2023-08-24T09:06:16,177 Created temporary directory: /tmp/pip-build-tracker-pkzwo7l8
2023-08-24T09:06:16,180 Initialized build tracking at /tmp/pip-build-tracker-pkzwo7l8
2023-08-24T09:06:16,180 Created build tracker: /tmp/pip-build-tracker-pkzwo7l8
2023-08-24T09:06:16,181 Entered build tracker: /tmp/pip-build-tracker-pkzwo7l8
2023-08-24T09:06:16,182 Created temporary directory: /tmp/pip-wheel-dsb4r7mg
2023-08-24T09:06:16,190 Created temporary directory: /tmp/pip-ephem-wheel-cache-zkfhi4dv
2023-08-24T09:06:16,243 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-08-24T09:06:16,252 2 location(s) to search for versions of maginator:
2023-08-24T09:06:16,252 * https://pypi.org/simple/maginator/
2023-08-24T09:06:16,252 * https://www.piwheels.org/simple/maginator/
2023-08-24T09:06:16,253 Fetching project page and analyzing links: https://pypi.org/simple/maginator/
2023-08-24T09:06:16,254 Getting page https://pypi.org/simple/maginator/
2023-08-24T09:06:16,258 Found index url https://pypi.org/simple/
2023-08-24T09:06:16,442 Fetched page https://pypi.org/simple/maginator/ as application/vnd.pypi.simple.v1+json
2023-08-24T09:06:16,446   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)
2023-08-24T09:06:16,447   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
2023-08-24T09:06:16,448   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)
2023-08-24T09:06:16,449   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
2023-08-24T09:06:16,451   Found link https://files.pythonhosted.org/packages/c2/3a/bd37a8cd702b674447ca27c5ca1dc197a99f6be8aa53040d244a065517c6/maginator-0.1.17.tar.gz (from https://pypi.org/simple/maginator/) (requires-python:>=3.5), version: 0.1.17
2023-08-24T09:06:16,452 Fetching project page and analyzing links: https://www.piwheels.org/simple/maginator/
2023-08-24T09:06:16,453 Getting page https://www.piwheels.org/simple/maginator/
2023-08-24T09:06:16,455 Found index url https://www.piwheels.org/simple/
2023-08-24T09:06:16,674 Fetched page https://www.piwheels.org/simple/maginator/ as text/html
2023-08-24T09:06:16,678   Skipping link: No binaries permitted for maginator: https://www.piwheels.org/simple/maginator/maginator-0.1.13-py3-none-any.whl#sha256=bd4768ce02f00c01217d7adf241aad0ee1e1cc23c8f69a5a89be3d521b65b505 (from https://www.piwheels.org/simple/maginator/) (requires-python:>=3.5)
2023-08-24T09:06:16,678   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)
2023-08-24T09:06:16,679 Skipping link: not a file: https://www.piwheels.org/simple/maginator/
2023-08-24T09:06:16,679 Skipping link: not a file: https://pypi.org/simple/maginator/
2023-08-24T09:06:16,712 Given no hashes to check 1 links for project 'maginator': discarding no candidates
2023-08-24T09:06:16,743 Collecting maginator==0.1.17
2023-08-24T09:06:16,747   Created temporary directory: /tmp/pip-unpack-m2q8wyux
2023-08-24T09:06:16,952   Downloading maginator-0.1.17.tar.gz (81.9 MB)
2023-08-24T09:06:39,463   Added maginator==0.1.17 from https://files.pythonhosted.org/packages/c2/3a/bd37a8cd702b674447ca27c5ca1dc197a99f6be8aa53040d244a065517c6/maginator-0.1.17.tar.gz to build tracker '/tmp/pip-build-tracker-pkzwo7l8'
2023-08-24T09:06:39,470   Running setup.py (path:/tmp/pip-wheel-dsb4r7mg/maginator_a7da3229578d473cb07e1fe7a9557f3e/setup.py) egg_info for package maginator
2023-08-24T09:06:39,471   Created temporary directory: /tmp/pip-pip-egg-info-j8wpi9yv
2023-08-24T09:06:39,472   Preparing metadata (setup.py): started
2023-08-24T09:06:39,474   Running command python setup.py egg_info
2023-08-24T09:06:41,189   running egg_info
2023-08-24T09:06:41,192   creating /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info
2023-08-24T09:06:41,278   writing /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/PKG-INFO
2023-08-24T09:06:41,284   writing dependency_links to /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/dependency_links.txt
2023-08-24T09:06:41,288   writing entry points to /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/entry_points.txt
2023-08-24T09:06:41,291   writing requirements to /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/requires.txt
2023-08-24T09:06:41,293   writing top-level names to /tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/top_level.txt
2023-08-24T09:06:41,296   writing manifest file '/tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/SOURCES.txt'
2023-08-24T09:06:41,573   reading manifest file '/tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/SOURCES.txt'
2023-08-24T09:06:41,576   reading manifest template 'MANIFEST.in'
2023-08-24T09:06:41,609   adding license file 'LICENSE'
2023-08-24T09:06:41,618   writing manifest file '/tmp/pip-pip-egg-info-j8wpi9yv/maginator.egg-info/SOURCES.txt'
2023-08-24T09:06:41,738   Preparing metadata (setup.py): finished with status 'done'
2023-08-24T09:06:41,753   Source in /tmp/pip-wheel-dsb4r7mg/maginator_a7da3229578d473cb07e1fe7a9557f3e has version 0.1.17, which satisfies requirement maginator==0.1.17 from https://files.pythonhosted.org/packages/c2/3a/bd37a8cd702b674447ca27c5ca1dc197a99f6be8aa53040d244a065517c6/maginator-0.1.17.tar.gz
2023-08-24T09:06:41,754   Removed maginator==0.1.17 from https://files.pythonhosted.org/packages/c2/3a/bd37a8cd702b674447ca27c5ca1dc197a99f6be8aa53040d244a065517c6/maginator-0.1.17.tar.gz from build tracker '/tmp/pip-build-tracker-pkzwo7l8'
2023-08-24T09:06:41,772 Created temporary directory: /tmp/pip-unpack-ylw6jtfg
2023-08-24T09:06:41,773 Building wheels for collected packages: maginator
2023-08-24T09:06:41,782   Created temporary directory: /tmp/pip-wheel-9v1biv3a
2023-08-24T09:06:41,782   Building wheel for maginator (setup.py): started
2023-08-24T09:06:41,784   Destination directory: /tmp/pip-wheel-9v1biv3a
2023-08-24T09:06:41,785   Running command python setup.py bdist_wheel
2023-08-24T09:06:43,472   running bdist_wheel
2023-08-24T09:06:44,284   running build
2023-08-24T09:06:44,285   running build_py
2023-08-24T09:06:44,379   creating build
2023-08-24T09:06:44,380   creating build/lib
2023-08-24T09:06:44,382   creating build/lib/maginator
2023-08-24T09:06:44,384   copying maginator/main.py -> build/lib/maginator
2023-08-24T09:06:44,389   copying maginator/messages.py -> build/lib/maginator
2023-08-24T09:06:44,392   copying maginator/__init__.py -> build/lib/maginator
2023-08-24T09:06:44,396   copying maginator/controller.py -> build/lib/maginator
2023-08-24T09:06:44,400   copying maginator/workflow.py -> build/lib/maginator
2023-08-24T09:06:44,404   running egg_info
2023-08-24T09:06:44,599   writing maginator.egg-info/PKG-INFO
2023-08-24T09:06:44,605   writing dependency_links to maginator.egg-info/dependency_links.txt
2023-08-24T09:06:44,609   writing entry points to maginator.egg-info/entry_points.txt
2023-08-24T09:06:44,613   writing requirements to maginator.egg-info/requires.txt
2023-08-24T09:06:44,616   writing top-level names to maginator.egg-info/top_level.txt
2023-08-24T09:06:44,721   reading manifest file 'maginator.egg-info/SOURCES.txt'
2023-08-24T09:06:44,735   reading manifest template 'MANIFEST.in'
2023-08-24T09:06:44,767   adding license file 'LICENSE'
2023-08-24T09:06:44,779   writing manifest file 'maginator.egg-info/SOURCES.txt'
2023-08-24T09:06:44,785   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'maginator.recommended_workflow' is absent from the `packages` configuration.
2023-08-24T09:06:44,785   !!

2023-08-24T09:06:44,786           ********************************************************************************
2023-08-24T09:06:44,786           ############################
2023-08-24T09:06:44,787           # Package would be ignored #
2023-08-24T09:06:44,787           ############################
2023-08-24T09:06:44,787           Python recognizes 'maginator.recommended_workflow' as an importable package[^1],
2023-08-24T09:06:44,788           but it is absent from setuptools' `packages` configuration.

2023-08-24T09:06:44,788           This leads to an ambiguous overall configuration. If you want to distribute this
2023-08-24T09:06:44,789           package, please make sure that 'maginator.recommended_workflow' is explicitly added
2023-08-24T09:06:44,789           to the `packages` configuration field.

2023-08-24T09:06:44,789           Alternatively, you can also rely on setuptools' discovery methods
2023-08-24T09:06:44,790           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-08-24T09:06:44,790           instead of `find_packages(...)`/`find:`).

2023-08-24T09:06:44,791           You can read more about "package discovery" on setuptools documentation page:

2023-08-24T09:06:44,791           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-08-24T09:06:44,792           If you don't want 'maginator.recommended_workflow' to be distributed and are
2023-08-24T09:06:44,792           already explicitly excluding 'maginator.recommended_workflow' via
2023-08-24T09:06:44,793           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-08-24T09:06:44,793           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-08-24T09:06:44,793           combination with a more fine grained `package-data` configuration.

2023-08-24T09:06:44,794           You can read more about "package data files" on setuptools documentation page:

2023-08-24T09:06:44,794           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-08-24T09:06:44,795           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-08-24T09:06:44,796                 even if it does not contain any `.py` files.
2023-08-24T09:06:44,796                 On the other hand, currently there is no concept of package data
2023-08-24T09:06:44,796                 directory, all directories are treated like packages.
2023-08-24T09:06:44,797           ********************************************************************************

2023-08-24T09:06:44,797   !!
2023-08-24T09:06:44,798     check.warn(importable)
2023-08-24T09:06:44,798   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'maginator.test_data' is absent from the `packages` configuration.
2023-08-24T09:06:44,798   !!

2023-08-24T09:06:44,799           ********************************************************************************
2023-08-24T09:06:44,800           ############################
2023-08-24T09:06:44,800           # Package would be ignored #
2023-08-24T09:06:44,800           ############################
2023-08-24T09:06:44,801           Python recognizes 'maginator.test_data' as an importable package[^1],
2023-08-24T09:06:44,801           but it is absent from setuptools' `packages` configuration.

2023-08-24T09:06:44,802           This leads to an ambiguous overall configuration. If you want to distribute this
2023-08-24T09:06:44,802           package, please make sure that 'maginator.test_data' is explicitly added
2023-08-24T09:06:44,802           to the `packages` configuration field.

2023-08-24T09:06:44,803           Alternatively, you can also rely on setuptools' discovery methods
2023-08-24T09:06:44,803           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-08-24T09:06:44,804           instead of `find_packages(...)`/`find:`).

2023-08-24T09:06:44,804           You can read more about "package discovery" on setuptools documentation page:

2023-08-24T09:06:44,805           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-08-24T09:06:44,805           If you don't want 'maginator.test_data' to be distributed and are
2023-08-24T09:06:44,806           already explicitly excluding 'maginator.test_data' via
2023-08-24T09:06:44,806           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-08-24T09:06:44,806           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-08-24T09:06:44,807           combination with a more fine grained `package-data` configuration.

2023-08-24T09:06:44,807           You can read more about "package data files" on setuptools documentation page:

2023-08-24T09:06:44,808           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-08-24T09:06:44,809           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-08-24T09:06:44,809                 even if it does not contain any `.py` files.
2023-08-24T09:06:44,809                 On the other hand, currently there is no concept of package data
2023-08-24T09:06:44,809                 directory, all directories are treated like packages.
2023-08-24T09:06:44,810           ********************************************************************************

2023-08-24T09:06:44,810   !!
2023-08-24T09:06:44,811     check.warn(importable)
2023-08-24T09:06:44,811   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'maginator.workflow' is absent from the `packages` configuration.
2023-08-24T09:06:44,811   !!

2023-08-24T09:06:44,812           ********************************************************************************
2023-08-24T09:06:44,813           ############################
2023-08-24T09:06:44,813           # Package would be ignored #
2023-08-24T09:06:44,813           ############################
2023-08-24T09:06:44,814           Python recognizes 'maginator.workflow' as an importable package[^1],
2023-08-24T09:06:44,814           but it is absent from setuptools' `packages` configuration.

2023-08-24T09:06:44,815           This leads to an ambiguous overall configuration. If you want to distribute this
2023-08-24T09:06:44,815           package, please make sure that 'maginator.workflow' is explicitly added
2023-08-24T09:06:44,816           to the `packages` configuration field.

2023-08-24T09:06:44,817           Alternatively, you can also rely on setuptools' discovery methods
2023-08-24T09:06:44,817           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-08-24T09:06:44,817           instead of `find_packages(...)`/`find:`).

2023-08-24T09:06:44,818           You can read more about "package discovery" on setuptools documentation page:

2023-08-24T09:06:44,819           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-08-24T09:06:44,819           If you don't want 'maginator.workflow' to be distributed and are
2023-08-24T09:06:44,820           already explicitly excluding 'maginator.workflow' via
2023-08-24T09:06:44,820           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-08-24T09:06:44,820           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-08-24T09:06:44,821           combination with a more fine grained `package-data` configuration.

2023-08-24T09:06:44,822           You can read more about "package data files" on setuptools documentation page:

2023-08-24T09:06:44,823           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-08-24T09:06:44,824           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-08-24T09:06:44,824                 even if it does not contain any `.py` files.
2023-08-24T09:06:44,824                 On the other hand, currently there is no concept of package data
2023-08-24T09:06:44,825                 directory, all directories are treated like packages.
2023-08-24T09:06:44,825           ********************************************************************************

2023-08-24T09:06:44,826   !!
2023-08-24T09:06:44,826     check.warn(importable)
2023-08-24T09:06:44,826   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'maginator.workflow.envs' is absent from the `packages` configuration.
2023-08-24T09:06:44,826   !!

2023-08-24T09:06:44,827           ********************************************************************************
2023-08-24T09:06:44,827           ############################
2023-08-24T09:06:44,828           # Package would be ignored #
2023-08-24T09:06:44,828           ############################
2023-08-24T09:06:44,828           Python recognizes 'maginator.workflow.envs' as an importable package[^1],
2023-08-24T09:06:44,829           but it is absent from setuptools' `packages` configuration.

2023-08-24T09:06:44,829           This leads to an ambiguous overall configuration. If you want to distribute this
2023-08-24T09:06:44,830           package, please make sure that 'maginator.workflow.envs' is explicitly added
2023-08-24T09:06:44,830           to the `packages` configuration field.

2023-08-24T09:06:44,830           Alternatively, you can also rely on setuptools' discovery methods
2023-08-24T09:06:44,831           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-08-24T09:06:44,831           instead of `find_packages(...)`/`find:`).

2023-08-24T09:06:44,832           You can read more about "package discovery" on setuptools documentation page:

2023-08-24T09:06:44,832           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-08-24T09:06:44,833           If you don't want 'maginator.workflow.envs' to be distributed and are
2023-08-24T09:06:44,833           already explicitly excluding 'maginator.workflow.envs' via
2023-08-24T09:06:44,834           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-08-24T09:06:44,834           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-08-24T09:06:44,834           combination with a more fine grained `package-data` configuration.

2023-08-24T09:06:44,835           You can read more about "package data files" on setuptools documentation page:

2023-08-24T09:06:44,835           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-08-24T09:06:44,836           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-08-24T09:06:44,837                 even if it does not contain any `.py` files.
2023-08-24T09:06:44,837                 On the other hand, currently there is no concept of package data
2023-08-24T09:06:44,837                 directory, all directories are treated like packages.
2023-08-24T09:06:44,838           ********************************************************************************

2023-08-24T09:06:44,838   !!
2023-08-24T09:06:44,838     check.warn(importable)
2023-08-24T09:06:44,839   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/command/build_py.py:201: _Warning: Package 'maginator.workflow.scripts' is absent from the `packages` configuration.
2023-08-24T09:06:44,839   !!

2023-08-24T09:06:44,840           ********************************************************************************
2023-08-24T09:06:44,840           ############################
2023-08-24T09:06:44,840           # Package would be ignored #
2023-08-24T09:06:44,841           ############################
2023-08-24T09:06:44,841           Python recognizes 'maginator.workflow.scripts' as an importable package[^1],
2023-08-24T09:06:44,841           but it is absent from setuptools' `packages` configuration.

2023-08-24T09:06:44,842           This leads to an ambiguous overall configuration. If you want to distribute this
2023-08-24T09:06:44,842           package, please make sure that 'maginator.workflow.scripts' is explicitly added
2023-08-24T09:06:44,842           to the `packages` configuration field.

2023-08-24T09:06:44,843           Alternatively, you can also rely on setuptools' discovery methods
2023-08-24T09:06:44,844           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-08-24T09:06:44,845           instead of `find_packages(...)`/`find:`).

2023-08-24T09:06:44,847           You can read more about "package discovery" on setuptools documentation page:

2023-08-24T09:06:44,849           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-08-24T09:06:44,851           If you don't want 'maginator.workflow.scripts' to be distributed and are
2023-08-24T09:06:44,851           already explicitly excluding 'maginator.workflow.scripts' via
2023-08-24T09:06:44,852           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-08-24T09:06:44,853           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-08-24T09:06:44,854           combination with a more fine grained `package-data` configuration.

2023-08-24T09:06:44,855           You can read more about "package data files" on setuptools documentation page:

2023-08-24T09:06:44,856           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-08-24T09:06:44,858           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-08-24T09:06:44,858                 even if it does not contain any `.py` files.
2023-08-24T09:06:44,859                 On the other hand, currently there is no concept of package data
2023-08-24T09:06:44,860                 directory, all directories are treated like packages.
2023-08-24T09:06:44,860           ********************************************************************************

2023-08-24T09:06:44,861   !!
2023-08-24T09:06:44,862     check.warn(importable)
2023-08-24T09:06:44,862   creating build/lib/maginator/recommended_workflow
2023-08-24T09:06:44,863   copying maginator/recommended_workflow/reads_to_bins.Snakefile -> build/lib/maginator/recommended_workflow
2023-08-24T09:06:44,864   creating build/lib/maginator/test_data
2023-08-24T09:06:44,865   copying maginator/test_data/clusters.tsv -> build/lib/maginator/test_data
2023-08-24T09:06:44,910   copying maginator/test_data/contigs.fasta.gz -> build/lib/maginator/test_data
2023-08-24T09:06:47,836   copying maginator/test_data/reads.csv -> build/lib/maginator/test_data
2023-08-24T09:06:47,841   creating build/lib/maginator/workflow
2023-08-24T09:06:47,843   copying maginator/workflow/alignment.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,848   copying maginator/workflow/filter.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,852   copying maginator/workflow/filter_geneclusters.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,856   copying maginator/workflow/gene_count_mat.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,860   copying maginator/workflow/gene_tax.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,864   copying maginator/workflow/gtdbtk.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,868   copying maginator/workflow/outgroup.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,873   copying maginator/workflow/parse_gtdbtk.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,877   copying maginator/workflow/phylo.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,881   copying maginator/workflow/pileup.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,886   copying maginator/workflow/pileup_parse.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,889   copying maginator/workflow/prescreening_genes.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,894   copying maginator/workflow/reads_to_bins.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,899   copying maginator/workflow/signature_genes.Snakefile -> build/lib/maginator/workflow
2023-08-24T09:06:47,903   creating build/lib/maginator/workflow/envs
2023-08-24T09:06:47,905   copying maginator/workflow/envs/filter_geneclusters.yaml -> build/lib/maginator/workflow/envs
2023-08-24T09:06:47,909   copying maginator/workflow/envs/filter_gtdbtk.yaml -> build/lib/maginator/workflow/envs
2023-08-24T09:06:47,913   copying maginator/workflow/envs/phylo.yaml -> build/lib/maginator/workflow/envs
2023-08-24T09:06:47,917   copying maginator/workflow/envs/signature_genes.yaml -> build/lib/maginator/workflow/envs
2023-08-24T09:06:47,921   creating build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,923   copying maginator/workflow/scripts/Functions_v4.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,928   copying maginator/workflow/scripts/MGS_counts.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,932   copying maginator/workflow/scripts/SG_refinement.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,937   copying maginator/workflow/scripts/abundance_profiles.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,941   copying maginator/workflow/scripts/concat.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,945   copying maginator/workflow/scripts/filter.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,949   copying maginator/workflow/scripts/gene_cluster2tax.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,954   copying maginator/workflow/scripts/gene_refinement_plots.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,959   copying maginator/workflow/scripts/marker_genes.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,964   copying maginator/workflow/scripts/matrix2SG_formatconversion.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,968   copying maginator/workflow/scripts/mpileup.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,974   copying maginator/workflow/scripts/parse_gtdbtk.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,978   copying maginator/workflow/scripts/prescreening_genes.R -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,982   copying maginator/workflow/scripts/sort_gene_mat.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,986   copying maginator/workflow/scripts/species_collections.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:47,990   copying maginator/workflow/scripts/synteny.py -> build/lib/maginator/workflow/scripts
2023-08-24T09:06:48,091   /home/piwheels/.local/lib/python3.7/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-08-24T09:06:48,091   !!

2023-08-24T09:06:48,092           ********************************************************************************
2023-08-24T09:06:48,092           Please avoid running ``setup.py`` directly.
2023-08-24T09:06:48,093           Instead, use pypa/build, pypa/installer, pypa/build or
2023-08-24T09:06:48,093           other standards-based tools.

2023-08-24T09:06:48,094           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-08-24T09:06:48,094           ********************************************************************************

2023-08-24T09:06:48,095   !!
2023-08-24T09:06:48,095     self.initialize_options()
2023-08-24T09:06:48,180   installing to build/bdist.linux-armv7l/wheel
2023-08-24T09:06:48,180   running install
2023-08-24T09:06:48,242   running install_lib
2023-08-24T09:06:48,332   creating build/bdist.linux-armv7l
2023-08-24T09:06:48,333   creating build/bdist.linux-armv7l/wheel
2023-08-24T09:06:48,337   creating build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:48,339   copying build/lib/maginator/main.py -> build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:48,344   copying build/lib/maginator/messages.py -> build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:48,348   copying build/lib/maginator/__init__.py -> build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:48,352   copying build/lib/maginator/controller.py -> build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:48,358   creating build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,360   copying build/lib/maginator/workflow/parse_gtdbtk.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,364   copying build/lib/maginator/workflow/filter_geneclusters.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,368   copying build/lib/maginator/workflow/pileup_parse.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,373   creating build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,375   copying build/lib/maginator/workflow/scripts/SG_refinement.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,380   copying build/lib/maginator/workflow/scripts/marker_genes.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,385   copying build/lib/maginator/workflow/scripts/matrix2SG_formatconversion.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,389   copying build/lib/maginator/workflow/scripts/sort_gene_mat.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,393   copying build/lib/maginator/workflow/scripts/gene_cluster2tax.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,397   copying build/lib/maginator/workflow/scripts/synteny.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,401   copying build/lib/maginator/workflow/scripts/Functions_v4.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,406   copying build/lib/maginator/workflow/scripts/MGS_counts.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,410   copying build/lib/maginator/workflow/scripts/prescreening_genes.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,414   copying build/lib/maginator/workflow/scripts/parse_gtdbtk.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,418   copying build/lib/maginator/workflow/scripts/concat.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,422   copying build/lib/maginator/workflow/scripts/abundance_profiles.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,426   copying build/lib/maginator/workflow/scripts/gene_refinement_plots.R -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,430   copying build/lib/maginator/workflow/scripts/mpileup.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,436   copying build/lib/maginator/workflow/scripts/filter.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,439   copying build/lib/maginator/workflow/scripts/species_collections.py -> build/bdist.linux-armv7l/wheel/maginator/workflow/scripts
2023-08-24T09:06:48,443   copying build/lib/maginator/workflow/phylo.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,447   copying build/lib/maginator/workflow/gene_tax.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,450   copying build/lib/maginator/workflow/filter.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,454   copying build/lib/maginator/workflow/outgroup.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,458   copying build/lib/maginator/workflow/reads_to_bins.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,464   creating build/bdist.linux-armv7l/wheel/maginator/workflow/envs
2023-08-24T09:06:48,466   copying build/lib/maginator/workflow/envs/signature_genes.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs
2023-08-24T09:06:48,470   copying build/lib/maginator/workflow/envs/filter_geneclusters.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs
2023-08-24T09:06:48,473   copying build/lib/maginator/workflow/envs/filter_gtdbtk.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs
2023-08-24T09:06:48,477   copying build/lib/maginator/workflow/envs/phylo.yaml -> build/bdist.linux-armv7l/wheel/maginator/workflow/envs
2023-08-24T09:06:48,480   copying build/lib/maginator/workflow/gtdbtk.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,484   copying build/lib/maginator/workflow/gene_count_mat.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,488   copying build/lib/maginator/workflow/prescreening_genes.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,491   copying build/lib/maginator/workflow/alignment.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,495   copying build/lib/maginator/workflow/pileup.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,498   copying build/lib/maginator/workflow/signature_genes.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/workflow
2023-08-24T09:06:48,503   creating build/bdist.linux-armv7l/wheel/maginator/test_data
2023-08-24T09:06:48,505   copying build/lib/maginator/test_data/reads.csv -> build/bdist.linux-armv7l/wheel/maginator/test_data
2023-08-24T09:06:48,509   copying build/lib/maginator/test_data/contigs.fasta.gz -> build/bdist.linux-armv7l/wheel/maginator/test_data
2023-08-24T09:06:51,507   copying build/lib/maginator/test_data/clusters.tsv -> build/bdist.linux-armv7l/wheel/maginator/test_data
2023-08-24T09:06:51,599   creating build/bdist.linux-armv7l/wheel/maginator/recommended_workflow
2023-08-24T09:06:51,602   copying build/lib/maginator/recommended_workflow/reads_to_bins.Snakefile -> build/bdist.linux-armv7l/wheel/maginator/recommended_workflow
2023-08-24T09:06:51,607   copying build/lib/maginator/workflow.py -> build/bdist.linux-armv7l/wheel/maginator
2023-08-24T09:06:51,612   running install_egg_info
2023-08-24T09:06:51,714   Copying maginator.egg-info to build/bdist.linux-armv7l/wheel/maginator-0.1.17-py3.7.egg-info
2023-08-24T09:06:51,744   running install_scripts
2023-08-24T09:06:51,780   creating build/bdist.linux-armv7l/wheel/maginator-0.1.17.dist-info/WHEEL
2023-08-24T09:06:51,786   creating '/tmp/pip-wheel-9v1biv3a/maginator-0.1.17-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-08-24T09:06:51,792   adding 'maginator/__init__.py'
2023-08-24T09:06:51,796   adding 'maginator/controller.py'
2023-08-24T09:06:51,800   adding 'maginator/main.py'
2023-08-24T09:06:51,804   adding 'maginator/messages.py'
2023-08-24T09:06:51,807   adding 'maginator/workflow.py'
2023-08-24T09:06:51,812   adding 'maginator/recommended_workflow/reads_to_bins.Snakefile'
2023-08-24T09:06:52,276   adding 'maginator/test_data/clusters.tsv'
2023-08-24T09:07:14,904   adding 'maginator/test_data/contigs.fasta.gz'
2023-08-24T09:07:16,649   adding 'maginator/test_data/reads.csv'
2023-08-24T09:07:16,653   adding 'maginator/workflow/alignment.Snakefile'
2023-08-24T09:07:16,655   adding 'maginator/workflow/filter.Snakefile'
2023-08-24T09:07:16,658   adding 'maginator/workflow/filter_geneclusters.Snakefile'
2023-08-24T09:07:16,661   adding 'maginator/workflow/gene_count_mat.Snakefile'
2023-08-24T09:07:16,664   adding 'maginator/workflow/gene_tax.Snakefile'
2023-08-24T09:07:16,666   adding 'maginator/workflow/gtdbtk.Snakefile'
2023-08-24T09:07:16,669   adding 'maginator/workflow/outgroup.Snakefile'
2023-08-24T09:07:16,672   adding 'maginator/workflow/parse_gtdbtk.Snakefile'
2023-08-24T09:07:16,675   adding 'maginator/workflow/phylo.Snakefile'
2023-08-24T09:07:16,678   adding 'maginator/workflow/pileup.Snakefile'
2023-08-24T09:07:16,681   adding 'maginator/workflow/pileup_parse.Snakefile'
2023-08-24T09:07:16,684   adding 'maginator/workflow/prescreening_genes.Snakefile'
2023-08-24T09:07:16,688   adding 'maginator/workflow/reads_to_bins.Snakefile'
2023-08-24T09:07:16,691   adding 'maginator/workflow/signature_genes.Snakefile'
2023-08-24T09:07:16,695   adding 'maginator/workflow/envs/filter_geneclusters.yaml'
2023-08-24T09:07:16,697   adding 'maginator/workflow/envs/filter_gtdbtk.yaml'
2023-08-24T09:07:16,699   adding 'maginator/workflow/envs/phylo.yaml'
2023-08-24T09:07:16,702   adding 'maginator/workflow/envs/signature_genes.yaml'
2023-08-24T09:07:16,708   adding 'maginator/workflow/scripts/Functions_v4.R'
2023-08-24T09:07:16,711   adding 'maginator/workflow/scripts/MGS_counts.R'
2023-08-24T09:07:16,716   adding 'maginator/workflow/scripts/SG_refinement.R'
2023-08-24T09:07:16,719   adding 'maginator/workflow/scripts/abundance_profiles.R'
2023-08-24T09:07:16,722   adding 'maginator/workflow/scripts/concat.py'
2023-08-24T09:07:16,725   adding 'maginator/workflow/scripts/filter.py'
2023-08-24T09:07:16,728   adding 'maginator/workflow/scripts/gene_cluster2tax.py'
2023-08-24T09:07:16,732   adding 'maginator/workflow/scripts/gene_refinement_plots.R'
2023-08-24T09:07:16,736   adding 'maginator/workflow/scripts/marker_genes.py'
2023-08-24T09:07:16,739   adding 'maginator/workflow/scripts/matrix2SG_formatconversion.R'
2023-08-24T09:07:16,745   adding 'maginator/workflow/scripts/mpileup.py'
2023-08-24T09:07:16,749   adding 'maginator/workflow/scripts/parse_gtdbtk.py'
2023-08-24T09:07:16,752   adding 'maginator/workflow/scripts/prescreening_genes.R'
2023-08-24T09:07:16,755   adding 'maginator/workflow/scripts/sort_gene_mat.py'
2023-08-24T09:07:16,758   adding 'maginator/workflow/scripts/species_collections.py'
2023-08-24T09:07:16,760   adding 'maginator/workflow/scripts/synteny.py'
2023-08-24T09:07:16,765   adding 'maginator-0.1.17.dist-info/LICENSE'
2023-08-24T09:07:16,769   adding 'maginator-0.1.17.dist-info/METADATA'
2023-08-24T09:07:16,772   adding 'maginator-0.1.17.dist-info/WHEEL'
2023-08-24T09:07:16,774   adding 'maginator-0.1.17.dist-info/entry_points.txt'
2023-08-24T09:07:16,776   adding 'maginator-0.1.17.dist-info/top_level.txt'
2023-08-24T09:07:16,778   adding 'maginator-0.1.17.dist-info/RECORD'
2023-08-24T09:07:17,950   removing build/bdist.linux-armv7l/wheel
2023-08-24T09:07:18,199   Building wheel for maginator (setup.py): finished with status 'done'
2023-08-24T09:07:20,613   Created wheel for maginator: filename=maginator-0.1.17-py3-none-any.whl size=81940339 sha256=c32d9436f952d95cdff5c8d474120637206df09332600e133f13419537cbd806
2023-08-24T09:07:20,615   Stored in directory: /tmp/pip-ephem-wheel-cache-zkfhi4dv/wheels/ae/7b/57/aeae1e210b957d496f18f72ef0e4b92801b5aac04ab8a179f3
2023-08-24T09:07:20,738 Successfully built maginator
2023-08-24T09:07:26,442 Removed build tracker: '/tmp/pip-build-tracker-pkzwo7l8'