2023-09-23T07:39:22,371 Created temporary directory: /tmp/pip-build-tracker-iyb9h0b9 2023-09-23T07:39:22,373 Initialized build tracking at /tmp/pip-build-tracker-iyb9h0b9 2023-09-23T07:39:22,373 Created build tracker: /tmp/pip-build-tracker-iyb9h0b9 2023-09-23T07:39:22,374 Entered build tracker: /tmp/pip-build-tracker-iyb9h0b9 2023-09-23T07:39:22,374 Created temporary directory: /tmp/pip-wheel-lgh0tkm9 2023-09-23T07:39:22,377 Created temporary directory: /tmp/pip-ephem-wheel-cache-yb5qfvth 2023-09-23T07:39:22,401 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-23T07:39:22,405 2 location(s) to search for versions of denovonear: 2023-09-23T07:39:22,405 * https://pypi.org/simple/denovonear/ 2023-09-23T07:39:22,405 * https://www.piwheels.org/simple/denovonear/ 2023-09-23T07:39:22,406 Fetching project page and analyzing links: https://pypi.org/simple/denovonear/ 2023-09-23T07:39:22,407 Getting page https://pypi.org/simple/denovonear/ 2023-09-23T07:39:22,408 Found index url https://pypi.org/simple/ 2023-09-23T07:39:22,674 Fetched page https://pypi.org/simple/denovonear/ as application/vnd.pypi.simple.v1+json 2023-09-23T07:39:22,688 Found link https://files.pythonhosted.org/packages/5f/25/aa72bf3769052c8002b830283a8bbacb2cd6e1a2a22c12ee9859022fece0/denovonear-0.5.0.tar.gz (from https://pypi.org/simple/denovonear/), version: 0.5.0 2023-09-23T07:39:22,689 Found link https://files.pythonhosted.org/packages/0a/62/5608d43d65589a21a7f6b725ec78fcce289da0e725280b7d874f8ddbe3ad/denovonear-0.5.1.tar.gz (from https://pypi.org/simple/denovonear/), version: 0.5.1 2023-09-23T07:39:22,689 Found link https://files.pythonhosted.org/packages/75/b3/535a16bff66cb3cb259afae1d4e1003258b4cb4af7bc81c7b2c76adc6ff2/denovonear-0.5.2.tar.gz (from https://pypi.org/simple/denovonear/), version: 0.5.2 2023-09-23T07:39:22,690 Found link 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https://files.pythonhosted.org/packages/51/a0/1e7699fe5b5a6ab27d2916c14ff76000d8026f85a668b1b50c7b51cdf187/denovonear-0.8.6.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.8.6 2023-09-23T07:39:22,702 Found link https://files.pythonhosted.org/packages/05/b7/51b6fa99afd7e2f06e37c1fb17f4e718dfe6fd88f99923aa504ba91c0d21/denovonear-0.9.0.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.0 2023-09-23T07:39:22,703 Found link https://files.pythonhosted.org/packages/ae/32/7045cbf27fe7e43ae39cba1d19346228c7b0a1024a66a8dcab60945c751e/denovonear-0.9.1.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.1 2023-09-23T07:39:22,704 Found link https://files.pythonhosted.org/packages/d1/cc/a5808715b8059599540330936ecfabfccc30e7ecdb8e8b887f457dd986d2/denovonear-0.9.2.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.2 2023-09-23T07:39:22,704 Found link 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https://files.pythonhosted.org/packages/69/66/64b9e8478912776a898522ec981e17ea828f0d2404a202822a1bf8f17924/denovonear-0.9.7.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.7 2023-09-23T07:39:22,709 Found link https://files.pythonhosted.org/packages/1d/ab/fde01a1b55c35ed26ac2efab95c534885523e1deb326b73a26c85729ff3d/denovonear-0.9.8.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.8 2023-09-23T07:39:22,710 Found link https://files.pythonhosted.org/packages/68/27/a9d9b5774581f96b261e6e3ad29d507b758b00f439ba79395bfb2308c899/denovonear-0.9.9.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.9 2023-09-23T07:39:22,711 Found link https://files.pythonhosted.org/packages/96/33/ac5e75b03040450f4641a95439641072b601fad0907cd741c195ffbe8e3e/denovonear-0.9.10.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.10 2023-09-23T07:39:22,712 Found link https://files.pythonhosted.org/packages/12/9f/45dedde087739cf468a82e996894170ca0d714f6fea3f5d51b271f901dce/denovonear-0.9.11.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.11 2023-09-23T07:39:22,713 Found link https://files.pythonhosted.org/packages/be/7c/9ea6d2254514972a9fdc7ae5c63f9fd9fadc806ca1ecd2a9736dc562a7bf/denovonear-0.9.12.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.12 2023-09-23T07:39:22,714 Found link https://files.pythonhosted.org/packages/a8/81/98b198863831fedfca0a2258b11f5bf3547c26b77161b5e4c4fce756bb7d/denovonear-0.9.13.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.13 2023-09-23T07:39:22,715 Found link https://files.pythonhosted.org/packages/65/82/fe860fc52789f6a1fa32fa956b7da6b9ab5fa86a5daedc3a3ff9c75c1dbb/denovonear-0.9.14.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.6), version: 0.9.14 2023-09-23T07:39:22,716 Found 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https://files.pythonhosted.org/packages/31/22/96469c9f34d20dd92581f79d349824e50613d8e8f93213d8f9006d2fc68e/denovonear-0.10.1.tar.gz (from https://pypi.org/simple/denovonear/) (requires-python:>=3.8), version: 0.10.1 2023-09-23T07:39:22,740 Fetching project page and analyzing links: https://www.piwheels.org/simple/denovonear/ 2023-09-23T07:39:22,740 Getting page https://www.piwheels.org/simple/denovonear/ 2023-09-23T07:39:22,742 Found index url https://www.piwheels.org/simple/ 2023-09-23T07:39:22,906 Fetched page https://www.piwheels.org/simple/denovonear/ as text/html 2023-09-23T07:39:22,960 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.10.1-cp39-cp39-linux_armv7l.whl#sha256=74213d76f9c959594d135e0638d35ccfb4383603c233f3ab7dbcf15fdf9ba755 (from https://www.piwheels.org/simple/denovonear/) (requires-python:>=3.8) 2023-09-23T07:39:22,961 Skipping link: No binaries permitted for denovonear: 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https://www.piwheels.org/simple/denovonear/denovonear-0.5.2-cp34-cp34m-linux_armv7l.whl#sha256=9c3951a110bb478c3cb8da074460ac364627a43f4f4cb8c49bb755f446c7a8ef (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,080 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.2-cp34-cp34m-linux_armv6l.whl#sha256=9c3951a110bb478c3cb8da074460ac364627a43f4f4cb8c49bb755f446c7a8ef (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,080 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp311-cp311-linux_armv7l.whl#sha256=0700b0c83d7ef40f977738f7aedbeee64cf4868fbfa91ab442534d0d53d6fabd (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,081 Skipping link: No binaries permitted for denovonear: 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https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp37-cp37m-linux_armv6l.whl#sha256=681cc5b7d29e939b82caa7090b39cd4cc7f8e8d9b1185cad2a3cdcd6efb4b187 (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,083 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp37-cp37m-linux_armv7l.whl#sha256=681cc5b7d29e939b82caa7090b39cd4cc7f8e8d9b1185cad2a3cdcd6efb4b187 (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,084 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp34-cp34m-linux_armv7l.whl#sha256=4a835657600bbe4fbd1610bb49d3db23fb8bb50f08bf25d9b19c511d9ce23e1f (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,085 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp34-cp34m-linux_armv6l.whl#sha256=4a835657600bbe4fbd1610bb49d3db23fb8bb50f08bf25d9b19c511d9ce23e1f (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,085 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp35-cp35m-linux_armv6l.whl#sha256=0ee6166f9c1ac9fff8a335ae0af7d21db6457276ec38258e3e7aa8e8a6fd6fb7 (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,086 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.1-cp35-cp35m-linux_armv7l.whl#sha256=0ee6166f9c1ac9fff8a335ae0af7d21db6457276ec38258e3e7aa8e8a6fd6fb7 (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,087 Skipping link: No binaries permitted for denovonear: https://www.piwheels.org/simple/denovonear/denovonear-0.5.0-py3-none-any.whl#sha256=2c89b66f43fab8b25680fd49e32aebb2a208618abce5f0474c0fcc92fda022e6 (from https://www.piwheels.org/simple/denovonear/) 2023-09-23T07:39:23,087 Skipping link: not a file: https://www.piwheels.org/simple/denovonear/ 2023-09-23T07:39:23,088 Skipping link: not a file: https://pypi.org/simple/denovonear/ 2023-09-23T07:39:23,112 Given no hashes to check 1 links for project 'denovonear': discarding no candidates 2023-09-23T07:39:23,132 Collecting denovonear==0.10.1 2023-09-23T07:39:23,134 Created temporary directory: /tmp/pip-unpack-6rwe1f8_ 2023-09-23T07:39:23,351 Downloading denovonear-0.10.1.tar.gz (139 kB) 2023-09-23T07:39:23,542 Added denovonear==0.10.1 from https://files.pythonhosted.org/packages/31/22/96469c9f34d20dd92581f79d349824e50613d8e8f93213d8f9006d2fc68e/denovonear-0.10.1.tar.gz to build tracker '/tmp/pip-build-tracker-iyb9h0b9' 2023-09-23T07:39:23,547 Created temporary directory: /tmp/pip-build-env-92kvwfb1 2023-09-23T07:39:23,552 Installing build dependencies: started 2023-09-23T07:39:23,553 Running command pip subprocess to install build dependencies 2023-09-23T07:39:24,678 Using pip 23.2.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2023-09-23T07:39:25,170 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-23T07:39:26,841 Collecting cython 2023-09-23T07:39:26,842 Obtaining dependency information for cython from https://files.pythonhosted.org/packages/03/e9/9cc0c4f0d8a566089d096254cd25168a0db02dd047863a7f995d8d3eefa7/Cython-3.0.2-py2.py3-none-any.whl.metadata 2023-09-23T07:39:26,851 Using cached Cython-3.0.2-py2.py3-none-any.whl.metadata (3.1 kB) 2023-09-23T07:39:28,138 Collecting setuptools>=40.6.0 2023-09-23T07:39:28,139 Obtaining dependency information for setuptools>=40.6.0 from https://files.pythonhosted.org/packages/bb/26/7945080113158354380a12ce26873dd6c1ebd88d47f5bc24e2c5bb38c16a/setuptools-68.2.2-py3-none-any.whl.metadata 2023-09-23T07:39:28,144 Using cached setuptools-68.2.2-py3-none-any.whl.metadata (6.3 kB) 2023-09-23T07:39:28,353 Collecting wheel 2023-09-23T07:39:28,368 Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB) 2023-09-23T07:39:28,510 Collecting gencodegenes 2023-09-23T07:39:28,523 Downloading https://www.piwheels.org/simple/gencodegenes/gencodegenes-1.0.6-cp311-cp311-linux_armv7l.whl (2.8 MB) 2023-09-23T07:39:28,770 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.8/2.8 MB 11.7 MB/s eta 0:00:00 2023-09-23T07:39:29,206 Collecting pyfaidx>=0.5.8 (from gencodegenes) 2023-09-23T07:39:29,208 Obtaining dependency information for pyfaidx>=0.5.8 from https://files.pythonhosted.org/packages/83/bf/269e9b3a18dfda8a22a2d76decf98725f28ff930bd449f87a194625ba913/pyfaidx-0.7.2.2-py3-none-any.whl.metadata 2023-09-23T07:39:29,348 Downloading pyfaidx-0.7.2.2-py3-none-any.whl.metadata (25 kB) 2023-09-23T07:39:29,486 Collecting six (from pyfaidx>=0.5.8->gencodegenes) 2023-09-23T07:39:29,499 Using cached https://www.piwheels.org/simple/six/six-1.16.0-py2.py3-none-any.whl (11 kB) 2023-09-23T07:39:29,919 Collecting importlib-metadata (from pyfaidx>=0.5.8->gencodegenes) 2023-09-23T07:39:29,937 Using cached https://www.piwheels.org/simple/importlib-metadata/importlib_metadata-6.8.0-py3-none-any.whl (22 kB) 2023-09-23T07:39:30,184 Collecting zipp>=0.5 (from importlib-metadata->pyfaidx>=0.5.8->gencodegenes) 2023-09-23T07:39:30,186 Obtaining dependency information for zipp>=0.5 from https://files.pythonhosted.org/packages/d9/66/48866fc6b158c81cc2bfecc04c480f105c6040e8b077bc54c634b4a67926/zipp-3.17.0-py3-none-any.whl.metadata 2023-09-23T07:39:30,206 Using cached zipp-3.17.0-py3-none-any.whl.metadata (3.7 kB) 2023-09-23T07:39:30,313 Using cached Cython-3.0.2-py2.py3-none-any.whl (1.2 MB) 2023-09-23T07:39:30,355 Using cached setuptools-68.2.2-py3-none-any.whl (807 kB) 2023-09-23T07:39:30,394 Downloading pyfaidx-0.7.2.2-py3-none-any.whl (28 kB) 2023-09-23T07:39:30,421 Using cached zipp-3.17.0-py3-none-any.whl (7.4 kB) 2023-09-23T07:39:33,320 Installing collected packages: zipp, wheel, six, setuptools, cython, importlib-metadata, pyfaidx, gencodegenes 2023-09-23T07:39:33,568 Creating /tmp/pip-build-env-92kvwfb1/overlay/local/bin 2023-09-23T07:39:33,570 changing mode of /tmp/pip-build-env-92kvwfb1/overlay/local/bin/wheel to 755 2023-09-23T07:39:38,678 changing mode of /tmp/pip-build-env-92kvwfb1/overlay/local/bin/cygdb to 755 2023-09-23T07:39:38,680 changing mode of /tmp/pip-build-env-92kvwfb1/overlay/local/bin/cython to 755 2023-09-23T07:39:38,683 changing mode of /tmp/pip-build-env-92kvwfb1/overlay/local/bin/cythonize to 755 2023-09-23T07:39:38,838 changing mode of /tmp/pip-build-env-92kvwfb1/overlay/local/bin/faidx to 755 2023-09-23T07:39:39,158 Successfully installed cython-3.0.2 gencodegenes-1.0.6 importlib-metadata-6.8.0 pyfaidx-0.7.2.2 setuptools-68.2.2 six-1.16.0 wheel-0.41.2 zipp-3.17.0 2023-09-23T07:39:39,742 Installing build dependencies: finished with status 'done' 2023-09-23T07:39:39,759 Getting requirements to build wheel: started 2023-09-23T07:39:39,761 Running command Getting requirements to build wheel 2023-09-23T07:39:44,357 Compiling src/denovonear/weights.pyx because it changed. 2023-09-23T07:39:44,357 Compiling src/denovonear/site_specific_rates.pyx because it changed. 2023-09-23T07:39:44,357 [1/2] Cythonizing src/denovonear/site_specific_rates.pyx 2023-09-23T07:39:44,358 [2/2] Cythonizing src/denovonear/weights.pyx 2023-09-23T07:39:44,434 running egg_info 2023-09-23T07:39:44,440 writing src/denovonear.egg-info/PKG-INFO 2023-09-23T07:39:44,443 writing dependency_links to src/denovonear.egg-info/dependency_links.txt 2023-09-23T07:39:44,445 writing entry points to src/denovonear.egg-info/entry_points.txt 2023-09-23T07:39:44,447 writing requirements to src/denovonear.egg-info/requires.txt 2023-09-23T07:39:44,448 writing top-level names to src/denovonear.egg-info/top_level.txt 2023-09-23T07:39:44,479 dependency /tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.h won't be automatically included in the manifest: the path must be relative 2023-09-23T07:39:44,484 reading manifest file 'src/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:39:44,488 reading manifest template 'MANIFEST.in' 2023-09-23T07:39:44,494 adding license file 'LICENSE.txt' 2023-09-23T07:39:44,498 writing manifest file 'src/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:39:44,808 Getting requirements to build wheel: finished with status 'done' 2023-09-23T07:39:44,820 Created temporary directory: /tmp/pip-modern-metadata-n8po5ygc 2023-09-23T07:39:44,823 Preparing metadata (pyproject.toml): started 2023-09-23T07:39:44,824 Running command Preparing metadata (pyproject.toml) 2023-09-23T07:39:46,234 running dist_info 2023-09-23T07:39:46,254 creating /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info 2023-09-23T07:39:46,259 writing /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/PKG-INFO 2023-09-23T07:39:46,263 writing dependency_links to /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/dependency_links.txt 2023-09-23T07:39:46,264 writing entry points to /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/entry_points.txt 2023-09-23T07:39:46,266 writing requirements to /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/requires.txt 2023-09-23T07:39:46,267 writing top-level names to /tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/top_level.txt 2023-09-23T07:39:46,269 writing manifest file '/tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:39:46,295 dependency /tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.h won't be automatically included in the manifest: the path must be relative 2023-09-23T07:39:46,301 reading manifest file '/tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:39:46,303 reading manifest template 'MANIFEST.in' 2023-09-23T07:39:46,309 adding license file 'LICENSE.txt' 2023-09-23T07:39:46,312 writing manifest file '/tmp/pip-modern-metadata-n8po5ygc/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:39:46,313 creating '/tmp/pip-modern-metadata-n8po5ygc/denovonear-0.10.1.dist-info' 2023-09-23T07:39:46,538 Preparing metadata (pyproject.toml): finished with status 'done' 2023-09-23T07:39:46,543 Source in /tmp/pip-wheel-lgh0tkm9/denovonear_405ec35f2a7244cdada98727f2a22e07 has version 0.10.1, which satisfies requirement denovonear==0.10.1 from https://files.pythonhosted.org/packages/31/22/96469c9f34d20dd92581f79d349824e50613d8e8f93213d8f9006d2fc68e/denovonear-0.10.1.tar.gz 2023-09-23T07:39:46,544 Removed denovonear==0.10.1 from https://files.pythonhosted.org/packages/31/22/96469c9f34d20dd92581f79d349824e50613d8e8f93213d8f9006d2fc68e/denovonear-0.10.1.tar.gz from build tracker '/tmp/pip-build-tracker-iyb9h0b9' 2023-09-23T07:39:46,550 Created temporary directory: /tmp/pip-unpack-ci57x_ux 2023-09-23T07:39:46,551 Created temporary directory: /tmp/pip-unpack-n4c2_tw6 2023-09-23T07:39:46,564 Building wheels for collected packages: denovonear 2023-09-23T07:39:46,568 Created temporary directory: /tmp/pip-wheel-_uin_gmg 2023-09-23T07:39:46,568 Destination directory: /tmp/pip-wheel-_uin_gmg 2023-09-23T07:39:46,570 Building wheel for denovonear (pyproject.toml): started 2023-09-23T07:39:46,572 Running command Building wheel for denovonear (pyproject.toml) 2023-09-23T07:39:48,006 running bdist_wheel 2023-09-23T07:39:48,051 running build 2023-09-23T07:39:48,052 running build_py 2023-09-23T07:39:48,060 creating build 2023-09-23T07:39:48,061 creating build/lib.linux-armv7l-cpython-311 2023-09-23T07:39:48,061 creating build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,063 copying src/denovonear/__main__.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,065 copying src/denovonear/rate_limiter_retries.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,067 copying src/denovonear/ensembl_cache.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,069 copying src/denovonear/frameshift_rate.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,071 copying src/denovonear/rate_limiter.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,073 copying src/denovonear/simulate.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,074 copying src/denovonear/__init__.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,076 copying src/denovonear/cluster_test.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,078 copying src/denovonear/load_mutation_rates.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,079 copying src/denovonear/load_gene.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,082 copying src/denovonear/ensembl_requester.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,084 copying src/denovonear/log_transform_rates.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,085 copying src/denovonear/load_de_novos.py -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,087 creating build/lib.linux-armv7l-cpython-311/denovonear/data 2023-09-23T07:39:48,088 copying src/denovonear/data/rates.txt -> build/lib.linux-armv7l-cpython-311/denovonear/data 2023-09-23T07:39:48,091 copying src/denovonear/weights.pxd -> build/lib.linux-armv7l-cpython-311/denovonear 2023-09-23T07:39:48,093 running build_ext 2023-09-23T07:39:48,099 building 'denovonear.weights' extension 2023-09-23T07:39:48,100 creating build/temp.linux-armv7l-cpython-311 2023-09-23T07:39:48,100 creating build/temp.linux-armv7l-cpython-311/src 2023-09-23T07:39:48,101 creating build/temp.linux-armv7l-cpython-311/src/denovonear 2023-09-23T07:39:48,102 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/ -I/usr/include/python3.11 -c src/denovonear/weights.cpp -o build/temp.linux-armv7l-cpython-311/src/denovonear/weights.o -std=c++11 -I/usr/include 2023-09-23T07:39:57,457 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/ -I/usr/include/python3.11 -c src/simulate.cpp -o build/temp.linux-armv7l-cpython-311/src/simulate.o -std=c++11 -I/usr/include 2023-09-23T07:39:59,536 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/ -I/usr/include/python3.11 -c src/weighted_choice.cpp -o build/temp.linux-armv7l-cpython-311/src/weighted_choice.o -std=c++11 -I/usr/include 2023-09-23T07:40:01,387 In file included from /usr/include/c++/12/vector:70, 2023-09-23T07:40:01,388 from /usr/include/c++/12/bits/random.h:34, 2023-09-23T07:40:01,388 from /usr/include/c++/12/random:49, 2023-09-23T07:40:01,389 from src/weighted_choice.cpp:1: 2023-09-23T07:40:01,389 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2023-09-23T07:40:01,390 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:01,390 439 | vector<_Tp, _Alloc>:: 2023-09-23T07:40:01,391 | ^~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:01,435 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const AlleleChoice&}; _Tp = AlleleChoice; _Alloc = std::allocator]’: 2023-09-23T07:40:01,436 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:01,488 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {AlleleChoice}; _Tp = AlleleChoice; _Alloc = std::allocator]’: 2023-09-23T07:40:01,488 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:01,529 In file included from /usr/include/c++/12/vector:64: 2023-09-23T07:40:01,529 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2023-09-23T07:40:01,530 inlined from ‘void Chooser::add_choice(int, double, char, char, int)’ at src/weighted_choice.cpp:33:25: 2023-09-23T07:40:01,531 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:01,531 1287 | _M_realloc_insert(end(), __x); 2023-09-23T07:40:01,532 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-23T07:40:01,533 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {AlleleChoice}; _Tp = AlleleChoice; _Alloc = std::allocator]’, 2023-09-23T07:40:01,533 inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = AlleleChoice; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, 2023-09-23T07:40:01,534 inlined from ‘void Chooser::add_choice(int, double, char, char, int)’ at src/weighted_choice.cpp:35:20: 2023-09-23T07:40:01,535 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:01,536 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2023-09-23T07:40:01,536 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:01,566 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: 2023-09-23T07:40:01,567 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:01,567 439 | vector<_Tp, _Alloc>:: 2023-09-23T07:40:01,568 | ^~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:01,609 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, 2023-09-23T07:40:01,610 inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, 2023-09-23T07:40:01,610 inlined from ‘void Chooser::append(Chooser)’ at src/weighted_choice.cpp:84:29: 2023-09-23T07:40:01,611 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:01,611 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2023-09-23T07:40:01,612 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:01,612 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = AlleleChoice; _Alloc = std::allocator]’, 2023-09-23T07:40:01,613 inlined from ‘void Chooser::append(Chooser)’ at src/weighted_choice.cpp:85:24: 2023-09-23T07:40:01,614 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:01,615 1287 | _M_realloc_insert(end(), __x); 2023-09-23T07:40:01,615 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-23T07:40:01,874 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/src/denovonear/weights.o build/temp.linux-armv7l-cpython-311/src/simulate.o build/temp.linux-armv7l-cpython-311/src/weighted_choice.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/denovonear/weights.cpython-311-arm-linux-gnueabihf.so 2023-09-23T07:40:02,146 building 'denovonear.site_specific_rates' extension 2023-09-23T07:40:02,147 creating build/temp.linux-armv7l-cpython-311/tmp 2023-09-23T07:40:02,147 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1 2023-09-23T07:40:02,148 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay 2023-09-23T07:40:02,149 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local 2023-09-23T07:40:02,150 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib 2023-09-23T07:40:02,151 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11 2023-09-23T07:40:02,152 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages 2023-09-23T07:40:02,153 creating build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes 2023-09-23T07:40:02,154 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes -Isrc/ -I/usr/include/python3.11 -c /tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.cpp -o build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.o -std=c++11 -I/usr/include 2023-09-23T07:40:10,154 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes -Isrc/ -I/usr/include/python3.11 -c src/denovonear/site_specific_rates.cpp -o build/temp.linux-armv7l-cpython-311/src/denovonear/site_specific_rates.o -std=c++11 -I/usr/include 2023-09-23T07:40:27,635 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes -Isrc/ -I/usr/include/python3.11 -c src/site_rates.cpp -o build/temp.linux-armv7l-cpython-311/src/site_rates.o -std=c++11 -I/usr/include 2023-09-23T07:40:33,925 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes -Isrc/ -I/usr/include/python3.11 -c src/weighted_choice.cpp -o build/temp.linux-armv7l-cpython-311/src/weighted_choice.o -std=c++11 -I/usr/include 2023-09-23T07:40:35,782 In file included from /usr/include/c++/12/vector:70, 2023-09-23T07:40:35,782 from /usr/include/c++/12/bits/random.h:34, 2023-09-23T07:40:35,783 from /usr/include/c++/12/random:49, 2023-09-23T07:40:35,784 from src/weighted_choice.cpp:1: 2023-09-23T07:40:35,785 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2023-09-23T07:40:35,785 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:35,786 439 | vector<_Tp, _Alloc>:: 2023-09-23T07:40:35,787 | ^~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:35,830 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const AlleleChoice&}; _Tp = AlleleChoice; _Alloc = std::allocator]’: 2023-09-23T07:40:35,831 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:35,882 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {AlleleChoice}; _Tp = AlleleChoice; _Alloc = std::allocator]’: 2023-09-23T07:40:35,883 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:35,923 In file included from /usr/include/c++/12/vector:64: 2023-09-23T07:40:35,924 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2023-09-23T07:40:35,925 inlined from ‘void Chooser::add_choice(int, double, char, char, int)’ at src/weighted_choice.cpp:33:25: 2023-09-23T07:40:35,925 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:35,926 1287 | _M_realloc_insert(end(), __x); 2023-09-23T07:40:35,927 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-23T07:40:35,928 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {AlleleChoice}; _Tp = AlleleChoice; _Alloc = std::allocator]’, 2023-09-23T07:40:35,928 inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = AlleleChoice; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, 2023-09-23T07:40:35,929 inlined from ‘void Chooser::add_choice(int, double, char, char, int)’ at src/weighted_choice.cpp:35:20: 2023-09-23T07:40:35,929 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:35,930 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2023-09-23T07:40:35,930 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:35,961 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: 2023-09-23T07:40:35,961 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2023-09-23T07:40:35,962 439 | vector<_Tp, _Alloc>:: 2023-09-23T07:40:35,962 | ^~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:36,003 In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, 2023-09-23T07:40:36,004 inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, 2023-09-23T07:40:36,005 inlined from ‘void Chooser::append(Chooser)’ at src/weighted_choice.cpp:84:29: 2023-09-23T07:40:36,005 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:36,006 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2023-09-23T07:40:36,007 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-23T07:40:36,008 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = AlleleChoice; _Alloc = std::allocator]’, 2023-09-23T07:40:36,008 inlined from ‘void Chooser::append(Chooser)’ at src/weighted_choice.cpp:85:24: 2023-09-23T07:40:36,009 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2023-09-23T07:40:36,010 1287 | _M_realloc_insert(end(), __x); 2023-09-23T07:40:36,010 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2023-09-23T07:40:36,273 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.o build/temp.linux-armv7l-cpython-311/src/denovonear/site_specific_rates.o build/temp.linux-armv7l-cpython-311/src/site_rates.o build/temp.linux-armv7l-cpython-311/src/weighted_choice.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/denovonear/site_specific_rates.cpython-311-arm-linux-gnueabihf.so 2023-09-23T07:40:36,686 installing to build/bdist.linux-armv7l/wheel 2023-09-23T07:40:36,687 running install 2023-09-23T07:40:36,711 running install_lib 2023-09-23T07:40:36,718 creating build/bdist.linux-armv7l 2023-09-23T07:40:36,719 creating build/bdist.linux-armv7l/wheel 2023-09-23T07:40:36,721 creating build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,722 copying build/lib.linux-armv7l-cpython-311/denovonear/__main__.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,724 copying build/lib.linux-armv7l-cpython-311/denovonear/rate_limiter_retries.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,726 copying build/lib.linux-armv7l-cpython-311/denovonear/ensembl_cache.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,728 copying build/lib.linux-armv7l-cpython-311/denovonear/frameshift_rate.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,730 copying build/lib.linux-armv7l-cpython-311/denovonear/weights.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,743 copying build/lib.linux-armv7l-cpython-311/denovonear/rate_limiter.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,745 copying build/lib.linux-armv7l-cpython-311/denovonear/simulate.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,747 copying build/lib.linux-armv7l-cpython-311/denovonear/__init__.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,748 copying build/lib.linux-armv7l-cpython-311/denovonear/cluster_test.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,750 copying build/lib.linux-armv7l-cpython-311/denovonear/weights.pxd -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,752 copying build/lib.linux-armv7l-cpython-311/denovonear/load_mutation_rates.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,754 copying build/lib.linux-armv7l-cpython-311/denovonear/load_gene.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,756 creating build/bdist.linux-armv7l/wheel/denovonear/data 2023-09-23T07:40:36,757 copying build/lib.linux-armv7l-cpython-311/denovonear/data/rates.txt -> build/bdist.linux-armv7l/wheel/denovonear/data 2023-09-23T07:40:36,759 copying build/lib.linux-armv7l-cpython-311/denovonear/site_specific_rates.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,807 copying build/lib.linux-armv7l-cpython-311/denovonear/ensembl_requester.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,809 copying build/lib.linux-armv7l-cpython-311/denovonear/log_transform_rates.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,811 copying build/lib.linux-armv7l-cpython-311/denovonear/load_de_novos.py -> build/bdist.linux-armv7l/wheel/denovonear 2023-09-23T07:40:36,812 running install_egg_info 2023-09-23T07:40:36,824 running egg_info 2023-09-23T07:40:36,829 writing src/denovonear.egg-info/PKG-INFO 2023-09-23T07:40:36,832 writing dependency_links to src/denovonear.egg-info/dependency_links.txt 2023-09-23T07:40:36,834 writing entry points to src/denovonear.egg-info/entry_points.txt 2023-09-23T07:40:36,835 writing requirements to src/denovonear.egg-info/requires.txt 2023-09-23T07:40:36,836 writing top-level names to src/denovonear.egg-info/top_level.txt 2023-09-23T07:40:36,845 dependency /tmp/pip-build-env-92kvwfb1/overlay/local/lib/python3.11/dist-packages/gencodegenes/tx.h won't be automatically included in the manifest: the path must be relative 2023-09-23T07:40:36,851 reading manifest file 'src/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:40:36,855 reading manifest template 'MANIFEST.in' 2023-09-23T07:40:36,861 adding license file 'LICENSE.txt' 2023-09-23T07:40:36,864 writing manifest file 'src/denovonear.egg-info/SOURCES.txt' 2023-09-23T07:40:36,866 Copying src/denovonear.egg-info to build/bdist.linux-armv7l/wheel/denovonear-0.10.1-py3.11.egg-info 2023-09-23T07:40:36,877 running install_scripts 2023-09-23T07:40:36,928 creating build/bdist.linux-armv7l/wheel/denovonear-0.10.1.dist-info/WHEEL 2023-09-23T07:40:36,931 creating '/tmp/pip-wheel-_uin_gmg/.tmp-o77jze7t/denovonear-0.10.1-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-09-23T07:40:36,933 adding 'denovonear/__init__.py' 2023-09-23T07:40:36,935 adding 'denovonear/__main__.py' 2023-09-23T07:40:36,937 adding 'denovonear/cluster_test.py' 2023-09-23T07:40:36,938 adding 'denovonear/ensembl_cache.py' 2023-09-23T07:40:36,940 adding 'denovonear/ensembl_requester.py' 2023-09-23T07:40:36,941 adding 'denovonear/frameshift_rate.py' 2023-09-23T07:40:36,942 adding 'denovonear/load_de_novos.py' 2023-09-23T07:40:36,944 adding 'denovonear/load_gene.py' 2023-09-23T07:40:36,945 adding 'denovonear/load_mutation_rates.py' 2023-09-23T07:40:36,946 adding 'denovonear/log_transform_rates.py' 2023-09-23T07:40:36,947 adding 'denovonear/rate_limiter.py' 2023-09-23T07:40:36,949 adding 'denovonear/rate_limiter_retries.py' 2023-09-23T07:40:36,950 adding 'denovonear/simulate.py' 2023-09-23T07:40:37,466 adding 'denovonear/site_specific_rates.cpython-311-arm-linux-gnueabihf.so' 2023-09-23T07:40:37,638 adding 'denovonear/weights.cpython-311-arm-linux-gnueabihf.so' 2023-09-23T07:40:37,645 adding 'denovonear/weights.pxd' 2023-09-23T07:40:37,648 adding 'denovonear/data/rates.txt' 2023-09-23T07:40:37,650 adding 'denovonear-0.10.1.dist-info/LICENSE.txt' 2023-09-23T07:40:37,651 adding 'denovonear-0.10.1.dist-info/METADATA' 2023-09-23T07:40:37,652 adding 'denovonear-0.10.1.dist-info/WHEEL' 2023-09-23T07:40:37,653 adding 'denovonear-0.10.1.dist-info/entry_points.txt' 2023-09-23T07:40:37,654 adding 'denovonear-0.10.1.dist-info/top_level.txt' 2023-09-23T07:40:37,655 adding 'denovonear-0.10.1.dist-info/RECORD' 2023-09-23T07:40:37,677 removing build/bdist.linux-armv7l/wheel 2023-09-23T07:40:37,832 Building wheel for denovonear (pyproject.toml): finished with status 'done' 2023-09-23T07:40:37,868 Created wheel for denovonear: filename=denovonear-0.10.1-cp311-cp311-linux_armv7l.whl size=1332811 sha256=48b0c85015ee8d41834de9322d83725203e281c24a0e1128f240235f1406ccee 2023-09-23T07:40:37,869 Stored in directory: /tmp/pip-ephem-wheel-cache-yb5qfvth/wheels/f4/72/62/7e2d6283925399524b5dcf748aa917357cd3b7ffb327332a16 2023-09-23T07:40:37,881 Successfully built denovonear 2023-09-23T07:40:37,919 Removed build tracker: '/tmp/pip-build-tracker-iyb9h0b9'