2023-02-20T13:57:47,760 Created temporary directory: /tmp/pip-ephem-wheel-cache-9mgfv2z2 2023-02-20T13:57:47,765 Created temporary directory: /tmp/pip-build-tracker-qc08znqh 2023-02-20T13:57:47,766 Initialized build tracking at /tmp/pip-build-tracker-qc08znqh 2023-02-20T13:57:47,766 Created build tracker: /tmp/pip-build-tracker-qc08znqh 2023-02-20T13:57:47,766 Entered build tracker: /tmp/pip-build-tracker-qc08znqh 2023-02-20T13:57:47,767 Created temporary directory: /tmp/pip-wheel-r74jk5v2 2023-02-20T13:57:47,775 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2023-02-20T13:57:47,781 Created temporary directory: /tmp/pip-ephem-wheel-cache-t9u7ctsw 2023-02-20T13:57:47,833 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-02-20T13:57:47,841 2 location(s) to search for versions of maginator: 2023-02-20T13:57:47,841 * https://pypi.org/simple/maginator/ 2023-02-20T13:57:47,841 * https://www.piwheels.org/simple/maginator/ 2023-02-20T13:57:47,842 Fetching project page and analyzing links: https://pypi.org/simple/maginator/ 2023-02-20T13:57:47,843 Getting page https://pypi.org/simple/maginator/ 2023-02-20T13:57:47,846 Found index url https://pypi.org/simple 2023-02-20T13:57:48,070 Fetched page https://pypi.org/simple/maginator/ as application/vnd.pypi.simple.v1+json 2023-02-20T13:57:48,073 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/28/10/ecccd562aaffc3f6d204d7204aec58c58d9a9f6af3ade5cc175db4537a5b/maginator-0.1.8-py3.7.egg (from https://pypi.org/simple/maginator/) (requires-python:>=3.5) 2023-02-20T13:57:48,075 Found link https://files.pythonhosted.org/packages/b2/0e/e9f8fab4868fdbeac8e0d4e20739b76094430d0359620da63f5fae1ebb9d/maginator-0.1.8.tar.gz (from https://pypi.org/simple/maginator/) (requires-python:>=3.5), version: 0.1.8 2023-02-20T13:57:48,076 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/33/51/ffee33c05503c602c0583f3968e3e63cde50489be8d9a80e43f0a17d4d29/maginator-0.1.13-py3.10.egg (from https://pypi.org/simple/maginator/) (requires-python:>=3.5) 2023-02-20T13:57:48,077 Found link https://files.pythonhosted.org/packages/27/d1/d8b739151ffea3e1dec7103e89dd35113f0bf883897372ab3e92837495a7/maginator-0.1.13.tar.gz (from https://pypi.org/simple/maginator/) (requires-python:>=3.5), version: 0.1.13 2023-02-20T13:57:48,078 Fetching project page and analyzing links: https://www.piwheels.org/simple/maginator/ 2023-02-20T13:57:48,079 Getting page https://www.piwheels.org/simple/maginator/ 2023-02-20T13:57:48,081 Found index url https://www.piwheels.org/simple 2023-02-20T13:57:48,298 Fetched page https://www.piwheels.org/simple/maginator/ as text/html 2023-02-20T13:57:48,301 Skipping link: No binaries permitted for maginator: https://www.piwheels.org/simple/maginator/maginator-0.1.8-py3-none-any.whl#sha256=cb0efbdc1f46362c03b97cd18b7dd860d2dcc0f4ad09fc15f7d688be7194ff51 (from https://www.piwheels.org/simple/maginator/) (requires-python:>=3.5) 2023-02-20T13:57:48,301 Skipping link: not a file: https://www.piwheels.org/simple/maginator/ 2023-02-20T13:57:48,302 Skipping link: not a file: https://pypi.org/simple/maginator/ 2023-02-20T13:57:48,334 Given no hashes to check 1 links for project 'maginator': discarding no candidates 2023-02-20T13:57:48,364 Collecting maginator==0.1.13 2023-02-20T13:57:48,369 Created temporary directory: /tmp/pip-unpack-t587l4_b 2023-02-20T13:57:48,606 Downloading maginator-0.1.13.tar.gz (43 kB) 2023-02-20T13:57:48,871 Added maginator==0.1.13 from https://files.pythonhosted.org/packages/27/d1/d8b739151ffea3e1dec7103e89dd35113f0bf883897372ab3e92837495a7/maginator-0.1.13.tar.gz to build tracker '/tmp/pip-build-tracker-qc08znqh' 2023-02-20T13:57:48,874 Running setup.py (path:/tmp/pip-wheel-r74jk5v2/maginator_de1e71d268e74cf7a961f0f41747bc3b/setup.py) egg_info for package maginator 2023-02-20T13:57:48,875 Created temporary directory: /tmp/pip-pip-egg-info-8iejr9q4 2023-02-20T13:57:48,876 Preparing metadata (setup.py): started 2023-02-20T13:57:48,878 Running command python setup.py egg_info 2023-02-20T13:57:51,396 running egg_info 2023-02-20T13:57:51,400 creating /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info 2023-02-20T13:57:51,461 writing /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/PKG-INFO 2023-02-20T13:57:51,466 writing dependency_links to /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/dependency_links.txt 2023-02-20T13:57:51,470 writing entry points to /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/entry_points.txt 2023-02-20T13:57:51,472 writing requirements to /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/requires.txt 2023-02-20T13:57:51,474 writing top-level names to /tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/top_level.txt 2023-02-20T13:57:51,477 writing manifest file '/tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/SOURCES.txt' 2023-02-20T13:57:51,674 reading manifest file '/tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/SOURCES.txt' 2023-02-20T13:57:51,678 reading manifest template 'MANIFEST.in' 2023-02-20T13:57:51,708 adding license file 'LICENSE' 2023-02-20T13:57:51,716 writing manifest file '/tmp/pip-pip-egg-info-8iejr9q4/maginator.egg-info/SOURCES.txt' 2023-02-20T13:57:51,920 Preparing metadata (setup.py): finished with status 'done' 2023-02-20T13:57:51,934 Source in /tmp/pip-wheel-r74jk5v2/maginator_de1e71d268e74cf7a961f0f41747bc3b has version 0.1.13, which satisfies requirement maginator==0.1.13 from https://files.pythonhosted.org/packages/27/d1/d8b739151ffea3e1dec7103e89dd35113f0bf883897372ab3e92837495a7/maginator-0.1.13.tar.gz 2023-02-20T13:57:51,935 Removed maginator==0.1.13 from https://files.pythonhosted.org/packages/27/d1/d8b739151ffea3e1dec7103e89dd35113f0bf883897372ab3e92837495a7/maginator-0.1.13.tar.gz from build tracker '/tmp/pip-build-tracker-qc08znqh' 2023-02-20T13:57:51,951 Created temporary directory: /tmp/pip-unpack-d9rmczw7 2023-02-20T13:57:51,952 Building wheels for collected packages: maginator 2023-02-20T13:57:51,962 Created temporary directory: /tmp/pip-wheel-3v5s5qny 2023-02-20T13:57:51,963 Building wheel for maginator (setup.py): started 2023-02-20T13:57:51,965 Destination directory: /tmp/pip-wheel-3v5s5qny 2023-02-20T13:57:51,965 Running command python setup.py bdist_wheel 2023-02-20T13:57:54,474 running bdist_wheel 2023-02-20T13:57:55,233 running build 2023-02-20T13:57:55,234 running build_py 2023-02-20T13:57:55,304 creating build 2023-02-20T13:57:55,304 creating build/lib 2023-02-20T13:57:55,306 creating build/lib/maginator 2023-02-20T13:57:55,308 copying maginator/__init__.py -> build/lib/maginator 2023-02-20T13:57:55,312 copying maginator/controller.py -> build/lib/maginator 2023-02-20T13:57:55,316 copying maginator/main.py -> build/lib/maginator 2023-02-20T13:57:55,321 copying maginator/workflow.py -> build/lib/maginator 2023-02-20T13:57:55,325 copying maginator/messages.py -> build/lib/maginator 2023-02-20T13:57:55,327 running egg_info 2023-02-20T13:57:55,475 writing maginator.egg-info/PKG-INFO 2023-02-20T13:57:55,480 writing dependency_links to maginator.egg-info/dependency_links.txt 2023-02-20T13:57:55,483 writing entry points to maginator.egg-info/entry_points.txt 2023-02-20T13:57:55,486 writing requirements to maginator.egg-info/requires.txt 2023-02-20T13:57:55,488 writing top-level names to maginator.egg-info/top_level.txt 2023-02-20T13:57:55,564 reading manifest file 'maginator.egg-info/SOURCES.txt' 2023-02-20T13:57:55,576 reading manifest template 'MANIFEST.in' 2023-02-20T13:57:55,606 adding license file 'LICENSE' 2023-02-20T13:57:55,616 writing manifest file 'maginator.egg-info/SOURCES.txt' 2023-02-20T13:57:55,621 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'maginator.workflow' as data is deprecated, please list it in `packages`. 2023-02-20T13:57:55,621 !! 2023-02-20T13:57:55,622 ############################ 2023-02-20T13:57:55,623 # Package would be ignored # 2023-02-20T13:57:55,623 ############################ 2023-02-20T13:57:55,623 Python recognizes 'maginator.workflow' as an importable package, 2023-02-20T13:57:55,624 but it is not listed in the `packages` configuration of setuptools. 2023-02-20T13:57:55,624 'maginator.workflow' has been automatically added to the distribution only 2023-02-20T13:57:55,625 because it may contain data files, but this behavior is likely to change 2023-02-20T13:57:55,625 in future versions of setuptools (and therefore is considered deprecated). 2023-02-20T13:57:55,626 Please make sure that 'maginator.workflow' is included as a package by using 2023-02-20T13:57:55,626 the `packages` configuration field or the proper discovery methods 2023-02-20T13:57:55,626 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-02-20T13:57:55,627 instead of `find_packages(...)`/`find:`). 2023-02-20T13:57:55,627 You can read more about "package discovery" and "data files" on setuptools 2023-02-20T13:57:55,627 documentation page. 2023-02-20T13:57:55,628 !! 2023-02-20T13:57:55,629 check.warn(importable) 2023-02-20T13:57:55,629 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'maginator.workflow.envs' as data is deprecated, please list it in `packages`. 2023-02-20T13:57:55,630 !! 2023-02-20T13:57:55,631 ############################ 2023-02-20T13:57:55,631 # Package would be ignored # 2023-02-20T13:57:55,631 ############################ 2023-02-20T13:57:55,632 Python recognizes 'maginator.workflow.envs' as an importable package, 2023-02-20T13:57:55,632 but it is not listed in the `packages` configuration of setuptools. 2023-02-20T13:57:55,632 'maginator.workflow.envs' has been automatically added to the distribution only 2023-02-20T13:57:55,633 because it may contain data files, but this behavior is likely to change 2023-02-20T13:57:55,633 in future versions of setuptools (and therefore is considered deprecated). 2023-02-20T13:57:55,634 Please make sure that 'maginator.workflow.envs' is included as a package by using 2023-02-20T13:57:55,634 the `packages` configuration field or the proper discovery methods 2023-02-20T13:57:55,634 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-02-20T13:57:55,635 instead of `find_packages(...)`/`find:`). 2023-02-20T13:57:55,635 You can read more about "package discovery" and "data files" on setuptools 2023-02-20T13:57:55,636 documentation page. 2023-02-20T13:57:55,636 !! 2023-02-20T13:57:55,637 check.warn(importable) 2023-02-20T13:57:55,637 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'maginator.workflow.scripts' as data is deprecated, please list it in `packages`. 2023-02-20T13:57:55,638 !! 2023-02-20T13:57:55,639 ############################ 2023-02-20T13:57:55,639 # Package would be ignored # 2023-02-20T13:57:55,639 ############################ 2023-02-20T13:57:55,640 Python recognizes 'maginator.workflow.scripts' as an importable package, 2023-02-20T13:57:55,640 but it is not listed in the `packages` configuration of setuptools. 2023-02-20T13:57:55,640 'maginator.workflow.scripts' has been automatically added to the distribution only 2023-02-20T13:57:55,641 because it may contain data files, but this behavior is likely to change 2023-02-20T13:57:55,641 in future versions of setuptools (and therefore is considered deprecated). 2023-02-20T13:57:55,642 Please make sure that 'maginator.workflow.scripts' is included as a package by using 2023-02-20T13:57:55,642 the `packages` configuration field or the proper discovery methods 2023-02-20T13:57:55,642 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-02-20T13:57:55,643 instead of `find_packages(...)`/`find:`). 2023-02-20T13:57:55,644 You can read more about "package discovery" and "data files" on setuptools 2023-02-20T13:57:55,644 documentation page. 2023-02-20T13:57:55,645 !! 2023-02-20T13:57:55,645 check.warn(importable) 2023-02-20T13:57:55,646 creating build/lib/maginator/workflow 2023-02-20T13:57:55,646 copying maginator/workflow/alignment.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,647 copying maginator/workflow/filter.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,648 copying maginator/workflow/filter_geneclusters.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,652 copying maginator/workflow/gene_count_mat.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,656 copying maginator/workflow/gene_tax.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,660 copying maginator/workflow/gtdbtk.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,664 copying maginator/workflow/outgroup.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,668 copying maginator/workflow/parse_gtdbtk.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,672 copying maginator/workflow/phylo.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,676 copying maginator/workflow/pileup.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,680 copying maginator/workflow/pileup_parse.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,684 copying maginator/workflow/prescreening_genes.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,688 copying maginator/workflow/signature_genes.Snakefile -> build/lib/maginator/workflow 2023-02-20T13:57:55,692 creating build/lib/maginator/workflow/envs 2023-02-20T13:57:55,693 copying maginator/workflow/envs/filter_geneclusters.yaml -> build/lib/maginator/workflow/envs 2023-02-20T13:57:55,697 copying maginator/workflow/envs/filter_gtdbtk.yaml -> build/lib/maginator/workflow/envs 2023-02-20T13:57:55,701 copying maginator/workflow/envs/phylo.yaml -> build/lib/maginator/workflow/envs 2023-02-20T13:57:55,705 copying maginator/workflow/envs/signature_genes.yaml -> build/lib/maginator/workflow/envs 2023-02-20T13:57:55,709 creating build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,710 copying maginator/workflow/scripts/Functions_v4.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,715 copying maginator/workflow/scripts/MGS_counts.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,719 copying maginator/workflow/scripts/SG_refinement.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,724 copying maginator/workflow/scripts/abundance_profiles.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,728 copying maginator/workflow/scripts/concat.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,732 copying maginator/workflow/scripts/filter.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,736 copying maginator/workflow/scripts/gene_cluster2tax.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,740 copying maginator/workflow/scripts/gene_refinement_plots.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,744 copying maginator/workflow/scripts/marker_genes.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,749 copying maginator/workflow/scripts/matrix2SG_formatconversion.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,753 copying maginator/workflow/scripts/mpileup.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,758 copying maginator/workflow/scripts/parse_gtdbtk.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,763 copying maginator/workflow/scripts/prescreening_genes.R -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,767 copying maginator/workflow/scripts/sort_gene_mat.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,771 copying maginator/workflow/scripts/species_collections.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,776 copying maginator/workflow/scripts/synteny.py -> build/lib/maginator/workflow/scripts 2023-02-20T13:57:55,851 /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. 2023-02-20T13:57:55,851 setuptools.SetuptoolsDeprecationWarning, 2023-02-20T13:57:55,917 installing to build/bdist.linux-armv7l/wheel 2023-02-20T13:57:55,917 running install 2023-02-20T13:57:55,981 running install_lib 2023-02-20T13:57:56,047 creating build/bdist.linux-armv7l 2023-02-20T13:57:56,048 creating build/bdist.linux-armv7l/wheel 2023-02-20T13:57:56,052 creating build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,054 copying build/lib/maginator/__init__.py -> build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,059 copying build/lib/maginator/controller.py -> build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,063 copying build/lib/maginator/main.py -> build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,069 creating build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,071 copying build/lib/maginator/workflow/outgroup.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,076 copying build/lib/maginator/workflow/pileup_parse.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,080 copying build/lib/maginator/workflow/parse_gtdbtk.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,084 copying build/lib/maginator/workflow/signature_genes.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,088 copying build/lib/maginator/workflow/filter.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,093 creating build/bdist.linux-armv7l/wheel/maginator/workflow/envs 2023-02-20T13:57:56,095 copying build/lib/maginator/workflow/envs/phylo.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs 2023-02-20T13:57:56,099 copying build/lib/maginator/workflow/envs/signature_genes.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs 2023-02-20T13:57:56,103 copying build/lib/maginator/workflow/envs/filter_gtdbtk.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs 2023-02-20T13:57:56,107 copying build/lib/maginator/workflow/envs/filter_geneclusters.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs 2023-02-20T13:57:56,112 creating build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,113 copying build/lib/maginator/workflow/scripts/gene_cluster2tax.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,117 copying build/lib/maginator/workflow/scripts/gene_refinement_plots.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,121 copying build/lib/maginator/workflow/scripts/Functions_v4.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,125 copying build/lib/maginator/workflow/scripts/synteny.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,128 copying build/lib/maginator/workflow/scripts/concat.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,132 copying build/lib/maginator/workflow/scripts/SG_refinement.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,136 copying build/lib/maginator/workflow/scripts/mpileup.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,141 copying build/lib/maginator/workflow/scripts/parse_gtdbtk.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,145 copying build/lib/maginator/workflow/scripts/species_collections.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,148 copying build/lib/maginator/workflow/scripts/prescreening_genes.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,152 copying build/lib/maginator/workflow/scripts/matrix2SG_formatconversion.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,155 copying build/lib/maginator/workflow/scripts/abundance_profiles.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,159 copying build/lib/maginator/workflow/scripts/filter.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,162 copying build/lib/maginator/workflow/scripts/sort_gene_mat.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,166 copying build/lib/maginator/workflow/scripts/marker_genes.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,170 copying build/lib/maginator/workflow/scripts/MGS_counts.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts 2023-02-20T13:57:56,173 copying build/lib/maginator/workflow/alignment.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,176 copying build/lib/maginator/workflow/gtdbtk.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,180 copying build/lib/maginator/workflow/prescreening_genes.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,183 copying build/lib/maginator/workflow/gene_count_mat.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,186 copying build/lib/maginator/workflow/phylo.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,189 copying build/lib/maginator/workflow/filter_geneclusters.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,193 copying build/lib/maginator/workflow/gene_tax.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,196 copying build/lib/maginator/workflow/pileup.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow 2023-02-20T13:57:56,199 copying build/lib/maginator/workflow.py -> build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,204 copying build/lib/maginator/messages.py -> build/bdist.linux-armv7l/wheel/maginator 2023-02-20T13:57:56,207 running install_egg_info 2023-02-20T13:57:56,282 Copying maginator.egg-info to build/bdist.linux-armv7l/wheel/maginator-0.1.13-py3.7.egg-info 2023-02-20T13:57:56,309 running install_scripts 2023-02-20T13:57:56,503 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2023-02-20T13:57:56,512 creating build/bdist.linux-armv7l/wheel/maginator-0.1.13.dist-info/WHEEL 2023-02-20T13:57:56,517 creating '/tmp/pip-wheel-3v5s5qny/maginator-0.1.13-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-02-20T13:57:56,521 adding 'maginator/__init__.py' 2023-02-20T13:57:56,524 adding 'maginator/controller.py' 2023-02-20T13:57:56,528 adding 'maginator/main.py' 2023-02-20T13:57:56,531 adding 'maginator/messages.py' 2023-02-20T13:57:56,534 adding 'maginator/workflow.py' 2023-02-20T13:57:56,538 adding 'maginator/workflow/alignment.Snakefile' 2023-02-20T13:57:56,541 adding 'maginator/workflow/filter.Snakefile' 2023-02-20T13:57:56,544 adding 'maginator/workflow/filter_geneclusters.Snakefile' 2023-02-20T13:57:56,546 adding 'maginator/workflow/gene_count_mat.Snakefile' 2023-02-20T13:57:56,549 adding 'maginator/workflow/gene_tax.Snakefile' 2023-02-20T13:57:56,551 adding 'maginator/workflow/gtdbtk.Snakefile' 2023-02-20T13:57:56,554 adding 'maginator/workflow/outgroup.Snakefile' 2023-02-20T13:57:56,556 adding 'maginator/workflow/parse_gtdbtk.Snakefile' 2023-02-20T13:57:56,559 adding 'maginator/workflow/phylo.Snakefile' 2023-02-20T13:57:56,561 adding 'maginator/workflow/pileup.Snakefile' 2023-02-20T13:57:56,564 adding 'maginator/workflow/pileup_parse.Snakefile' 2023-02-20T13:57:56,567 adding 'maginator/workflow/prescreening_genes.Snakefile' 2023-02-20T13:57:56,569 adding 'maginator/workflow/signature_genes.Snakefile' 2023-02-20T13:57:56,572 adding 'maginator/workflow/envs/filter_geneclusters.yaml' 2023-02-20T13:57:56,575 adding 'maginator/workflow/envs/filter_gtdbtk.yaml' 2023-02-20T13:57:56,577 adding 'maginator/workflow/envs/phylo.yaml' 2023-02-20T13:57:56,579 adding 'maginator/workflow/envs/signature_genes.yaml' 2023-02-20T13:57:56,584 adding 'maginator/workflow/scripts/Functions_v4.R' 2023-02-20T13:57:56,587 adding 'maginator/workflow/scripts/MGS_counts.R' 2023-02-20T13:57:56,591 adding 'maginator/workflow/scripts/SG_refinement.R' 2023-02-20T13:57:56,594 adding 'maginator/workflow/scripts/abundance_profiles.R' 2023-02-20T13:57:56,597 adding 'maginator/workflow/scripts/concat.py' 2023-02-20T13:57:56,599 adding 'maginator/workflow/scripts/filter.py' 2023-02-20T13:57:56,602 adding 'maginator/workflow/scripts/gene_cluster2tax.py' 2023-02-20T13:57:56,605 adding 'maginator/workflow/scripts/gene_refinement_plots.R' 2023-02-20T13:57:56,609 adding 'maginator/workflow/scripts/marker_genes.py' 2023-02-20T13:57:56,612 adding 'maginator/workflow/scripts/matrix2SG_formatconversion.R' 2023-02-20T13:57:56,618 adding 'maginator/workflow/scripts/mpileup.py' 2023-02-20T13:57:56,621 adding 'maginator/workflow/scripts/parse_gtdbtk.py' 2023-02-20T13:57:56,624 adding 'maginator/workflow/scripts/prescreening_genes.R' 2023-02-20T13:57:56,626 adding 'maginator/workflow/scripts/sort_gene_mat.py' 2023-02-20T13:57:56,629 adding 'maginator/workflow/scripts/species_collections.py' 2023-02-20T13:57:56,631 adding 'maginator/workflow/scripts/synteny.py' 2023-02-20T13:57:56,636 adding 'maginator-0.1.13.dist-info/LICENSE' 2023-02-20T13:57:56,639 adding 'maginator-0.1.13.dist-info/METADATA' 2023-02-20T13:57:56,641 adding 'maginator-0.1.13.dist-info/WHEEL' 2023-02-20T13:57:56,643 adding 'maginator-0.1.13.dist-info/entry_points.txt' 2023-02-20T13:57:56,645 adding 'maginator-0.1.13.dist-info/top_level.txt' 2023-02-20T13:57:56,647 adding 'maginator-0.1.13.dist-info/RECORD' 2023-02-20T13:57:56,652 removing build/bdist.linux-armv7l/wheel 2023-02-20T13:57:56,918 Building wheel for maginator (setup.py): finished with status 'done' 2023-02-20T13:57:56,927 Created wheel for maginator: filename=maginator-0.1.13-py3-none-any.whl size=55442 sha256=bd4768ce02f00c01217d7adf241aad0ee1e1cc23c8f69a5a89be3d521b65b505 2023-02-20T13:57:56,929 Stored in directory: /tmp/pip-ephem-wheel-cache-t9u7ctsw/wheels/be/8e/b7/dfaa6e6e8c81d8e2d4aa27d4e678eab30eac6bfcb57ea2d94c 2023-02-20T13:57:56,959 Successfully built maginator 2023-02-20T13:57:56,970 Removed build tracker: '/tmp/pip-build-tracker-qc08znqh'