2021-07-09T09:27:17,527 Created temporary directory: /tmp/pip-ephem-wheel-cache-n3xgmanu
2021-07-09T09:27:17,530 Created temporary directory: /tmp/pip-req-tracker-zdgvfz4s
2021-07-09T09:27:17,530 Initialized build tracking at /tmp/pip-req-tracker-zdgvfz4s
2021-07-09T09:27:17,531 Created build tracker: /tmp/pip-req-tracker-zdgvfz4s
2021-07-09T09:27:17,531 Entered build tracker: /tmp/pip-req-tracker-zdgvfz4s
2021-07-09T09:27:17,531 Created temporary directory: /tmp/pip-wheel-deivequy
2021-07-09T09:27:17,564 1 location(s) to search for versions of ngs-plumbing:
2021-07-09T09:27:17,564 * https://pypi.org/simple/ngs-plumbing/
2021-07-09T09:27:17,565 Fetching project page and analyzing links: https://pypi.org/simple/ngs-plumbing/
2021-07-09T09:27:17,565 Getting page https://pypi.org/simple/ngs-plumbing/
2021-07-09T09:27:17,567 Found index url https://pypi.org/simple
2021-07-09T09:27:17,666   Found link https://files.pythonhosted.org/packages/e2/b7/896169889e1a705a2db7fc237a9e6f4b6c39b9dd94d8671667cc3bc652d7/ngs_plumbing-0.5.1.tar.gz#sha256=5d714d7b7084110838e23a6b6a9c86712b8b3cb799f900f71d2a77b2d9099489 (from https://pypi.org/simple/ngs-plumbing/), version: 0.5.1
2021-07-09T09:27:17,667   Found link https://files.pythonhosted.org/packages/17/3d/83ed952f2731054d91fcd64c58748c339c597d552ffec03922be97101240/ngs_plumbing-0.6.1.tar.gz#sha256=032f716bc46ece81b40df94000decbf6a40c2a2db50dc3b777cd22a703892112 (from https://pypi.org/simple/ngs-plumbing/), version: 0.6.1
2021-07-09T09:27:17,667   Found link https://files.pythonhosted.org/packages/ac/f5/0d958a7591e7dfc436298e2d5902cca67e2d45634fa0d699153b1098195d/ngs_plumbing-0.6.2.tar.gz#sha256=ff8abf8c8d3d2143b3b6dd9a0be376231b8d43b98b84b72f3e356fa23488cae7 (from https://pypi.org/simple/ngs-plumbing/), version: 0.6.2
2021-07-09T09:27:17,667   Found link https://files.pythonhosted.org/packages/a1/3e/24003dd7ed3790f9f9f89535a0ceea78c5f4d462986bf21fb30cd354bd58/ngs_plumbing-0.6.3.tar.gz#sha256=3b2e19edf320d811e73f287c26a98f7f5d1c3768b846e2f6d5d460648007b706 (from https://pypi.org/simple/ngs-plumbing/), version: 0.6.3
2021-07-09T09:27:17,668   Found link https://files.pythonhosted.org/packages/2e/52/d94a726f19fe9269ff371b20255c4de31de8c5c02cf59532813f4a18397a/ngs_plumbing-0.7.0.tar.gz#sha256=023979e150cbda59712f78dc9b0f25ddd235e424120ed62e8ff56ddb8de3732e (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.0
2021-07-09T09:27:17,668   Found link https://files.pythonhosted.org/packages/d1/ed/c91ca8009f59baffc67130f5bf50b570da150e3948598a9701448be0a2cd/ngs_plumbing-0.7.1.tar.gz#sha256=2408a41040a32967df42a909aab0c51fe7edb2e8415f10ab1afa9d338338a335 (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.1
2021-07-09T09:27:17,668   Found link https://files.pythonhosted.org/packages/30/66/55853e0ec4f30f1828c1cce74f4b122847854f4aa089bacc2dc60bdaaa0f/ngs_plumbing-0.7.2.tar.gz#sha256=06f792780c251952d1b49c2f9fa94104183d80406aa22f624af2d8671459efa4 (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.2
2021-07-09T09:27:17,669   Found link https://files.pythonhosted.org/packages/21/29/e2b6f24977d0d3f0d20643187bc9b46c51b6ac59cedd01f62f00bf3f1e5d/ngs_plumbing-0.7.3.tar.gz#sha256=722645abdf4e90991b1abfab60ad7efed0dd3730abb235c03dc72fbd29d0aa59 (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.3
2021-07-09T09:27:17,669   Found link https://files.pythonhosted.org/packages/70/39/24252c9bc4dc000d52145a2d4e791fe8b2565a4f462020465554733ba4b7/ngs_plumbing-0.7.4.tar.gz#sha256=8a8a5a5cc8f5541bfb4aaaf0d1c328d7e3125e0ad4fb0769e260ae47385b49b9 (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.4
2021-07-09T09:27:17,669   Found link https://files.pythonhosted.org/packages/b4/00/605467be81bb6cae9f9ae5a5228946e6215c2446ad9e131bb7737bffb7a1/ngs_plumbing-0.7.5.tar.gz#sha256=29daa8e4689276b00f3cacb497ebec71394e491267f4a69e4d940847cd87d1e8 (from https://pypi.org/simple/ngs-plumbing/), version: 0.7.5
2021-07-09T09:27:17,669   Found link https://files.pythonhosted.org/packages/e8/5a/79b30734c953d9b024b52cb6ff7009fea49b775ac143e93bb7b0e52b15d9/ngs_plumbing-0.8.0.tar.gz#sha256=036e23c89b6aecbb76a5508b0e53a13bc27514791258cbc6c5cf73857900c0e7 (from https://pypi.org/simple/ngs-plumbing/), version: 0.8.0
2021-07-09T09:27:17,670   Found link https://files.pythonhosted.org/packages/aa/2f/ea679e884acfd3cf0766ef7e150dcb26e8e2f5bba415c0b7317a8e514377/ngs_plumbing-0.8.1.tar.gz#sha256=ac2fcd1c2d1c2ada3d5b494332b6ce4175dc1146dca78ec1d3dbcfc06220d199 (from https://pypi.org/simple/ngs-plumbing/), version: 0.8.1
2021-07-09T09:27:17,670   Found link https://files.pythonhosted.org/packages/49/b4/c14b0f4bb8d2e2c475093d83d9b2a52743953d99aa3b91290ac0422d8dff/ngs_plumbing-0.8.2.tar.gz#sha256=6abefcadea1b7c903986c58fd6ce47de3df8405d18b6d91f967cf53e5d634886 (from https://pypi.org/simple/ngs-plumbing/), version: 0.8.2
2021-07-09T09:27:17,670   Found link https://files.pythonhosted.org/packages/89/1d/5ff21faba6fb2ec2775eab5a7555163a3c4865705ba4d05e8507a1ce4398/ngs_plumbing-0.9.0.tar.gz#sha256=b13e7d9452accf6484985807dab5bae7139debfcad0d154211a2feb7ee442647 (from https://pypi.org/simple/ngs-plumbing/), version: 0.9.0
2021-07-09T09:27:17,671   Found link https://files.pythonhosted.org/packages/9b/49/7ff35e46900140f2d5b696e7240d19ac90913a4d7c3c9b0d4bab5e707d84/ngs_plumbing-0.10.0.tar.gz#sha256=115e2fb82aefdd82a6b92f83228de5a454119eb11f18480bdae02bed3fb4e715 (from https://pypi.org/simple/ngs-plumbing/), version: 0.10.0
2021-07-09T09:27:17,671   Found link https://files.pythonhosted.org/packages/ee/af/35e8bcebff8702993f25a6987a414dda927929c9fe39fc92af1ae2ca7668/ngs_plumbing-0.10.1.tar.gz#sha256=f1669002e1dd8947c69e81cb201d0f057a1c7182cba5d245dc110f47ff4ebaea (from https://pypi.org/simple/ngs-plumbing/), version: 0.10.1
2021-07-09T09:27:17,671   Found link https://files.pythonhosted.org/packages/29/8e/5c1c762bc712b1d3897b92078955e71216e56d64416c76bac99e0db8880a/ngs_plumbing-0.10.2.tar.gz#sha256=d3f2bfce20c6bb618690c802cbe31bde1f7df4125d6db6b9f43c15efba92aa46 (from https://pypi.org/simple/ngs-plumbing/), version: 0.10.2
2021-07-09T09:27:17,671   Found link https://files.pythonhosted.org/packages/9e/40/62af4356ba0ad2cc37d5adeafde4974a47f8df09fa5ca79a64c5ef7bffbb/ngs_plumbing-0.11.0.tar.gz#sha256=c7c4b4af6897b34a96b6fb7de9a0962258aed51ae094671c5368fe4cbe7c5afe (from https://pypi.org/simple/ngs-plumbing/), version: 0.11.0
2021-07-09T09:27:17,672   Found link https://files.pythonhosted.org/packages/ff/c5/92ca8129b4f963f8dfb1812a34ba0ebd285d7b5daa81896a368b64a896a5/ngs_plumbing-0.11.1.tar.gz#sha256=41cdd69655630abb592e37f62fa0f33c806e7a5af743fec25d8fe942e7ad9619 (from https://pypi.org/simple/ngs-plumbing/), version: 0.11.1
2021-07-09T09:27:17,672   Found link https://files.pythonhosted.org/packages/86/e6/e72c4b834909bc9c0412aab091fc05b0a091b9c6861a3a0d4a9edbbce822/ngs_plumbing-0.12.0.tar.gz#sha256=a6fcbf06a78363cf2654d4bf622615a830828f1409192027ec54e7477b213593 (from https://pypi.org/simple/ngs-plumbing/), version: 0.12.0
2021-07-09T09:27:17,672   Found link https://files.pythonhosted.org/packages/03/8a/9db89c482934552967bf5fef88f83d894cd98708c66571d7f0762cbac990/ngs_plumbing-0.12.2.tar.gz#sha256=32510d70e77a266f70f0ca6f57714c7de21773768a5658735342a2eb3bb583e8 (from https://pypi.org/simple/ngs-plumbing/), version: 0.12.2
2021-07-09T09:27:17,672   Found link https://files.pythonhosted.org/packages/03/0d/4c2d5c9ad4517970df0e2f6c8827d3c10f324883326a63c7e589042dbd17/ngs_plumbing-0.12.3.tar.gz#sha256=16fa80980168657040ec6d3c113abc74254ee52087b20eb4abba3cfea00d9802 (from https://pypi.org/simple/ngs-plumbing/), version: 0.12.3
2021-07-09T09:27:17,673   Found link https://files.pythonhosted.org/packages/cf/95/92f0ce68a236e33d3b4be730d315d60c17fa1968d6b64a80c27001419363/ngs_plumbing-0.12.4.tar.gz#sha256=4533b4208fd73da36f15be93ea5ffe6863f1519674f995a1bb0114fece98c12d (from https://pypi.org/simple/ngs-plumbing/), version: 0.12.4
2021-07-09T09:27:17,673   Found link https://files.pythonhosted.org/packages/e8/69/8a0fba8c6a02c3e7a4cff43b6aa07e2942beae6eaeda732a05560dad0b8a/ngs_plumbing-0.13.0.tar.gz#sha256=18b3f47ce07c42b89e88fb52d07d22b9280aa6a8868fc1e33531b70e30618c76 (from https://pypi.org/simple/ngs-plumbing/), version: 0.13.0
2021-07-09T09:27:17,673   Found link https://files.pythonhosted.org/packages/e7/43/38c5059e87bbfc0ab7e3656de6144da6ae5df0832b2accf49f80a63abb22/ngs_plumbing-0.13.1.tar.gz#sha256=d2bc142509080f20f4e152178c95d2284445405ed7659e7d95b69bb79b774382 (from https://pypi.org/simple/ngs-plumbing/), version: 0.13.1
2021-07-09T09:27:17,674 Skipping link: not a file: https://pypi.org/simple/ngs-plumbing/
2021-07-09T09:27:17,693 Given no hashes to check 1 links for project 'ngs-plumbing': discarding no candidates
2021-07-09T09:27:17,711 Collecting ngs-plumbing==0.11.1
2021-07-09T09:27:17,713   Created temporary directory: /tmp/pip-unpack-cegno_t9
2021-07-09T09:27:18,086   Downloading ngs_plumbing-0.11.1.tar.gz (315 kB)
2021-07-09T09:27:18,282   Added ngs-plumbing==0.11.1 from https://files.pythonhosted.org/packages/ff/c5/92ca8129b4f963f8dfb1812a34ba0ebd285d7b5daa81896a368b64a896a5/ngs_plumbing-0.11.1.tar.gz#sha256=41cdd69655630abb592e37f62fa0f33c806e7a5af743fec25d8fe942e7ad9619 to build tracker '/tmp/pip-req-tracker-zdgvfz4s'
2021-07-09T09:27:18,283     Running setup.py (path:/tmp/pip-wheel-deivequy/ngs-plumbing_a68d4d229e54442dbea1634e596de1e6/setup.py) egg_info for package ngs-plumbing
2021-07-09T09:27:18,284     Created temporary directory: /tmp/pip-pip-egg-info-mhdmarsq
2021-07-09T09:27:18,284     Running command python setup.py egg_info
2021-07-09T09:27:19,073     running egg_info
2021-07-09T09:27:19,075     creating /tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info
2021-07-09T09:27:19,076     writing /tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/PKG-INFO
2021-07-09T09:27:19,079     writing dependency_links to /tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/dependency_links.txt
2021-07-09T09:27:19,080     writing entry points to /tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/entry_points.txt
2021-07-09T09:27:19,082     writing top-level names to /tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/top_level.txt
2021-07-09T09:27:19,083     writing manifest file '/tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/SOURCES.txt'
2021-07-09T09:27:19,425     reading manifest file '/tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/SOURCES.txt'
2021-07-09T09:27:19,427     reading manifest template 'MANIFEST.in'
2021-07-09T09:27:19,431     adding license file 'COPYING'
2021-07-09T09:27:19,435     writing manifest file '/tmp/pip-pip-egg-info-mhdmarsq/ngs_plumbing.egg-info/SOURCES.txt'

2021-07-09T09:27:19,437     Warning: The Python package 'h5py' cannot be imported.
2021-07-09T09:27:19,437     Without it, capabilities related to the XSQ format cannot be used.
2021-07-09T09:27:19,512   Source in /tmp/pip-wheel-deivequy/ngs-plumbing_a68d4d229e54442dbea1634e596de1e6 has version 0.11.1, which satisfies requirement ngs-plumbing==0.11.1 from https://files.pythonhosted.org/packages/ff/c5/92ca8129b4f963f8dfb1812a34ba0ebd285d7b5daa81896a368b64a896a5/ngs_plumbing-0.11.1.tar.gz#sha256=41cdd69655630abb592e37f62fa0f33c806e7a5af743fec25d8fe942e7ad9619
2021-07-09T09:27:19,513   Removed ngs-plumbing==0.11.1 from https://files.pythonhosted.org/packages/ff/c5/92ca8129b4f963f8dfb1812a34ba0ebd285d7b5daa81896a368b64a896a5/ngs_plumbing-0.11.1.tar.gz#sha256=41cdd69655630abb592e37f62fa0f33c806e7a5af743fec25d8fe942e7ad9619 from build tracker '/tmp/pip-req-tracker-zdgvfz4s'
2021-07-09T09:27:19,517 Created temporary directory: /tmp/pip-unpack-qkj1zvnx
2021-07-09T09:27:19,517 Building wheels for collected packages: ngs-plumbing
2021-07-09T09:27:19,521   Created temporary directory: /tmp/pip-wheel-rh0ivp_e
2021-07-09T09:27:19,522   Building wheel for ngs-plumbing (setup.py): started
2021-07-09T09:27:19,522   Destination directory: /tmp/pip-wheel-rh0ivp_e
2021-07-09T09:27:19,523   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-deivequy/ngs-plumbing_a68d4d229e54442dbea1634e596de1e6/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-deivequy/ngs-plumbing_a68d4d229e54442dbea1634e596de1e6/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-rh0ivp_e
2021-07-09T09:27:20,332   running bdist_wheel
2021-07-09T09:27:20,493   running build
2021-07-09T09:27:20,493   running build_py
2021-07-09T09:27:20,633   creating build
2021-07-09T09:27:20,634   creating build/lib.linux-armv7l-3.9
2021-07-09T09:27:20,634   creating build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,636   copying src/xsq.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,639   copying src/colorspace.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,641   copying src/kmers.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,643   copying src/fasta.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,646   copying src/_libdnaqual_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,647   copying src/dnaqual_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,649   copying src/ngsp_string_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,651   copying src/fastq.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,654   copying src/dnaqual.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,656   copying src/tapir.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,658   copying src/fastq_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,660   copying src/_libdna_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,663   copying src/dna.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,666   copying src/xsq_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,668   copying src/__init__.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,670   copying src/_libxsq_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,672   copying src/ngsp_string.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,674   copying src/intervals_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,677   copying src/tests.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,679   copying src/dna_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,681   copying src/xsqconvert.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,684   copying src/scons.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,687   copying src/intervals.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,689   copying src/kmers_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,691   copying src/fasta_test.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,693   copying src/report.py -> build/lib.linux-armv7l-3.9/ngs_plumbing
2021-07-09T09:27:20,697   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data
2021-07-09T09:27:20,697   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run
2021-07-09T09:27:20,698   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X
2021-07-09T09:27:20,699   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result
2021-07-09T09:27:20,700   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1
2021-07-09T09:27:20,701   copying src/data/test_run/test_run_2012_01_08_Prof_X/result/lane1/test_run_2012_01_08_Prof_X_01.xsq -> build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1
2021-07-09T09:27:20,714   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/html
2021-07-09T09:27:20,714   creating build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates
2021-07-09T09:27:20,715   copying src/data/html/templates/xsqlibreport.html -> build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates
2021-07-09T09:27:20,719   copying src/data/html/templates/fqlibreport.html -> build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates
2021-07-09T09:27:20,721   copying src/data/html/templates/xsqreport.html -> build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates
2021-07-09T09:27:20,724   copying src/data/html/readqual.js -> build/lib.linux-armv7l-3.9/ngs_plumbing/data/html
2021-07-09T09:27:20,728   running build_ext
2021-07-09T09:27:20,735   building 'ngs_plumbing._libxsq' extension
2021-07-09T09:27:20,736   creating build/temp.linux-armv7l-3.9
2021-07-09T09:27:20,737   creating build/temp.linux-armv7l-3.9/src
2021-07-09T09:27:20,737   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c src/_libxsq.c -o build/temp.linux-armv7l-3.9/src/_libxsq.o -Wall -O3 -march=native -funroll-loops
2021-07-09T09:27:21,157   src/_libxsq.c: In function ‘PyInit__libxsq’:
2021-07-09T09:27:21,157   src/_libxsq.c:352:17: warning: variable ‘d’ set but not used [-Wunused-but-set-variable]
2021-07-09T09:27:21,158     352 |   PyObject *m, *d;
2021-07-09T09:27:21,158         |                 ^
2021-07-09T09:27:21,678   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/src/_libxsq.o -o build/lib.linux-armv7l-3.9/ngs_plumbing/_libxsq.cpython-39-arm-linux-gnueabihf.so -g
2021-07-09T09:27:21,789   building 'ngs_plumbing._libdna' extension
2021-07-09T09:27:21,789   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c src/_libdna.c -o build/temp.linux-armv7l-3.9/src/_libdna.o -Wall -O3 -march=native -funroll-loops
2021-07-09T09:27:22,157   src/_libdna.c: In function ‘bytes_to_bit2’:
2021-07-09T09:27:22,157   src/_libdna.c:111:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare]
2021-07-09T09:27:22,158     111 |       if (bitpos == -2) {
2021-07-09T09:27:22,158         |                  ^~
2021-07-09T09:27:23,657   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/src/_libdna.o -o build/lib.linux-armv7l-3.9/ngs_plumbing/_libdna.cpython-39-arm-linux-gnueabihf.so -g
2021-07-09T09:27:23,766   building 'ngs_plumbing._libdnaqual' extension
2021-07-09T09:27:23,767   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c src/_libdnaqual.c -o build/temp.linux-armv7l-3.9/src/_libdnaqual.o -Wall -O3 -march=native -funroll-loops
2021-07-09T09:27:24,237   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/src/_libdnaqual.o -o build/lib.linux-armv7l-3.9/ngs_plumbing/_libdnaqual.cpython-39-arm-linux-gnueabihf.so -g
2021-07-09T09:27:24,351   installing to build/bdist.linux-armv7l/wheel
2021-07-09T09:27:24,351   running install
2021-07-09T09:27:24,352   running install_lib
2021-07-09T09:27:24,357   creating build/bdist.linux-armv7l
2021-07-09T09:27:24,357   creating build/bdist.linux-armv7l/wheel
2021-07-09T09:27:24,360   creating build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,361   copying build/lib.linux-armv7l-3.9/ngs_plumbing/xsq.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,365   copying build/lib.linux-armv7l-3.9/ngs_plumbing/colorspace.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,367   copying build/lib.linux-armv7l-3.9/ngs_plumbing/kmers.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,369   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libdnaqual.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,372   copying build/lib.linux-armv7l-3.9/ngs_plumbing/fasta.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,375   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libdnaqual_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,377   copying build/lib.linux-armv7l-3.9/ngs_plumbing/dnaqual_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,380   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data
2021-07-09T09:27:24,381   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/test_run
2021-07-09T09:27:24,383   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X
2021-07-09T09:27:24,384   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result
2021-07-09T09:27:24,386   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1
2021-07-09T09:27:24,387   copying build/lib.linux-armv7l-3.9/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1/test_run_2012_01_08_Prof_X_01.xsq -> build/bdist.linux-armv7l/wheel/ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1
2021-07-09T09:27:24,400   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html
2021-07-09T09:27:24,402   creating build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html/templates
2021-07-09T09:27:24,403   copying build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates/xsqlibreport.html -> build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html/templates
2021-07-09T09:27:24,406   copying build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates/fqlibreport.html -> build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html/templates
2021-07-09T09:27:24,408   copying build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/templates/xsqreport.html -> build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html/templates
2021-07-09T09:27:24,410   copying build/lib.linux-armv7l-3.9/ngs_plumbing/data/html/readqual.js -> build/bdist.linux-armv7l/wheel/ngs_plumbing/data/html
2021-07-09T09:27:24,412   copying build/lib.linux-armv7l-3.9/ngs_plumbing/ngsp_string_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,415   copying build/lib.linux-armv7l-3.9/ngs_plumbing/fastq.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,417   copying build/lib.linux-armv7l-3.9/ngs_plumbing/dnaqual.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,420   copying build/lib.linux-armv7l-3.9/ngs_plumbing/tapir.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,422   copying build/lib.linux-armv7l-3.9/ngs_plumbing/fastq_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,424   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libdna_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,427   copying build/lib.linux-armv7l-3.9/ngs_plumbing/dna.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,430   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libdna.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,435   copying build/lib.linux-armv7l-3.9/ngs_plumbing/xsq_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,438   copying build/lib.linux-armv7l-3.9/ngs_plumbing/__init__.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,440   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libxsq_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,442   copying build/lib.linux-armv7l-3.9/ngs_plumbing/ngsp_string.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,444   copying build/lib.linux-armv7l-3.9/ngs_plumbing/intervals_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,447   copying build/lib.linux-armv7l-3.9/ngs_plumbing/tests.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,449   copying build/lib.linux-armv7l-3.9/ngs_plumbing/dna_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,451   copying build/lib.linux-armv7l-3.9/ngs_plumbing/xsqconvert.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,454   copying build/lib.linux-armv7l-3.9/ngs_plumbing/scons.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,457   copying build/lib.linux-armv7l-3.9/ngs_plumbing/intervals.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,460   copying build/lib.linux-armv7l-3.9/ngs_plumbing/kmers_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,462   copying build/lib.linux-armv7l-3.9/ngs_plumbing/_libxsq.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,466   copying build/lib.linux-armv7l-3.9/ngs_plumbing/fasta_test.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,468   copying build/lib.linux-armv7l-3.9/ngs_plumbing/report.py -> build/bdist.linux-armv7l/wheel/ngs_plumbing
2021-07-09T09:27:24,470   running install_headers
2021-07-09T09:27:24,473   creating build/bdist.linux-armv7l/wheel/ngs_plumbing-0.11.1.data
2021-07-09T09:27:24,473   creating build/bdist.linux-armv7l/wheel/ngs_plumbing-0.11.1.data/headers
2021-07-09T09:27:24,475   copying src/_libdna.h -> build/bdist.linux-armv7l/wheel/ngs_plumbing-0.11.1.data/headers
2021-07-09T09:27:24,477   running install_egg_info
2021-07-09T09:27:24,502   running egg_info
2021-07-09T09:27:24,502   writing ngs_plumbing.egg-info/PKG-INFO
2021-07-09T09:27:24,504   writing dependency_links to ngs_plumbing.egg-info/dependency_links.txt
2021-07-09T09:27:24,506   writing entry points to ngs_plumbing.egg-info/entry_points.txt
2021-07-09T09:27:24,507   writing top-level names to ngs_plumbing.egg-info/top_level.txt
2021-07-09T09:27:24,519   reading manifest file 'ngs_plumbing.egg-info/SOURCES.txt'
2021-07-09T09:27:24,523   reading manifest template 'MANIFEST.in'
2021-07-09T09:27:24,527   adding license file 'COPYING'
2021-07-09T09:27:24,531   writing manifest file 'ngs_plumbing.egg-info/SOURCES.txt'
2021-07-09T09:27:24,533   Copying ngs_plumbing.egg-info to build/bdist.linux-armv7l/wheel/ngs_plumbing-0.11.1-py3.9.egg-info
2021-07-09T09:27:24,547   running install_scripts
2021-07-09T09:27:24,626   adding license file "COPYING" (matched pattern "COPYING*")
2021-07-09T09:27:24,631   creating build/bdist.linux-armv7l/wheel/ngs_plumbing-0.11.1.dist-info/WHEEL
2021-07-09T09:27:24,634   creating '/tmp/pip-wheel-rh0ivp_e/ngs_plumbing-0.11.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-09T09:27:24,637   adding 'ngs_plumbing/__init__.py'
2021-07-09T09:27:24,657   adding 'ngs_plumbing/_libdna.cpython-39-arm-linux-gnueabihf.so'
2021-07-09T09:27:24,659   adding 'ngs_plumbing/_libdna_test.py'
2021-07-09T09:27:24,663   adding 'ngs_plumbing/_libdnaqual.cpython-39-arm-linux-gnueabihf.so'
2021-07-09T09:27:24,664   adding 'ngs_plumbing/_libdnaqual_test.py'
2021-07-09T09:27:24,671   adding 'ngs_plumbing/_libxsq.cpython-39-arm-linux-gnueabihf.so'
2021-07-09T09:27:24,673   adding 'ngs_plumbing/_libxsq_test.py'
2021-07-09T09:27:24,675   adding 'ngs_plumbing/colorspace.py'
2021-07-09T09:27:24,676   adding 'ngs_plumbing/dna.py'
2021-07-09T09:27:24,678   adding 'ngs_plumbing/dna_test.py'
2021-07-09T09:27:24,679   adding 'ngs_plumbing/dnaqual.py'
2021-07-09T09:27:24,680   adding 'ngs_plumbing/dnaqual_test.py'
2021-07-09T09:27:24,682   adding 'ngs_plumbing/fasta.py'
2021-07-09T09:27:24,683   adding 'ngs_plumbing/fasta_test.py'
2021-07-09T09:27:24,685   adding 'ngs_plumbing/fastq.py'
2021-07-09T09:27:24,686   adding 'ngs_plumbing/fastq_test.py'
2021-07-09T09:27:24,688   adding 'ngs_plumbing/intervals.py'
2021-07-09T09:27:24,689   adding 'ngs_plumbing/intervals_test.py'
2021-07-09T09:27:24,691   adding 'ngs_plumbing/kmers.py'
2021-07-09T09:27:24,692   adding 'ngs_plumbing/kmers_test.py'
2021-07-09T09:27:24,693   adding 'ngs_plumbing/ngsp_string.py'
2021-07-09T09:27:24,695   adding 'ngs_plumbing/ngsp_string_test.py'
2021-07-09T09:27:24,696   adding 'ngs_plumbing/report.py'
2021-07-09T09:27:24,697   adding 'ngs_plumbing/scons.py'
2021-07-09T09:27:24,699   adding 'ngs_plumbing/tapir.py'
2021-07-09T09:27:24,700   adding 'ngs_plumbing/tests.py'
2021-07-09T09:27:24,704   adding 'ngs_plumbing/xsq.py'
2021-07-09T09:27:24,705   adding 'ngs_plumbing/xsq_test.py'
2021-07-09T09:27:24,707   adding 'ngs_plumbing/xsqconvert.py'
2021-07-09T09:27:24,710   adding 'ngs_plumbing/data/html/readqual.js'
2021-07-09T09:27:24,712   adding 'ngs_plumbing/data/html/templates/fqlibreport.html'
2021-07-09T09:27:24,713   adding 'ngs_plumbing/data/html/templates/xsqlibreport.html'
2021-07-09T09:27:24,714   adding 'ngs_plumbing/data/html/templates/xsqreport.html'
2021-07-09T09:27:24,758   adding 'ngs_plumbing/data/test_run/test_run_2012_01_08_Prof_X/result/lane1/test_run_2012_01_08_Prof_X_01.xsq'
2021-07-09T09:27:24,763   adding 'ngs_plumbing-0.11.1.data/headers/_libdna.h'
2021-07-09T09:27:24,770   adding 'ngs_plumbing-0.11.1.dist-info/COPYING'
2021-07-09T09:27:24,771   adding 'ngs_plumbing-0.11.1.dist-info/METADATA'
2021-07-09T09:27:24,772   adding 'ngs_plumbing-0.11.1.dist-info/WHEEL'
2021-07-09T09:27:24,773   adding 'ngs_plumbing-0.11.1.dist-info/entry_points.txt'
2021-07-09T09:27:24,774   adding 'ngs_plumbing-0.11.1.dist-info/top_level.txt'
2021-07-09T09:27:24,775   adding 'ngs_plumbing-0.11.1.dist-info/RECORD'
2021-07-09T09:27:24,782   removing build/bdist.linux-armv7l/wheel

2021-07-09T09:27:24,798   Warning: The Python package 'h5py' cannot be imported.
2021-07-09T09:27:24,798   Without it, capabilities related to the XSQ format cannot be used.
2021-07-09T09:27:24,890   Building wheel for ngs-plumbing (setup.py): finished with status 'done'
2021-07-09T09:27:24,896   Created wheel for ngs-plumbing: filename=ngs_plumbing-0.11.1-cp39-cp39-linux_armv7l.whl size=360650 sha256=c2ef4ba0608d84b79d7b807c77d090c815dd025262826cd7adb1a87c71646127
2021-07-09T09:27:24,897   Stored in directory: /tmp/pip-ephem-wheel-cache-n3xgmanu/wheels/03/cb/2c/676f9c6d6dfb686aa266b793939716015dd6f81c3628aaca5f
2021-07-09T09:27:24,908 Successfully built ngs-plumbing
2021-07-09T09:27:24,926 Removed build tracker: '/tmp/pip-req-tracker-zdgvfz4s'