2022-05-12T03:49:22,445 Created temporary directory: /tmp/pip-ephem-wheel-cache-rpedmqvw 2022-05-12T03:49:22,450 Created temporary directory: /tmp/pip-req-tracker-lm28uzc0 2022-05-12T03:49:22,451 Initialized build tracking at /tmp/pip-req-tracker-lm28uzc0 2022-05-12T03:49:22,452 Created build tracker: /tmp/pip-req-tracker-lm28uzc0 2022-05-12T03:49:22,452 Entered build tracker: /tmp/pip-req-tracker-lm28uzc0 2022-05-12T03:49:22,453 Created temporary directory: /tmp/pip-wheel-ejmqocet 2022-05-12T03:49:22,520 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-05-12T03:49:22,534 2 location(s) to search for versions of gtdbtk: 2022-05-12T03:49:22,534 * https://pypi.org/simple/gtdbtk/ 2022-05-12T03:49:22,534 * https://www.piwheels.org/simple/gtdbtk/ 2022-05-12T03:49:22,536 Fetching project page and analyzing links: https://pypi.org/simple/gtdbtk/ 2022-05-12T03:49:22,537 Getting page https://pypi.org/simple/gtdbtk/ 2022-05-12T03:49:22,540 Found index url 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https://files.pythonhosted.org/packages/a0/eb/859b20c3adeb96ca72f242bc31cd30319c2bd6e4d130c13aba0b76d2fe34/gtdbtk-1.7.0.tar.gz#sha256=36b65074845e7edef4d7aeead286c770fb9a03ddbff63946533fa2e1934e8f26 (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.7.0 2022-05-12T03:49:22,721 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/c5/ac/fd59f08a268eab7c094ee1e9b14004c591c3477b11628c9e08aaad2bbaa6/gtdbtk-2.0.0-py3-none-any.whl#sha256=e4f864c48fe89a22abdfc2db621d09dbab56e686dfaa30a65382319622fc1934 (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,722 Found link https://files.pythonhosted.org/packages/7e/43/9b3c861f07fa420e9595fdf5f2261c0d1519a01f9e994b6445fb2e263d98/gtdbtk-2.0.0.tar.gz#sha256=53496443d6fcca675c3f3078d76cef25c2040e894fd403b74397980578ddb815 (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.0.0 2022-05-12T03:49:22,723 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/b8/78/853a62dd98c99a31191df3f6d130834cad0ae00c5159d32cb9667af48943/gtdbtk-2.1.0-py3-none-any.whl#sha256=6fcf963519fb2fe7c3287f58d017fad7a4a9f1641d026442d52c9daf024213ee (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,724 Found link https://files.pythonhosted.org/packages/5b/b7/6bc0bb66462d3b669ee1e5d39234efec662eed17ea2afa11df918dbe2552/gtdbtk-2.1.0.tar.gz#sha256=980885141f13502afdf05e720871427e3de4fe27f4f3f97e74af6fed87eb50a7 (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.1.0 2022-05-12T03:49:22,725 Fetching project page and analyzing links: https://www.piwheels.org/simple/gtdbtk/ 2022-05-12T03:49:22,726 Getting page https://www.piwheels.org/simple/gtdbtk/ 2022-05-12T03:49:22,728 Found index url https://www.piwheels.org/simple 2022-05-12T03:49:22,952 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-2.0.0-py3-none-any.whl#sha256=3f62231589bd3b33d50492de0f098ded08e2d24736ebe3517140beffd23c6095 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,953 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.7.0-py3-none-any.whl#sha256=1cec9664f2cdcf1d97bc8eb584bfc3973bd54674846aa4af6320e2db8866e97d (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,954 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.6.0-py3-none-any.whl#sha256=b5a207597ad94381e816d097e1e1925df4e5570643272ed7b76db5dd3001ebde (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,954 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.5.1-py3-none-any.whl#sha256=ed5d3a99e31ba670781bfdc0b376d6269e1d683d7385d3508bdfd574f1a16b5c (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,955 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.5.0-py3-none-any.whl#sha256=4d5f2ecca5c2f1e7b279ff1bba63edd378e64f1195c8da6f8d2fe1c37bb1a02e (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,955 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.4.1-py3-none-any.whl#sha256=5bf60e34c9532ee96689ca34330f5f4ad6d344bac28ebdd1925ee4d0326e4345 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,956 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.4.0-py3-none-any.whl#sha256=ead9eb6d9df9b31e5b067e8f9993ef52975d454ab8685e1df66d9e201ac5c596 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,956 Skipping link: No binaries permitted for gtdbtk: 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(from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,959 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.0.2-py3-none-any.whl#sha256=bcb2aff77a5de8e7ee657b155c07cef65e54ed4c69e75f792746eeb1a116d7d8 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,959 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.0.1-py3-none-any.whl#sha256=4f17b5e884096c03286b38720b63f262572ca3f8c6fcce36fb3a543aa1c45840 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,960 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-1.0.0-py3-none-any.whl#sha256=3206ab5f69c97d1c89cea39475c4e02c9af7414d02575fde530a36c099cb8f23 (from https://www.piwheels.org/simple/gtdbtk/) (requires-python:>=3.6) 2022-05-12T03:49:22,960 Skipping link: No binaries permitted for gtdbtk: 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Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.2.2-py3-none-any.whl#sha256=0f2f51b4c73c58071c0e693201460c6b3d67d4a956368ed7b2df1555a9a2d5e3 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,963 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.2.1-py3-none-any.whl#sha256=c3dda689b923a8788e648223335928c657b054fecd8eeb78e5e48e7be5cd3df4 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,963 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.1.6-py3-none-any.whl#sha256=dd5a03ce2b22ffe66b776fb405e95f4f7a70fed4ba1a7087db1de973f4e22fef (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,964 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.1.3-py3-none-any.whl#sha256=02c694c6199f0c5db1056131515f4272e703ea6beceffb16678ad3eb24358d8d (from 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Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.4b3-py3-none-any.whl#sha256=2d5b93346985d7186695de6a4dc010b9abf4e108ec438f449b74705eb7191fc1 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,968 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.4b2-py3-none-any.whl#sha256=177fdc2bb5e28ee60a931441956acff6b853871395a611bc1404c7f78a2a3f85 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,969 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.4b1-py3-none-any.whl#sha256=cffebc36f92b7947522a0e8d0fe11d9a7051a036352eb036ca90db5a14e591e1 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,970 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.4b0-py3-none-any.whl#sha256=1a96ec79753b589c69bb9c881bdedfc0aef683779cb926da47f22e85e77bb203 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,970 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.3-py3-none-any.whl#sha256=6670c151da83c393482600e07c463c74de77ab5776f88a4978d1b7defa71f852 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,971 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.2-py3-none-any.whl#sha256=dac945e10b775b7c8ab5f5b16635bd016d17aacb8a4ad77708ce67dc1b3f3ed6 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,971 Skipping link: No binaries permitted for gtdbtk: https://www.piwheels.org/simple/gtdbtk/gtdbtk-0.0.1-py3-none-any.whl#sha256=05d5353a17e20d9bc2a38528bb3b2e2e28d3188d4ebf69192793cd3e0d5199e6 (from https://www.piwheels.org/simple/gtdbtk/) 2022-05-12T03:49:22,972 Skipping link: not a file: https://www.piwheels.org/simple/gtdbtk/ 2022-05-12T03:49:22,972 Skipping link: not a file: https://pypi.org/simple/gtdbtk/ 2022-05-12T03:49:23,018 Given no hashes to check 1 links for project 'gtdbtk': discarding no candidates 2022-05-12T03:49:23,049 Collecting gtdbtk==2.1.0 2022-05-12T03:49:23,053 Created temporary directory: /tmp/pip-unpack-yn0hu8ns 2022-05-12T03:49:23,356 Downloading gtdbtk-2.1.0.tar.gz (1.7 MB) 2022-05-12T03:49:24,807 Added gtdbtk==2.1.0 from https://files.pythonhosted.org/packages/5b/b7/6bc0bb66462d3b669ee1e5d39234efec662eed17ea2afa11df918dbe2552/gtdbtk-2.1.0.tar.gz#sha256=980885141f13502afdf05e720871427e3de4fe27f4f3f97e74af6fed87eb50a7 to build tracker '/tmp/pip-req-tracker-lm28uzc0' 2022-05-12T03:49:24,809 Running setup.py (path:/tmp/pip-wheel-ejmqocet/gtdbtk_e9a18693c064437aa9dfc459f6d89353/setup.py) egg_info for package gtdbtk 2022-05-12T03:49:24,810 Created temporary directory: /tmp/pip-pip-egg-info-2fwe4__u 2022-05-12T03:49:24,811 Preparing metadata (setup.py): started 2022-05-12T03:49:24,813 Running command python setup.py egg_info 2022-05-12T03:49:26,882 running egg_info 2022-05-12T03:49:26,886 creating /tmp/pip-pip-egg-info-2fwe4__u/gtdbtk.egg-info 2022-05-12T03:49:26,901 writing manifest file '/tmp/pip-pip-egg-info-2fwe4__u/gtdbtk.egg-info/SOURCES.txt' 2022-05-12T03:49:26,967 writing manifest file '/tmp/pip-pip-egg-info-2fwe4__u/gtdbtk.egg-info/SOURCES.txt' 2022-05-12T03:49:27,095 Preparing metadata (setup.py): finished with status 'done' 2022-05-12T03:49:27,107 Source in /tmp/pip-wheel-ejmqocet/gtdbtk_e9a18693c064437aa9dfc459f6d89353 has version 2.1.0, which satisfies requirement gtdbtk==2.1.0 from https://files.pythonhosted.org/packages/5b/b7/6bc0bb66462d3b669ee1e5d39234efec662eed17ea2afa11df918dbe2552/gtdbtk-2.1.0.tar.gz#sha256=980885141f13502afdf05e720871427e3de4fe27f4f3f97e74af6fed87eb50a7 2022-05-12T03:49:27,109 Removed gtdbtk==2.1.0 from https://files.pythonhosted.org/packages/5b/b7/6bc0bb66462d3b669ee1e5d39234efec662eed17ea2afa11df918dbe2552/gtdbtk-2.1.0.tar.gz#sha256=980885141f13502afdf05e720871427e3de4fe27f4f3f97e74af6fed87eb50a7 from build tracker '/tmp/pip-req-tracker-lm28uzc0' 2022-05-12T03:49:27,123 Created temporary directory: /tmp/pip-unpack-buyonbdj 2022-05-12T03:49:27,124 Building wheels for collected packages: gtdbtk 2022-05-12T03:49:27,134 Created temporary directory: /tmp/pip-wheel-w8f6hhk_ 2022-05-12T03:49:27,135 Building wheel for gtdbtk (setup.py): started 2022-05-12T03:49:27,137 Destination directory: /tmp/pip-wheel-w8f6hhk_ 2022-05-12T03:49:27,137 Running command python setup.py bdist_wheel 2022-05-12T03:49:29,184 running bdist_wheel 2022-05-12T03:49:29,193 running build 2022-05-12T03:49:29,195 running build_py 2022-05-12T03:49:29,204 creating build 2022-05-12T03:49:29,205 creating build/lib 2022-05-12T03:49:29,206 creating build/lib/gtdbtk 2022-05-12T03:49:29,208 copying gtdbtk/infer_ranks.py -> build/lib/gtdbtk 2022-05-12T03:49:29,213 copying gtdbtk/__init__.py -> build/lib/gtdbtk 2022-05-12T03:49:29,216 copying gtdbtk/split.py -> build/lib/gtdbtk 2022-05-12T03:49:29,221 copying gtdbtk/cli.py -> build/lib/gtdbtk 2022-05-12T03:49:29,225 copying gtdbtk/tools.py -> build/lib/gtdbtk 2022-05-12T03:49:29,230 copying gtdbtk/markers.py -> build/lib/gtdbtk 2022-05-12T03:49:29,235 copying gtdbtk/decorate.py -> build/lib/gtdbtk 2022-05-12T03:49:29,240 copying gtdbtk/classify.py -> build/lib/gtdbtk 2022-05-12T03:49:29,248 copying gtdbtk/relative_distance.py -> build/lib/gtdbtk 2022-05-12T03:49:29,253 copying gtdbtk/reroot_tree.py -> build/lib/gtdbtk 2022-05-12T03:49:29,257 copying gtdbtk/__main__.py -> build/lib/gtdbtk 2022-05-12T03:49:29,261 copying gtdbtk/misc.py -> build/lib/gtdbtk 2022-05-12T03:49:29,265 copying gtdbtk/main.py -> build/lib/gtdbtk 2022-05-12T03:49:29,271 copying gtdbtk/exceptions.py -> build/lib/gtdbtk 2022-05-12T03:49:29,274 copying gtdbtk/trim_msa.py -> build/lib/gtdbtk 2022-05-12T03:49:29,279 copying gtdbtk/ani_rep.py -> build/lib/gtdbtk 2022-05-12T03:49:29,284 creating build/lib/tests 2022-05-12T03:49:29,285 copying tests/__init__.py -> build/lib/tests 2022-05-12T03:49:29,289 copying tests/test_classify.py -> build/lib/tests 2022-05-12T03:49:29,293 copying tests/test_cli.py -> build/lib/tests 2022-05-12T03:49:29,297 copying tests/common.py -> build/lib/tests 2022-05-12T03:49:29,302 creating build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,304 copying gtdbtk/biolib_lite/custom_help_formatter.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,308 copying gtdbtk/biolib_lite/__init__.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,311 copying gtdbtk/biolib_lite/prodigal_biolib.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,315 copying gtdbtk/biolib_lite/taxonomy.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,320 copying gtdbtk/biolib_lite/parallel.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,324 copying gtdbtk/biolib_lite/seq_io.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,327 copying gtdbtk/biolib_lite/logger.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,331 copying gtdbtk/biolib_lite/execute.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,335 copying gtdbtk/biolib_lite/common.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,339 copying gtdbtk/biolib_lite/newick.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,342 copying gtdbtk/biolib_lite/exceptions.py -> build/lib/gtdbtk/biolib_lite 2022-05-12T03:49:29,348 creating build/lib/gtdbtk/external 2022-05-12T03:49:29,350 copying gtdbtk/external/pfam_search.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,355 copying gtdbtk/external/tigrfam_search.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,359 copying gtdbtk/external/__init__.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,362 copying gtdbtk/external/mash.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,366 copying gtdbtk/external/fastani.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,370 copying gtdbtk/external/fasttree.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,374 copying gtdbtk/external/pplacer.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,378 copying gtdbtk/external/prodigal.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,382 copying gtdbtk/external/hmm_aligner.py -> build/lib/gtdbtk/external 2022-05-12T03:49:29,387 creating build/lib/gtdbtk/config 2022-05-12T03:49:29,388 copying gtdbtk/config/__init__.py -> build/lib/gtdbtk/config 2022-05-12T03:49:29,391 copying gtdbtk/config/config.py -> build/lib/gtdbtk/config 2022-05-12T03:49:29,395 copying gtdbtk/config/output.py -> build/lib/gtdbtk/config 2022-05-12T03:49:29,400 creating build/lib/gtdbtk/pipeline 2022-05-12T03:49:29,401 copying gtdbtk/pipeline/align.py -> build/lib/gtdbtk/pipeline 2022-05-12T03:49:29,405 copying gtdbtk/pipeline/__init__.py -> build/lib/gtdbtk/pipeline 2022-05-12T03:49:29,408 copying gtdbtk/pipeline/export_msa.py -> build/lib/gtdbtk/pipeline 2022-05-12T03:49:29,413 creating build/lib/gtdbtk/io 2022-05-12T03:49:29,415 copying gtdbtk/io/__init__.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,418 copying gtdbtk/io/red_dict.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,421 copying gtdbtk/io/tree_mapping.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,425 copying gtdbtk/io/marker_info.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,428 copying gtdbtk/io/classify_summary.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,432 copying gtdbtk/io/batchfile.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,436 copying gtdbtk/io/missing_genomes.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,439 copying gtdbtk/io/pplacer_classification.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,443 copying gtdbtk/io/gtdb_radii.py -> build/lib/gtdbtk/io 2022-05-12T03:49:29,448 creating build/lib/gtdbtk/model 2022-05-12T03:49:29,449 copying gtdbtk/model/__init__.py -> build/lib/gtdbtk/model 2022-05-12T03:49:29,452 copying gtdbtk/model/enum.py -> build/lib/gtdbtk/model 2022-05-12T03:49:29,456 creating build/lib/gtdbtk/external/pypfam 2022-05-12T03:49:29,458 copying gtdbtk/external/pypfam/__init__.py -> build/lib/gtdbtk/external/pypfam 2022-05-12T03:49:29,462 creating build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,464 copying gtdbtk/external/pypfam/HMM/HMMResults.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,468 copying gtdbtk/external/pypfam/HMM/__init__.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,470 copying gtdbtk/external/pypfam/HMM/HMMMatch.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,474 copying gtdbtk/external/pypfam/HMM/HMMResultsIO.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,479 copying gtdbtk/external/pypfam/HMM/HMMUnit.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,482 copying gtdbtk/external/pypfam/HMM/HMMSequence.py -> build/lib/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:29,487 creating build/lib/gtdbtk/external/pypfam/Scan 2022-05-12T03:49:29,488 copying gtdbtk/external/pypfam/Scan/__init__.py -> build/lib/gtdbtk/external/pypfam/Scan 2022-05-12T03:49:29,491 copying gtdbtk/external/pypfam/Scan/PfamScan.py -> build/lib/gtdbtk/external/pypfam/Scan 2022-05-12T03:49:29,498 creating build/lib/gtdbtk/io/prodigal 2022-05-12T03:49:29,499 copying gtdbtk/io/prodigal/__init__.py -> build/lib/gtdbtk/io/prodigal 2022-05-12T03:49:29,502 copying gtdbtk/io/prodigal/tln_table.py -> build/lib/gtdbtk/io/prodigal 2022-05-12T03:49:29,505 copying gtdbtk/io/prodigal/tln_table_summary.py -> build/lib/gtdbtk/io/prodigal 2022-05-12T03:49:29,510 creating build/lib/gtdbtk/io/marker 2022-05-12T03:49:29,511 copying gtdbtk/io/marker/__init__.py -> build/lib/gtdbtk/io/marker 2022-05-12T03:49:29,514 copying gtdbtk/io/marker/tophit.py -> build/lib/gtdbtk/io/marker 2022-05-12T03:49:29,519 copying gtdbtk/io/marker/copy_number.py -> build/lib/gtdbtk/io/marker 2022-05-12T03:49:29,524 creating build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,526 copying tests/test_gtdbtk/__init__.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,529 copying tests/test_gtdbtk/test_tools.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,533 copying tests/test_gtdbtk/test__main__.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,538 copying tests/test_gtdbtk/test_markers.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,541 copying tests/test_gtdbtk/test_main.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,546 copying tests/test_gtdbtk/test_trim_msa.py -> build/lib/tests/test_gtdbtk 2022-05-12T03:49:29,551 creating build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,552 copying tests/test_gtdbtk/test_biolib_lite/__init__.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,555 copying tests/test_gtdbtk/test_biolib_lite/test_seq_io.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,559 copying tests/test_gtdbtk/test_biolib_lite/test_newick.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,562 copying tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,565 copying tests/test_gtdbtk/test_biolib_lite/test_common.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:29,570 creating build/lib/tests/test_gtdbtk/test_external 2022-05-12T03:49:29,571 copying tests/test_gtdbtk/test_external/__init__.py -> build/lib/tests/test_gtdbtk/test_external 2022-05-12T03:49:29,574 copying tests/test_gtdbtk/test_external/test_fastani.py -> build/lib/tests/test_gtdbtk/test_external 2022-05-12T03:49:29,579 copying tests/test_gtdbtk/test_external/test_fasttree.py -> build/lib/tests/test_gtdbtk/test_external 2022-05-12T03:49:29,583 creating build/lib/tests/test_gtdbtk/test_io 2022-05-12T03:49:29,584 copying tests/test_gtdbtk/test_io/__init__.py -> build/lib/tests/test_gtdbtk/test_io 2022-05-12T03:49:29,589 creating build/lib/tests/test_gtdbtk/test_io/test_marker 2022-05-12T03:49:29,590 copying tests/test_gtdbtk/test_io/test_marker/__init__.py -> build/lib/tests/test_gtdbtk/test_io/test_marker 2022-05-12T03:49:29,593 copying tests/test_gtdbtk/test_io/test_marker/test_copy_number.py -> build/lib/tests/test_gtdbtk/test_io/test_marker 2022-05-12T03:49:29,598 copying tests/test_gtdbtk/test_io/test_marker/test_tophit.py -> build/lib/tests/test_gtdbtk/test_io/test_marker 2022-05-12T03:49:29,603 creating build/lib/tests/test_gtdbtk/test_io/test_prodigal 2022-05-12T03:49:29,605 copying tests/test_gtdbtk/test_io/test_prodigal/__init__.py -> build/lib/tests/test_gtdbtk/test_io/test_prodigal 2022-05-12T03:49:29,608 copying tests/test_gtdbtk/test_io/test_prodigal/test_tln_table_summary.py -> build/lib/tests/test_gtdbtk/test_io/test_prodigal 2022-05-12T03:49:29,615 creating build/lib/gtdbtk/tests 2022-05-12T03:49:29,615 creating build/lib/gtdbtk/tests/data 2022-05-12T03:49:29,616 creating build/lib/gtdbtk/tests/data/genomes 2022-05-12T03:49:29,618 copying gtdbtk/tests/data/genomes/genome_1.fna -> build/lib/gtdbtk/tests/data/genomes 2022-05-12T03:49:29,770 copying gtdbtk/tests/data/genomes/genome_2.fna -> build/lib/gtdbtk/tests/data/genomes 2022-05-12T03:49:29,839 copying gtdbtk/tests/data/genomes/genome_3.fna -> build/lib/gtdbtk/tests/data/genomes 2022-05-12T03:49:29,938 /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. 2022-05-12T03:49:29,938 setuptools.SetuptoolsDeprecationWarning, 2022-05-12T03:49:29,944 running install 2022-05-12T03:49:30,008 running install_lib 2022-05-12T03:49:30,016 creating build/bdist.linux-armv7l 2022-05-12T03:49:30,018 creating build/bdist.linux-armv7l/wheel 2022-05-12T03:49:30,022 creating build/bdist.linux-armv7l/wheel/gtdbtk 2022-05-12T03:49:30,026 creating build/bdist.linux-armv7l/wheel/gtdbtk/biolib_lite 2022-05-12T03:49:30,083 creating build/bdist.linux-armv7l/wheel/gtdbtk/external 2022-05-12T03:49:30,121 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam 2022-05-12T03:49:30,126 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam/HMM 2022-05-12T03:49:30,150 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam/Scan 2022-05-12T03:49:30,178 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests 2022-05-12T03:49:30,181 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests/data 2022-05-12T03:49:30,183 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests/data/genomes 2022-05-12T03:49:30,472 creating build/bdist.linux-armv7l/wheel/gtdbtk/config 2022-05-12T03:49:30,485 creating build/bdist.linux-armv7l/wheel/gtdbtk/pipeline 2022-05-12T03:49:30,529 creating build/bdist.linux-armv7l/wheel/gtdbtk/io 2022-05-12T03:49:30,535 creating build/bdist.linux-armv7l/wheel/gtdbtk/io/prodigal 2022-05-12T03:49:30,574 creating build/bdist.linux-armv7l/wheel/gtdbtk/io/marker 2022-05-12T03:49:30,589 creating build/bdist.linux-armv7l/wheel/gtdbtk/model 2022-05-12T03:49:30,610 creating build/bdist.linux-armv7l/wheel/tests 2022-05-12T03:49:30,628 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk 2022-05-12T03:49:30,634 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_biolib_lite 2022-05-12T03:49:30,660 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_external 2022-05-12T03:49:30,675 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_io 2022-05-12T03:49:30,681 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_io/test_marker 2022-05-12T03:49:30,695 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_io/test_prodigal 2022-05-12T03:49:30,713 running install_data 2022-05-12T03:49:30,718 creating build/bdist.linux-armv7l/wheel/gtdbtk-2.1.0.data 2022-05-12T03:49:30,719 creating build/bdist.linux-armv7l/wheel/gtdbtk-2.1.0.data/data 2022-05-12T03:49:30,722 copying LICENSE -> build/bdist.linux-armv7l/wheel/gtdbtk-2.1.0.data/data/ 2022-05-12T03:49:30,728 running install_egg_info 2022-05-12T03:49:30,768 running egg_info 2022-05-12T03:49:30,843 writing manifest file 'gtdbtk.egg-info/SOURCES.txt' 2022-05-12T03:49:30,847 Copying gtdbtk.egg-info to build/bdist.linux-armv7l/wheel/gtdbtk-2.1.0-py3.7.egg-info 2022-05-12T03:49:30,871 running install_scripts 2022-05-12T03:49:39,158 Building wheel for gtdbtk (setup.py): finished with status 'done' 2022-05-12T03:49:39,219 Created wheel for gtdbtk: filename=gtdbtk-2.1.0-py3-none-any.whl size=1815606 sha256=1a3aba4f0aa3916d66fa1b335bc75f3e4275f208aabcf8f52b16cc31c8a28251 2022-05-12T03:49:39,221 Stored in directory: /tmp/pip-ephem-wheel-cache-rpedmqvw/wheels/79/a6/08/8f5534e47d5cdc5de1bd464944a763b54c717330fa73e6407e 2022-05-12T03:49:39,257 Successfully built gtdbtk 2022-05-12T03:49:39,402 Removed build tracker: '/tmp/pip-req-tracker-lm28uzc0'