2024-11-29T06:29:35,023 Created temporary directory: /tmp/pip-build-tracker-afag7tck
2024-11-29T06:29:35,024 Initialized build tracking at /tmp/pip-build-tracker-afag7tck
2024-11-29T06:29:35,024 Created build tracker: /tmp/pip-build-tracker-afag7tck
2024-11-29T06:29:35,025 Entered build tracker: /tmp/pip-build-tracker-afag7tck
2024-11-29T06:29:35,026 Created temporary directory: /tmp/pip-wheel-xg7taayo
2024-11-29T06:29:35,030 Created temporary directory: /tmp/pip-ephem-wheel-cache-3chujt_p
2024-11-29T06:29:35,075 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-11-29T06:29:35,078 2 location(s) to search for versions of isb-miner3:
2024-11-29T06:29:35,078 * https://pypi.org/simple/isb-miner3/
2024-11-29T06:29:35,078 * https://www.piwheels.org/simple/isb-miner3/
2024-11-29T06:29:35,078 Fetching project page and analyzing links: https://pypi.org/simple/isb-miner3/
2024-11-29T06:29:35,079 Getting page https://pypi.org/simple/isb-miner3/
2024-11-29T06:29:35,081 Found index url https://pypi.org/simple/
2024-11-29T06:29:35,346 Fetched page https://pypi.org/simple/isb-miner3/ as application/vnd.pypi.simple.v1+json
2024-11-29T06:29:35,349   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/fc/d2/2c0f85359a956acfd34ede78b02ade01b5baf71414cde8525f99631fdfd5/isb_miner3-1.1.7-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,350   Found link https://files.pythonhosted.org/packages/66/8e/e3717b386457b3c131cbb0473957a075283003c16d31b952fbfe07495ca5/isb_miner3-1.1.7.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.1.7
2024-11-29T06:29:35,351   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/4f/1d/14f1f37e98c2e0c58a4ddae1abc37a289359a606b5bcd027bba303f4bc40/isb_miner3-1.1.8-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,351   Found link https://files.pythonhosted.org/packages/83/21/532c2745a075eb267f58e1a2a660d97e4d119825f59aec481596c277f72b/isb_miner3-1.1.8.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.1.8
2024-11-29T06:29:35,352   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/f0/35/8d730f4589b554ec1867709ae5965597d9063736f7cb372d9d65c5af12f2/isb_miner3-1.1.9-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,353   Found link https://files.pythonhosted.org/packages/85/1f/812f39de5bbf5a3eace02297e71067f6e4b0a072386546e2c777947708bb/isb_miner3-1.1.9.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.1.9
2024-11-29T06:29:35,353   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/0f/0b/5559cfa162a4cf86cbd2a6ffc45b22a2c8a0a55573cb6035b65fea813718/isb_miner3-1.2.0-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,354   Found link https://files.pythonhosted.org/packages/32/47/e5abc991a3dc9df61490a24e1f1186833ca15ff6ae77dd74df892da7a444/isb_miner3-1.2.0.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.2.0
2024-11-29T06:29:35,355   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/45/45/8d7b22e6b011fa7524ca09e0e02e01cac3a42215c1c932b8bcabe0f4f345/isb_miner3-1.2.3-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,356   Found link https://files.pythonhosted.org/packages/09/ab/308f2cb85066df362c7367a91e18d7a7075d25343d5efbe36a90f4ced951/isb_miner3-1.2.3.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.2.3
2024-11-29T06:29:35,356   Skipping link: No binaries permitted for isb-miner3: https://files.pythonhosted.org/packages/7f/99/66ba701edf5fff8f470e2bfe432c09bfc1fc7dcd3028fa82468049665792/isb_miner3-1.2.4-py2.py3-none-any.whl (from https://pypi.org/simple/isb-miner3/)
2024-11-29T06:29:35,357   Found link https://files.pythonhosted.org/packages/38/ea/3b8c30d2a6169a8b5207e71ec84726334aa0b4bb0ef77d86911c63d45bdd/isb_miner3-1.2.4.tar.gz (from https://pypi.org/simple/isb-miner3/), version: 1.2.4
2024-11-29T06:29:35,358 Fetching project page and analyzing links: https://www.piwheels.org/simple/isb-miner3/
2024-11-29T06:29:35,359 Getting page https://www.piwheels.org/simple/isb-miner3/
2024-11-29T06:29:35,360 Found index url https://www.piwheels.org/simple/
2024-11-29T06:29:35,532 Fetched page https://www.piwheels.org/simple/isb-miner3/ as text/html
2024-11-29T06:29:35,535   Skipping link: No binaries permitted for isb-miner3: https://www.piwheels.org/simple/isb-miner3/isb_miner3-1.2.3-py2.py3-none-any.whl#sha256=501e48af5ad5023a87ea8c4e121e41f9443732e7a6779372c4a9a268fd8fc37c (from https://www.piwheels.org/simple/isb-miner3/)
2024-11-29T06:29:35,536   Skipping link: No binaries permitted for isb-miner3: https://www.piwheels.org/simple/isb-miner3/isb_miner3-1.2.0-py2.py3-none-any.whl#sha256=49273f79eacbb4b2b03f58133483a7667d085f744e9f750889c301e7f8f72ecc (from https://www.piwheels.org/simple/isb-miner3/)
2024-11-29T06:29:35,536   Skipping link: No binaries permitted for isb-miner3: https://www.piwheels.org/simple/isb-miner3/isb_miner3-1.1.9-py2.py3-none-any.whl#sha256=bb90d39bd00b29b3fa8f6eba96684cb7cc9adfc8f9291818db10b6c591b163b3 (from https://www.piwheels.org/simple/isb-miner3/)
2024-11-29T06:29:35,537   Skipping link: No binaries permitted for isb-miner3: https://www.piwheels.org/simple/isb-miner3/isb_miner3-1.1.8-py2.py3-none-any.whl#sha256=57a3dac4be4867d7f4d2ddf49e1f65c5156bea78768d6d9bb84c92c457c68185 (from https://www.piwheels.org/simple/isb-miner3/)
2024-11-29T06:29:35,537   Skipping link: No binaries permitted for isb-miner3: https://www.piwheels.org/simple/isb-miner3/isb_miner3-1.1.7-py2.py3-none-any.whl#sha256=2357f7fc658c9b30c987c6a6c1450f000deb907d355c7b04dd989733af6799ef (from https://www.piwheels.org/simple/isb-miner3/)
2024-11-29T06:29:35,538 Skipping link: not a file: https://www.piwheels.org/simple/isb-miner3/
2024-11-29T06:29:35,538 Skipping link: not a file: https://pypi.org/simple/isb-miner3/
2024-11-29T06:29:35,556 Given no hashes to check 1 links for project 'isb-miner3': discarding no candidates
2024-11-29T06:29:35,558 Collecting isb-miner3==1.2.4
2024-11-29T06:29:35,561   Created temporary directory: /tmp/pip-unpack-s5zjltof
2024-11-29T06:29:35,699   Downloading isb_miner3-1.2.4.tar.gz (47.6 MB)
2024-11-29T06:29:48,493   Added isb-miner3==1.2.4 from https://files.pythonhosted.org/packages/38/ea/3b8c30d2a6169a8b5207e71ec84726334aa0b4bb0ef77d86911c63d45bdd/isb_miner3-1.2.4.tar.gz to build tracker '/tmp/pip-build-tracker-afag7tck'
2024-11-29T06:29:48,496   Running setup.py (path:/tmp/pip-wheel-xg7taayo/isb-miner3_9137619c4a6f4a24ad09f2c2a83aba95/setup.py) egg_info for package isb-miner3
2024-11-29T06:29:48,497   Created temporary directory: /tmp/pip-pip-egg-info-2yb9za8u
2024-11-29T06:29:48,498   Preparing metadata (setup.py): started
2024-11-29T06:29:48,499   Running command python setup.py egg_info
2024-11-29T06:29:49,581   running egg_info
2024-11-29T06:29:49,609   creating /tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info
2024-11-29T06:29:49,610   writing /tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/PKG-INFO
2024-11-29T06:29:49,614   writing dependency_links to /tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/dependency_links.txt
2024-11-29T06:29:49,616   writing requirements to /tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/requires.txt
2024-11-29T06:29:49,617   writing top-level names to /tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/top_level.txt
2024-11-29T06:29:49,618   writing manifest file '/tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/SOURCES.txt'
2024-11-29T06:29:49,740   reading manifest file '/tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/SOURCES.txt'
2024-11-29T06:29:49,741   adding license file 'LICENSE'
2024-11-29T06:29:49,745   writing manifest file '/tmp/pip-pip-egg-info-2yb9za8u/isb_miner3.egg-info/SOURCES.txt'
2024-11-29T06:29:49,852   Preparing metadata (setup.py): finished with status 'done'
2024-11-29T06:29:49,857   Source in /tmp/pip-wheel-xg7taayo/isb-miner3_9137619c4a6f4a24ad09f2c2a83aba95 has version 1.2.4, which satisfies requirement isb-miner3==1.2.4 from https://files.pythonhosted.org/packages/38/ea/3b8c30d2a6169a8b5207e71ec84726334aa0b4bb0ef77d86911c63d45bdd/isb_miner3-1.2.4.tar.gz
2024-11-29T06:29:49,858   Removed isb-miner3==1.2.4 from https://files.pythonhosted.org/packages/38/ea/3b8c30d2a6169a8b5207e71ec84726334aa0b4bb0ef77d86911c63d45bdd/isb_miner3-1.2.4.tar.gz from build tracker '/tmp/pip-build-tracker-afag7tck'
2024-11-29T06:29:49,866 Created temporary directory: /tmp/pip-unpack-8arah3ux
2024-11-29T06:29:49,867 Created temporary directory: /tmp/pip-unpack-ezf0k43m
2024-11-29T06:29:49,867 Building wheels for collected packages: isb-miner3
2024-11-29T06:29:49,871   Created temporary directory: /tmp/pip-wheel-rec8o57f
2024-11-29T06:29:49,872   Building wheel for isb-miner3 (setup.py): started
2024-11-29T06:29:49,873   Destination directory: /tmp/pip-wheel-rec8o57f
2024-11-29T06:29:49,874   Running command python setup.py bdist_wheel
2024-11-29T06:29:50,890   running bdist_wheel
2024-11-29T06:29:50,969   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:111: SetuptoolsDeprecationWarning: bdist_wheel.universal is deprecated
2024-11-29T06:29:50,970   !!

2024-11-29T06:29:50,971           ********************************************************************************
2024-11-29T06:29:50,972           With Python 2.7 end-of-life, support for building universal wheels
2024-11-29T06:29:50,972           (i.e., wheels that support both Python 2 and Python 3)
2024-11-29T06:29:50,973           is being obviated.
2024-11-29T06:29:50,973           Please discontinue using this option, or if you still need it,
2024-11-29T06:29:50,974           file an issue with pypa/setuptools describing your use case.

2024-11-29T06:29:50,975           By 2025-Aug-30, you need to update your project and remove deprecated calls
2024-11-29T06:29:50,975           or your builds will no longer be supported.
2024-11-29T06:29:50,976           ********************************************************************************

2024-11-29T06:29:50,977   !!
2024-11-29T06:29:50,978     self.finalize_options()
2024-11-29T06:29:51,025   running build
2024-11-29T06:29:51,025   running build_py
2024-11-29T06:29:51,055   creating build/lib/miner
2024-11-29T06:29:51,060   copying miner/util.py -> build/lib/miner
2024-11-29T06:29:51,062   copying miner/bcmembers.py -> build/lib/miner
2024-11-29T06:29:51,064   copying miner/subtypes.py -> build/lib/miner
2024-11-29T06:29:51,068   copying miner/validation.py -> build/lib/miner
2024-11-29T06:29:51,073   copying miner/progressbar.py -> build/lib/miner
2024-11-29T06:29:51,077   copying miner/miner_working_frequency_matrix.py -> build/lib/miner
2024-11-29T06:29:51,086   copying miner/__init__.py -> build/lib/miner
2024-11-29T06:29:51,088   copying miner/causal_inference.py -> build/lib/miner
2024-11-29T06:29:51,093   copying miner/mechinf.py -> build/lib/miner
2024-11-29T06:29:51,096   copying miner/coexpression.py -> build/lib/miner
2024-11-29T06:29:51,098   copying miner/opentargets.py -> build/lib/miner
2024-11-29T06:29:51,100   copying miner/miner.py -> build/lib/miner
2024-11-29T06:29:51,105   running egg_info
2024-11-29T06:29:51,136   writing isb_miner3.egg-info/PKG-INFO
2024-11-29T06:29:51,140   writing dependency_links to isb_miner3.egg-info/dependency_links.txt
2024-11-29T06:29:51,142   writing requirements to isb_miner3.egg-info/requires.txt
2024-11-29T06:29:51,143   writing top-level names to isb_miner3.egg-info/top_level.txt
2024-11-29T06:29:51,177   reading manifest file 'isb_miner3.egg-info/SOURCES.txt'
2024-11-29T06:29:51,182   adding license file 'LICENSE'
2024-11-29T06:29:51,187   writing manifest file 'isb_miner3.egg-info/SOURCES.txt'
2024-11-29T06:29:51,189   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'miner.data' is absent from the `packages` configuration.
2024-11-29T06:29:51,190   !!

2024-11-29T06:29:51,191           ********************************************************************************
2024-11-29T06:29:51,191           ############################
2024-11-29T06:29:51,192           # Package would be ignored #
2024-11-29T06:29:51,193           ############################
2024-11-29T06:29:51,193           Python recognizes 'miner.data' as an importable package[^1],
2024-11-29T06:29:51,193           but it is absent from setuptools' `packages` configuration.

2024-11-29T06:29:51,194           This leads to an ambiguous overall configuration. If you want to distribute this
2024-11-29T06:29:51,195           package, please make sure that 'miner.data' is explicitly added
2024-11-29T06:29:51,195           to the `packages` configuration field.

2024-11-29T06:29:51,196           Alternatively, you can also rely on setuptools' discovery methods
2024-11-29T06:29:51,196           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-11-29T06:29:51,197           instead of `find_packages(...)`/`find:`).

2024-11-29T06:29:51,198           You can read more about "package discovery" on setuptools documentation page:

2024-11-29T06:29:51,199           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-11-29T06:29:51,202           If you don't want 'miner.data' to be distributed and are
2024-11-29T06:29:51,203           already explicitly excluding 'miner.data' via
2024-11-29T06:29:51,203           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-11-29T06:29:51,204           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-11-29T06:29:51,204           combination with a more fine grained `package-data` configuration.

2024-11-29T06:29:51,206           You can read more about "package data files" on setuptools documentation page:

2024-11-29T06:29:51,207           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-11-29T06:29:51,208           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-11-29T06:29:51,209                 even if it does not contain any `.py` files.
2024-11-29T06:29:51,210                 On the other hand, currently there is no concept of package data
2024-11-29T06:29:51,210                 directory, all directories are treated like packages.
2024-11-29T06:29:51,211           ********************************************************************************

2024-11-29T06:29:51,212   !!
2024-11-29T06:29:51,213     check.warn(importable)
2024-11-29T06:29:51,214   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'miner.data.network_dictionaries' is absent from the `packages` configuration.
2024-11-29T06:29:51,215   !!

2024-11-29T06:29:51,216           ********************************************************************************
2024-11-29T06:29:51,217           ############################
2024-11-29T06:29:51,217           # Package would be ignored #
2024-11-29T06:29:51,218           ############################
2024-11-29T06:29:51,219           Python recognizes 'miner.data.network_dictionaries' as an importable package[^1],
2024-11-29T06:29:51,219           but it is absent from setuptools' `packages` configuration.

2024-11-29T06:29:51,220           This leads to an ambiguous overall configuration. If you want to distribute this
2024-11-29T06:29:51,221           package, please make sure that 'miner.data.network_dictionaries' is explicitly added
2024-11-29T06:29:51,222           to the `packages` configuration field.

2024-11-29T06:29:51,223           Alternatively, you can also rely on setuptools' discovery methods
2024-11-29T06:29:51,223           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-11-29T06:29:51,224           instead of `find_packages(...)`/`find:`).

2024-11-29T06:29:51,225           You can read more about "package discovery" on setuptools documentation page:

2024-11-29T06:29:51,227           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-11-29T06:29:51,228           If you don't want 'miner.data.network_dictionaries' to be distributed and are
2024-11-29T06:29:51,229           already explicitly excluding 'miner.data.network_dictionaries' via
2024-11-29T06:29:51,229           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-11-29T06:29:51,230           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-11-29T06:29:51,231           combination with a more fine grained `package-data` configuration.

2024-11-29T06:29:51,232           You can read more about "package data files" on setuptools documentation page:

2024-11-29T06:29:51,233           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-11-29T06:29:51,234           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-11-29T06:29:51,234                 even if it does not contain any `.py` files.
2024-11-29T06:29:51,235                 On the other hand, currently there is no concept of package data
2024-11-29T06:29:51,235                 directory, all directories are treated like packages.
2024-11-29T06:29:51,236           ********************************************************************************

2024-11-29T06:29:51,237   !!
2024-11-29T06:29:51,237     check.warn(importable)
2024-11-29T06:29:51,238   creating build/lib/miner/data
2024-11-29T06:29:51,238   copying miner/data/all_tfs_to_motifs.pkl -> build/lib/miner/data
2024-11-29T06:29:51,239   copying miner/data/epigenes.txt -> build/lib/miner/data
2024-11-29T06:29:51,239   copying miner/data/identifier_mappings.txt -> build/lib/miner/data
2024-11-29T06:29:51,400   creating build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,402   copying miner/data/network_dictionaries/GO_bio.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,480   copying miner/data/network_dictionaries/GO_bio_reciprocal.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,512   copying miner/data/network_dictionaries/chea_reciprocal.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,565   copying miner/data/network_dictionaries/chea_seq.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,624   copying miner/data/network_dictionaries/hallmarks.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,626   copying miner/data/network_dictionaries/hallmarks_reciprocal.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,628   copying miner/data/network_dictionaries/mirna.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,673   copying miner/data/network_dictionaries/mirna_reciprocal.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,681   copying miner/data/network_dictionaries/motif_to_primary_tf.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,686   copying miner/data/network_dictionaries/pathways.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,699   copying miner/data/network_dictionaries/pathways_reciprocal.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,713   copying miner/data/network_dictionaries/primary_tf_to_motif.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,718   copying miner/data/network_dictionaries/protein_interactions.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:51,733   copying miner/data/network_dictionaries/reciprocal_tfbsdb_ensembl.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:52,075   copying miner/data/network_dictionaries/tf2genes1.json -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:52,889   copying miner/data/network_dictionaries/tf2genes2.json -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:54,605   copying miner/data/network_dictionaries/tf2genes_jsonified.zip -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:54,772   copying miner/data/network_dictionaries/tfbsdb2_all_tfs_to_motifs.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:54,778   copying miner/data/network_dictionaries/tfbsdb2_genes_to_tf.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:54,910   copying miner/data/network_dictionaries/tfbsdb2_tf_to_genes.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:55,048   copying miner/data/network_dictionaries/tfbsdb_genes_to_tf.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:55,274   copying miner/data/network_dictionaries/tfbsdb_tf_to_genes.pkl -> build/lib/miner/data/network_dictionaries
2024-11-29T06:29:55,515   running build_scripts
2024-11-29T06:29:55,516   creating build/scripts-3.11
2024-11-29T06:29:55,518   copying and adjusting bin/miner3-coexpr -> build/scripts-3.11
2024-11-29T06:29:55,520   copying and adjusting bin/miner3-mechinf -> build/scripts-3.11
2024-11-29T06:29:55,522   copying and adjusting bin/miner3-subtypes -> build/scripts-3.11
2024-11-29T06:29:55,525   copying and adjusting bin/miner3-survival -> build/scripts-3.11
2024-11-29T06:29:55,529   copying and adjusting bin/miner3-causalinference -> build/scripts-3.11
2024-11-29T06:29:55,534   copying and adjusting bin/miner3-riskpredict -> build/scripts-3.11
2024-11-29T06:29:55,539   copying and adjusting bin/gene2opentargets -> build/scripts-3.11
2024-11-29T06:29:55,542   copying and adjusting bin/drug2opentargets -> build/scripts-3.11
2024-11-29T06:29:55,544   changing mode of build/scripts-3.11/miner3-coexpr from 644 to 755
2024-11-29T06:29:55,545   changing mode of build/scripts-3.11/miner3-mechinf from 644 to 755
2024-11-29T06:29:55,545   changing mode of build/scripts-3.11/miner3-subtypes from 644 to 755
2024-11-29T06:29:55,546   changing mode of build/scripts-3.11/miner3-survival from 644 to 755
2024-11-29T06:29:55,547   changing mode of build/scripts-3.11/miner3-causalinference from 644 to 755
2024-11-29T06:29:55,548   changing mode of build/scripts-3.11/miner3-riskpredict from 644 to 755
2024-11-29T06:29:55,548   changing mode of build/scripts-3.11/gene2opentargets from 644 to 755
2024-11-29T06:29:55,549   changing mode of build/scripts-3.11/drug2opentargets from 644 to 755
2024-11-29T06:29:55,579   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2024-11-29T06:29:55,579   !!

2024-11-29T06:29:55,581           ********************************************************************************
2024-11-29T06:29:55,581           Please avoid running ``setup.py`` directly.
2024-11-29T06:29:55,582           Instead, use pypa/build, pypa/installer or other
2024-11-29T06:29:55,582           standards-based tools.

2024-11-29T06:29:55,584           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2024-11-29T06:29:55,584           ********************************************************************************

2024-11-29T06:29:55,585   !!
2024-11-29T06:29:55,586     self.initialize_options()
2024-11-29T06:29:55,608   installing to build/bdist.linux-armv7l/wheel
2024-11-29T06:29:55,609   running install
2024-11-29T06:29:55,633   running install_lib
2024-11-29T06:29:55,662   creating build/bdist.linux-armv7l/wheel
2024-11-29T06:29:55,665   creating build/bdist.linux-armv7l/wheel/miner
2024-11-29T06:29:55,667   creating build/bdist.linux-armv7l/wheel/miner/data
2024-11-29T06:29:55,668   copying build/lib/miner/data/identifier_mappings.txt -> build/bdist.linux-armv7l/wheel/./miner/data
2024-11-29T06:29:55,913   creating build/bdist.linux-armv7l/wheel/miner/data/network_dictionaries
2024-11-29T06:29:55,914   copying build/lib/miner/data/network_dictionaries/mirna_reciprocal.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:55,923   copying build/lib/miner/data/network_dictionaries/tf2genes_jsonified.zip -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,096   copying build/lib/miner/data/network_dictionaries/tfbsdb2_all_tfs_to_motifs.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,101   copying build/lib/miner/data/network_dictionaries/motif_to_primary_tf.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,105   copying build/lib/miner/data/network_dictionaries/pathways.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,118   copying build/lib/miner/data/network_dictionaries/tf2genes2.json -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,432   copying build/lib/miner/data/network_dictionaries/protein_interactions.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,447   copying build/lib/miner/data/network_dictionaries/GO_bio.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,542   copying build/lib/miner/data/network_dictionaries/pathways_reciprocal.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,565   copying build/lib/miner/data/network_dictionaries/tfbsdb2_tf_to_genes.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,710   copying build/lib/miner/data/network_dictionaries/tfbsdb_tf_to_genes.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:56,991   copying build/lib/miner/data/network_dictionaries/tfbsdb_genes_to_tf.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,193   copying build/lib/miner/data/network_dictionaries/chea_reciprocal.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,241   copying build/lib/miner/data/network_dictionaries/GO_bio_reciprocal.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,273   copying build/lib/miner/data/network_dictionaries/tf2genes1.json -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,888   copying build/lib/miner/data/network_dictionaries/primary_tf_to_motif.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,891   copying build/lib/miner/data/network_dictionaries/hallmarks_reciprocal.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:57,893   copying build/lib/miner/data/network_dictionaries/reciprocal_tfbsdb_ensembl.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:58,242   copying build/lib/miner/data/network_dictionaries/tfbsdb2_genes_to_tf.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:59,190   copying build/lib/miner/data/network_dictionaries/chea_seq.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:59,311   copying build/lib/miner/data/network_dictionaries/hallmarks.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:59,315   copying build/lib/miner/data/network_dictionaries/mirna.pkl -> build/bdist.linux-armv7l/wheel/./miner/data/network_dictionaries
2024-11-29T06:29:59,327   copying build/lib/miner/data/all_tfs_to_motifs.pkl -> build/bdist.linux-armv7l/wheel/./miner/data
2024-11-29T06:29:59,339   copying build/lib/miner/data/epigenes.txt -> build/bdist.linux-armv7l/wheel/./miner/data
2024-11-29T06:29:59,343   copying build/lib/miner/util.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,345   copying build/lib/miner/bcmembers.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,349   copying build/lib/miner/subtypes.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,353   copying build/lib/miner/validation.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,358   copying build/lib/miner/progressbar.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,360   copying build/lib/miner/miner_working_frequency_matrix.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,377   copying build/lib/miner/__init__.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,380   copying build/lib/miner/causal_inference.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,391   copying build/lib/miner/mechinf.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,394   copying build/lib/miner/coexpression.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,398   copying build/lib/miner/opentargets.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,402   copying build/lib/miner/miner.py -> build/bdist.linux-armv7l/wheel/./miner
2024-11-29T06:29:59,419   running install_egg_info
2024-11-29T06:29:59,464   Copying isb_miner3.egg-info to build/bdist.linux-armv7l/wheel/./isb_miner3-1.2.4-py3.11.egg-info
2024-11-29T06:29:59,479   running install_scripts
2024-11-29T06:29:59,481   creating build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,484   copying build/scripts-3.11/miner3-coexpr -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,487   copying build/scripts-3.11/gene2opentargets -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,490   copying build/scripts-3.11/miner3-causalinference -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,493   copying build/scripts-3.11/miner3-mechinf -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,497   copying build/scripts-3.11/miner3-riskpredict -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,500   copying build/scripts-3.11/miner3-survival -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,504   copying build/scripts-3.11/drug2opentargets -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,507   copying build/scripts-3.11/miner3-subtypes -> build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts
2024-11-29T06:29:59,510   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-coexpr to 755
2024-11-29T06:29:59,511   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/gene2opentargets to 755
2024-11-29T06:29:59,511   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-causalinference to 755
2024-11-29T06:29:59,512   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-mechinf to 755
2024-11-29T06:29:59,513   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-riskpredict to 755
2024-11-29T06:29:59,514   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-survival to 755
2024-11-29T06:29:59,515   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/drug2opentargets to 755
2024-11-29T06:29:59,516   changing mode of build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.data/scripts/miner3-subtypes to 755
2024-11-29T06:29:59,539   creating build/bdist.linux-armv7l/wheel/isb_miner3-1.2.4.dist-info/WHEEL
2024-11-29T06:29:59,543   creating '/tmp/pip-wheel-rec8o57f/isb_miner3-1.2.4-py2.py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2024-11-29T06:29:59,547   adding 'isb_miner3-1.2.4.data/scripts/drug2opentargets'
2024-11-29T06:29:59,549   adding 'isb_miner3-1.2.4.data/scripts/gene2opentargets'
2024-11-29T06:29:59,551   adding 'isb_miner3-1.2.4.data/scripts/miner3-causalinference'
2024-11-29T06:29:59,553   adding 'isb_miner3-1.2.4.data/scripts/miner3-coexpr'
2024-11-29T06:29:59,555   adding 'isb_miner3-1.2.4.data/scripts/miner3-mechinf'
2024-11-29T06:29:59,557   adding 'isb_miner3-1.2.4.data/scripts/miner3-riskpredict'
2024-11-29T06:29:59,559   adding 'isb_miner3-1.2.4.data/scripts/miner3-subtypes'
2024-11-29T06:29:59,562   adding 'isb_miner3-1.2.4.data/scripts/miner3-survival'
2024-11-29T06:29:59,566   adding 'miner/__init__.py'
2024-11-29T06:29:59,568   adding 'miner/bcmembers.py'
2024-11-29T06:29:59,572   adding 'miner/causal_inference.py'
2024-11-29T06:29:59,574   adding 'miner/coexpression.py'
2024-11-29T06:29:59,577   adding 'miner/mechinf.py'
2024-11-29T06:29:59,602   adding 'miner/miner.py'
2024-11-29T06:29:59,632   adding 'miner/miner_working_frequency_matrix.py'
2024-11-29T06:29:59,637   adding 'miner/opentargets.py'
2024-11-29T06:29:59,639   adding 'miner/progressbar.py'
2024-11-29T06:29:59,641   adding 'miner/subtypes.py'
2024-11-29T06:29:59,643   adding 'miner/util.py'
2024-11-29T06:29:59,647   adding 'miner/validation.py'
2024-11-29T06:29:59,708   adding 'miner/data/all_tfs_to_motifs.pkl'
2024-11-29T06:29:59,713   adding 'miner/data/epigenes.txt'
2024-11-29T06:30:00,653   adding 'miner/data/identifier_mappings.txt'
2024-11-29T06:30:01,483   adding 'miner/data/network_dictionaries/GO_bio.pkl'
2024-11-29T06:30:01,944   adding 'miner/data/network_dictionaries/GO_bio_reciprocal.pkl'
2024-11-29T06:30:02,474   adding 'miner/data/network_dictionaries/chea_reciprocal.pkl'
2024-11-29T06:30:03,264   adding 'miner/data/network_dictionaries/chea_seq.pkl'
2024-11-29T06:30:03,285   adding 'miner/data/network_dictionaries/hallmarks.pkl'
2024-11-29T06:30:03,287   adding 'miner/data/network_dictionaries/hallmarks_reciprocal.pkl'
2024-11-29T06:30:03,366   adding 'miner/data/network_dictionaries/mirna.pkl'
2024-11-29T06:30:03,457   adding 'miner/data/network_dictionaries/mirna_reciprocal.pkl'
2024-11-29T06:30:03,482   adding 'miner/data/network_dictionaries/motif_to_primary_tf.pkl'
2024-11-29T06:30:03,653   adding 'miner/data/network_dictionaries/pathways.pkl'
2024-11-29T06:30:03,819   adding 'miner/data/network_dictionaries/pathways_reciprocal.pkl'
2024-11-29T06:30:03,842   adding 'miner/data/network_dictionaries/primary_tf_to_motif.pkl'
2024-11-29T06:30:04,045   adding 'miner/data/network_dictionaries/protein_interactions.pkl'
2024-11-29T06:30:10,734   adding 'miner/data/network_dictionaries/reciprocal_tfbsdb_ensembl.pkl'
2024-11-29T06:30:14,343   adding 'miner/data/network_dictionaries/tf2genes1.json'
2024-11-29T06:30:16,364   adding 'miner/data/network_dictionaries/tf2genes2.json'
2024-11-29T06:30:17,719   adding 'miner/data/network_dictionaries/tf2genes_jsonified.zip'
2024-11-29T06:30:17,826   adding 'miner/data/network_dictionaries/tfbsdb2_all_tfs_to_motifs.pkl'
2024-11-29T06:30:19,764   adding 'miner/data/network_dictionaries/tfbsdb2_genes_to_tf.pkl'
2024-11-29T06:30:21,984   adding 'miner/data/network_dictionaries/tfbsdb2_tf_to_genes.pkl'
2024-11-29T06:30:24,528   adding 'miner/data/network_dictionaries/tfbsdb_genes_to_tf.pkl'
2024-11-29T06:30:28,717   adding 'miner/data/network_dictionaries/tfbsdb_tf_to_genes.pkl'
2024-11-29T06:30:28,845   adding 'isb_miner3-1.2.4.dist-info/LICENSE'
2024-11-29T06:30:28,846   adding 'isb_miner3-1.2.4.dist-info/METADATA'
2024-11-29T06:30:28,848   adding 'isb_miner3-1.2.4.dist-info/WHEEL'
2024-11-29T06:30:28,849   adding 'isb_miner3-1.2.4.dist-info/top_level.txt'
2024-11-29T06:30:28,851   adding 'isb_miner3-1.2.4.dist-info/RECORD'
2024-11-29T06:30:30,816   removing build/bdist.linux-armv7l/wheel
2024-11-29T06:30:31,069   Building wheel for isb-miner3 (setup.py): finished with status 'done'
2024-11-29T06:30:31,557   Created wheel for isb-miner3: filename=isb_miner3-1.2.4-py2.py3-none-any.whl size=49387816 sha256=8fac40ebdab70d8796f9a03d1dfa91dbffeecac509405d1361edc68c771d8ce8
2024-11-29T06:30:31,558   Stored in directory: /tmp/pip-ephem-wheel-cache-3chujt_p/wheels/1b/06/8d/e2e4cae55e4c94430ed89369b12fb28c03b899052ddcab2b1d
2024-11-29T06:30:31,587 Successfully built isb-miner3
2024-11-29T06:30:32,831 Removed build tracker: '/tmp/pip-build-tracker-afag7tck'