36,524 from Mikado/scales/f1.c:22: 2021-07-15T22:45:36,524 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:36,524 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:36,524 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:37,799 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/Mikado/scales/f1.o -o build/lib.linux-armv7l-3.9/Mikado/scales/f1.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:45:37,911 building 'Mikado.scales.contrast' extension 2021-07-15T22:45:37,911 C compiler: 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 2021-07-15T22:45:37,911 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/usr/include/python3.9 -c' 2021-07-15T22:45:37,912 arm-linux-gnueabihf-gcc: Mikado/scales/contrast.cpp 2021-07-15T22:45:38,806 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-15T22:45:38,806 from /usr/include/python3.9/Python.h:97, 2021-07-15T22:45:38,806 from Mikado/scales/contrast.cpp:23: 2021-07-15T22:45:38,806 Mikado/scales/contrast.cpp: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-15T22:45:38,807 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,807 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,807 | ^ 2021-07-15T22:45:38,807 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,807 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-15T22:45:38,807 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,807 Mikado/scales/contrast.cpp:9836:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,807 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,808 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,808 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,808 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,808 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,808 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,808 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-15T22:45:38,809 | ^ 2021-07-15T22:45:38,809 Mikado/scales/contrast.cpp:9836:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,809 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,809 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,809 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:38,809 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:38,809 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,809 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,810 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,810 | ^ 2021-07-15T22:45:38,810 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,810 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-15T22:45:38,810 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,810 Mikado/scales/contrast.cpp:9836:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,810 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,810 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,811 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,811 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,811 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,811 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,811 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,811 | ^ 2021-07-15T22:45:38,812 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,812 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-15T22:45:38,812 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,812 Mikado/scales/contrast.cpp:9836:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,812 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,812 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,812 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,813 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,813 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,813 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,813 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-15T22:45:38,813 | ^ 2021-07-15T22:45:38,813 Mikado/scales/contrast.cpp:9836:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,813 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,813 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,814 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:38,814 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:38,814 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,814 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,814 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,814 | ^ 2021-07-15T22:45:38,814 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,815 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-15T22:45:38,815 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,815 Mikado/scales/contrast.cpp:9836:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,815 9836 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,815 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,815 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,815 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,816 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,816 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,816 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,816 | ^ 2021-07-15T22:45:38,816 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,816 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-15T22:45:38,816 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,817 Mikado/scales/contrast.cpp:9852:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,817 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,817 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,817 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,817 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,817 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,817 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,817 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-15T22:45:38,818 | ^ 2021-07-15T22:45:38,818 Mikado/scales/contrast.cpp:9852:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,818 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,818 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,818 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:38,818 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:38,818 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,819 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,819 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,819 | ^ 2021-07-15T22:45:38,819 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,819 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-15T22:45:38,819 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,819 Mikado/scales/contrast.cpp:9852:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,819 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,820 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,820 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,820 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,820 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,820 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,820 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,820 | ^ 2021-07-15T22:45:38,821 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,821 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-15T22:45:38,821 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,821 Mikado/scales/contrast.cpp:9852:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,821 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,821 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,821 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,822 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,822 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,822 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,822 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-15T22:45:38,822 | ^ 2021-07-15T22:45:38,822 Mikado/scales/contrast.cpp:9852:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,822 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,822 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,823 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-15T22:45:38,823 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-15T22:45:38,823 | ^~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,823 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-15T22:45:38,823 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-15T22:45:38,823 | ^ 2021-07-15T22:45:38,823 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-15T22:45:38,824 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-15T22:45:38,824 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,824 Mikado/scales/contrast.cpp:9852:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-15T22:45:38,824 9852 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-15T22:45:38,824 | ^~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:38,824 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-15T22:45:38,824 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-15T22:45:38,824 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:45:52,846 arm-linux-gnueabihf-g++ -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/Mikado/scales/contrast.o -o build/lib.linux-armv7l-3.9/Mikado/scales/contrast.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:45:53,039 building 'Mikado.utilities.intervaltree' extension 2021-07-15T22:45:53,039 C compiler: 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 2021-07-15T22:45:53,039 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/usr/include/python3.9 -c' 2021-07-15T22:45:53,040 arm-linux-gnueabihf-gcc: Mikado/utilities/intervaltree.cpp 2021-07-15T22:45:55,281 Mikado/utilities/intervaltree.cpp:10963:19: warning: ‘Py_ssize_t __pyx_pw_6Mikado_9utilities_12intervaltree_12IntervalTree_11__len__(PyObject*)’ defined but not used [-Wunused-function] 2021-07-15T22:45:55,281 10963 | static Py_ssize_t __pyx_pw_6Mikado_9utilities_12intervaltree_12IntervalTree_11__len__(PyObject *__pyx_v_self) { 2021-07-15T22:45:55,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-15T22:46:08,484 arm-linux-gnueabihf-g++ -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/Mikado/utilities/intervaltree.o -o build/lib.linux-armv7l-3.9/Mikado/utilities/intervaltree.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:46:08,717 building 'Mikado.serializers.blast_serializer.btop_parser' extension 2021-07-15T22:46:08,718 C compiler: 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 2021-07-15T22:46:08,718 creating build/temp.linux-armv7l-3.9/Mikado/serializers 2021-07-15T22:46:08,719 creating build/temp.linux-armv7l-3.9/Mikado/serializers/blast_serializer 2021-07-15T22:46:08,719 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c' 2021-07-15T22:46:08,720 arm-linux-gnueabihf-gcc: Mikado/serializers/blast_serializer/btop_parser.cpp 2021-07-15T22:46:23,284 arm-linux-gnueabihf-g++ -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/Mikado/serializers/blast_serializer/btop_parser.o -o build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/btop_parser.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:46:23,600 building 'Mikado.serializers.blast_serializer.aln_string_parser' extension 2021-07-15T22:46:23,600 C compiler: 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 2021-07-15T22:46:23,601 compile options: '-DNPY_NO_DEPRECATED_API=NPY_1_9_API_VERSION -I/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c' 2021-07-15T22:46:23,601 arm-linux-gnueabihf-gcc: Mikado/serializers/blast_serializer/aln_string_parser.cpp 2021-07-15T22:46:39,279 arm-linux-gnueabihf-g++ -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/Mikado/serializers/blast_serializer/aln_string_parser.o -o build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/aln_string_parser.cpython-39-arm-linux-gnueabihf.so 2021-07-15T22:46:39,601 running build_scripts 2021-07-15T22:46:39,601 creating build/scripts-3.9 2021-07-15T22:46:39,603 copying and adjusting util/calculate_distances.py -> build/scripts-3.9 2021-07-15T22:46:39,605 copying and adjusting util/asm_collect.py -> build/scripts-3.9 2021-07-15T22:46:39,607 copying util/tease_maker_apart.py -> build/scripts-3.9 2021-07-15T22:46:39,610 copying and adjusting util/convert_cdna_match_gff3.py -> build/scripts-3.9 2021-07-15T22:46:39,611 copying and adjusting util/trim_long_introns.py -> build/scripts-3.9 2021-07-15T22:46:39,613 copying and adjusting util/merge_junction_bed12.py -> build/scripts-3.9 2021-07-15T22:46:39,616 copying and adjusting util/remove_from_embl.py -> build/scripts-3.9 2021-07-15T22:46:39,617 copying and adjusting util/remove_utrs.py -> build/scripts-3.9 2021-07-15T22:46:39,619 copying and adjusting util/class_run.py -> build/scripts-3.9 2021-07-15T22:46:39,621 copying and adjusting util/add_transcript_feature_to_gtf.py -> build/scripts-3.9 2021-07-15T22:46:39,624 copying and adjusting util/split_fasta.py -> build/scripts-3.9 2021-07-15T22:46:39,626 copying and adjusting util/align_collect.py -> build/scripts-3.9 2021-07-15T22:46:39,627 copying and adjusting util/getFastaFromIds.py -> build/scripts-3.9 2021-07-15T22:46:39,629 copying and adjusting util/extract_promoter_regions.py -> build/scripts-3.9 2021-07-15T22:46:39,632 copying and adjusting util/gffjunc_to_bed12.py -> build/scripts-3.9 2021-07-15T22:46:39,634 copying and adjusting util/bam2gtf.py -> build/scripts-3.9 2021-07-15T22:46:39,635 copying and adjusting util/sanitize_blast_db.py -> build/scripts-3.9 2021-07-15T22:46:39,637 copying and adjusting util/grep.py -> build/scripts-3.9 2021-07-15T22:46:39,638 changing mode of build/scripts-3.9/calculate_distances.py from 644 to 755 2021-07-15T22:46:39,638 changing mode of build/scripts-3.9/asm_collect.py from 644 to 755 2021-07-15T22:46:39,638 changing mode of build/scripts-3.9/convert_cdna_match_gff3.py from 644 to 755 2021-07-15T22:46:39,639 changing mode of build/scripts-3.9/trim_long_introns.py from 644 to 755 2021-07-15T22:46:39,639 changing mode of build/scripts-3.9/merge_junction_bed12.py from 644 to 755 2021-07-15T22:46:39,639 changing mode of build/scripts-3.9/remove_from_embl.py from 644 to 755 2021-07-15T22:46:39,640 changing mode of build/scripts-3.9/remove_utrs.py from 644 to 755 2021-07-15T22:46:39,640 changing mode of build/scripts-3.9/class_run.py from 644 to 755 2021-07-15T22:46:39,640 changing mode of build/scripts-3.9/add_transcript_feature_to_gtf.py from 644 to 755 2021-07-15T22:46:39,640 changing mode of build/scripts-3.9/split_fasta.py from 644 to 755 2021-07-15T22:46:39,641 changing mode of build/scripts-3.9/align_collect.py from 644 to 755 2021-07-15T22:46:39,641 changing mode of build/scripts-3.9/getFastaFromIds.py from 644 to 755 2021-07-15T22:46:39,641 changing mode of build/scripts-3.9/extract_promoter_regions.py from 644 to 755 2021-07-15T22:46:39,642 changing mode of build/scripts-3.9/gffjunc_to_bed12.py from 644 to 755 2021-07-15T22:46:39,642 changing mode of build/scripts-3.9/bam2gtf.py from 644 to 755 2021-07-15T22:46:39,642 changing mode of build/scripts-3.9/sanitize_blast_db.py from 644 to 755 2021-07-15T22:46:39,642 changing mode of build/scripts-3.9/grep.py from 644 to 755 2021-07-15T22:46:39,648 installing to build/bdist.linux-armv7l/wheel 2021-07-15T22:46:39,648 running install 2021-07-15T22:46:39,649 running install_lib 2021-07-15T22:46:39,655 creating build/bdist.linux-armv7l 2021-07-15T22:46:39,655 creating build/bdist.linux-armv7l/wheel 2021-07-15T22:46:39,657 creating build/bdist.linux-armv7l/wheel/Mikado 2021-07-15T22:46:39,659 creating build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,660 copying build/lib.linux-armv7l-3.9/Mikado/parsers/gfannotation.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,663 copying build/lib.linux-armv7l-3.9/Mikado/parsers/bed12.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,667 copying build/lib.linux-armv7l-3.9/Mikado/parsers/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,669 copying build/lib.linux-armv7l-3.9/Mikado/parsers/GFF.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,672 copying build/lib.linux-armv7l-3.9/Mikado/parsers/bam_parser.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,674 copying build/lib.linux-armv7l-3.9/Mikado/parsers/blast_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,678 copying build/lib.linux-armv7l-3.9/Mikado/parsers/GTF.py -> build/bdist.linux-armv7l/wheel/Mikado/parsers 2021-07-15T22:46:39,682 creating build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,683 copying build/lib.linux-armv7l-3.9/Mikado/daijin/mikado.smk -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,687 copying build/lib.linux-armv7l-3.9/Mikado/daijin/hpc.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,689 copying build/lib.linux-armv7l-3.9/Mikado/daijin/assemble.smk -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,694 copying build/lib.linux-armv7l-3.9/Mikado/daijin/example_config.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,697 copying build/lib.linux-armv7l-3.9/Mikado/daijin/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,701 creating build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,703 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/scallop.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,705 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/cufflinks.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,707 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/prodigal.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,710 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/transdecoder.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,712 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/trinity.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,714 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/stringtie.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,717 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/portcullis.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,719 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/star.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,721 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/samtools.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,724 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/hisat2.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,726 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/diamond.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,728 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/gmap.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,730 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/tophat2.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,733 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/gnuplot.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,735 copying build/lib.linux-armv7l-3.9/Mikado/daijin/envs/blast.yaml -> build/bdist.linux-armv7l/wheel/Mikado/daijin/envs 2021-07-15T22:46:39,737 copying build/lib.linux-armv7l-3.9/Mikado/daijin/hpc.json -> build/bdist.linux-armv7l/wheel/Mikado/daijin 2021-07-15T22:46:39,740 creating build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,742 copying build/lib.linux-armv7l-3.9/Mikado/utilities/intervaltree.pxd -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,744 copying build/lib.linux-armv7l-3.9/Mikado/utilities/intervaltree.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,771 copying build/lib.linux-armv7l-3.9/Mikado/utilities/overlap.pxd -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,772 copying build/lib.linux-armv7l-3.9/Mikado/utilities/intervaltree.cpp -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,793 copying build/lib.linux-armv7l-3.9/Mikado/utilities/dbutils.py -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,796 copying build/lib.linux-armv7l-3.9/Mikado/utilities/overlap.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,802 copying build/lib.linux-armv7l-3.9/Mikado/utilities/overlap.pyx -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,805 copying build/lib.linux-armv7l-3.9/Mikado/utilities/log_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,807 copying build/lib.linux-armv7l-3.9/Mikado/utilities/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,810 copying build/lib.linux-armv7l-3.9/Mikado/utilities/file_type.py -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,812 copying build/lib.linux-armv7l-3.9/Mikado/utilities/overlap.c -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,818 copying build/lib.linux-armv7l-3.9/Mikado/utilities/intervaltree.pyx -> build/bdist.linux-armv7l/wheel/Mikado/utilities 2021-07-15T22:46:39,822 creating build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,824 creating build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,826 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods/printing.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,829 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods/finalizing.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,832 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods/splitting.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,836 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,838 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript_methods/retrieval.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts/transcript_methods 2021-07-15T22:46:39,842 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcript.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,848 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,850 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcriptchecker.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,853 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/transcriptcomputer.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,856 copying build/lib.linux-armv7l-3.9/Mikado/transcripts/clique_methods.py -> build/bdist.linux-armv7l/wheel/Mikado/transcripts 2021-07-15T22:46:39,859 creating build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,861 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/compare.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,864 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/pick.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,867 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/serialise.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,870 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/prepare.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,873 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,875 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/__main__.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,878 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/configure.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms 2021-07-15T22:46:39,882 creating build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,883 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/awk_gtf.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,886 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/class_codes.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,888 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,891 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/trim.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,894 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/stats.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,897 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/convert.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,900 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/metrics.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,903 copying build/lib.linux-armv7l-3.9/Mikado/subprograms/util/grep.py -> build/bdist.linux-armv7l/wheel/Mikado/subprograms/util 2021-07-15T22:46:39,908 creating build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,909 copying build/lib.linux-armv7l-3.9/Mikado/tests/pad_utr.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,912 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_gene.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,915 copying build/lib.linux-armv7l-3.9/Mikado/tests/uniprot_sprot_plants.fasta.gz.gzi -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,917 copying build/lib.linux-armv7l-3.9/Mikado/tests/intervaltree_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,920 copying build/lib.linux-armv7l-3.9/Mikado/tests/Chrysemys_picta_bellii_problematic.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,923 copying build/lib.linux-armv7l-3.9/Mikado/tests/utilities_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,925 copying build/lib.linux-armv7l-3.9/Mikado/tests/pad_three_neg.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,928 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.fa -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,932 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_splitting.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,935 copying build/lib.linux-armv7l-3.9/Mikado/tests/check_seed.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,939 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado_prepared.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,944 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_clique_methods.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,946 copying build/lib.linux-armv7l-3.9/Mikado/tests/locus_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,953 copying build/lib.linux-armv7l-3.9/Mikado/tests/chunk-001-proteins.xml.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,958 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_configurators.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,960 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity_stats.txt -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,962 copying build/lib.linux-armv7l-3.9/Mikado/tests/scoring_only_cds.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,964 copying build/lib.linux-armv7l-3.9/Mikado/tests/neg_pad.fa -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,967 copying build/lib.linux-armv7l-3.9/Mikado/tests/neg_pad.fa.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,969 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_transcript_positive.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,973 copying build/lib.linux-armv7l-3.9/Mikado/tests/complete_padding.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,975 copying build/lib.linux-armv7l-3.9/Mikado/tests/genome.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,977 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_serialise_external.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,978 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.match_matchpart.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,981 copying build/lib.linux-armv7l-3.9/Mikado/tests/junctions.bed -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,985 copying build/lib.linux-armv7l-3.9/Mikado/tests/configuration.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,987 copying build/lib.linux-armv7l-3.9/Mikado/tests/cufflinks.no_transcript.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,990 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_bed12.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,992 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.rev_compl.fa -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:39,996 copying build/lib.linux-armv7l-3.9/Mikado/tests/transcripts.fasta.prodigal.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,000 copying build/lib.linux-armv7l-3.9/Mikado/tests/cds_test_2.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,002 copying build/lib.linux-armv7l-3.9/Mikado/tests/check_seed.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,005 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.rev_compl.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,007 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado_prepared.fasta.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,009 copying build/lib.linux-armv7l-3.9/Mikado/tests/uniprot_sprot_plants.fasta.gz.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,036 copying build/lib.linux-armv7l-3.9/Mikado/tests/Chrysemys_picta_bellii_problematic.list.txt -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,039 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado_prepared.fasta -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,264 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_scores.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,269 copying build/lib.linux-armv7l-3.9/Mikado/tests/cufflinks.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,274 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_modifications.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,278 copying build/lib.linux-armv7l-3.9/Mikado/tests/parser_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,285 creating build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,286 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/orf_test.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,290 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_bed12.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,292 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_positive.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,295 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_modifications.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,298 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_positive.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,301 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_checker.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,304 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/intervaltree_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,306 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/assigner_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,309 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/parser_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,312 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/__init__.cpython-37.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,314 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_json.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,316 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_serialise_external.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,318 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_serialise_junctions.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,320 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_blast_related.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,323 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/__init__.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,325 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/locus_test.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,332 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_system_calls.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,338 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_db_utils.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,340 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_system_calls.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,346 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_invalid_orfs.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,348 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_gene.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,350 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_modifications.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,353 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_negative.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,355 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_invalid_orfs.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,358 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_blast_related.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,360 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_splitting.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,363 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_single.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,367 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/orf_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,370 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_single.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,373 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_gene.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,376 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_metrics.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,378 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/prepare_misc_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,382 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_db_utils.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,384 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_checker.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,388 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_clique_methods.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,390 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_negative.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,393 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_serialise_junctions.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,396 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_scores.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,399 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_external_scores.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,402 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_json.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,404 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_utils.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,406 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/utilities_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,409 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_configurators.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,412 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/locus_test.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,417 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_bed12.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,420 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_methods.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,424 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_splitting.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,428 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/utilities_test.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,430 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/assigner_test.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,434 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_transcript_methods.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,437 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/intervaltree_test.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,440 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_utils.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,442 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_clique_methods.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,445 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_external_scores.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,447 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_scores.cpython-36-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,450 copying build/lib.linux-armv7l-3.9/Mikado/tests/__pycache__/test_metrics.cpython-37-pytest-5.4.1.pyc -> build/bdist.linux-armv7l/wheel/Mikado/tests/__pycache__ 2021-07-15T22:46:40,453 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,457 copying build/lib.linux-armv7l-3.9/Mikado/tests/chr5.fas.gz.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,459 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.ids -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,461 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.fa.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,464 copying build/lib.linux-armv7l-3.9/Mikado/tests/chr5.fas.gz.gzi -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,467 copying build/lib.linux-armv7l-3.9/Mikado/tests/annotation.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,469 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.minimap2.bam -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,473 copying build/lib.linux-armv7l-3.9/Mikado/tests/uniprot_sprot_plants.fasta.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,591 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,594 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_transcript_methods.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,597 copying build/lib.linux-armv7l-3.9/Mikado/tests/annotation.gff3.stats -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,599 copying build/lib.linux-armv7l-3.9/Mikado/tests/orf_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,602 copying build/lib.linux-armv7l-3.9/Mikado/tests/neg_pad.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,603 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,605 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_transcript_negative.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,608 copying build/lib.linux-armv7l-3.9/Mikado/tests/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,610 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_invalid_orfs.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,613 copying build/lib.linux-armv7l-3.9/Mikado/tests/assigner_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,617 creating build/bdist.linux-armv7l/wheel/Mikado/tests/fusion_test 2021-07-15T22:46:40,618 copying build/lib.linux-armv7l-3.9/Mikado/tests/fusion_test/fusion_test_ref.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests/fusion_test 2021-07-15T22:46:40,620 copying build/lib.linux-armv7l-3.9/Mikado/tests/fusion_test/fusion_test_pred.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests/fusion_test 2021-07-15T22:46:40,623 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.no_transcript_feature.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,626 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_transcript_single.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,629 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado.db -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:40,753 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado.blast.xml -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,056 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_serialise_junctions.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,058 copying build/lib.linux-armv7l-3.9/Mikado/tests/Chrysemys_picta_bellii_problematic.txt -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,060 copying build/lib.linux-armv7l-3.9/Mikado/tests/phasing_padding.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,061 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_truncated_cds.fa -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,063 copying build/lib.linux-armv7l-3.9/Mikado/tests/plants.suspicious_requirement.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,065 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external_scores.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,067 copying build/lib.linux-armv7l-3.9/Mikado/tests/mikado.blast.asn.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,074 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_truncated_cds.fa.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,076 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,078 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_transcript_checker.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,081 copying build/lib.linux-armv7l-3.9/Mikado/tests/gtf_check.gtf.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,083 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_metrics.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,087 creating build/bdist.linux-armv7l/wheel/Mikado/tests/blast_data 2021-07-15T22:46:41,088 copying build/lib.linux-armv7l-3.9/Mikado/tests/blast_data/transcripts.fasta -> build/bdist.linux-armv7l/wheel/Mikado/tests/blast_data 2021-07-15T22:46:41,097 copying build/lib.linux-armv7l-3.9/Mikado/tests/blast_data/diamond.0.9.30.xml.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests/blast_data 2021-07-15T22:46:41,103 copying build/lib.linux-armv7l-3.9/Mikado/tests/blast_data/transcripts.fasta.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests/blast_data 2021-07-15T22:46:41,106 copying build/lib.linux-armv7l-3.9/Mikado/tests/blast_data/diamond.0.9.30.tsv.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests/blast_data 2021-07-15T22:46:41,110 copying build/lib.linux-armv7l-3.9/Mikado/tests/chr5.fas.gz -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,279 copying build/lib.linux-armv7l-3.9/Mikado/tests/padding_test.rev_compl.fa.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,280 copying build/lib.linux-armv7l-3.9/Mikado/tests/cds_test_1.gtf -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,282 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_system_calls.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,286 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.cDNA_match.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,289 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_json.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,291 copying build/lib.linux-armv7l-3.9/Mikado/tests/prepare_misc_test.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,293 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_db_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,296 creating build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,297 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external/mikado_prepared.testds.fasta -> build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,299 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external/mikado_prepared.testds.fasta.fai -> build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,301 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external/aphid.scoring.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,304 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external/mikado.configuration.testds.yaml -> build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,306 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_external/annotation_run1.metrics.testds.txt -> build/bdist.linux-armv7l/wheel/Mikado/tests/test_external 2021-07-15T22:46:41,308 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_truncated_cds.gff3 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,310 copying build/lib.linux-armv7l-3.9/Mikado/tests/trinity.bed12 -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,313 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_mRNA.bam -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,318 copying build/lib.linux-armv7l-3.9/Mikado/tests/test_blast_related.py -> build/bdist.linux-armv7l/wheel/Mikado/tests 2021-07-15T22:46:41,322 creating build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,323 copying build/lib.linux-armv7l-3.9/Mikado/loci/excluded.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,325 copying build/lib.linux-armv7l-3.9/Mikado/loci/monosublocusholder.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,328 copying build/lib.linux-armv7l-3.9/Mikado/loci/locus.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,333 copying build/lib.linux-armv7l-3.9/Mikado/loci/reference_gene.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,336 copying build/lib.linux-armv7l-3.9/Mikado/loci/sublocus.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,339 copying build/lib.linux-armv7l-3.9/Mikado/loci/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,341 copying build/lib.linux-armv7l-3.9/Mikado/loci/abstractlocus.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,345 copying build/lib.linux-armv7l-3.9/Mikado/loci/monosublocus.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,348 copying build/lib.linux-armv7l-3.9/Mikado/loci/superlocus.py -> build/bdist.linux-armv7l/wheel/Mikado/loci 2021-07-15T22:46:41,353 creating build/bdist.linux-armv7l/wheel/Mikado/preparation 2021-07-15T22:46:41,353 copying build/lib.linux-armv7l-3.9/Mikado/preparation/annotation_parser.py -> build/bdist.linux-armv7l/wheel/Mikado/preparation 2021-07-15T22:46:41,357 copying build/lib.linux-armv7l-3.9/Mikado/preparation/prepare.py -> build/bdist.linux-armv7l/wheel/Mikado/preparation 2021-07-15T22:46:41,361 copying build/lib.linux-armv7l-3.9/Mikado/preparation/checking.py -> build/bdist.linux-armv7l/wheel/Mikado/preparation 2021-07-15T22:46:41,364 copying build/lib.linux-armv7l-3.9/Mikado/preparation/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/preparation 2021-07-15T22:46:41,366 copying build/lib.linux-armv7l-3.9/Mikado/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado 2021-07-15T22:46:41,368 copying build/lib.linux-armv7l-3.9/Mikado/version.py -> build/bdist.linux-armv7l/wheel/Mikado 2021-07-15T22:46:41,371 creating build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,372 copying build/lib.linux-armv7l-3.9/Mikado/configuration/daijin_schema.json -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,375 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_blueprint.json -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,377 copying build/lib.linux-armv7l-3.9/Mikado/configuration/configurator.py -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,381 copying build/lib.linux-armv7l-3.9/Mikado/configuration/configuration_blueprint.json -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,385 copying build/lib.linux-armv7l-3.9/Mikado/configuration/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,387 copying build/lib.linux-armv7l-3.9/Mikado/configuration/daijin_configurator.py -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,390 copying build/lib.linux-armv7l-3.9/Mikado/configuration/requirements_blueprint.json -> build/bdist.linux-armv7l/wheel/Mikado/configuration 2021-07-15T22:46:41,393 creating build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files 2021-07-15T22:46:41,395 creating build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,396 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/plants.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,399 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/hsapiens_scoring.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,401 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/human.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,404 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/celegans_scoring.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,406 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/athaliana_scoring.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,408 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/scerevisiae.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,410 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/worm.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,413 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/dmelanogaster_scoring.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,415 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/HISTORIC/insects.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files/HISTORIC 2021-07-15T22:46:41,417 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/mammalian.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files 2021-07-15T22:46:41,419 copying build/lib.linux-armv7l-3.9/Mikado/configuration/scoring_files/plant.yaml -> build/bdist.linux-armv7l/wheel/Mikado/configuration/scoring_files 2021-07-15T22:46:41,422 creating build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,423 copying build/lib.linux-armv7l-3.9/Mikado/picking/_merge_loci_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,426 copying build/lib.linux-armv7l-3.9/Mikado/picking/loci_processer.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,429 copying build/lib.linux-armv7l-3.9/Mikado/picking/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,431 copying build/lib.linux-armv7l-3.9/Mikado/picking/_locus_line_creator.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,433 copying build/lib.linux-armv7l-3.9/Mikado/picking/_loci_serialiser.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,435 copying build/lib.linux-armv7l-3.9/Mikado/picking/_locus_single_printer.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,437 copying build/lib.linux-armv7l-3.9/Mikado/picking/picker.py -> build/bdist.linux-armv7l/wheel/Mikado/picking 2021-07-15T22:46:41,442 creating build/bdist.linux-armv7l/wheel/Mikado/serializers 2021-07-15T22:46:41,444 creating build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,445 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/btop_parser.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,471 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/aln_string_parser.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,505 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/utils.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,507 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/hit.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,510 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/xml_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,512 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/xml_serialiser.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,514 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/tab_serialiser.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,517 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/aln_string_parser.cpp -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,540 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/btop_parser.pyx -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,543 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/hsp.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,545 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/target.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,547 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/query.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,549 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/btop_parser.pxd -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,551 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,553 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/blast_serialiser.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,556 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/tabular_utils.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,558 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/aln_string_parser.pyx -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,561 copying build/lib.linux-armv7l-3.9/Mikado/serializers/blast_serializer/btop_parser.cpp -> build/bdist.linux-armv7l/wheel/Mikado/serializers/blast_serializer 2021-07-15T22:46:41,592 copying build/lib.linux-armv7l-3.9/Mikado/serializers/junction.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers 2021-07-15T22:46:41,594 copying build/lib.linux-armv7l-3.9/Mikado/serializers/external.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers 2021-07-15T22:46:41,596 copying build/lib.linux-armv7l-3.9/Mikado/serializers/orf.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers 2021-07-15T22:46:41,599 copying build/lib.linux-armv7l-3.9/Mikado/serializers/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/serializers 2021-07-15T22:46:41,601 creating build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,602 copying build/lib.linux-armv7l-3.9/Mikado/scales/f1.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,609 copying build/lib.linux-armv7l-3.9/Mikado/scales/gene_dict.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,611 copying build/lib.linux-armv7l-3.9/Mikado/scales/accountant.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,615 copying build/lib.linux-armv7l-3.9/Mikado/scales/contrast.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,634 copying build/lib.linux-armv7l-3.9/Mikado/scales/contrast.pyx -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,636 copying build/lib.linux-armv7l-3.9/Mikado/scales/compare.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,639 copying build/lib.linux-armv7l-3.9/Mikado/scales/assigner.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,643 copying build/lib.linux-armv7l-3.9/Mikado/scales/contrast.cpp -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,659 copying build/lib.linux-armv7l-3.9/Mikado/scales/class_codes.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,662 copying build/lib.linux-armv7l-3.9/Mikado/scales/f1.pxd -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,664 copying build/lib.linux-armv7l-3.9/Mikado/scales/f1.c -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,671 copying build/lib.linux-armv7l-3.9/Mikado/scales/__init__.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,672 copying build/lib.linux-armv7l-3.9/Mikado/scales/resultstorer.py -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,675 copying build/lib.linux-armv7l-3.9/Mikado/scales/f1.pyx -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,676 copying build/lib.linux-armv7l-3.9/Mikado/scales/contrast.pxd -> build/bdist.linux-armv7l/wheel/Mikado/scales 2021-07-15T22:46:41,678 copying build/lib.linux-armv7l-3.9/Mikado/exceptions.py -> build/bdist.linux-armv7l/wheel/Mikado 2021-07-15T22:46:41,680 running install_egg_info 2021-07-15T22:46:41,684 Copying Mikado.egg-info to build/bdist.linux-armv7l/wheel/Mikado-2.0rc1-py3.9.egg-info 2021-07-15T22:46:41,702 running install_scripts 2021-07-15T22:46:41,704 creating build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data 2021-07-15T22:46:41,704 creating build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,706 copying build/scripts-3.9/calculate_distances.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,709 copying build/scripts-3.9/asm_collect.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,711 copying build/scripts-3.9/tease_maker_apart.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,713 copying build/scripts-3.9/convert_cdna_match_gff3.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,715 copying build/scripts-3.9/trim_long_introns.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,718 copying build/scripts-3.9/merge_junction_bed12.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,720 copying build/scripts-3.9/remove_from_embl.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,722 copying build/scripts-3.9/remove_utrs.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,724 copying build/scripts-3.9/class_run.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,726 copying build/scripts-3.9/add_transcript_feature_to_gtf.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,728 copying build/scripts-3.9/split_fasta.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,731 copying build/scripts-3.9/align_collect.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,733 copying build/scripts-3.9/getFastaFromIds.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,734 copying build/scripts-3.9/extract_promoter_regions.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,737 copying build/scripts-3.9/gffjunc_to_bed12.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,739 copying build/scripts-3.9/bam2gtf.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,741 copying build/scripts-3.9/sanitize_blast_db.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,743 copying build/scripts-3.9/grep.py -> build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts 2021-07-15T22:46:41,745 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/calculate_distances.py to 755 2021-07-15T22:46:41,745 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/asm_collect.py to 755 2021-07-15T22:46:41,746 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/tease_maker_apart.py to 755 2021-07-15T22:46:41,746 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/convert_cdna_match_gff3.py to 755 2021-07-15T22:46:41,746 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/trim_long_introns.py to 755 2021-07-15T22:46:41,747 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/merge_junction_bed12.py to 755 2021-07-15T22:46:41,747 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/remove_from_embl.py to 755 2021-07-15T22:46:41,747 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/remove_utrs.py to 755 2021-07-15T22:46:41,747 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/class_run.py to 755 2021-07-15T22:46:41,748 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/add_transcript_feature_to_gtf.py to 755 2021-07-15T22:46:41,748 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/split_fasta.py to 755 2021-07-15T22:46:41,748 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/align_collect.py to 755 2021-07-15T22:46:41,749 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/getFastaFromIds.py to 755 2021-07-15T22:46:41,749 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/extract_promoter_regions.py to 755 2021-07-15T22:46:41,749 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/gffjunc_to_bed12.py to 755 2021-07-15T22:46:41,749 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/bam2gtf.py to 755 2021-07-15T22:46:41,750 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/sanitize_blast_db.py to 755 2021-07-15T22:46:41,750 changing mode of build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.data/scripts/grep.py to 755 2021-07-15T22:46:41,811 adding license file "AUTHORS" (matched pattern "AUTHORS*") 2021-07-15T22:46:41,816 creating build/bdist.linux-armv7l/wheel/Mikado-2.0rc1.dist-info/WHEEL 2021-07-15T22:46:41,819 creating '/tmp/pip-wheel-dqy5iydo/Mikado-2.0rc1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-15T22:46:41,822 adding 'Mikado/__init__.py' 2021-07-15T22:46:41,823 adding 'Mikado/exceptions.py' 2021-07-15T22:46:41,824 adding 'Mikado/version.py' 2021-07-15T22:46:41,827 adding 'Mikado/configuration/__init__.py' 2021-07-15T22:46:41,831 adding 'Mikado/configuration/configuration_blueprint.json' 2021-07-15T22:46:41,835 adding 'Mikado/configuration/configurator.py' 2021-07-15T22:46:41,837 adding 'Mikado/configuration/daijin_configurator.py' 2021-07-15T22:46:41,839 adding 'Mikado/configuration/daijin_schema.json' 2021-07-15T22:46:41,841 adding 'Mikado/configuration/requirements_blueprint.json' 2021-07-15T22:46:41,842 adding 'Mikado/configuration/scoring_blueprint.json' 2021-07-15T22:46:41,844 adding 'Mikado/configuration/scoring_files/mammalian.yaml' 2021-07-15T22:46:41,845 adding 'Mikado/configuration/scoring_files/plant.yaml' 2021-07-15T22:46:41,847 adding 'Mikado/configuration/scoring_files/HISTORIC/athaliana_scoring.yaml' 2021-07-15T22:46:41,848 adding 'Mikado/configuration/scoring_files/HISTORIC/celegans_scoring.yaml' 2021-07-15T22:46:41,850 adding 'Mikado/configuration/scoring_files/HISTORIC/dmelanogaster_scoring.yaml' 2021-07-15T22:46:41,851 adding 'Mikado/configuration/scoring_files/HISTORIC/hsapiens_scoring.yaml' 2021-07-15T22:46:41,852 adding 'Mikado/configuration/scoring_files/HISTORIC/human.yaml' 2021-07-15T22:46:41,854 adding 'Mikado/configuration/scoring_files/HISTORIC/insects.yaml' 2021-07-15T22:46:41,855 adding 'Mikado/configuration/scoring_files/HISTORIC/plants.yaml' 2021-07-15T22:46:41,856 adding 'Mikado/configuration/scoring_files/HISTORIC/scerevisiae.yaml' 2021-07-15T22:46:41,857 adding 'Mikado/configuration/scoring_files/HISTORIC/worm.yaml' 2021-07-15T22:46:41,862 adding 'Mikado/daijin/__init__.py' 2021-07-15T22:46:41,866 adding 'Mikado/daijin/assemble.smk' 2021-07-15T22:46:41,868 adding 'Mikado/daijin/example_config.yaml' 2021-07-15T22:46:41,869 adding 'Mikado/daijin/hpc.json' 2021-07-15T22:46:41,871 adding 'Mikado/daijin/hpc.yaml' 2021-07-15T22:46:41,873 adding 'Mikado/daijin/mikado.smk' 2021-07-15T22:46:41,875 adding 'Mikado/daijin/envs/blast.yaml' 2021-07-15T22:46:41,876 adding 'Mikado/daijin/envs/cufflinks.yaml' 2021-07-15T22:46:41,877 adding 'Mikado/daijin/envs/diamond.yaml' 2021-07-15T22:46:41,880 adding 'Mikado/daijin/envs/gmap.yaml' 2021-07-15T22:46:41,881 adding 'Mikado/daijin/envs/gnuplot.yaml' 2021-07-15T22:46:41,882 adding 'Mikado/daijin/envs/hisat2.yaml' 2021-07-15T22:46:41,883 adding 'Mikado/daijin/envs/portcullis.yaml' 2021-07-15T22:46:41,884 adding 'Mikado/daijin/envs/prodigal.yaml' 2021-07-15T22:46:41,886 adding 'Mikado/daijin/envs/samtools.yaml' 2021-07-15T22:46:41,887 adding 'Mikado/daijin/envs/scallop.yaml' 2021-07-15T22:46:41,888 adding 'Mikado/daijin/envs/star.yaml' 2021-07-15T22:46:41,889 adding 'Mikado/daijin/envs/stringtie.yaml' 2021-07-15T22:46:41,890 adding 'Mikado/daijin/envs/tophat2.yaml' 2021-07-15T22:46:41,891 adding 'Mikado/daijin/envs/transdecoder.yaml' 2021-07-15T22:46:41,892 adding 'Mikado/daijin/envs/trinity.yaml' 2021-07-15T22:46:41,894 adding 'Mikado/loci/__init__.py' 2021-07-15T22:46:41,904 adding 'Mikado/loci/abstractlocus.py' 2021-07-15T22:46:41,906 adding 'Mikado/loci/excluded.py' 2021-07-15T22:46:41,916 adding 'Mikado/loci/locus.py' 2021-07-15T22:46:41,917 adding 'Mikado/loci/monosublocus.py' 2021-07-15T22:46:41,920 adding 'Mikado/loci/monosublocusholder.py' 2021-07-15T22:46:41,923 adding 'Mikado/loci/reference_gene.py' 2021-07-15T22:46:41,925 adding 'Mikado/loci/sublocus.py' 2021-07-15T22:46:41,933 adding 'Mikado/loci/superlocus.py' 2021-07-15T22:46:41,936 adding 'Mikado/parsers/GFF.py' 2021-07-15T22:46:41,938 adding 'Mikado/parsers/GTF.py' 2021-07-15T22:46:41,939 adding 'Mikado/parsers/__init__.py' 2021-07-15T22:46:41,940 adding 'Mikado/parsers/bam_parser.py' 2021-07-15T22:46:41,947 adding 'Mikado/parsers/bed12.py' 2021-07-15T22:46:41,950 adding 'Mikado/parsers/blast_utils.py' 2021-07-15T22:46:41,952 adding 'Mikado/parsers/gfannotation.py' 2021-07-15T22:46:41,954 adding 'Mikado/picking/__init__.py' 2021-07-15T22:46:41,955 adding 'Mikado/picking/_loci_serialiser.py' 2021-07-15T22:46:41,956 adding 'Mikado/picking/_locus_line_creator.py' 2021-07-15T22:46:41,957 adding 'Mikado/picking/_locus_single_printer.py' 2021-07-15T22:46:41,959 adding 'Mikado/picking/_merge_loci_utils.py' 2021-07-15T22:46:41,962 adding 'Mikado/picking/loci_processer.py' 2021-07-15T22:46:41,968 adding 'Mikado/picking/picker.py' 2021-07-15T22:46:41,970 adding 'Mikado/preparation/__init__.py' 2021-07-15T22:46:41,974 adding 'Mikado/preparation/annotation_parser.py' 2021-07-15T22:46:41,976 adding 'Mikado/preparation/checking.py' 2021-07-15T22:46:41,980 adding 'Mikado/preparation/prepare.py' 2021-07-15T22:46:41,982 adding 'Mikado/scales/__init__.py' 2021-07-15T22:46:41,988 adding 'Mikado/scales/accountant.py' 2021-07-15T22:46:41,994 adding 'Mikado/scales/assigner.py' 2021-07-15T22:46:41,997 adding 'Mikado/scales/class_codes.py' 2021-07-15T22:46:42,002 adding 'Mikado/scales/compare.py' 2021-07-15T22:46:42,046 adding 'Mikado/scales/contrast.cpp' 2021-07-15T22:46:42,191 adding 'Mikado/scales/contrast.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:42,198 adding 'Mikado/scales/contrast.pxd' 2021-07-15T22:46:42,201 adding 'Mikado/scales/contrast.pyx' 2021-07-15T22:46:42,216 adding 'Mikado/scales/f1.c' 2021-07-15T22:46:42,238 adding 'Mikado/scales/f1.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:42,240 adding 'Mikado/scales/f1.pxd' 2021-07-15T22:46:42,242 adding 'Mikado/scales/f1.pyx' 2021-07-15T22:46:42,243 adding 'Mikado/scales/gene_dict.py' 2021-07-15T22:46:42,245 adding 'Mikado/scales/resultstorer.py' 2021-07-15T22:46:42,247 adding 'Mikado/serializers/__init__.py' 2021-07-15T22:46:42,249 adding 'Mikado/serializers/external.py' 2021-07-15T22:46:42,252 adding 'Mikado/serializers/junction.py' 2021-07-15T22:46:42,255 adding 'Mikado/serializers/orf.py' 2021-07-15T22:46:42,257 adding 'Mikado/serializers/blast_serializer/__init__.py' 2021-07-15T22:46:42,334 adding 'Mikado/serializers/blast_serializer/aln_string_parser.cpp' 2021-07-15T22:46:42,552 adding 'Mikado/serializers/blast_serializer/aln_string_parser.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:42,562 adding 'Mikado/serializers/blast_serializer/aln_string_parser.pyx' 2021-07-15T22:46:42,564 adding 'Mikado/serializers/blast_serializer/blast_serialiser.py' 2021-07-15T22:46:42,638 adding 'Mikado/serializers/blast_serializer/btop_parser.cpp' 2021-07-15T22:46:42,842 adding 'Mikado/serializers/blast_serializer/btop_parser.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:42,851 adding 'Mikado/serializers/blast_serializer/btop_parser.pxd' 2021-07-15T22:46:42,853 adding 'Mikado/serializers/blast_serializer/btop_parser.pyx' 2021-07-15T22:46:42,855 adding 'Mikado/serializers/blast_serializer/hit.py' 2021-07-15T22:46:42,857 adding 'Mikado/serializers/blast_serializer/hsp.py' 2021-07-15T22:46:42,859 adding 'Mikado/serializers/blast_serializer/query.py' 2021-07-15T22:46:42,860 adding 'Mikado/serializers/blast_serializer/tab_serialiser.py' 2021-07-15T22:46:42,863 adding 'Mikado/serializers/blast_serializer/tabular_utils.py' 2021-07-15T22:46:42,865 adding 'Mikado/serializers/blast_serializer/target.py' 2021-07-15T22:46:42,867 adding 'Mikado/serializers/blast_serializer/utils.py' 2021-07-15T22:46:42,869 adding 'Mikado/serializers/blast_serializer/xml_serialiser.py' 2021-07-15T22:46:42,871 adding 'Mikado/serializers/blast_serializer/xml_utils.py' 2021-07-15T22:46:42,873 adding 'Mikado/subprograms/__init__.py' 2021-07-15T22:46:42,875 adding 'Mikado/subprograms/__main__.py' 2021-07-15T22:46:42,877 adding 'Mikado/subprograms/compare.py' 2021-07-15T22:46:42,880 adding 'Mikado/subprograms/configure.py' 2021-07-15T22:46:42,883 adding 'Mikado/subprograms/pick.py' 2021-07-15T22:46:42,886 adding 'Mikado/subprograms/prepare.py' 2021-07-15T22:46:42,890 adding 'Mikado/subprograms/serialise.py' 2021-07-15T22:46:42,892 adding 'Mikado/subprograms/util/__init__.py' 2021-07-15T22:46:42,894 adding 'Mikado/subprograms/util/awk_gtf.py' 2021-07-15T22:46:42,896 adding 'Mikado/subprograms/util/class_codes.py' 2021-07-15T22:46:42,897 adding 'Mikado/subprograms/util/convert.py' 2021-07-15T22:46:42,899 adding 'Mikado/subprograms/util/grep.py' 2021-07-15T22:46:42,901 adding 'Mikado/subprograms/util/metrics.py' 2021-07-15T22:46:42,905 adding 'Mikado/subprograms/util/stats.py' 2021-07-15T22:46:42,908 adding 'Mikado/subprograms/util/trim.py' 2021-07-15T22:46:42,912 adding 'Mikado/tests/Chrysemys_picta_bellii_problematic.gff3' 2021-07-15T22:46:42,913 adding 'Mikado/tests/Chrysemys_picta_bellii_problematic.list.txt' 2021-07-15T22:46:42,915 adding 'Mikado/tests/Chrysemys_picta_bellii_problematic.txt' 2021-07-15T22:46:42,917 adding 'Mikado/tests/__init__.py' 2021-07-15T22:46:42,918 adding 'Mikado/tests/annotation.gff3' 2021-07-15T22:46:42,920 adding 'Mikado/tests/annotation.gff3.stats' 2021-07-15T22:46:42,924 adding 'Mikado/tests/assigner_test.py' 2021-07-15T22:46:42,926 adding 'Mikado/tests/cds_test_1.gtf' 2021-07-15T22:46:42,927 adding 'Mikado/tests/cds_test_2.gtf' 2021-07-15T22:46:42,929 adding 'Mikado/tests/check_seed.gtf' 2021-07-15T22:46:42,931 adding 'Mikado/tests/check_seed.yaml' 2021-07-15T22:46:43,811 adding 'Mikado/tests/chr5.fas.gz' 2021-07-15T22:46:43,879 adding 'Mikado/tests/chr5.fas.gz.fai' 2021-07-15T22:46:43,882 adding 'Mikado/tests/chr5.fas.gz.gzi' 2021-07-15T22:46:43,891 adding 'Mikado/tests/chunk-001-proteins.xml.gz' 2021-07-15T22:46:43,893 adding 'Mikado/tests/complete_padding.bed12' 2021-07-15T22:46:43,895 adding 'Mikado/tests/configuration.yaml' 2021-07-15T22:46:43,897 adding 'Mikado/tests/cufflinks.gtf' 2021-07-15T22:46:43,899 adding 'Mikado/tests/cufflinks.no_transcript.gtf' 2021-07-15T22:46:43,901 adding 'Mikado/tests/genome.fai' 2021-07-15T22:46:43,903 adding 'Mikado/tests/gtf_check.gtf.gz' 2021-07-15T22:46:43,905 adding 'Mikado/tests/intervaltree_test.py' 2021-07-15T22:46:43,911 adding 'Mikado/tests/junctions.bed' 2021-07-15T22:46:43,925 adding 'Mikado/tests/locus_test.py' 2021-07-15T22:46:43,951 adding 'Mikado/tests/mikado.blast.asn.gz' 2021-07-15T22:46:45,351 adding 'Mikado/tests/mikado.blast.xml' 2021-07-15T22:46:46,793 adding 'Mikado/tests/mikado.db' 2021-07-15T22:46:46,874 adding 'Mikado/tests/mikado_prepared.fasta' 2021-07-15T22:46:46,877 adding 'Mikado/tests/mikado_prepared.fasta.fai' 2021-07-15T22:46:46,882 adding 'Mikado/tests/mikado_prepared.gtf' 2021-07-15T22:46:46,884 adding 'Mikado/tests/neg_pad.bed12' 2021-07-15T22:46:46,901 adding 'Mikado/tests/neg_pad.fa' 2021-07-15T22:46:46,903 adding 'Mikado/tests/neg_pad.fa.fai' 2021-07-15T22:46:46,910 adding 'Mikado/tests/orf_test.py' 2021-07-15T22:46:46,911 adding 'Mikado/tests/pad_three_neg.bed12' 2021-07-15T22:46:46,913 adding 'Mikado/tests/pad_utr.bed12' 2021-07-15T22:46:46,914 adding 'Mikado/tests/padding_test.bed12' 2021-07-15T22:46:46,949 adding 'Mikado/tests/padding_test.fa' 2021-07-15T22:46:46,951 adding 'Mikado/tests/padding_test.fa.fai' 2021-07-15T22:46:46,953 adding 'Mikado/tests/padding_test.rev_compl.bed12' 2021-07-15T22:46:46,988 adding 'Mikado/tests/padding_test.rev_compl.fa' 2021-07-15T22:46:46,990 adding 'Mikado/tests/padding_test.rev_compl.fa.fai' 2021-07-15T22:46:46,993 adding 'Mikado/tests/parser_test.py' 2021-07-15T22:46:46,994 adding 'Mikado/tests/phasing_padding.bed12' 2021-07-15T22:46:46,996 adding 'Mikado/tests/plants.suspicious_requirement.yaml' 2021-07-15T22:46:46,998 adding 'Mikado/tests/prepare_misc_test.py' 2021-07-15T22:46:47,000 adding 'Mikado/tests/scoring_only_cds.yaml' 2021-07-15T22:46:47,003 adding 'Mikado/tests/test_bed12.py' 2021-07-15T22:46:47,005 adding 'Mikado/tests/test_blast_related.py' 2021-07-15T22:46:47,007 adding 'Mikado/tests/test_clique_methods.py' 2021-07-15T22:46:47,009 adding 'Mikado/tests/test_configurators.py' 2021-07-15T22:46:47,011 adding 'Mikado/tests/test_db_utils.py' 2021-07-15T22:46:47,012 adding 'Mikado/tests/test_external_scores.py' 2021-07-15T22:46:47,014 adding 'Mikado/tests/test_gene.py' 2021-07-15T22:46:47,016 adding 'Mikado/tests/test_invalid_orfs.py' 2021-07-15T22:46:47,018 adding 'Mikado/tests/test_json.py' 2021-07-15T22:46:47,034 adding 'Mikado/tests/test_mRNA.bam' 2021-07-15T22:46:47,037 adding 'Mikado/tests/test_metrics.py' 2021-07-15T22:46:47,040 adding 'Mikado/tests/test_modifications.py' 2021-07-15T22:46:47,042 adding 'Mikado/tests/test_scores.py' 2021-07-15T22:46:47,044 adding 'Mikado/tests/test_serialise_external.py' 2021-07-15T22:46:47,046 adding 'Mikado/tests/test_serialise_junctions.py' 2021-07-15T22:46:47,049 adding 'Mikado/tests/test_splitting.py' 2021-07-15T22:46:47,059 adding 'Mikado/tests/test_system_calls.py' 2021-07-15T22:46:47,063 adding 'Mikado/tests/test_transcript_checker.py' 2021-07-15T22:46:47,067 adding 'Mikado/tests/test_transcript_methods.py' 2021-07-15T22:46:47,071 adding 'Mikado/tests/test_transcript_negative.py' 2021-07-15T22:46:47,075 adding 'Mikado/tests/test_transcript_positive.py' 2021-07-15T22:46:47,079 adding 'Mikado/tests/test_transcript_single.py' 2021-07-15T22:46:47,083 adding 'Mikado/tests/test_truncated_cds.fa' 2021-07-15T22:46:47,085 adding 'Mikado/tests/test_truncated_cds.fa.fai' 2021-07-15T22:46:47,086 adding 'Mikado/tests/test_truncated_cds.gff3' 2021-07-15T22:46:47,088 adding 'Mikado/tests/test_utils.py' 2021-07-15T22:46:47,092 adding 'Mikado/tests/transcripts.fasta.prodigal.gff3' 2021-07-15T22:46:47,094 adding 'Mikado/tests/trinity.bed12' 2021-07-15T22:46:47,097 adding 'Mikado/tests/trinity.cDNA_match.gff3' 2021-07-15T22:46:47,100 adding 'Mikado/tests/trinity.gff3' 2021-07-15T22:46:47,103 adding 'Mikado/tests/trinity.gtf' 2021-07-15T22:46:47,105 adding 'Mikado/tests/trinity.ids' 2021-07-15T22:46:47,107 adding 'Mikado/tests/trinity.match_matchpart.gff3' 2021-07-15T22:46:47,110 adding 'Mikado/tests/trinity.minimap2.bam' 2021-07-15T22:46:47,112 adding 'Mikado/tests/trinity.no_transcript_feature.gtf' 2021-07-15T22:46:47,114 adding 'Mikado/tests/trinity_stats.txt' 2021-07-15T22:46:47,858 adding 'Mikado/tests/uniprot_sprot_plants.fasta.gz' 2021-07-15T22:46:48,137 adding 'Mikado/tests/uniprot_sprot_plants.fasta.gz.fai' 2021-07-15T22:46:48,148 adding 'Mikado/tests/uniprot_sprot_plants.fasta.gz.gzi' 2021-07-15T22:46:48,150 adding 'Mikado/tests/utilities_test.py' 2021-07-15T22:46:48,153 adding 'Mikado/tests/__pycache__/__init__.cpython-36.pyc' 2021-07-15T22:46:48,154 adding 'Mikado/tests/__pycache__/__init__.cpython-37.pyc' 2021-07-15T22:46:48,159 adding 'Mikado/tests/__pycache__/assigner_test.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,163 adding 'Mikado/tests/__pycache__/assigner_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,166 adding 'Mikado/tests/__pycache__/intervaltree_test.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,169 adding 'Mikado/tests/__pycache__/intervaltree_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,188 adding 'Mikado/tests/__pycache__/locus_test.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,205 adding 'Mikado/tests/__pycache__/locus_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,214 adding 'Mikado/tests/__pycache__/orf_test.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,222 adding 'Mikado/tests/__pycache__/orf_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,225 adding 'Mikado/tests/__pycache__/parser_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,228 adding 'Mikado/tests/__pycache__/prepare_misc_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,230 adding 'Mikado/tests/__pycache__/test_bed12.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,233 adding 'Mikado/tests/__pycache__/test_bed12.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,236 adding 'Mikado/tests/__pycache__/test_blast_related.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,239 adding 'Mikado/tests/__pycache__/test_blast_related.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,240 adding 'Mikado/tests/__pycache__/test_clique_methods.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,242 adding 'Mikado/tests/__pycache__/test_clique_methods.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,244 adding 'Mikado/tests/__pycache__/test_configurators.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,246 adding 'Mikado/tests/__pycache__/test_db_utils.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,248 adding 'Mikado/tests/__pycache__/test_db_utils.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,250 adding 'Mikado/tests/__pycache__/test_external_scores.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,251 adding 'Mikado/tests/__pycache__/test_external_scores.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,253 adding 'Mikado/tests/__pycache__/test_gene.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,255 adding 'Mikado/tests/__pycache__/test_gene.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,257 adding 'Mikado/tests/__pycache__/test_invalid_orfs.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,259 adding 'Mikado/tests/__pycache__/test_invalid_orfs.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,261 adding 'Mikado/tests/__pycache__/test_json.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,263 adding 'Mikado/tests/__pycache__/test_json.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,265 adding 'Mikado/tests/__pycache__/test_metrics.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,267 adding 'Mikado/tests/__pycache__/test_metrics.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,269 adding 'Mikado/tests/__pycache__/test_modifications.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,272 adding 'Mikado/tests/__pycache__/test_modifications.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,275 adding 'Mikado/tests/__pycache__/test_scores.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,277 adding 'Mikado/tests/__pycache__/test_scores.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,279 adding 'Mikado/tests/__pycache__/test_serialise_external.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,282 adding 'Mikado/tests/__pycache__/test_serialise_junctions.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,284 adding 'Mikado/tests/__pycache__/test_serialise_junctions.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,287 adding 'Mikado/tests/__pycache__/test_splitting.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,291 adding 'Mikado/tests/__pycache__/test_splitting.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,303 adding 'Mikado/tests/__pycache__/test_system_calls.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,316 adding 'Mikado/tests/__pycache__/test_system_calls.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,320 adding 'Mikado/tests/__pycache__/test_transcript_checker.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,323 adding 'Mikado/tests/__pycache__/test_transcript_checker.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,328 adding 'Mikado/tests/__pycache__/test_transcript_methods.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,333 adding 'Mikado/tests/__pycache__/test_transcript_methods.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,337 adding 'Mikado/tests/__pycache__/test_transcript_negative.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,341 adding 'Mikado/tests/__pycache__/test_transcript_negative.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,346 adding 'Mikado/tests/__pycache__/test_transcript_positive.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,352 adding 'Mikado/tests/__pycache__/test_transcript_positive.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,356 adding 'Mikado/tests/__pycache__/test_transcript_single.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,360 adding 'Mikado/tests/__pycache__/test_transcript_single.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,362 adding 'Mikado/tests/__pycache__/test_utils.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,364 adding 'Mikado/tests/__pycache__/test_utils.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,366 adding 'Mikado/tests/__pycache__/utilities_test.cpython-36-pytest-5.4.1.pyc' 2021-07-15T22:46:48,368 adding 'Mikado/tests/__pycache__/utilities_test.cpython-37-pytest-5.4.1.pyc' 2021-07-15T22:46:48,373 adding 'Mikado/tests/blast_data/diamond.0.9.30.tsv.gz' 2021-07-15T22:46:48,387 adding 'Mikado/tests/blast_data/diamond.0.9.30.xml.gz' 2021-07-15T22:46:48,423 adding 'Mikado/tests/blast_data/transcripts.fasta' 2021-07-15T22:46:48,427 adding 'Mikado/tests/blast_data/transcripts.fasta.fai' 2021-07-15T22:46:48,429 adding 'Mikado/tests/fusion_test/fusion_test_pred.gtf' 2021-07-15T22:46:48,431 adding 'Mikado/tests/fusion_test/fusion_test_ref.gff3' 2021-07-15T22:46:48,433 adding 'Mikado/tests/test_external/annotation_run1.metrics.testds.txt' 2021-07-15T22:46:48,435 adding 'Mikado/tests/test_external/aphid.scoring.yaml' 2021-07-15T22:46:48,437 adding 'Mikado/tests/test_external/mikado.configuration.testds.yaml' 2021-07-15T22:46:48,439 adding 'Mikado/tests/test_external/mikado_prepared.testds.fasta' 2021-07-15T22:46:48,441 adding 'Mikado/tests/test_external/mikado_prepared.testds.fasta.fai' 2021-07-15T22:46:48,443 adding 'Mikado/transcripts/__init__.py' 2021-07-15T22:46:48,445 adding 'Mikado/transcripts/clique_methods.py' 2021-07-15T22:46:48,461 adding 'Mikado/transcripts/transcript.py' 2021-07-15T22:46:48,465 adding 'Mikado/transcripts/transcriptchecker.py' 2021-07-15T22:46:48,467 adding 'Mikado/transcripts/transcriptcomputer.py' 2021-07-15T22:46:48,469 adding 'Mikado/transcripts/transcript_methods/__init__.py' 2021-07-15T22:46:48,473 adding 'Mikado/transcripts/transcript_methods/finalizing.py' 2021-07-15T22:46:48,476 adding 'Mikado/transcripts/transcript_methods/printing.py' 2021-07-15T22:46:48,480 adding 'Mikado/transcripts/transcript_methods/retrieval.py' 2021-07-15T22:46:48,485 adding 'Mikado/transcripts/transcript_methods/splitting.py' 2021-07-15T22:46:48,488 adding 'Mikado/utilities/__init__.py' 2021-07-15T22:46:48,490 adding 'Mikado/utilities/dbutils.py' 2021-07-15T22:46:48,492 adding 'Mikado/utilities/file_type.py' 2021-07-15T22:46:48,559 adding 'Mikado/utilities/intervaltree.cpp' 2021-07-15T22:46:48,785 adding 'Mikado/utilities/intervaltree.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:48,796 adding 'Mikado/utilities/intervaltree.pxd' 2021-07-15T22:46:48,799 adding 'Mikado/utilities/intervaltree.pyx' 2021-07-15T22:46:48,801 adding 'Mikado/utilities/log_utils.py' 2021-07-15T22:46:48,816 adding 'Mikado/utilities/overlap.c' 2021-07-15T22:46:48,845 adding 'Mikado/utilities/overlap.cpython-39-arm-linux-gnueabihf.so' 2021-07-15T22:46:48,847 adding 'Mikado/utilities/overlap.pxd' 2021-07-15T22:46:48,849 adding 'Mikado/utilities/overlap.pyx' 2021-07-15T22:46:48,852 adding 'Mikado-2.0rc1.data/scripts/add_transcript_feature_to_gtf.py' 2021-07-15T22:46:48,854 adding 'Mikado-2.0rc1.data/scripts/align_collect.py' 2021-07-15T22:46:48,855 adding 'Mikado-2.0rc1.data/scripts/asm_collect.py' 2021-07-15T22:46:48,857 adding 'Mikado-2.0rc1.data/scripts/bam2gtf.py' 2021-07-15T22:46:48,859 adding 'Mikado-2.0rc1.data/scripts/calculate_distances.py' 2021-07-15T22:46:48,860 adding 'Mikado-2.0rc1.data/scripts/class_run.py' 2021-07-15T22:46:48,862 adding 'Mikado-2.0rc1.data/scripts/convert_cdna_match_gff3.py' 2021-07-15T22:46:48,864 adding 'Mikado-2.0rc1.data/scripts/extract_promoter_regions.py' 2021-07-15T22:46:48,866 adding 'Mikado-2.0rc1.data/scripts/getFastaFromIds.py' 2021-07-15T22:46:48,868 adding 'Mikado-2.0rc1.data/scripts/gffjunc_to_bed12.py' 2021-07-15T22:46:48,869 adding 'Mikado-2.0rc1.data/scripts/grep.py' 2021-07-15T22:46:48,871 adding 'Mikado-2.0rc1.data/scripts/merge_junction_bed12.py' 2021-07-15T22:46:48,873 adding 'Mikado-2.0rc1.data/scripts/remove_from_embl.py' 2021-07-15T22:46:48,875 adding 'Mikado-2.0rc1.data/scripts/remove_utrs.py' 2021-07-15T22:46:48,876 adding 'Mikado-2.0rc1.data/scripts/sanitize_blast_db.py' 2021-07-15T22:46:48,878 adding 'Mikado-2.0rc1.data/scripts/split_fasta.py' 2021-07-15T22:46:48,880 adding 'Mikado-2.0rc1.data/scripts/tease_maker_apart.py' 2021-07-15T22:46:48,882 adding 'Mikado-2.0rc1.data/scripts/trim_long_introns.py' 2021-07-15T22:46:48,885 adding 'Mikado-2.0rc1.dist-info/AUTHORS' 2021-07-15T22:46:48,886 adding 'Mikado-2.0rc1.dist-info/METADATA' 2021-07-15T22:46:48,888 adding 'Mikado-2.0rc1.dist-info/WHEEL' 2021-07-15T22:46:48,889 adding 'Mikado-2.0rc1.dist-info/entry_points.txt' 2021-07-15T22:46:48,890 adding 'Mikado-2.0rc1.dist-info/top_level.txt' 2021-07-15T22:46:48,896 adding 'Mikado-2.0rc1.dist-info/RECORD' 2021-07-15T22:46:49,181 removing build/bdist.linux-armv7l/wheel 2021-07-15T22:46:49,497 Building wheel for mikado (setup.py): finished with status 'done' 2021-07-15T22:46:49,799 Created wheel for mikado: filename=Mikado-2.0rc1-cp39-cp39-linux_armv7l.whl size=24593233 sha256=91ac0dfdc5145f7ac98064d92c6cc7a27c9737695bee341d5ccd4dd84778da0a 2021-07-15T22:46:49,800 Stored in directory: /tmp/pip-ephem-wheel-cache-ax5i7rup/wheels/9b/44/54/6e98e4634f6e0e47930109d4231196e05bce9633564bc1cf00 2021-07-15T22:46:49,830 Successfully built mikado 2021-07-15T22:46:50,617 Removed build tracker: '/tmp/pip-req-tracker-i_vq7mk0'