2021-07-09T22:03:16,694 Created temporary directory: /tmp/pip-ephem-wheel-cache-sv_nueqs 2021-07-09T22:03:16,697 Created temporary directory: /tmp/pip-req-tracker-_vldpssl 2021-07-09T22:03:16,697 Initialized build tracking at /tmp/pip-req-tracker-_vldpssl 2021-07-09T22:03:16,697 Created build tracker: /tmp/pip-req-tracker-_vldpssl 2021-07-09T22:03:16,697 Entered build tracker: /tmp/pip-req-tracker-_vldpssl 2021-07-09T22:03:16,698 Created temporary directory: /tmp/pip-wheel-i4vsj5jj 2021-07-09T22:03:16,732 1 location(s) to search for versions of scikit-bio: 2021-07-09T22:03:16,732 * https://pypi.org/simple/scikit-bio/ 2021-07-09T22:03:16,732 Fetching project page and analyzing links: https://pypi.org/simple/scikit-bio/ 2021-07-09T22:03:16,733 Getting page https://pypi.org/simple/scikit-bio/ 2021-07-09T22:03:16,734 Found index url https://pypi.org/simple 2021-07-09T22:03:16,832 Found link https://files.pythonhosted.org/packages/e0/4f/9e53704ce04a5e60511449a5e16511c6e20219ed0932e4aeea84fe2189fd/scikit-bio-0.1.0.tar.gz#sha256=e68193db29015e8f861b7d548f432384aa1741575028ce9a138b39ebee66e1ed (from https://pypi.org/simple/scikit-bio/), version: 0.1.0 2021-07-09T22:03:16,833 Found link https://files.pythonhosted.org/packages/91/8b/ea20137d6b84808b3dd6a7ad162dd80dcda40934428824d1ce87b8983b81/scikit-bio-0.1.1.tar.gz#sha256=f758a5136a211cba16c8e6f1ed250f0fadb27fab436c5b7a73902dbb114618df (from https://pypi.org/simple/scikit-bio/), version: 0.1.1 2021-07-09T22:03:16,833 Found link https://files.pythonhosted.org/packages/5f/6e/adc704fa25e9789bfc17882261010320ea9c6148d9d2e28083a5e57a3e9f/scikit-bio-0.1.2.tar.gz#sha256=bdd9cb68dcc5e3ffc00fa5ae21e9e0f92f1f9c2e5a24a671596bb39d0d3e02a7 (from https://pypi.org/simple/scikit-bio/), version: 0.1.2 2021-07-09T22:03:16,833 Found link https://files.pythonhosted.org/packages/da/03/82ad31dc38265135b432b34b2cec0680fee841e0bdc5f90b5a4596beafb3/scikit-bio-0.1.3.tar.gz#sha256=11af62a5d8302da204c004b16bc625cc055e7322633b289353929ccc4b872e74 (from https://pypi.org/simple/scikit-bio/), version: 0.1.3 2021-07-09T22:03:16,834 Found link https://files.pythonhosted.org/packages/b0/70/92b5bb9fc66ef4d54e1bf67626bda04a41ed723b5eb25c018154728e2b26/scikit-bio-0.1.4.tar.gz#sha256=466d50ced117dafe24f734eb6afd2ec0465caebe5d3e775402582ac77eecc2a8 (from https://pypi.org/simple/scikit-bio/), version: 0.1.4 2021-07-09T22:03:16,834 Found link https://files.pythonhosted.org/packages/5f/21/c6879978a222a04f1ac1b0a535a18111c84367ee22a5c93e6c0503f57e01/scikit-bio-0.1.5.tar.gz#sha256=f136639c66f48d1e83b9799e044c49f0febefa4ead4b4fb7c88ec503147bdb03 (from https://pypi.org/simple/scikit-bio/), version: 0.1.5 2021-07-09T22:03:16,834 Found link https://files.pythonhosted.org/packages/99/76/0c0bd2d6d9973a001477535c68772ff35f543324e36afe21c4f7d6721327/scikit-bio-0.2.0.tar.gz#sha256=348687b973be55505ec7e90c40a21921533d3b5021599705922b8c730cb8c872 (from https://pypi.org/simple/scikit-bio/), version: 0.2.0 2021-07-09T22:03:16,834 Found link https://files.pythonhosted.org/packages/7b/74/77cf9b45ea0df4d3b8c3adcbd6f59e0b0603d1a3a2fed1b1ae6365232ac6/scikit-bio-0.2.1.tar.gz#sha256=adc7a3aa93ca7a3f642531e2cf64778ae243087fd6279d5354fdf157943f41cb (from https://pypi.org/simple/scikit-bio/), version: 0.2.1 2021-07-09T22:03:16,835 Found link https://files.pythonhosted.org/packages/bd/0a/6a5906fd53616c0763c5f445b5dc42907720f344318a1f07627986d22f33/scikit-bio-0.2.2.tar.gz#sha256=6c5fb4b6baec0abde209d33e86e95ff4a776f653a6c3916aa95831eafe03472a (from https://pypi.org/simple/scikit-bio/), version: 0.2.2 2021-07-09T22:03:16,835 Found link https://files.pythonhosted.org/packages/8e/70/559566c9dbde9435360058c420a819b4e8ce844f7ebd94daec9836f4be24/scikit-bio-0.2.3.tar.gz#sha256=5feec63b49249360d2bb55d0163d7066f530d163b5474a3319ec197e7e74c683 (from https://pypi.org/simple/scikit-bio/), version: 0.2.3 2021-07-09T22:03:16,835 Found link https://files.pythonhosted.org/packages/d9/cb/c4684ce5c521de96411c2b88255feb45077e0b2df7ebbdf946abe5caaf25/scikit-bio-0.4.0.tar.gz#sha256=90a3f1ffd9401d8a8f8c1ba8fdd1ea63577fb2063209440d27e8e0834322a1e3 (from https://pypi.org/simple/scikit-bio/), version: 0.4.0 2021-07-09T22:03:16,836 Found link https://files.pythonhosted.org/packages/12/02/81edd2941d892cb4d0144be716c341b9a6fd255046c08d1b7bd6c70a0112/scikit-bio-0.4.1.tar.gz#sha256=66e755b6c7d5b861c7eb63aeb46f4d9afe74ee0ac93c1215e0aa57003e573b0b (from https://pypi.org/simple/scikit-bio/), version: 0.4.1 2021-07-09T22:03:16,836 Found link https://files.pythonhosted.org/packages/a8/87/23635a6a9b6a1abdf78ccfc1e71929570be4c4ab4004eab66da9dd4a5c6a/scikit-bio-0.4.2.tar.gz#sha256=fe33a6cd7e6eb3fd8c088491422e499cfb36fab63c38659b587230f3dd63d91a (from https://pypi.org/simple/scikit-bio/), version: 0.4.2 2021-07-09T22:03:16,836 Found link https://files.pythonhosted.org/packages/95/60/f4c269a6dfaf9d027adba6a81497e5d238cf5e604f53206b4ea50ed1145f/scikit-bio-0.5.0.zip#sha256=482194dd827b86fdf340d1576b07d70f8c62158d471d733fa3e73fe316afaa3a (from https://pypi.org/simple/scikit-bio/), version: 0.5.0 2021-07-09T22:03:16,836 Found link https://files.pythonhosted.org/packages/e5/7e/cf03a7e53da18ae6a847894384838e9a36a98b48909a3f347ff6077c7304/scikit-bio-0.5.1.tar.gz#sha256=2d606f0bbd50df3e5814c10260d0e1a35484ecf141e5e5c809d9c9dbf87a3655 (from https://pypi.org/simple/scikit-bio/), version: 0.5.1 2021-07-09T22:03:16,837 Found link https://files.pythonhosted.org/packages/98/ee/08995b89efccf2bf8a0307a1eb7825dceb199e64a3db24cec832c0ca0baf/scikit-bio-0.5.2.tar.gz#sha256=566c83249d2d338104d106c3a8ba36fa1afeabf10ead8e95b84605b71c65b743 (from https://pypi.org/simple/scikit-bio/), version: 0.5.2 2021-07-09T22:03:16,837 Found link https://files.pythonhosted.org/packages/39/07/4e3bcf7a7c254154ac445684d5f646ccc4a6ce6bfc3b0cc8030136215b8a/scikit-bio-0.5.3.tar.gz#sha256=fbeebe39b0026601fa0f641fdad45abc7c2810fa75d43142f3c5473aff07ff59 (from https://pypi.org/simple/scikit-bio/), version: 0.5.3 2021-07-09T22:03:16,837 Found link https://files.pythonhosted.org/packages/ed/e0/3ae790c5c260be0968a6d41108e35f327365e5460c9d8672714fd136817d/scikit-bio-0.5.4.tar.gz#sha256=3243f1995ef24643c09ff4d9391a79528aadd8232e5aa5d66c38d7b2e0c92f24 (from https://pypi.org/simple/scikit-bio/), version: 0.5.4 2021-07-09T22:03:16,838 Found link https://files.pythonhosted.org/packages/2d/ff/3a909ae8c212305846f7e87f86f3902408b55b958eccedf5d4349e76c671/scikit-bio-0.5.5.tar.gz#sha256=9fa813be66e88a994f7b7a68b8ba2216e205c525caa8585386ebdeebed6428df (from https://pypi.org/simple/scikit-bio/), version: 0.5.5 2021-07-09T22:03:16,838 Found link https://files.pythonhosted.org/packages/66/b0/054ef21e024d24422882958072973cd192b492e004a3ce4e9614ef173d9b/scikit-bio-0.5.6.tar.gz#sha256=48b73ec53ce0ff2c2e3e05f3cfcf93527c1525a8d3e9dd4ae317b4219c37f0ea (from https://pypi.org/simple/scikit-bio/), version: 0.5.6 2021-07-09T22:03:16,838 Skipping link: not a file: https://pypi.org/simple/scikit-bio/ 2021-07-09T22:03:16,857 Given no hashes to check 1 links for project 'scikit-bio': discarding no candidates 2021-07-09T22:03:16,875 Collecting scikit-bio==0.1.1 2021-07-09T22:03:16,877 Created temporary directory: /tmp/pip-unpack-fde_ivvg 2021-07-09T22:03:17,893 Downloading scikit-bio-0.1.1.tar.gz (1.8 MB) 2021-07-09T22:03:20,152 Added scikit-bio==0.1.1 from https://files.pythonhosted.org/packages/91/8b/ea20137d6b84808b3dd6a7ad162dd80dcda40934428824d1ce87b8983b81/scikit-bio-0.1.1.tar.gz#sha256=f758a5136a211cba16c8e6f1ed250f0fadb27fab436c5b7a73902dbb114618df to build tracker '/tmp/pip-req-tracker-_vldpssl' 2021-07-09T22:03:20,153 Running setup.py (path:/tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4/setup.py) egg_info for package scikit-bio 2021-07-09T22:03:20,154 Created temporary directory: /tmp/pip-pip-egg-info-rmfmsv8a 2021-07-09T22:03:20,155 Running command python setup.py egg_info 2021-07-09T22:03:21,216 running egg_info 2021-07-09T22:03:21,219 creating /tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info 2021-07-09T22:03:21,220 writing /tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/PKG-INFO 2021-07-09T22:03:21,222 writing dependency_links to /tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/dependency_links.txt 2021-07-09T22:03:21,224 writing requirements to /tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/requires.txt 2021-07-09T22:03:21,225 writing top-level names to /tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/top_level.txt 2021-07-09T22:03:21,226 writing manifest file '/tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/SOURCES.txt' 2021-07-09T22:03:21,595 reading manifest file '/tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/SOURCES.txt' 2021-07-09T22:03:21,597 reading manifest template 'MANIFEST.in' 2021-07-09T22:03:21,694 no previously-included directories found matching 'doc/build' 2021-07-09T22:03:21,697 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2021-07-09T22:03:21,701 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2021-07-09T22:03:21,701 adding license file 'COPYING.txt' 2021-07-09T22:03:21,745 writing manifest file '/tmp/pip-pip-egg-info-rmfmsv8a/scikit_bio.egg-info/SOURCES.txt' 2021-07-09T22:03:21,852 Source in /tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4 has version 0.1.1, which satisfies requirement scikit-bio==0.1.1 from https://files.pythonhosted.org/packages/91/8b/ea20137d6b84808b3dd6a7ad162dd80dcda40934428824d1ce87b8983b81/scikit-bio-0.1.1.tar.gz#sha256=f758a5136a211cba16c8e6f1ed250f0fadb27fab436c5b7a73902dbb114618df 2021-07-09T22:03:21,853 Removed scikit-bio==0.1.1 from https://files.pythonhosted.org/packages/91/8b/ea20137d6b84808b3dd6a7ad162dd80dcda40934428824d1ce87b8983b81/scikit-bio-0.1.1.tar.gz#sha256=f758a5136a211cba16c8e6f1ed250f0fadb27fab436c5b7a73902dbb114618df from build tracker '/tmp/pip-req-tracker-_vldpssl' 2021-07-09T22:03:21,857 Created temporary directory: /tmp/pip-unpack-6i3l2a01 2021-07-09T22:03:21,858 Building wheels for collected packages: scikit-bio 2021-07-09T22:03:21,862 Created temporary directory: /tmp/pip-wheel-td0tb9g6 2021-07-09T22:03:21,863 Building wheel for scikit-bio (setup.py): started 2021-07-09T22:03:21,863 Destination directory: /tmp/pip-wheel-td0tb9g6 2021-07-09T22:03:21,863 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4/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-td0tb9g6 2021-07-09T22:03:22,933 running bdist_wheel 2021-07-09T22:03:23,124 running build 2021-07-09T22:03:23,124 running build_py 2021-07-09T22:03:23,258 creating build 2021-07-09T22:03:23,258 creating build/lib.linux-armv7l-3.9 2021-07-09T22:03:23,259 creating build/lib.linux-armv7l-3.9/skbio 2021-07-09T22:03:23,260 copying skbio/__init__.py -> build/lib.linux-armv7l-3.9/skbio 2021-07-09T22:03:23,262 creating build/lib.linux-armv7l-3.9/skbio/math 2021-07-09T22:03:23,263 copying skbio/math/subsample.py -> build/lib.linux-armv7l-3.9/skbio/math 2021-07-09T22:03:23,265 copying skbio/math/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math 2021-07-09T22:03:23,266 copying skbio/math/gradient.py -> build/lib.linux-armv7l-3.9/skbio/math 2021-07-09T22:03:23,269 creating build/lib.linux-armv7l-3.9/skbio/parse 2021-07-09T22:03:23,270 copying skbio/parse/__init__.py -> build/lib.linux-armv7l-3.9/skbio/parse 2021-07-09T22:03:23,272 copying skbio/parse/record_finder.py -> build/lib.linux-armv7l-3.9/skbio/parse 2021-07-09T22:03:23,274 copying skbio/parse/record.py -> build/lib.linux-armv7l-3.9/skbio/parse 2021-07-09T22:03:23,277 creating build/lib.linux-armv7l-3.9/skbio/format 2021-07-09T22:03:23,278 copying skbio/format/__init__.py -> build/lib.linux-armv7l-3.9/skbio/format 2021-07-09T22:03:23,281 creating build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,282 copying skbio/core/workflow.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,285 copying skbio/core/warning.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,287 copying skbio/core/genetic_code.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,290 copying skbio/core/sequence.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,293 copying skbio/core/distance.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,296 copying skbio/core/__init__.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,298 copying skbio/core/exception.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,300 copying skbio/core/alignment.py -> build/lib.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:23,305 creating build/lib.linux-armv7l-3.9/skbio/draw 2021-07-09T22:03:23,306 copying skbio/draw/__init__.py -> build/lib.linux-armv7l-3.9/skbio/draw 2021-07-09T22:03:23,308 copying skbio/draw/distributions.py -> build/lib.linux-armv7l-3.9/skbio/draw 2021-07-09T22:03:23,311 creating build/lib.linux-armv7l-3.9/skbio/app 2021-07-09T22:03:23,312 copying skbio/app/__init__.py -> build/lib.linux-armv7l-3.9/skbio/app 2021-07-09T22:03:23,314 copying skbio/app/util.py -> build/lib.linux-armv7l-3.9/skbio/app 2021-07-09T22:03:23,317 copying skbio/app/parameters.py -> build/lib.linux-armv7l-3.9/skbio/app 2021-07-09T22:03:23,321 creating build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,322 copying skbio/util/sort.py -> build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,324 copying skbio/util/__init__.py -> build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,326 copying skbio/util/testing.py -> build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,328 copying skbio/util/io.py -> build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,329 copying skbio/util/misc.py -> build/lib.linux-armv7l-3.9/skbio/util 2021-07-09T22:03:23,332 creating build/lib.linux-armv7l-3.9/skbio/math/diversity 2021-07-09T22:03:23,333 copying skbio/math/diversity/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity 2021-07-09T22:03:23,336 creating build/lib.linux-armv7l-3.9/skbio/math/tests 2021-07-09T22:03:23,337 copying skbio/math/tests/test_subsample.py -> build/lib.linux-armv7l-3.9/skbio/math/tests 2021-07-09T22:03:23,339 copying skbio/math/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/tests 2021-07-09T22:03:23,341 copying skbio/math/tests/test_gradient.py -> build/lib.linux-armv7l-3.9/skbio/math/tests 2021-07-09T22:03:23,346 creating build/lib.linux-armv7l-3.9/skbio/math/stats 2021-07-09T22:03:23,347 copying skbio/math/stats/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats 2021-07-09T22:03:23,349 copying skbio/math/stats/spatial.py -> build/lib.linux-armv7l-3.9/skbio/math/stats 2021-07-09T22:03:23,352 creating build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,353 copying skbio/math/diversity/alpha/chao1.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,356 copying skbio/math/diversity/alpha/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,358 copying skbio/math/diversity/alpha/ace.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,360 copying skbio/math/diversity/alpha/lladser.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,363 copying skbio/math/diversity/alpha/base.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,366 copying skbio/math/diversity/alpha/gini.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha 2021-07-09T22:03:23,369 creating build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,370 copying skbio/math/diversity/alpha/tests/test_base.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,373 copying skbio/math/diversity/alpha/tests/test_chao1.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,375 copying skbio/math/diversity/alpha/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,377 copying skbio/math/diversity/alpha/tests/test_gini.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,379 copying skbio/math/diversity/alpha/tests/test_lladser.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,382 copying skbio/math/diversity/alpha/tests/test_ace.py -> build/lib.linux-armv7l-3.9/skbio/math/diversity/alpha/tests 2021-07-09T22:03:23,384 creating build/lib.linux-armv7l-3.9/skbio/math/stats/distance 2021-07-09T22:03:23,385 copying skbio/math/stats/distance/anosim.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance 2021-07-09T22:03:23,387 copying skbio/math/stats/distance/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance 2021-07-09T22:03:23,390 copying skbio/math/stats/distance/permanova.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance 2021-07-09T22:03:23,392 copying skbio/math/stats/distance/base.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance 2021-07-09T22:03:23,395 creating build/lib.linux-armv7l-3.9/skbio/math/stats/tests 2021-07-09T22:03:23,396 copying skbio/math/stats/tests/test_spatial.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/tests 2021-07-09T22:03:23,398 copying skbio/math/stats/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/tests 2021-07-09T22:03:23,401 creating build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,402 copying skbio/math/stats/ordination/redundancy_analysis.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,405 copying skbio/math/stats/ordination/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,407 copying skbio/math/stats/ordination/correspondence_analysis.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,410 copying skbio/math/stats/ordination/utils.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,412 copying skbio/math/stats/ordination/base.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,415 copying skbio/math/stats/ordination/principal_coordinate_analysis.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,417 copying skbio/math/stats/ordination/canonical_correspondence_analysis.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination 2021-07-09T22:03:23,421 creating build/lib.linux-armv7l-3.9/skbio/math/stats/distance/tests 2021-07-09T22:03:23,422 copying skbio/math/stats/distance/tests/test_base.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance/tests 2021-07-09T22:03:23,424 copying skbio/math/stats/distance/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance/tests 2021-07-09T22:03:23,426 copying skbio/math/stats/distance/tests/test_anosim.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance/tests 2021-07-09T22:03:23,429 copying skbio/math/stats/distance/tests/test_permanova.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/distance/tests 2021-07-09T22:03:23,432 creating build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests 2021-07-09T22:03:23,433 copying skbio/math/stats/ordination/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests 2021-07-09T22:03:23,435 copying skbio/math/stats/ordination/tests/test_ordination.py -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests 2021-07-09T22:03:23,439 creating build/lib.linux-armv7l-3.9/skbio/parse/tests 2021-07-09T22:03:23,440 copying skbio/parse/tests/test_record.py -> build/lib.linux-armv7l-3.9/skbio/parse/tests 2021-07-09T22:03:23,443 copying skbio/parse/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/parse/tests 2021-07-09T22:03:23,445 copying skbio/parse/tests/test_record_finder.py -> build/lib.linux-armv7l-3.9/skbio/parse/tests 2021-07-09T22:03:23,449 creating build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,449 copying skbio/parse/sequences/factory.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,452 copying skbio/parse/sequences/fasta.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,454 copying skbio/parse/sequences/__init__.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,457 copying skbio/parse/sequences/fastq.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,460 copying skbio/parse/sequences/clustal.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,462 copying skbio/parse/sequences/iterator.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences 2021-07-09T22:03:23,465 creating build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,466 copying skbio/parse/sequences/tests/test_fasta.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,469 copying skbio/parse/sequences/tests/test_factory.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,471 copying skbio/parse/sequences/tests/test_fastq.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,474 copying skbio/parse/sequences/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,475 copying skbio/parse/sequences/tests/test_iterator.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,478 copying skbio/parse/sequences/tests/test_clustal.py -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests 2021-07-09T22:03:23,481 creating build/lib.linux-armv7l-3.9/skbio/format/tests 2021-07-09T22:03:23,482 copying skbio/format/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/format/tests 2021-07-09T22:03:23,485 creating build/lib.linux-armv7l-3.9/skbio/format/sequences 2021-07-09T22:03:23,485 copying skbio/format/sequences/fasta.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences 2021-07-09T22:03:23,488 copying skbio/format/sequences/__init__.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences 2021-07-09T22:03:23,490 copying skbio/format/sequences/fastq.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences 2021-07-09T22:03:23,493 creating build/lib.linux-armv7l-3.9/skbio/format/sequences/tests 2021-07-09T22:03:23,494 copying skbio/format/sequences/tests/test_fasta.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences/tests 2021-07-09T22:03:23,496 copying skbio/format/sequences/tests/test_fastq.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences/tests 2021-07-09T22:03:23,498 copying skbio/format/sequences/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/format/sequences/tests 2021-07-09T22:03:23,501 creating build/lib.linux-armv7l-3.9/skbio/core/ssw 2021-07-09T22:03:23,502 copying skbio/core/ssw/__init__.py -> build/lib.linux-armv7l-3.9/skbio/core/ssw 2021-07-09T22:03:23,505 creating build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,506 copying skbio/core/tests/test_sequence.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,509 copying skbio/core/tests/test_alignment.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,512 copying skbio/core/tests/test_genetic_code.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,515 copying skbio/core/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,516 copying skbio/core/tests/test_workflow.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,519 copying skbio/core/tests/test_distance.py -> build/lib.linux-armv7l-3.9/skbio/core/tests 2021-07-09T22:03:23,523 creating build/lib.linux-armv7l-3.9/skbio/core/tree 2021-07-09T22:03:23,524 copying skbio/core/tree/trie.py -> build/lib.linux-armv7l-3.9/skbio/core/tree 2021-07-09T22:03:23,526 copying skbio/core/tree/__init__.py -> build/lib.linux-armv7l-3.9/skbio/core/tree 2021-07-09T22:03:23,529 copying skbio/core/tree/tree.py -> build/lib.linux-armv7l-3.9/skbio/core/tree 2021-07-09T22:03:23,534 creating build/lib.linux-armv7l-3.9/skbio/draw/tests 2021-07-09T22:03:23,535 copying skbio/draw/tests/test_distributions.py -> build/lib.linux-armv7l-3.9/skbio/draw/tests 2021-07-09T22:03:23,538 copying skbio/draw/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/draw/tests 2021-07-09T22:03:23,541 creating build/lib.linux-armv7l-3.9/skbio/app/tests 2021-07-09T22:03:23,542 copying skbio/app/tests/test_parameters.py -> build/lib.linux-armv7l-3.9/skbio/app/tests 2021-07-09T22:03:23,545 copying skbio/app/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/app/tests 2021-07-09T22:03:23,547 copying skbio/app/tests/test_util.py -> build/lib.linux-armv7l-3.9/skbio/app/tests 2021-07-09T22:03:23,552 creating build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,553 copying skbio/util/tests/test_sort.py -> build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,555 copying skbio/util/tests/test_io.py -> build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,557 copying skbio/util/tests/__init__.py -> build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,559 copying skbio/util/tests/test_testing.py -> build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,561 copying skbio/util/tests/test_misc.py -> build/lib.linux-armv7l-3.9/skbio/util/tests 2021-07-09T22:03:23,576 creating build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,577 copying skbio/math/tests/data/cr_data_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,580 copying skbio/math/tests/data/cr_no_data_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,582 copying skbio/math/tests/data/vr_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,584 copying skbio/math/tests/data/vr_real_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,587 copying skbio/math/tests/data/cr_data_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,589 copying skbio/math/tests/data/gr_wo_msg_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,591 copying skbio/math/tests/data/gr_wo_msg_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,594 copying skbio/math/tests/data/gr_w_msg_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,596 copying skbio/math/tests/data/cr_no_data_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,598 copying skbio/math/tests/data/vr_real_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,600 copying skbio/math/tests/data/vr_raw -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,602 copying skbio/math/tests/data/gr_w_msg_out -> build/lib.linux-armv7l-3.9/skbio/math/tests/data 2021-07-09T22:03:23,605 creating build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,606 copying skbio/math/stats/ordination/tests/data/example2_species_scaling1_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,609 copying skbio/math/stats/ordination/tests/data/v_error6 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,611 copying skbio/math/stats/ordination/tests/data/example2_species_scaling2_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,613 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_RDA_site_constraints -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,616 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_CCA_site -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,618 copying skbio/math/stats/ordination/tests/data/example3_species_scaling2_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,621 copying skbio/math/stats/ordination/tests/data/exp_PCoAzeros_site -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,624 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_CCA_site_constraints -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,626 copying skbio/math/stats/ordination/tests/data/example3_species_scaling1_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,629 copying skbio/math/stats/ordination/tests/data/example2_site_scaling1_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,632 copying skbio/math/stats/ordination/tests/data/example2_X -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,634 copying skbio/math/stats/ordination/tests/data/PCoA_sample_data_2 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,637 copying skbio/math/stats/ordination/tests/data/PCoA_sample_data -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,639 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_RDA_species -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,642 copying skbio/math/stats/ordination/tests/data/example3_site_scaling1_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,645 copying skbio/math/stats/ordination/tests/data/L&L_CA_data -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,647 copying skbio/math/stats/ordination/tests/data/v_error8 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,650 copying skbio/math/stats/ordination/tests/data/v_error5 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,652 copying skbio/math/stats/ordination/tests/data/example2_site_scaling2_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,655 copying skbio/math/stats/ordination/tests/data/error2 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,658 copying skbio/math/stats/ordination/tests/data/error5 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,661 copying skbio/math/stats/ordination/tests/data/v_error7 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,663 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_RDA_site -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,666 copying skbio/math/stats/ordination/tests/data/error4 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,669 copying skbio/math/stats/ordination/tests/data/v_error4 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,672 copying skbio/math/stats/ordination/tests/data/example3_Y -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,674 copying skbio/math/stats/ordination/tests/data/example2_Y -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,677 copying skbio/math/stats/ordination/tests/data/exp_PCoAEigenResults_site -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,679 copying skbio/math/stats/ordination/tests/data/L&L_CA_data_scores -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,682 copying skbio/math/stats/ordination/tests/data/example3_X -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,684 copying skbio/math/stats/ordination/tests/data/v_error9 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,687 copying skbio/math/stats/ordination/tests/data/example3_scores -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,690 copying skbio/math/stats/ordination/tests/data/example3_site_scaling2_from_vegan -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,693 copying skbio/math/stats/ordination/tests/data/PCoA_sample_data_3_scores -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,695 copying skbio/math/stats/ordination/tests/data/v_error3 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,698 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_CCA_species -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,700 copying skbio/math/stats/ordination/tests/data/error6 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,703 copying skbio/math/stats/ordination/tests/data/v_error2 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,705 copying skbio/math/stats/ordination/tests/data/PCoA_sample_data_3 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,708 copying skbio/math/stats/ordination/tests/data/exp_OrdRes_PCoA_site -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,711 copying skbio/math/stats/ordination/tests/data/v_error10 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,714 copying skbio/math/stats/ordination/tests/data/example2_scores -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,716 copying skbio/math/stats/ordination/tests/data/error1 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,719 copying skbio/math/stats/ordination/tests/data/error3 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,722 copying skbio/math/stats/ordination/tests/data/v_error1 -> build/lib.linux-armv7l-3.9/skbio/math/stats/ordination/tests/data 2021-07-09T22:03:23,725 creating build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,725 copying skbio/parse/sequences/tests/data/fq1.fq -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,728 copying skbio/parse/sequences/tests/data/fna1.fna.gz -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,731 copying skbio/parse/sequences/tests/data/fna1.qual -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,733 copying skbio/parse/sequences/tests/data/fna1.fasta -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,736 copying skbio/parse/sequences/tests/data/noextensionfasta -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,738 copying skbio/parse/sequences/tests/data/fq1.fastq.gz -> build/lib.linux-armv7l-3.9/skbio/parse/sequences/tests/data 2021-07-09T22:03:23,740 creating build/lib.linux-armv7l-3.9/skbio/core/tests/data 2021-07-09T22:03:23,741 copying skbio/core/tests/data/bad_dm.txt -> build/lib.linux-armv7l-3.9/skbio/core/tests/data 2021-07-09T22:03:23,744 copying skbio/core/tests/data/dm_3x3.txt -> build/lib.linux-armv7l-3.9/skbio/core/tests/data 2021-07-09T22:03:23,746 copying skbio/core/tests/data/dm_2x2_asym.txt -> build/lib.linux-armv7l-3.9/skbio/core/tests/data 2021-07-09T22:03:23,768 running build_ext 2021-07-09T22:03:23,774 building 'skbio.math._subsample' extension 2021-07-09T22:03:23,774 creating build/temp.linux-armv7l-3.9 2021-07-09T22:03:23,775 creating build/temp.linux-armv7l-3.9/skbio 2021-07-09T22:03:23,775 creating build/temp.linux-armv7l-3.9/skbio/math 2021-07-09T22:03:23,776 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c skbio/math/_subsample.c -o build/temp.linux-armv7l-3.9/skbio/math/_subsample.o 2021-07-09T22:03:24,161 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-09T22:03:24,161 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-09T22:03:24,161 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-09T22:03:24,161 from skbio/math/_subsample.c:346: 2021-07-09T22:03:24,161 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-09T22:03:24,162 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-09T22:03:24,162 | ^~~~~~~ 2021-07-09T22:03:24,245 skbio/math/_subsample.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-09T22:03:24,248 skbio/math/_subsample.c:4145:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,248 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,248 | ^ 2021-07-09T22:03:24,249 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,249 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,249 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,249 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,249 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,249 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,252 skbio/math/_subsample.c:4145:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,252 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,252 | ^ 2021-07-09T22:03:24,252 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,253 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,253 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,253 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T22:03:24,253 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T22:03:24,253 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,255 skbio/math/_subsample.c:4145:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,256 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,256 | ^ 2021-07-09T22:03:24,256 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,256 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,256 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,256 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,256 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,257 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,259 skbio/math/_subsample.c:4145:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,259 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,259 | ^ 2021-07-09T22:03:24,260 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,260 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,260 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,260 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,260 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,260 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,263 skbio/math/_subsample.c:4145:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,263 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,263 | ^ 2021-07-09T22:03:24,263 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,263 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,263 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,263 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T22:03:24,264 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T22:03:24,264 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,266 skbio/math/_subsample.c:4145:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,266 4145 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,266 | ^ 2021-07-09T22:03:24,267 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,267 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,267 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,267 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,267 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,267 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,270 skbio/math/_subsample.c:4161:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,271 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,271 | ^ 2021-07-09T22:03:24,271 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,271 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,271 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,271 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,271 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,272 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,274 skbio/math/_subsample.c:4161:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,274 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,274 | ^ 2021-07-09T22:03:24,274 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,275 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,275 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,275 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T22:03:24,275 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T22:03:24,275 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,278 skbio/math/_subsample.c:4161:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,278 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,278 | ^ 2021-07-09T22:03:24,278 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,278 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,278 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,278 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,279 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,279 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,281 skbio/math/_subsample.c:4161:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,281 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,281 | ^ 2021-07-09T22:03:24,282 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,282 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,282 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,282 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,282 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,285 skbio/math/_subsample.c:4161:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,285 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,285 | ^ 2021-07-09T22:03:24,285 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,285 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,285 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,285 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T22:03:24,286 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T22:03:24,286 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,288 skbio/math/_subsample.c:4161:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T22:03:24,288 4161 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T22:03:24,288 | ^ 2021-07-09T22:03:24,289 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T22:03:24,289 from /usr/include/python3.9/Python.h:97, 2021-07-09T22:03:24,289 from skbio/math/_subsample.c:16: 2021-07-09T22:03:24,289 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T22:03:24,289 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T22:03:24,289 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T22:03:24,405 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:21, 2021-07-09T22:03:24,405 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-09T22:03:24,405 from skbio/math/_subsample.c:346: 2021-07-09T22:03:24,405 At top level: 2021-07-09T22:03:24,406 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/__multiarray_api.h:1464:1: warning: ‘_import_array’ defined but not used [-Wunused-function] 2021-07-09T22:03:24,407 1464 | _import_array(void) 2021-07-09T22:03:24,407 | ^~~~~~~~~~~~~ 2021-07-09T22:03:26,290 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/skbio/math/_subsample.o -o build/lib.linux-armv7l-3.9/skbio/math/_subsample.cpython-39-arm-linux-gnueabihf.so 2021-07-09T22:03:26,410 building 'skbio.core.ssw.ssw_wrapper' extension 2021-07-09T22:03:26,411 creating build/temp.linux-armv7l-3.9/skbio/core 2021-07-09T22:03:26,411 creating build/temp.linux-armv7l-3.9/skbio/core/ssw 2021-07-09T22:03:26,412 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c skbio/core/ssw/ssw.c -o build/temp.linux-armv7l-3.9/skbio/core/ssw/ssw.o 2021-07-09T22:03:26,469 skbio/core/ssw/ssw.c:38:10: fatal error: emmintrin.h: No such file or directory 2021-07-09T22:03:26,469 38 | #include 2021-07-09T22:03:26,470 | ^~~~~~~~~~~~~ 2021-07-09T22:03:26,470 compilation terminated. 2021-07-09T22:03:26,474 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-09T22:03:26,594 Building wheel for scikit-bio (setup.py): finished with status 'error' 2021-07-09T22:03:26,594 ERROR: Failed building wheel for scikit-bio 2021-07-09T22:03:26,595 Running setup.py clean for scikit-bio 2021-07-09T22:03:26,595 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-i4vsj5jj/scikit-bio_0f062dfe81b74f6b90d6c192da76b8e4/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'"'"'))' clean --all 2021-07-09T22:03:27,651 running clean 2021-07-09T22:03:27,653 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-09T22:03:27,658 removing 'build/lib.linux-armv7l-3.9' (and everything under it) 2021-07-09T22:03:27,750 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-09T22:03:27,751 'build/scripts-3.9' does not exist -- can't clean it 2021-07-09T22:03:27,751 removing 'build' 2021-07-09T22:03:27,840 Failed to build scikit-bio 2021-07-09T22:03:27,840 ERROR: Failed to build one or more wheels 2021-07-09T22:03:27,841 Exception information: 2021-07-09T22:03:27,841 Traceback (most recent call last): 2021-07-09T22:03:27,841 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-09T22:03:27,841 status = self.run(options, args) 2021-07-09T22:03:27,841 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-09T22:03:27,841 return func(self, options, args) 2021-07-09T22:03:27,841 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-09T22:03:27,841 raise CommandError( 2021-07-09T22:03:27,841 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-09T22:03:27,844 Removed build tracker: '/tmp/pip-req-tracker-_vldpssl'