2024-05-10T01:02:38,904 Created temporary directory: /tmp/pip-build-tracker-amg84ie1
2024-05-10T01:02:38,905 Initialized build tracking at /tmp/pip-build-tracker-amg84ie1
2024-05-10T01:02:38,906 Created build tracker: /tmp/pip-build-tracker-amg84ie1
2024-05-10T01:02:38,906 Entered build tracker: /tmp/pip-build-tracker-amg84ie1
2024-05-10T01:02:38,907 Created temporary directory: /tmp/pip-wheel-8aj7hvmw
2024-05-10T01:02:38,910 Created temporary directory: /tmp/pip-ephem-wheel-cache-i1jsohyg
2024-05-10T01:02:38,932 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-05-10T01:02:38,936 2 location(s) to search for versions of hydra-rbp:
2024-05-10T01:02:38,936 * https://pypi.org/simple/hydra-rbp/
2024-05-10T01:02:38,936 * https://www.piwheels.org/simple/hydra-rbp/
2024-05-10T01:02:38,937 Fetching project page and analyzing links: https://pypi.org/simple/hydra-rbp/
2024-05-10T01:02:38,937 Getting page https://pypi.org/simple/hydra-rbp/
2024-05-10T01:02:38,939 Found index url https://pypi.org/simple/
2024-05-10T01:02:39,156 Fetched page https://pypi.org/simple/hydra-rbp/ as application/vnd.pypi.simple.v1+json
2024-05-10T01:02:39,160   Found link https://files.pythonhosted.org/packages/c5/09/447109100c21cdb2df7a02685baa6324ffad284da0f14a3cfb6ce4b64972/hydra_rbp-0.1.21.27.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.27
2024-05-10T01:02:39,161   Found link https://files.pythonhosted.org/packages/f3/d2/ff965058796232582106702bd93d72d0bdce3920bd9ae52773bfd8a8db71/hydra_rbp-0.1.21.28.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.28
2024-05-10T01:02:39,162   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/dd/03/db9334056fd0aeda9ecc38c591895e544b6f4530b5003a50dcdb3773bd05/hydra_rbp-0.1.21.29-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,163   Found link https://files.pythonhosted.org/packages/49/44/f12c30956623421691997bd996a83708903dbf9f1a0aef3f06b3b209c780/hydra_rbp-0.1.21.29.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.29
2024-05-10T01:02:39,164   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/2b/eb/56bd5fd43ae21430c6fb8b13146c9f39e742ed414207aaadf1c3657266f3/hydra_rbp-0.1.21.30-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,165   Found link https://files.pythonhosted.org/packages/83/7c/f7f088132d9ff564207a99897d2c0375b7a9663214d221f5a06fccfd32db/hydra_rbp-0.1.21.30.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.30
2024-05-10T01:02:39,165   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/e5/2d/54a09009e4b876ab35dce61dd20d809ec9823b128f6d918b68397d41f075/hydra_rbp-0.1.21.31-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,166   Found link https://files.pythonhosted.org/packages/f7/dc/a9b087b4d2c0d4a9719f850141f5f3bd7d43e54f8494456ee8aaec507a62/hydra_rbp-0.1.21.31.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.31
2024-05-10T01:02:39,167   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/ed/14/bd88a23bf60ddc41af6967b180df6a81ca3a07e61a92caccd61004eb7bec/hydra_rbp-0.1.21.32-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,168   Found link https://files.pythonhosted.org/packages/42/1a/4e011525c4acc37587aaeda8cb1a4a43c18024f828a7f2a944838804fd20/hydra_rbp-0.1.21.32.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.32
2024-05-10T01:02:39,169   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/88/57/b1d2918fe6e9988fdf1bc06b7e5c69a89acd7fde29e0a2c635c8439d774d/hydra_rbp-0.1.21.33-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,170   Found link https://files.pythonhosted.org/packages/bc/87/28d107780077880671add84ac044599769995ea63ddafc2003421a8796de/hydra_rbp-0.1.21.33.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.33
2024-05-10T01:02:39,171   Skipping link: No binaries permitted for hydra-rbp: https://files.pythonhosted.org/packages/b9/ba/31dde9b6a647f4552395ac929d97f173aac1943c6807cbd056260e10028c/hydra_rbp-0.1.21.34-py3-none-any.whl (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,172   Found link https://files.pythonhosted.org/packages/12/84/4e08c0bc35387dfd2176c0136f91f3e4f2f0009606b3985fab1e652a1497/hydra_rbp-0.1.21.34.tar.gz (from https://pypi.org/simple/hydra-rbp/) (requires-python:>=3.6), version: 0.1.21.34
2024-05-10T01:02:39,172 Fetching project page and analyzing links: https://www.piwheels.org/simple/hydra-rbp/
2024-05-10T01:02:39,173 Getting page https://www.piwheels.org/simple/hydra-rbp/
2024-05-10T01:02:39,174 Found index url https://www.piwheels.org/simple/
2024-05-10T01:02:39,480 Fetched page https://www.piwheels.org/simple/hydra-rbp/ as text/html
2024-05-10T01:02:39,483   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.33-py3-none-any.whl#sha256=bb44a445cfe2552b4ee79605c98945b5fd01b3902ae9f65ed3a7c644be59cad3 (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,484   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.32-py3-none-any.whl#sha256=f2c2dd36cbc56568123d1736387532a1e0cb29727a80e19ec147b7b32891ae63 (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,484   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.31-py3-none-any.whl#sha256=176bbf98f3d5e29b7c9a5236b92d239567dab6b746703603818e840e0a7857db (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,485   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.30-py3-none-any.whl#sha256=997fd56e129174ba095b515d6883360d8b23cca3c8c83ddeb33c988e0bcc39c8 (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,486   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.29-py3-none-any.whl#sha256=e1ffbf05d3124e9af44781389df5f63a7ba227f3dcf8c98cbdb55b4eda436c9b (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,486   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.28-py3-none-any.whl#sha256=2dce1c5216cc6dfeb287ba82fc7ecc0f084574aebca3a134b3d2dd9c2c0bd3dc (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,487   Skipping link: No binaries permitted for hydra-rbp: https://www.piwheels.org/simple/hydra-rbp/hydra_rbp-0.1.21.27-py3-none-any.whl#sha256=c9ac5819931db90ef2e745d6179b24dc2bdc396044ae3c6ceaef7dbadbe6a45a (from https://www.piwheels.org/simple/hydra-rbp/) (requires-python:>=3.6)
2024-05-10T01:02:39,488 Skipping link: not a file: https://www.piwheels.org/simple/hydra-rbp/
2024-05-10T01:02:39,488 Skipping link: not a file: https://pypi.org/simple/hydra-rbp/
2024-05-10T01:02:39,508 Given no hashes to check 1 links for project 'hydra-rbp': discarding no candidates
2024-05-10T01:02:39,526 Collecting hydra-rbp==0.1.21.34
2024-05-10T01:02:39,528   Created temporary directory: /tmp/pip-unpack-swm8vktd
2024-05-10T01:02:39,747   Downloading hydra_rbp-0.1.21.34.tar.gz (52.3 MB)
2024-05-10T01:03:00,378   Added hydra-rbp==0.1.21.34 from https://files.pythonhosted.org/packages/12/84/4e08c0bc35387dfd2176c0136f91f3e4f2f0009606b3985fab1e652a1497/hydra_rbp-0.1.21.34.tar.gz to build tracker '/tmp/pip-build-tracker-amg84ie1'
2024-05-10T01:03:00,379   Running setup.py (path:/tmp/pip-wheel-8aj7hvmw/hydra-rbp_7736c1a1c2bf408dbde0659433a1e556/setup.py) egg_info for package hydra-rbp
2024-05-10T01:03:00,380   Created temporary directory: /tmp/pip-pip-egg-info-p7bybhj9
2024-05-10T01:03:00,381   Preparing metadata (setup.py): started
2024-05-10T01:03:00,383   Running command python setup.py egg_info
2024-05-10T01:03:01,148   /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:81: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
2024-05-10T01:03:01,148   !!

2024-05-10T01:03:01,149           ********************************************************************************
2024-05-10T01:03:01,150           Requirements should be satisfied by a PEP 517 installer.
2024-05-10T01:03:01,150           If you are using pip, you can try `pip install --use-pep517`.
2024-05-10T01:03:01,151           ********************************************************************************

2024-05-10T01:03:01,152   !!
2024-05-10T01:03:01,152     dist.fetch_build_eggs(dist.setup_requires)
2024-05-10T01:03:04,116   running egg_info
2024-05-10T01:03:04,117   creating /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info
2024-05-10T01:03:04,144   writing /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/PKG-INFO
2024-05-10T01:03:04,147   writing dependency_links to /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/dependency_links.txt
2024-05-10T01:03:04,149   writing entry points to /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/entry_points.txt
2024-05-10T01:03:04,151   writing requirements to /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/requires.txt
2024-05-10T01:03:04,152   writing top-level names to /tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/top_level.txt
2024-05-10T01:03:04,153   writing manifest file '/tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/SOURCES.txt'
2024-05-10T01:03:04,265   reading manifest file '/tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/SOURCES.txt'
2024-05-10T01:03:04,267   reading manifest template 'MANIFEST.in'
2024-05-10T01:03:04,270   adding license file 'LICENSE'
2024-05-10T01:03:04,275   writing manifest file '/tmp/pip-pip-egg-info-p7bybhj9/hydra_rbp.egg-info/SOURCES.txt'
2024-05-10T01:03:04,393   Preparing metadata (setup.py): finished with status 'done'
2024-05-10T01:03:04,398   Source in /tmp/pip-wheel-8aj7hvmw/hydra-rbp_7736c1a1c2bf408dbde0659433a1e556 has version 0.1.21.34, which satisfies requirement hydra-rbp==0.1.21.34 from https://files.pythonhosted.org/packages/12/84/4e08c0bc35387dfd2176c0136f91f3e4f2f0009606b3985fab1e652a1497/hydra_rbp-0.1.21.34.tar.gz
2024-05-10T01:03:04,399   Removed hydra-rbp==0.1.21.34 from https://files.pythonhosted.org/packages/12/84/4e08c0bc35387dfd2176c0136f91f3e4f2f0009606b3985fab1e652a1497/hydra_rbp-0.1.21.34.tar.gz from build tracker '/tmp/pip-build-tracker-amg84ie1'
2024-05-10T01:03:04,406 Created temporary directory: /tmp/pip-unpack-pki1_ro6
2024-05-10T01:03:04,407 Created temporary directory: /tmp/pip-unpack-dg1uk71b
2024-05-10T01:03:04,422 Building wheels for collected packages: hydra-rbp
2024-05-10T01:03:04,426   Created temporary directory: /tmp/pip-wheel-phcem6d8
2024-05-10T01:03:04,427   Building wheel for hydra-rbp (setup.py): started
2024-05-10T01:03:04,428   Destination directory: /tmp/pip-wheel-phcem6d8
2024-05-10T01:03:04,429   Running command python setup.py bdist_wheel
2024-05-10T01:03:05,162   /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:81: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
2024-05-10T01:03:05,162   !!

2024-05-10T01:03:05,164           ********************************************************************************
2024-05-10T01:03:05,164           Requirements should be satisfied by a PEP 517 installer.
2024-05-10T01:03:05,165           If you are using pip, you can try `pip install --use-pep517`.
2024-05-10T01:03:05,166           ********************************************************************************

2024-05-10T01:03:05,167   !!
2024-05-10T01:03:05,167     dist.fetch_build_eggs(dist.setup_requires)
2024-05-10T01:03:05,683   running bdist_wheel
2024-05-10T01:03:05,791   running build
2024-05-10T01:03:05,792   running build_py
2024-05-10T01:03:05,823   creating build
2024-05-10T01:03:05,824   creating build/lib
2024-05-10T01:03:05,825   creating build/lib/HydRa
2024-05-10T01:03:05,826   copying HydRa/HydRa_predict.py -> build/lib/HydRa
2024-05-10T01:03:05,828   copying HydRa/test_data_load.py -> build/lib/HydRa
2024-05-10T01:03:05,830   copying HydRa/__init__.py -> build/lib/HydRa
2024-05-10T01:03:05,832   copying HydRa/HydRa2_0_predict.py -> build/lib/HydRa
2024-05-10T01:03:05,835   creating build/lib/HydRa/preprocessing
2024-05-10T01:03:05,836   copying HydRa/preprocessing/PPI_feature_generation.py -> build/lib/HydRa/preprocessing
2024-05-10T01:03:05,838   copying HydRa/preprocessing/get_SVM_seq_features.py -> build/lib/HydRa/preprocessing
2024-05-10T01:03:05,840   copying HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/lib/HydRa/preprocessing
2024-05-10T01:03:05,842   copying HydRa/preprocessing/predict_SS.py -> build/lib/HydRa/preprocessing
2024-05-10T01:03:05,844   copying HydRa/preprocessing/__init__.py -> build/lib/HydRa/preprocessing
2024-05-10T01:03:05,846   creating build/lib/HydRa/training
2024-05-10T01:03:05,847   copying HydRa/training/train_and_evaluate_HydRa_bk.py -> build/lib/HydRa/training
2024-05-10T01:03:05,850   copying HydRa/training/train_and_evaluate_HydRa2_0.py -> build/lib/HydRa/training
2024-05-10T01:03:05,853   copying HydRa/training/train_HydRa.py -> build/lib/HydRa/training
2024-05-10T01:03:05,855   copying HydRa/training/train_HydRa2_0.py -> build/lib/HydRa/training
2024-05-10T01:03:05,858   copying HydRa/training/train_and_evaluate_HydRa.py -> build/lib/HydRa/training
2024-05-10T01:03:05,861   copying HydRa/training/__init__.py -> build/lib/HydRa/training
2024-05-10T01:03:05,863   creating build/lib/HydRa/models
2024-05-10T01:03:05,864   copying HydRa/models/Sequence_class.py -> build/lib/HydRa/models
2024-05-10T01:03:05,867   copying HydRa/models/DNN_seq.py -> build/lib/HydRa/models
2024-05-10T01:03:05,871   copying HydRa/models/__init__.py -> build/lib/HydRa/models
2024-05-10T01:03:05,873   creating build/lib/HydRa/evaluation
2024-05-10T01:03:05,874   copying HydRa/evaluation/__init__.py -> build/lib/HydRa/evaluation
2024-05-10T01:03:05,875   copying HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/lib/HydRa/evaluation
2024-05-10T01:03:05,878   creating build/lib/HydRa/predictions
2024-05-10T01:03:05,879   copying HydRa/predictions/Occlusion_1D_analysis_2.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,881   copying HydRa/predictions/Occlusion_map_v2.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,884   copying HydRa/predictions/Occlusion_map.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,887   copying HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,891   copying HydRa/predictions/__init__.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,893   copying HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/lib/HydRa/predictions
2024-05-10T01:03:05,897   creating build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,898   copying HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,900   copying HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,902   copying HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,903   copying HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,906   copying HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,907   copying HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,909   copying HydRa/preprocessing/Feature_generation/__init__.py -> build/lib/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:05,911   creating build/lib/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:05,912   copying HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py -> build/lib/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:05,914   copying HydRa/preprocessing/Feature_selection/__init__.py -> build/lib/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:05,916   running egg_info
2024-05-10T01:03:05,968   writing hydra_rbp.egg-info/PKG-INFO
2024-05-10T01:03:05,971   writing dependency_links to hydra_rbp.egg-info/dependency_links.txt
2024-05-10T01:03:05,973   writing entry points to hydra_rbp.egg-info/entry_points.txt
2024-05-10T01:03:05,974   writing requirements to hydra_rbp.egg-info/requires.txt
2024-05-10T01:03:05,975   writing top-level names to hydra_rbp.egg-info/top_level.txt
2024-05-10T01:03:06,018   reading manifest file 'hydra_rbp.egg-info/SOURCES.txt'
2024-05-10T01:03:06,022   reading manifest template 'MANIFEST.in'
2024-05-10T01:03:06,024   adding license file 'LICENSE'
2024-05-10T01:03:06,029   writing manifest file 'hydra_rbp.egg-info/SOURCES.txt'
2024-05-10T01:03:06,032   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.data' is absent from the `packages` configuration.
2024-05-10T01:03:06,032   !!

2024-05-10T01:03:06,033           ********************************************************************************
2024-05-10T01:03:06,033           ############################
2024-05-10T01:03:06,034           # Package would be ignored #
2024-05-10T01:03:06,034           ############################
2024-05-10T01:03:06,035           Python recognizes 'HydRa.data' as an importable package[^1],
2024-05-10T01:03:06,035           but it is absent from setuptools' `packages` configuration.

2024-05-10T01:03:06,036           This leads to an ambiguous overall configuration. If you want to distribute this
2024-05-10T01:03:06,037           package, please make sure that 'HydRa.data' is explicitly added
2024-05-10T01:03:06,037           to the `packages` configuration field.

2024-05-10T01:03:06,038           Alternatively, you can also rely on setuptools' discovery methods
2024-05-10T01:03:06,039           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-05-10T01:03:06,039           instead of `find_packages(...)`/`find:`).

2024-05-10T01:03:06,040           You can read more about "package discovery" on setuptools documentation page:

2024-05-10T01:03:06,041           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-05-10T01:03:06,042           If you don't want 'HydRa.data' to be distributed and are
2024-05-10T01:03:06,043           already explicitly excluding 'HydRa.data' via
2024-05-10T01:03:06,043           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-05-10T01:03:06,044           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-05-10T01:03:06,045           combination with a more fine grained `package-data` configuration.

2024-05-10T01:03:06,046           You can read more about "package data files" on setuptools documentation page:

2024-05-10T01:03:06,047           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-05-10T01:03:06,048           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-05-10T01:03:06,054                 even if it does not contain any `.py` files.
2024-05-10T01:03:06,060                 On the other hand, currently there is no concept of package data
2024-05-10T01:03:06,066                 directory, all directories are treated like packages.
2024-05-10T01:03:06,067           ********************************************************************************

2024-05-10T01:03:06,068   !!
2024-05-10T01:03:06,068     check.warn(importable)
2024-05-10T01:03:06,069   /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.pre_trained' is absent from the `packages` configuration.
2024-05-10T01:03:06,070   !!

2024-05-10T01:03:06,071           ********************************************************************************
2024-05-10T01:03:06,071           ############################
2024-05-10T01:03:06,072           # Package would be ignored #
2024-05-10T01:03:06,072           ############################
2024-05-10T01:03:06,073           Python recognizes 'HydRa.pre_trained' as an importable package[^1],
2024-05-10T01:03:06,073           but it is absent from setuptools' `packages` configuration.

2024-05-10T01:03:06,074           This leads to an ambiguous overall configuration. If you want to distribute this
2024-05-10T01:03:06,075           package, please make sure that 'HydRa.pre_trained' is explicitly added
2024-05-10T01:03:06,075           to the `packages` configuration field.

2024-05-10T01:03:06,076           Alternatively, you can also rely on setuptools' discovery methods
2024-05-10T01:03:06,077           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2024-05-10T01:03:06,078           instead of `find_packages(...)`/`find:`).

2024-05-10T01:03:06,079           You can read more about "package discovery" on setuptools documentation page:

2024-05-10T01:03:06,081           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2024-05-10T01:03:06,083           If you don't want 'HydRa.pre_trained' to be distributed and are
2024-05-10T01:03:06,083           already explicitly excluding 'HydRa.pre_trained' via
2024-05-10T01:03:06,084           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2024-05-10T01:03:06,085           you can try to use `exclude_package_data`, or `include-package-data=False` in
2024-05-10T01:03:06,086           combination with a more fine grained `package-data` configuration.

2024-05-10T01:03:06,087           You can read more about "package data files" on setuptools documentation page:

2024-05-10T01:03:06,089           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2024-05-10T01:03:06,093           [^1]: For Python, any directory (with suitable naming) can be imported,
2024-05-10T01:03:06,094                 even if it does not contain any `.py` files.
2024-05-10T01:03:06,096                 On the other hand, currently there is no concept of package data
2024-05-10T01:03:06,098                 directory, all directories are treated like packages.
2024-05-10T01:03:06,100           ********************************************************************************

2024-05-10T01:03:06,100   !!
2024-05-10T01:03:06,101     check.warn(importable)
2024-05-10T01:03:06,102   creating build/lib/HydRa/data
2024-05-10T01:03:06,102   copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,103   copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,103   copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls -> build/lib/HydRa/data
2024-05-10T01:03:06,242   copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,274   copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,319   copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,593   copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,691   copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk -> build/lib/HydRa/data
2024-05-10T01:03:06,888   copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,936   copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data
2024-05-10T01:03:06,974   copying HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/lib/HydRa/data
2024-05-10T01:03:06,979   copying HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/lib/HydRa/data
2024-05-10T01:03:06,984   copying HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data
2024-05-10T01:03:06,986   copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl -> build/lib/HydRa/data
2024-05-10T01:03:06,988   copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/lib/HydRa/data
2024-05-10T01:03:06,990   copying HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/lib/HydRa/data
2024-05-10T01:03:07,087   copying HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data
2024-05-10T01:03:07,089   copying HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/lib/HydRa/data
2024-05-10T01:03:07,276   copying HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/lib/HydRa/data
2024-05-10T01:03:07,278   copying HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data
2024-05-10T01:03:07,280   copying HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data
2024-05-10T01:03:07,283   copying HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/lib/HydRa/data
2024-05-10T01:03:08,496   copying HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data
2024-05-10T01:03:08,499   copying HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data
2024-05-10T01:03:08,501   copying HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/lib/HydRa/data
2024-05-10T01:03:08,582   copying HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/lib/HydRa/data
2024-05-10T01:03:08,613   copying HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/lib/HydRa/data
2024-05-10T01:03:08,664   copying HydRa/data/protVec_100d_3grams.csv -> build/lib/HydRa/data
2024-05-10T01:03:08,890   creating build/lib/HydRa/pre_trained
2024-05-10T01:03:08,892   copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:08,922   copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:08,954   copying HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json -> build/lib/HydRa/pre_trained
2024-05-10T01:03:08,957   copying HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,046   copying HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,049   copying HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,139   copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,142   copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,146   copying HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,166   copying HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl -> build/lib/HydRa/pre_trained
2024-05-10T01:03:09,187   copying HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl -> build/lib/HydRa/pre_trained
2024-05-10T01:03:15,455   copying HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl -> build/lib/HydRa/pre_trained
2024-05-10T01:03:16,658   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2024-05-10T01:03:16,658   !!

2024-05-10T01:03:16,660           ********************************************************************************
2024-05-10T01:03:16,660           Please avoid running ``setup.py`` directly.
2024-05-10T01:03:16,661           Instead, use pypa/build, pypa/installer or other
2024-05-10T01:03:16,661           standards-based tools.

2024-05-10T01:03:16,663           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2024-05-10T01:03:16,663           ********************************************************************************

2024-05-10T01:03:16,664   !!
2024-05-10T01:03:16,665     self.initialize_options()
2024-05-10T01:03:16,686   installing to build/bdist.linux-armv7l/wheel
2024-05-10T01:03:16,687   running install
2024-05-10T01:03:16,711   running install_lib
2024-05-10T01:03:16,738   creating build/bdist.linux-armv7l
2024-05-10T01:03:16,738   creating build/bdist.linux-armv7l/wheel
2024-05-10T01:03:16,740   creating build/bdist.linux-armv7l/wheel/HydRa
2024-05-10T01:03:16,741   creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,743   creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,744   copying build/lib/HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,746   copying build/lib/HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,748   copying build/lib/HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,751   copying build/lib/HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,753   copying build/lib/HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,755   copying build/lib/HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,757   copying build/lib/HydRa/preprocessing/Feature_generation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation
2024-05-10T01:03:16,759   copying build/lib/HydRa/preprocessing/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,761   copying build/lib/HydRa/preprocessing/get_SVM_seq_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,763   copying build/lib/HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,765   copying build/lib/HydRa/preprocessing/predict_SS.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,767   creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:16,768   copying build/lib/HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:16,771   copying build/lib/HydRa/preprocessing/Feature_selection/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection
2024-05-10T01:03:16,772   copying build/lib/HydRa/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing
2024-05-10T01:03:16,775   creating build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,775   copying build/lib/HydRa/training/train_and_evaluate_HydRa_bk.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,779   copying build/lib/HydRa/training/train_and_evaluate_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,782   copying build/lib/HydRa/training/train_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,785   copying build/lib/HydRa/training/train_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,788   copying build/lib/HydRa/training/train_and_evaluate_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,791   copying build/lib/HydRa/training/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/training
2024-05-10T01:03:16,794   copying build/lib/HydRa/HydRa_predict.py -> build/bdist.linux-armv7l/wheel/HydRa
2024-05-10T01:03:16,798   creating build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:16,799   copying build/lib/HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:16,999   copying build/lib/HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:17,070   copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:17,100   copying build/lib/HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:17,103   copying build/lib/HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,024   copying build/lib/HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,073   copying build/lib/HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,117   copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,169   copying build/lib/HydRa/data/protVec_100d_3grams.csv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,383   copying build/lib/HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,618   copying build/lib/HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,620   copying build/lib/HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,649   copying build/lib/HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,684   copying build/lib/HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,686   copying build/lib/HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,688   copying build/lib/HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,694   copying build/lib/HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,725   copying build/lib/HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,727   copying build/lib/HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,729   copying build/lib/HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:18,928   copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,065   copying build/lib/HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,068   copying build/lib/HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,077   copying build/lib/HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,117   copying build/lib/HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,203   copying build/lib/HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,205   copying build/lib/HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,206   copying build/lib/HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data
2024-05-10T01:03:19,291   copying build/lib/HydRa/test_data_load.py -> build/bdist.linux-armv7l/wheel/HydRa
2024-05-10T01:03:19,293   creating build/bdist.linux-armv7l/wheel/HydRa/models
2024-05-10T01:03:19,294   copying build/lib/HydRa/models/Sequence_class.py -> build/bdist.linux-armv7l/wheel/HydRa/models
2024-05-10T01:03:19,298   copying build/lib/HydRa/models/DNN_seq.py -> build/bdist.linux-armv7l/wheel/HydRa/models
2024-05-10T01:03:19,301   copying build/lib/HydRa/models/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/models
2024-05-10T01:03:19,303   creating build/bdist.linux-armv7l/wheel/HydRa/evaluation
2024-05-10T01:03:19,304   copying build/lib/HydRa/evaluation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation
2024-05-10T01:03:19,306   copying build/lib/HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation
2024-05-10T01:03:19,308   copying build/lib/HydRa/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa
2024-05-10T01:03:19,310   creating build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,311   copying build/lib/HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,314   copying build/lib/HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,317   copying build/lib/HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,344   copying build/lib/HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,362   copying build/lib/HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,717   copying build/lib/HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:19,720   copying build/lib/HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:21,685   copying build/lib/HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:21,785   copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:21,830   copying build/lib/HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:21,834   copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:21,868   copying build/lib/HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained
2024-05-10T01:03:27,431   creating build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,432   copying build/lib/HydRa/predictions/Occlusion_1D_analysis_2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,434   copying build/lib/HydRa/predictions/Occlusion_map_v2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,438   copying build/lib/HydRa/predictions/Occlusion_map.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,441   copying build/lib/HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,445   copying build/lib/HydRa/predictions/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,447   copying build/lib/HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions
2024-05-10T01:03:27,451   copying build/lib/HydRa/HydRa2_0_predict.py -> build/bdist.linux-armv7l/wheel/HydRa
2024-05-10T01:03:27,454   running install_egg_info
2024-05-10T01:03:27,485   Copying hydra_rbp.egg-info to build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.34-py3.11.egg-info
2024-05-10T01:03:27,499   running install_scripts
2024-05-10T01:03:27,518   creating build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.34.dist-info/WHEEL
2024-05-10T01:03:27,520   creating '/tmp/pip-wheel-phcem6d8/hydra_rbp-0.1.21.34-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2024-05-10T01:03:27,526   adding 'HydRa/HydRa2_0_predict.py'
2024-05-10T01:03:27,530   adding 'HydRa/HydRa_predict.py'
2024-05-10T01:03:27,531   adding 'HydRa/__init__.py'
2024-05-10T01:03:27,533   adding 'HydRa/test_data_load.py'
2024-05-10T01:03:27,918   adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv'
2024-05-10T01:03:28,282   adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv'
2024-05-10T01:03:30,451   adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls'
2024-05-10T01:03:31,008   adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv'
2024-05-10T01:03:31,748   adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv'
2024-05-10T01:03:35,101   adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv'
2024-05-10T01:03:36,281   adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv'
2024-05-10T01:03:39,645   adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk'
2024-05-10T01:03:40,275   adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv'
2024-05-10T01:03:40,848   adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv'
2024-05-10T01:03:40,906   adding 'HydRa/data/Combined10RBPlist_uniprotID_20190716.txt'
2024-05-10T01:03:40,950   adding 'HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt'
2024-05-10T01:03:40,953   adding 'HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl'
2024-05-10T01:03:40,954   adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl'
2024-05-10T01:03:40,956   adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl'
2024-05-10T01:03:42,067   adding 'HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv'
2024-05-10T01:03:42,098   adding 'HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl'
2024-05-10T01:03:43,783   adding 'HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt'
2024-05-10T01:03:43,845   adding 'HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt'
2024-05-10T01:03:43,847   adding 'HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt'
2024-05-10T01:03:43,849   adding 'HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt'
2024-05-10T01:03:47,154   adding 'HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt'
2024-05-10T01:03:47,400   adding 'HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt'
2024-05-10T01:03:47,401   adding 'HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt'
2024-05-10T01:03:48,863   adding 'HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt'
2024-05-10T01:03:49,366   adding 'HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls'
2024-05-10T01:03:49,940   adding 'HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls'
2024-05-10T01:03:52,292   adding 'HydRa/data/protVec_100d_3grams.csv'
2024-05-10T01:03:52,346   adding 'HydRa/evaluation/ROC_PR_AUC_analysis.py'
2024-05-10T01:03:52,347   adding 'HydRa/evaluation/__init__.py'
2024-05-10T01:03:52,352   adding 'HydRa/models/DNN_seq.py'
2024-05-10T01:03:52,355   adding 'HydRa/models/Sequence_class.py'
2024-05-10T01:03:52,357   adding 'HydRa/models/__init__.py'
2024-05-10T01:03:52,585   adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5'
2024-05-10T01:03:52,819   adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5'
2024-05-10T01:03:52,830   adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json'
2024-05-10T01:03:53,438   adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5'
2024-05-10T01:03:53,463   adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json'
2024-05-10T01:03:54,078   adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5'
2024-05-10T01:03:54,150   adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5'
2024-05-10T01:03:54,194   adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5'
2024-05-10T01:03:54,304   adding 'HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl'
2024-05-10T01:03:54,408   adding 'HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl'
2024-05-10T01:04:01,154   adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl'
2024-05-10T01:04:05,500   adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl'
2024-05-10T01:04:05,915   adding 'HydRa/predictions/Occlusion_1D_analysis_2.py'
2024-05-10T01:04:05,920   adding 'HydRa/predictions/Occlusion_map.py'
2024-05-10T01:04:05,927   adding 'HydRa/predictions/Occlusion_map_v2.py'
2024-05-10T01:04:05,935   adding 'HydRa/predictions/Occlusion_map_v2_HydRa2_0.py'
2024-05-10T01:04:05,946   adding 'HydRa/predictions/Occlusion_map_v3_HydRa2_0.py'
2024-05-10T01:04:05,948   adding 'HydRa/predictions/__init__.py'
2024-05-10T01:04:05,952   adding 'HydRa/preprocessing/Get_All_selected_SVM_features.py'
2024-05-10T01:04:05,954   adding 'HydRa/preprocessing/PPI_feature_generation.py'
2024-05-10T01:04:05,955   adding 'HydRa/preprocessing/__init__.py'
2024-05-10T01:04:05,957   adding 'HydRa/preprocessing/get_SVM_seq_features.py'
2024-05-10T01:04:05,959   adding 'HydRa/preprocessing/predict_SS.py'
2024-05-10T01:04:05,961   adding 'HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py'
2024-05-10T01:04:05,963   adding 'HydRa/preprocessing/Feature_generation/PPI_feature_generation.py'
2024-05-10T01:04:05,964   adding 'HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py'
2024-05-10T01:04:05,966   adding 'HydRa/preprocessing/Feature_generation/__init__.py'
2024-05-10T01:04:05,967   adding 'HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py'
2024-05-10T01:04:05,969   adding 'HydRa/preprocessing/Feature_generation/kmer_table_generation.py'
2024-05-10T01:04:05,970   adding 'HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py'
2024-05-10T01:04:05,973   adding 'HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py'
2024-05-10T01:04:05,974   adding 'HydRa/preprocessing/Feature_selection/__init__.py'
2024-05-10T01:04:05,976   adding 'HydRa/training/__init__.py'
2024-05-10T01:04:05,980   adding 'HydRa/training/train_HydRa.py'
2024-05-10T01:04:05,985   adding 'HydRa/training/train_HydRa2_0.py'
2024-05-10T01:04:05,990   adding 'HydRa/training/train_and_evaluate_HydRa.py'
2024-05-10T01:04:05,996   adding 'HydRa/training/train_and_evaluate_HydRa2_0.py'
2024-05-10T01:04:06,001   adding 'HydRa/training/train_and_evaluate_HydRa_bk.py'
2024-05-10T01:04:06,004   adding 'hydra_rbp-0.1.21.34.dist-info/LICENSE'
2024-05-10T01:04:06,007   adding 'hydra_rbp-0.1.21.34.dist-info/METADATA'
2024-05-10T01:04:06,008   adding 'hydra_rbp-0.1.21.34.dist-info/WHEEL'
2024-05-10T01:04:06,009   adding 'hydra_rbp-0.1.21.34.dist-info/entry_points.txt'
2024-05-10T01:04:06,011   adding 'hydra_rbp-0.1.21.34.dist-info/top_level.txt'
2024-05-10T01:04:06,013   adding 'hydra_rbp-0.1.21.34.dist-info/RECORD'
2024-05-10T01:04:06,132   removing build/bdist.linux-armv7l/wheel
2024-05-10T01:04:06,395   Building wheel for hydra-rbp (setup.py): finished with status 'done'
2024-05-10T01:04:08,025   Created wheel for hydra-rbp: filename=hydra_rbp-0.1.21.34-py3-none-any.whl size=53763611 sha256=19acfcf39c71eb20541e352df50ac02af84ab12973dba15bb2dce0b73a86fbc6
2024-05-10T01:04:08,026   Stored in directory: /tmp/pip-ephem-wheel-cache-i1jsohyg/wheels/23/86/af/febc7f65270ac3a57e43706a102e1e323ff7bda211ac563952
2024-05-10T01:04:08,057 Successfully built hydra-rbp
2024-05-10T01:04:10,251 Removed build tracker: '/tmp/pip-build-tracker-amg84ie1'