2023-12-15T04:56:26,730 Created temporary directory: /tmp/pip-build-tracker-1x1d6qji 2023-12-15T04:56:26,731 Initialized build tracking at /tmp/pip-build-tracker-1x1d6qji 2023-12-15T04:56:26,732 Created build tracker: /tmp/pip-build-tracker-1x1d6qji 2023-12-15T04:56:26,732 Entered build tracker: /tmp/pip-build-tracker-1x1d6qji 2023-12-15T04:56:26,733 Created temporary directory: /tmp/pip-wheel-lvwbt34g 2023-12-15T04:56:26,736 Created temporary directory: /tmp/pip-ephem-wheel-cache-xpbmejsf 2023-12-15T04:56:26,758 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-12-15T04:56:26,762 2 location(s) to search for versions of hydra-rbp: 2023-12-15T04:56:26,762 * https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:56:26,762 * https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:56:26,763 Fetching project page and analyzing links: https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:56:26,763 Getting page https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:56:26,765 Found index url https://pypi.org/simple/ 2023-12-15T04:56:26,897 Fetched page https://pypi.org/simple/hydra-rbp/ as application/vnd.pypi.simple.v1+json 2023-12-15T04:56:26,899 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 2023-12-15T04:56:26,900 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 2023-12-15T04:56:26,901 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) 2023-12-15T04:56:26,902 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 2023-12-15T04:56:26,902 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) 2023-12-15T04:56:26,903 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 2023-12-15T04:56:26,904 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) 2023-12-15T04:56:26,905 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 2023-12-15T04:56:26,906 Fetching project page and analyzing links: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:56:26,907 Getting page https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:56:26,908 Found index url https://www.piwheels.org/simple/ 2023-12-15T04:56:27,064 Fetched page https://www.piwheels.org/simple/hydra-rbp/ as text/html 2023-12-15T04:56:27,066 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) 2023-12-15T04:56:27,067 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) 2023-12-15T04:56:27,067 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) 2023-12-15T04:56:27,068 Skipping link: not a file: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:56:27,069 Skipping link: not a file: https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:56:27,087 Given no hashes to check 1 links for project 'hydra-rbp': discarding no candidates 2023-12-15T04:56:27,105 Collecting hydra-rbp==0.1.21.31 2023-12-15T04:56:27,107 Created temporary directory: /tmp/pip-unpack-t5tbct6o 2023-12-15T04:56:27,320 Downloading hydra_rbp-0.1.21.31.tar.gz (52.4 MB) 2023-12-15T04:56:49,187 Added hydra-rbp==0.1.21.31 from https://files.pythonhosted.org/packages/f7/dc/a9b087b4d2c0d4a9719f850141f5f3bd7d43e54f8494456ee8aaec507a62/hydra_rbp-0.1.21.31.tar.gz to build tracker '/tmp/pip-build-tracker-1x1d6qji' 2023-12-15T04:56:49,189 Running setup.py (path:/tmp/pip-wheel-lvwbt34g/hydra-rbp_8661b440a6fb40aaac4a05d327a39f32/setup.py) egg_info for package hydra-rbp 2023-12-15T04:56:49,190 Created temporary directory: /tmp/pip-pip-egg-info-i1dn422i 2023-12-15T04:56:49,191 Preparing metadata (setup.py): started 2023-12-15T04:56:49,192 Running command python setup.py egg_info 2023-12-15T04:56:49,990 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-15T04:56:49,990 !! 2023-12-15T04:56:49,991 ******************************************************************************** 2023-12-15T04:56:49,992 Requirements should be satisfied by a PEP 517 installer. 2023-12-15T04:56:49,992 If you are using pip, you can try `pip install --use-pep517`. 2023-12-15T04:56:49,993 ******************************************************************************** 2023-12-15T04:56:49,994 !! 2023-12-15T04:56:49,994 dist.fetch_build_eggs(dist.setup_requires) 2023-12-15T04:56:52,804 running egg_info 2023-12-15T04:56:52,805 creating /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info 2023-12-15T04:56:52,832 writing /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/PKG-INFO 2023-12-15T04:56:52,836 writing dependency_links to /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/dependency_links.txt 2023-12-15T04:56:52,838 writing entry points to /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/entry_points.txt 2023-12-15T04:56:52,839 writing requirements to /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/requires.txt 2023-12-15T04:56:52,840 writing top-level names to /tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/top_level.txt 2023-12-15T04:56:52,842 writing manifest file '/tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:52,953 reading manifest file '/tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:52,954 reading manifest template 'MANIFEST.in' 2023-12-15T04:56:52,958 adding license file 'LICENSE' 2023-12-15T04:56:52,963 writing manifest file '/tmp/pip-pip-egg-info-i1dn422i/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:53,073 Preparing metadata (setup.py): finished with status 'done' 2023-12-15T04:56:53,078 Source in /tmp/pip-wheel-lvwbt34g/hydra-rbp_8661b440a6fb40aaac4a05d327a39f32 has version 0.1.21.31, which satisfies requirement hydra-rbp==0.1.21.31 from https://files.pythonhosted.org/packages/f7/dc/a9b087b4d2c0d4a9719f850141f5f3bd7d43e54f8494456ee8aaec507a62/hydra_rbp-0.1.21.31.tar.gz 2023-12-15T04:56:53,079 Removed hydra-rbp==0.1.21.31 from https://files.pythonhosted.org/packages/f7/dc/a9b087b4d2c0d4a9719f850141f5f3bd7d43e54f8494456ee8aaec507a62/hydra_rbp-0.1.21.31.tar.gz from build tracker '/tmp/pip-build-tracker-1x1d6qji' 2023-12-15T04:56:53,085 Created temporary directory: /tmp/pip-unpack-1lqywuj9 2023-12-15T04:56:53,086 Created temporary directory: /tmp/pip-unpack-b17bjikw 2023-12-15T04:56:53,100 Building wheels for collected packages: hydra-rbp 2023-12-15T04:56:53,104 Created temporary directory: /tmp/pip-wheel-qvjfvhh5 2023-12-15T04:56:53,105 Building wheel for hydra-rbp (setup.py): started 2023-12-15T04:56:53,106 Destination directory: /tmp/pip-wheel-qvjfvhh5 2023-12-15T04:56:53,106 Running command python setup.py bdist_wheel 2023-12-15T04:56:53,827 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-15T04:56:53,827 !! 2023-12-15T04:56:53,828 ******************************************************************************** 2023-12-15T04:56:53,829 Requirements should be satisfied by a PEP 517 installer. 2023-12-15T04:56:53,829 If you are using pip, you can try `pip install --use-pep517`. 2023-12-15T04:56:53,830 ******************************************************************************** 2023-12-15T04:56:53,831 !! 2023-12-15T04:56:53,831 dist.fetch_build_eggs(dist.setup_requires) 2023-12-15T04:56:54,311 running bdist_wheel 2023-12-15T04:56:54,411 running build 2023-12-15T04:56:54,411 running build_py 2023-12-15T04:56:54,439 creating build 2023-12-15T04:56:54,440 creating build/lib 2023-12-15T04:56:54,441 creating build/lib/HydRa 2023-12-15T04:56:54,442 copying HydRa/HydRa_predict.py -> build/lib/HydRa 2023-12-15T04:56:54,445 copying HydRa/__init__.py -> build/lib/HydRa 2023-12-15T04:56:54,446 copying HydRa/HydRa2_0_predict.py -> build/lib/HydRa 2023-12-15T04:56:54,449 copying HydRa/test_data_load.py -> build/lib/HydRa 2023-12-15T04:56:54,451 creating build/lib/HydRa/models 2023-12-15T04:56:54,452 copying HydRa/models/Sequence_class.py -> build/lib/HydRa/models 2023-12-15T04:56:54,455 copying HydRa/models/__init__.py -> build/lib/HydRa/models 2023-12-15T04:56:54,457 copying HydRa/models/DNN_seq.py -> build/lib/HydRa/models 2023-12-15T04:56:54,460 creating build/lib/HydRa/evaluation 2023-12-15T04:56:54,461 copying HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/lib/HydRa/evaluation 2023-12-15T04:56:54,463 copying HydRa/evaluation/__init__.py -> build/lib/HydRa/evaluation 2023-12-15T04:56:54,465 creating build/lib/HydRa/training 2023-12-15T04:56:54,466 copying HydRa/training/train_HydRa.py -> build/lib/HydRa/training 2023-12-15T04:56:54,468 copying HydRa/training/__init__.py -> build/lib/HydRa/training 2023-12-15T04:56:54,470 copying HydRa/training/train_and_evaluate_HydRa2_0.py -> build/lib/HydRa/training 2023-12-15T04:56:54,473 copying HydRa/training/train_HydRa2_0.py -> build/lib/HydRa/training 2023-12-15T04:56:54,476 copying HydRa/training/train_and_evaluate_HydRa_bk.py -> build/lib/HydRa/training 2023-12-15T04:56:54,479 copying HydRa/training/train_and_evaluate_HydRa.py -> build/lib/HydRa/training 2023-12-15T04:56:54,482 creating build/lib/HydRa/predictions 2023-12-15T04:56:54,483 copying HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,487 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,488 copying HydRa/predictions/__init__.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,490 copying HydRa/predictions/Occlusion_map.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,493 copying HydRa/predictions/Occlusion_map_v2.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,496 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,499 copying HydRa/predictions/Occlusion_1D_analysis_2.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,500 copying HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-15T04:56:54,505 creating build/lib/HydRa/preprocessing 2023-12-15T04:56:54,506 copying HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:54,508 copying HydRa/preprocessing/PPI_feature_generation.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:54,510 copying HydRa/preprocessing/__init__.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:54,512 copying HydRa/preprocessing/get_SVM_seq_features.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:54,514 copying HydRa/preprocessing/predict_SS.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:54,516 creating build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,517 copying HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,519 copying HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,521 copying HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,522 copying HydRa/preprocessing/Feature_generation/__init__.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,524 copying HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,526 copying HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,527 copying HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:54,529 creating build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:54,530 copying HydRa/preprocessing/Feature_selection/__init__.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:54,532 copying HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:54,534 running egg_info 2023-12-15T04:56:54,585 writing hydra_rbp.egg-info/PKG-INFO 2023-12-15T04:56:54,589 writing dependency_links to hydra_rbp.egg-info/dependency_links.txt 2023-12-15T04:56:54,591 writing entry points to hydra_rbp.egg-info/entry_points.txt 2023-12-15T04:56:54,592 writing requirements to hydra_rbp.egg-info/requires.txt 2023-12-15T04:56:54,593 writing top-level names to hydra_rbp.egg-info/top_level.txt 2023-12-15T04:56:54,636 reading manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:54,639 reading manifest template 'MANIFEST.in' 2023-12-15T04:56:54,642 adding license file 'LICENSE' 2023-12-15T04:56:54,647 writing manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:54,649 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.data' is absent from the `packages` configuration. 2023-12-15T04:56:54,650 !! 2023-12-15T04:56:54,651 ******************************************************************************** 2023-12-15T04:56:54,652 ############################ 2023-12-15T04:56:54,652 # Package would be ignored # 2023-12-15T04:56:54,653 ############################ 2023-12-15T04:56:54,653 Python recognizes 'HydRa.data' as an importable package[^1], 2023-12-15T04:56:54,654 but it is absent from setuptools' `packages` configuration. 2023-12-15T04:56:54,655 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-15T04:56:54,655 package, please make sure that 'HydRa.data' is explicitly added 2023-12-15T04:56:54,656 to the `packages` configuration field. 2023-12-15T04:56:54,657 Alternatively, you can also rely on setuptools' discovery methods 2023-12-15T04:56:54,657 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-15T04:56:54,658 instead of `find_packages(...)`/`find:`). 2023-12-15T04:56:54,659 You can read more about "package discovery" on setuptools documentation page: 2023-12-15T04:56:54,660 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-15T04:56:54,661 If you don't want 'HydRa.data' to be distributed and are 2023-12-15T04:56:54,661 already explicitly excluding 'HydRa.data' via 2023-12-15T04:56:54,662 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-15T04:56:54,662 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-15T04:56:54,662 combination with a more fine grained `package-data` configuration. 2023-12-15T04:56:54,663 You can read more about "package data files" on setuptools documentation page: 2023-12-15T04:56:54,664 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-15T04:56:54,666 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-15T04:56:54,666 even if it does not contain any `.py` files. 2023-12-15T04:56:54,667 On the other hand, currently there is no concept of package data 2023-12-15T04:56:54,667 directory, all directories are treated like packages. 2023-12-15T04:56:54,668 ******************************************************************************** 2023-12-15T04:56:54,668 !! 2023-12-15T04:56:54,669 check.warn(importable) 2023-12-15T04:56:54,669 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.pre_trained' is absent from the `packages` configuration. 2023-12-15T04:56:54,670 !! 2023-12-15T04:56:54,675 ******************************************************************************** 2023-12-15T04:56:54,680 ############################ 2023-12-15T04:56:54,685 # Package would be ignored # 2023-12-15T04:56:54,686 ############################ 2023-12-15T04:56:54,687 Python recognizes 'HydRa.pre_trained' as an importable package[^1], 2023-12-15T04:56:54,687 but it is absent from setuptools' `packages` configuration. 2023-12-15T04:56:54,688 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-15T04:56:54,695 package, please make sure that 'HydRa.pre_trained' is explicitly added 2023-12-15T04:56:54,702 to the `packages` configuration field. 2023-12-15T04:56:54,707 Alternatively, you can also rely on setuptools' discovery methods 2023-12-15T04:56:54,708 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-15T04:56:54,708 instead of `find_packages(...)`/`find:`). 2023-12-15T04:56:54,709 You can read more about "package discovery" on setuptools documentation page: 2023-12-15T04:56:54,710 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-15T04:56:54,711 If you don't want 'HydRa.pre_trained' to be distributed and are 2023-12-15T04:56:54,712 already explicitly excluding 'HydRa.pre_trained' via 2023-12-15T04:56:54,712 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-15T04:56:54,713 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-15T04:56:54,713 combination with a more fine grained `package-data` configuration. 2023-12-15T04:56:54,715 You can read more about "package data files" on setuptools documentation page: 2023-12-15T04:56:54,716 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-15T04:56:54,718 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-15T04:56:54,718 even if it does not contain any `.py` files. 2023-12-15T04:56:54,719 On the other hand, currently there is no concept of package data 2023-12-15T04:56:54,720 directory, all directories are treated like packages. 2023-12-15T04:56:54,721 ******************************************************************************** 2023-12-15T04:56:54,722 !! 2023-12-15T04:56:54,722 check.warn(importable) 2023-12-15T04:56:54,722 creating build/lib/HydRa/data 2023-12-15T04:56:54,723 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:54,723 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:54,724 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls -> build/lib/HydRa/data 2023-12-15T04:56:54,828 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-15T04:56:54,856 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-15T04:56:54,895 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:55,067 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-15T04:56:55,135 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk -> build/lib/HydRa/data 2023-12-15T04:56:55,305 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:55,338 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-15T04:56:55,368 copying HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,373 copying HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,378 copying HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:55,380 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:55,382 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:55,384 copying HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/lib/HydRa/data 2023-12-15T04:56:55,454 copying HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:55,456 copying HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,599 copying HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,601 copying HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,603 copying HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:55,605 copying HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/lib/HydRa/data 2023-12-15T04:56:56,181 copying HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:56,183 copying HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:56,185 copying HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/lib/HydRa/data 2023-12-15T04:56:56,401 copying HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/lib/HydRa/data 2023-12-15T04:56:56,430 copying HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/lib/HydRa/data 2023-12-15T04:56:56,473 copying HydRa/data/protVec_100d_3grams.csv -> build/lib/HydRa/data 2023-12-15T04:56:56,601 creating build/lib/HydRa/pre_trained 2023-12-15T04:56:56,601 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:56,627 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:56,654 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 2023-12-15T04:56:56,657 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 2023-12-15T04:56:56,721 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 2023-12-15T04:56:56,724 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 2023-12-15T04:56:56,789 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:56,793 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:56,797 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 2023-12-15T04:56:56,816 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 2023-12-15T04:56:56,833 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 2023-12-15T04:57:00,367 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 2023-12-15T04:57:02,262 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-12-15T04:57:02,263 !! 2023-12-15T04:57:02,264 ******************************************************************************** 2023-12-15T04:57:02,265 Please avoid running ``setup.py`` directly. 2023-12-15T04:57:02,265 Instead, use pypa/build, pypa/installer or other 2023-12-15T04:57:02,266 standards-based tools. 2023-12-15T04:57:02,267 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-12-15T04:57:02,268 ******************************************************************************** 2023-12-15T04:57:02,269 !! 2023-12-15T04:57:02,270 self.initialize_options() 2023-12-15T04:57:02,294 installing to build/bdist.linux-armv7l/wheel 2023-12-15T04:57:02,295 running install 2023-12-15T04:57:02,319 running install_lib 2023-12-15T04:57:02,348 creating build/bdist.linux-armv7l 2023-12-15T04:57:02,349 creating build/bdist.linux-armv7l/wheel 2023-12-15T04:57:02,352 creating build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:57:02,354 creating build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:57:02,356 copying build/lib/HydRa/models/Sequence_class.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:57:02,361 copying build/lib/HydRa/models/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:57:02,366 copying build/lib/HydRa/models/DNN_seq.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:57:02,411 creating build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:57:02,412 copying build/lib/HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:57:02,416 copying build/lib/HydRa/evaluation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:57:02,422 copying build/lib/HydRa/HydRa_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:57:02,472 creating build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,474 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 2023-12-15T04:57:02,645 copying build/lib/HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,648 copying build/lib/HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,656 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 2023-12-15T04:57:02,659 copying build/lib/HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,773 copying build/lib/HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,849 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 2023-12-15T04:57:02,878 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 2023-12-15T04:57:02,910 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 2023-12-15T04:57:02,912 copying build/lib/HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:02,914 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 2023-12-15T04:57:02,916 copying build/lib/HydRa/data/protVec_100d_3grams.csv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,041 copying build/lib/HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,075 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 2023-12-15T04:57:03,266 copying build/lib/HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,296 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 2023-12-15T04:57:03,319 copying build/lib/HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,321 copying build/lib/HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,323 copying build/lib/HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,390 copying build/lib/HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:03,391 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 2023-12-15T04:57:03,411 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 2023-12-15T04:57:03,591 copying build/lib/HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:04,150 copying build/lib/HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:04,290 copying build/lib/HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:04,292 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 2023-12-15T04:57:04,402 copying build/lib/HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:04,407 copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:57:04,447 copying build/lib/HydRa/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:57:04,449 creating build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,450 copying build/lib/HydRa/training/train_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,453 copying build/lib/HydRa/training/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,455 copying build/lib/HydRa/training/train_and_evaluate_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,459 copying build/lib/HydRa/training/train_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,462 copying build/lib/HydRa/training/train_and_evaluate_HydRa_bk.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,465 copying build/lib/HydRa/training/train_and_evaluate_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:57:04,467 copying build/lib/HydRa/HydRa2_0_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:57:04,470 creating build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,471 copying build/lib/HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,475 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,477 copying build/lib/HydRa/predictions/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,479 copying build/lib/HydRa/predictions/Occlusion_map.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,482 copying build/lib/HydRa/predictions/Occlusion_map_v2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,485 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,488 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,490 copying build/lib/HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:57:04,495 creating build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:57:04,496 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 2023-12-15T04:57:07,489 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 2023-12-15T04:57:07,492 copying build/lib/HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:57:07,496 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:57:07,525 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 2023-12-15T04:57:07,528 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 2023-12-15T04:57:07,589 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 2023-12-15T04:57:07,607 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 2023-12-15T04:57:07,610 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:57:07,635 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 2023-12-15T04:57:08,592 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 2023-12-15T04:57:08,612 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 2023-12-15T04:57:08,670 copying build/lib/HydRa/test_data_load.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:57:08,673 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,674 copying build/lib/HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,677 copying build/lib/HydRa/preprocessing/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,679 copying build/lib/HydRa/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,681 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,683 copying build/lib/HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,685 copying build/lib/HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,687 copying build/lib/HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,690 copying build/lib/HydRa/preprocessing/Feature_generation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,692 copying build/lib/HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,694 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 2023-12-15T04:57:08,696 copying build/lib/HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:57:08,698 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-15T04:57:08,699 copying build/lib/HydRa/preprocessing/Feature_selection/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-15T04:57:08,701 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 2023-12-15T04:57:08,704 copying build/lib/HydRa/preprocessing/get_SVM_seq_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,706 copying build/lib/HydRa/preprocessing/predict_SS.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:57:08,708 running install_egg_info 2023-12-15T04:57:08,736 Copying hydra_rbp.egg-info to build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.31-py3.11.egg-info 2023-12-15T04:57:08,750 running install_scripts 2023-12-15T04:57:08,767 creating build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.31.dist-info/WHEEL 2023-12-15T04:57:08,770 creating '/tmp/pip-wheel-qvjfvhh5/hydra_rbp-0.1.21.31-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-12-15T04:57:08,775 adding 'HydRa/HydRa2_0_predict.py' 2023-12-15T04:57:08,780 adding 'HydRa/HydRa_predict.py' 2023-12-15T04:57:08,781 adding 'HydRa/__init__.py' 2023-12-15T04:57:08,783 adding 'HydRa/test_data_load.py' 2023-12-15T04:57:09,174 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv' 2023-12-15T04:57:09,542 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv' 2023-12-15T04:57:11,727 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls' 2023-12-15T04:57:12,286 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv' 2023-12-15T04:57:13,032 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv' 2023-12-15T04:57:16,530 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-15T04:57:17,720 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-15T04:57:21,112 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk' 2023-12-15T04:57:21,747 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-15T04:57:22,325 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-15T04:57:22,383 adding 'HydRa/data/Combined10RBPlist_uniprotID_20190716.txt' 2023-12-15T04:57:22,428 adding 'HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt' 2023-12-15T04:57:22,431 adding 'HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-15T04:57:22,432 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl' 2023-12-15T04:57:22,434 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl' 2023-12-15T04:57:23,555 adding 'HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv' 2023-12-15T04:57:23,586 adding 'HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-15T04:57:25,282 adding 'HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt' 2023-12-15T04:57:25,344 adding 'HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt' 2023-12-15T04:57:25,346 adding 'HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:57:25,348 adding 'HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:57:28,664 adding 'HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt' 2023-12-15T04:57:28,909 adding 'HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:57:28,911 adding 'HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:57:30,382 adding 'HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt' 2023-12-15T04:57:30,890 adding 'HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls' 2023-12-15T04:57:31,470 adding 'HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls' 2023-12-15T04:57:33,843 adding 'HydRa/data/protVec_100d_3grams.csv' 2023-12-15T04:57:33,897 adding 'HydRa/evaluation/ROC_PR_AUC_analysis.py' 2023-12-15T04:57:33,899 adding 'HydRa/evaluation/__init__.py' 2023-12-15T04:57:33,903 adding 'HydRa/models/DNN_seq.py' 2023-12-15T04:57:33,907 adding 'HydRa/models/Sequence_class.py' 2023-12-15T04:57:33,908 adding 'HydRa/models/__init__.py' 2023-12-15T04:57:34,138 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-15T04:57:34,374 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-15T04:57:34,386 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json' 2023-12-15T04:57:34,999 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5' 2023-12-15T04:57:35,025 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json' 2023-12-15T04:57:35,637 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5' 2023-12-15T04:57:35,667 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-15T04:57:35,675 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-15T04:57:35,772 adding 'HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-15T04:57:35,878 adding 'HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-15T04:57:40,823 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl' 2023-12-15T04:57:44,178 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl' 2023-12-15T04:57:44,590 adding 'HydRa/predictions/Occlusion_1D_analysis_2.py' 2023-12-15T04:57:44,595 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py' 2023-12-15T04:57:44,597 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py' 2023-12-15T04:57:44,602 adding 'HydRa/predictions/Occlusion_map.py' 2023-12-15T04:57:44,609 adding 'HydRa/predictions/Occlusion_map_v2.py' 2023-12-15T04:57:44,618 adding 'HydRa/predictions/Occlusion_map_v2_HydRa2_0.py' 2023-12-15T04:57:44,628 adding 'HydRa/predictions/Occlusion_map_v3_HydRa2_0.py' 2023-12-15T04:57:44,630 adding 'HydRa/predictions/__init__.py' 2023-12-15T04:57:44,633 adding 'HydRa/preprocessing/Get_All_selected_SVM_features.py' 2023-12-15T04:57:44,635 adding 'HydRa/preprocessing/PPI_feature_generation.py' 2023-12-15T04:57:44,636 adding 'HydRa/preprocessing/__init__.py' 2023-12-15T04:57:44,638 adding 'HydRa/preprocessing/get_SVM_seq_features.py' 2023-12-15T04:57:44,639 adding 'HydRa/preprocessing/predict_SS.py' 2023-12-15T04:57:44,641 adding 'HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py' 2023-12-15T04:57:44,643 adding 'HydRa/preprocessing/Feature_generation/PPI_feature_generation.py' 2023-12-15T04:57:44,645 adding 'HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py' 2023-12-15T04:57:44,646 adding 'HydRa/preprocessing/Feature_generation/__init__.py' 2023-12-15T04:57:44,648 adding 'HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py' 2023-12-15T04:57:44,649 adding 'HydRa/preprocessing/Feature_generation/kmer_table_generation.py' 2023-12-15T04:57:44,651 adding 'HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py' 2023-12-15T04:57:44,653 adding 'HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py' 2023-12-15T04:57:44,654 adding 'HydRa/preprocessing/Feature_selection/__init__.py' 2023-12-15T04:57:44,656 adding 'HydRa/training/__init__.py' 2023-12-15T04:57:44,660 adding 'HydRa/training/train_HydRa.py' 2023-12-15T04:57:44,665 adding 'HydRa/training/train_HydRa2_0.py' 2023-12-15T04:57:44,671 adding 'HydRa/training/train_and_evaluate_HydRa.py' 2023-12-15T04:57:44,676 adding 'HydRa/training/train_and_evaluate_HydRa2_0.py' 2023-12-15T04:57:44,681 adding 'HydRa/training/train_and_evaluate_HydRa_bk.py' 2023-12-15T04:57:44,684 adding 'hydra_rbp-0.1.21.31.dist-info/LICENSE' 2023-12-15T04:57:44,686 adding 'hydra_rbp-0.1.21.31.dist-info/METADATA' 2023-12-15T04:57:44,688 adding 'hydra_rbp-0.1.21.31.dist-info/WHEEL' 2023-12-15T04:57:44,689 adding 'hydra_rbp-0.1.21.31.dist-info/entry_points.txt' 2023-12-15T04:57:44,690 adding 'hydra_rbp-0.1.21.31.dist-info/top_level.txt' 2023-12-15T04:57:44,692 adding 'hydra_rbp-0.1.21.31.dist-info/RECORD' 2023-12-15T04:57:44,724 removing build/bdist.linux-armv7l/wheel 2023-12-15T04:57:44,969 Building wheel for hydra-rbp (setup.py): finished with status 'done' 2023-12-15T04:57:46,118 Created wheel for hydra-rbp: filename=hydra_rbp-0.1.21.31-py3-none-any.whl size=53775105 sha256=176bbf98f3d5e29b7c9a5236b92d239567dab6b746703603818e840e0a7857db 2023-12-15T04:57:46,120 Stored in directory: /tmp/pip-ephem-wheel-cache-xpbmejsf/wheels/f0/b2/89/d256e6ae928c4ef728df40e16c61bc21e2972a63282dcc9b3f 2023-12-15T04:57:46,150 Successfully built hydra-rbp 2023-12-15T04:57:47,340 Removed build tracker: '/tmp/pip-build-tracker-1x1d6qji'