2023-12-15T04:55:34,280 Created temporary directory: /tmp/pip-build-tracker-t5aei9cb 2023-12-15T04:55:34,281 Initialized build tracking at /tmp/pip-build-tracker-t5aei9cb 2023-12-15T04:55:34,282 Created build tracker: /tmp/pip-build-tracker-t5aei9cb 2023-12-15T04:55:34,282 Entered build tracker: /tmp/pip-build-tracker-t5aei9cb 2023-12-15T04:55:34,283 Created temporary directory: /tmp/pip-wheel-l618su26 2023-12-15T04:55:34,286 Created temporary directory: /tmp/pip-ephem-wheel-cache-g_hz3byp 2023-12-15T04:55:34,308 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-12-15T04:55:34,311 2 location(s) to search for versions of hydra-rbp: 2023-12-15T04:55:34,311 * https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:55:34,311 * https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:55:34,312 Fetching project page and analyzing links: https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:55:34,313 Getting page https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:55:34,314 Found index url https://pypi.org/simple/ 2023-12-15T04:55:34,526 Fetched page https://pypi.org/simple/hydra-rbp/ as application/vnd.pypi.simple.v1+json 2023-12-15T04:55:34,529 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 2023-12-15T04:55:34,530 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 2023-12-15T04:55:34,531 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) 2023-12-15T04:55:34,532 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 2023-12-15T04:55:34,532 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) 2023-12-15T04:55:34,533 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 2023-12-15T04:55:34,534 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) 2023-12-15T04:55:34,535 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 2023-12-15T04:55:34,536 Fetching project page and analyzing links: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:55:34,536 Getting page https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:55:34,538 Found index url https://www.piwheels.org/simple/ 2023-12-15T04:55:34,694 Fetched page https://www.piwheels.org/simple/hydra-rbp/ as text/html 2023-12-15T04:55:34,696 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) 2023-12-15T04:55:34,697 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) 2023-12-15T04:55:34,698 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) 2023-12-15T04:55:34,699 Skipping link: not a file: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-15T04:55:34,699 Skipping link: not a file: https://pypi.org/simple/hydra-rbp/ 2023-12-15T04:55:34,718 Given no hashes to check 1 links for project 'hydra-rbp': discarding no candidates 2023-12-15T04:55:34,735 Collecting hydra-rbp==0.1.21.30 2023-12-15T04:55:34,737 Created temporary directory: /tmp/pip-unpack-04t85b5h 2023-12-15T04:55:34,964 Downloading hydra_rbp-0.1.21.30.tar.gz (52.4 MB) 2023-12-15T04:55:56,530 Added hydra-rbp==0.1.21.30 from https://files.pythonhosted.org/packages/83/7c/f7f088132d9ff564207a99897d2c0375b7a9663214d221f5a06fccfd32db/hydra_rbp-0.1.21.30.tar.gz to build tracker '/tmp/pip-build-tracker-t5aei9cb' 2023-12-15T04:55:56,532 Running setup.py (path:/tmp/pip-wheel-l618su26/hydra-rbp_be4268c24da94692a0f170bddb3a5b60/setup.py) egg_info for package hydra-rbp 2023-12-15T04:55:56,533 Created temporary directory: /tmp/pip-pip-egg-info-ikenck18 2023-12-15T04:55:56,533 Preparing metadata (setup.py): started 2023-12-15T04:55:56,535 Running command python setup.py egg_info 2023-12-15T04:55:57,246 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-15T04:55:57,247 !! 2023-12-15T04:55:57,248 ******************************************************************************** 2023-12-15T04:55:57,248 Requirements should be satisfied by a PEP 517 installer. 2023-12-15T04:55:57,249 If you are using pip, you can try `pip install --use-pep517`. 2023-12-15T04:55:57,250 ******************************************************************************** 2023-12-15T04:55:57,251 !! 2023-12-15T04:55:57,251 dist.fetch_build_eggs(dist.setup_requires) 2023-12-15T04:56:00,015 running egg_info 2023-12-15T04:56:00,017 creating /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info 2023-12-15T04:56:00,045 writing /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/PKG-INFO 2023-12-15T04:56:00,048 writing dependency_links to /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/dependency_links.txt 2023-12-15T04:56:00,050 writing entry points to /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/entry_points.txt 2023-12-15T04:56:00,052 writing requirements to /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/requires.txt 2023-12-15T04:56:00,053 writing top-level names to /tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/top_level.txt 2023-12-15T04:56:00,055 writing manifest file '/tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:00,169 reading manifest file '/tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:00,171 reading manifest template 'MANIFEST.in' 2023-12-15T04:56:00,175 adding license file 'LICENSE' 2023-12-15T04:56:00,179 writing manifest file '/tmp/pip-pip-egg-info-ikenck18/hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:00,287 Preparing metadata (setup.py): finished with status 'done' 2023-12-15T04:56:00,291 Source in /tmp/pip-wheel-l618su26/hydra-rbp_be4268c24da94692a0f170bddb3a5b60 has version 0.1.21.30, which satisfies requirement hydra-rbp==0.1.21.30 from https://files.pythonhosted.org/packages/83/7c/f7f088132d9ff564207a99897d2c0375b7a9663214d221f5a06fccfd32db/hydra_rbp-0.1.21.30.tar.gz 2023-12-15T04:56:00,292 Removed hydra-rbp==0.1.21.30 from https://files.pythonhosted.org/packages/83/7c/f7f088132d9ff564207a99897d2c0375b7a9663214d221f5a06fccfd32db/hydra_rbp-0.1.21.30.tar.gz from build tracker '/tmp/pip-build-tracker-t5aei9cb' 2023-12-15T04:56:00,299 Created temporary directory: /tmp/pip-unpack-q87hzjto 2023-12-15T04:56:00,300 Created temporary directory: /tmp/pip-unpack-ggpn6p4t 2023-12-15T04:56:00,313 Building wheels for collected packages: hydra-rbp 2023-12-15T04:56:00,317 Created temporary directory: /tmp/pip-wheel-3enaar89 2023-12-15T04:56:00,318 Building wheel for hydra-rbp (setup.py): started 2023-12-15T04:56:00,319 Destination directory: /tmp/pip-wheel-3enaar89 2023-12-15T04:56:00,319 Running command python setup.py bdist_wheel 2023-12-15T04:56:00,997 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-15T04:56:00,997 !! 2023-12-15T04:56:00,998 ******************************************************************************** 2023-12-15T04:56:00,999 Requirements should be satisfied by a PEP 517 installer. 2023-12-15T04:56:00,999 If you are using pip, you can try `pip install --use-pep517`. 2023-12-15T04:56:01,000 ******************************************************************************** 2023-12-15T04:56:01,001 !! 2023-12-15T04:56:01,001 dist.fetch_build_eggs(dist.setup_requires) 2023-12-15T04:56:01,486 running bdist_wheel 2023-12-15T04:56:01,591 running build 2023-12-15T04:56:01,591 running build_py 2023-12-15T04:56:01,621 creating build 2023-12-15T04:56:01,622 creating build/lib 2023-12-15T04:56:01,623 creating build/lib/HydRa 2023-12-15T04:56:01,624 copying HydRa/__init__.py -> build/lib/HydRa 2023-12-15T04:56:01,626 copying HydRa/HydRa2_0_predict.py -> build/lib/HydRa 2023-12-15T04:56:01,629 copying HydRa/HydRa_predict.py -> build/lib/HydRa 2023-12-15T04:56:01,632 copying HydRa/test_data_load.py -> build/lib/HydRa 2023-12-15T04:56:01,634 creating build/lib/HydRa/training 2023-12-15T04:56:01,635 copying HydRa/training/train_and_evaluate_HydRa_bk.py -> build/lib/HydRa/training 2023-12-15T04:56:01,639 copying HydRa/training/train_and_evaluate_HydRa.py -> build/lib/HydRa/training 2023-12-15T04:56:01,642 copying HydRa/training/__init__.py -> build/lib/HydRa/training 2023-12-15T04:56:01,644 copying HydRa/training/train_HydRa.py -> build/lib/HydRa/training 2023-12-15T04:56:01,647 copying HydRa/training/train_and_evaluate_HydRa2_0.py -> build/lib/HydRa/training 2023-12-15T04:56:01,650 copying HydRa/training/train_HydRa2_0.py -> build/lib/HydRa/training 2023-12-15T04:56:01,654 creating build/lib/HydRa/predictions 2023-12-15T04:56:01,655 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,657 copying HydRa/predictions/Occlusion_1D_analysis_2.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,658 copying HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,663 copying HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,667 copying HydRa/predictions/__init__.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,668 copying HydRa/predictions/Occlusion_map.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,671 copying HydRa/predictions/Occlusion_map_v2.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,675 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/lib/HydRa/predictions 2023-12-15T04:56:01,678 creating build/lib/HydRa/preprocessing 2023-12-15T04:56:01,679 copying HydRa/preprocessing/predict_SS.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:01,681 copying HydRa/preprocessing/get_SVM_seq_features.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:01,683 copying HydRa/preprocessing/__init__.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:01,685 copying HydRa/preprocessing/PPI_feature_generation.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:01,687 copying HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/lib/HydRa/preprocessing 2023-12-15T04:56:01,690 creating build/lib/HydRa/models 2023-12-15T04:56:01,691 copying HydRa/models/Sequence_class.py -> build/lib/HydRa/models 2023-12-15T04:56:01,694 copying HydRa/models/__init__.py -> build/lib/HydRa/models 2023-12-15T04:56:01,696 copying HydRa/models/DNN_seq.py -> build/lib/HydRa/models 2023-12-15T04:56:01,700 creating build/lib/HydRa/evaluation 2023-12-15T04:56:01,700 copying HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/lib/HydRa/evaluation 2023-12-15T04:56:01,702 copying HydRa/evaluation/__init__.py -> build/lib/HydRa/evaluation 2023-12-15T04:56:01,705 creating build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,705 copying HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,707 copying HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,709 copying HydRa/preprocessing/Feature_generation/__init__.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,711 copying HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,713 copying HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,715 copying HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,717 copying HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:01,719 creating build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:01,720 copying HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:01,722 copying HydRa/preprocessing/Feature_selection/__init__.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:01,723 running egg_info 2023-12-15T04:56:01,775 writing hydra_rbp.egg-info/PKG-INFO 2023-12-15T04:56:01,778 writing dependency_links to hydra_rbp.egg-info/dependency_links.txt 2023-12-15T04:56:01,780 writing entry points to hydra_rbp.egg-info/entry_points.txt 2023-12-15T04:56:01,782 writing requirements to hydra_rbp.egg-info/requires.txt 2023-12-15T04:56:01,783 writing top-level names to hydra_rbp.egg-info/top_level.txt 2023-12-15T04:56:01,834 reading manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:01,838 reading manifest template 'MANIFEST.in' 2023-12-15T04:56:01,841 adding license file 'LICENSE' 2023-12-15T04:56:01,846 writing manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-15T04:56:01,849 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.data' is absent from the `packages` configuration. 2023-12-15T04:56:01,849 !! 2023-12-15T04:56:01,850 ******************************************************************************** 2023-12-15T04:56:01,851 ############################ 2023-12-15T04:56:01,851 # Package would be ignored # 2023-12-15T04:56:01,852 ############################ 2023-12-15T04:56:01,853 Python recognizes 'HydRa.data' as an importable package[^1], 2023-12-15T04:56:01,853 but it is absent from setuptools' `packages` configuration. 2023-12-15T04:56:01,854 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-15T04:56:01,855 package, please make sure that 'HydRa.data' is explicitly added 2023-12-15T04:56:01,855 to the `packages` configuration field. 2023-12-15T04:56:01,857 Alternatively, you can also rely on setuptools' discovery methods 2023-12-15T04:56:01,857 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-15T04:56:01,858 instead of `find_packages(...)`/`find:`). 2023-12-15T04:56:01,859 You can read more about "package discovery" on setuptools documentation page: 2023-12-15T04:56:01,860 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-15T04:56:01,861 If you don't want 'HydRa.data' to be distributed and are 2023-12-15T04:56:01,861 already explicitly excluding 'HydRa.data' via 2023-12-15T04:56:01,861 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-15T04:56:01,862 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-15T04:56:01,862 combination with a more fine grained `package-data` configuration. 2023-12-15T04:56:01,863 You can read more about "package data files" on setuptools documentation page: 2023-12-15T04:56:01,864 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-15T04:56:01,866 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-15T04:56:01,866 even if it does not contain any `.py` files. 2023-12-15T04:56:01,866 On the other hand, currently there is no concept of package data 2023-12-15T04:56:01,867 directory, all directories are treated like packages. 2023-12-15T04:56:01,867 ******************************************************************************** 2023-12-15T04:56:01,875 !! 2023-12-15T04:56:01,884 check.warn(importable) 2023-12-15T04:56:01,887 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.pre_trained' is absent from the `packages` configuration. 2023-12-15T04:56:01,888 !! 2023-12-15T04:56:01,889 ******************************************************************************** 2023-12-15T04:56:01,889 ############################ 2023-12-15T04:56:01,890 # Package would be ignored # 2023-12-15T04:56:01,890 ############################ 2023-12-15T04:56:01,891 Python recognizes 'HydRa.pre_trained' as an importable package[^1], 2023-12-15T04:56:01,892 but it is absent from setuptools' `packages` configuration. 2023-12-15T04:56:01,893 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-15T04:56:01,893 package, please make sure that 'HydRa.pre_trained' is explicitly added 2023-12-15T04:56:01,894 to the `packages` configuration field. 2023-12-15T04:56:01,895 Alternatively, you can also rely on setuptools' discovery methods 2023-12-15T04:56:01,897 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-15T04:56:01,903 instead of `find_packages(...)`/`find:`). 2023-12-15T04:56:01,913 You can read more about "package discovery" on setuptools documentation page: 2023-12-15T04:56:01,914 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-15T04:56:01,915 If you don't want 'HydRa.pre_trained' to be distributed and are 2023-12-15T04:56:01,916 already explicitly excluding 'HydRa.pre_trained' via 2023-12-15T04:56:01,917 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-15T04:56:01,917 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-15T04:56:01,918 combination with a more fine grained `package-data` configuration. 2023-12-15T04:56:01,919 You can read more about "package data files" on setuptools documentation page: 2023-12-15T04:56:01,920 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-15T04:56:01,922 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-15T04:56:01,922 even if it does not contain any `.py` files. 2023-12-15T04:56:01,923 On the other hand, currently there is no concept of package data 2023-12-15T04:56:01,924 directory, all directories are treated like packages. 2023-12-15T04:56:01,925 ******************************************************************************** 2023-12-15T04:56:01,925 !! 2023-12-15T04:56:01,926 check.warn(importable) 2023-12-15T04:56:01,926 creating build/lib/HydRa/data 2023-12-15T04:56:01,927 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:01,927 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:01,928 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls -> build/lib/HydRa/data 2023-12-15T04:56:02,027 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,054 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,096 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,285 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,358 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk -> build/lib/HydRa/data 2023-12-15T04:56:02,527 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,561 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,594 copying HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,599 copying HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,604 copying HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:02,606 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:02,608 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:02,610 copying HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/lib/HydRa/data 2023-12-15T04:56:02,690 copying HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-15T04:56:02,692 copying HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,854 copying HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,856 copying HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,858 copying HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:02,861 copying HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/lib/HydRa/data 2023-12-15T04:56:05,924 copying HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:05,927 copying HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-15T04:56:05,929 copying HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/lib/HydRa/data 2023-12-15T04:56:06,008 copying HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/lib/HydRa/data 2023-12-15T04:56:06,041 copying HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/lib/HydRa/data 2023-12-15T04:56:06,076 copying HydRa/data/protVec_100d_3grams.csv -> build/lib/HydRa/data 2023-12-15T04:56:06,205 creating build/lib/HydRa/pre_trained 2023-12-15T04:56:06,207 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:06,233 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:06,259 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 2023-12-15T04:56:06,261 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 2023-12-15T04:56:06,325 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 2023-12-15T04:56:06,328 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 2023-12-15T04:56:06,387 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:06,391 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-15T04:56:06,395 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 2023-12-15T04:56:06,413 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 2023-12-15T04:56:06,433 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 2023-12-15T04:56:09,986 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 2023-12-15T04:56:12,944 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-12-15T04:56:12,944 !! 2023-12-15T04:56:12,945 ******************************************************************************** 2023-12-15T04:56:12,946 Please avoid running ``setup.py`` directly. 2023-12-15T04:56:12,949 Instead, use pypa/build, pypa/installer or other 2023-12-15T04:56:12,950 standards-based tools. 2023-12-15T04:56:12,951 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-12-15T04:56:12,952 ******************************************************************************** 2023-12-15T04:56:12,953 !! 2023-12-15T04:56:12,954 self.initialize_options() 2023-12-15T04:56:12,975 installing to build/bdist.linux-armv7l/wheel 2023-12-15T04:56:12,975 running install 2023-12-15T04:56:12,998 running install_lib 2023-12-15T04:56:13,025 creating build/bdist.linux-armv7l 2023-12-15T04:56:13,026 creating build/bdist.linux-armv7l/wheel 2023-12-15T04:56:13,028 creating build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:56:13,029 creating build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,030 copying build/lib/HydRa/training/train_and_evaluate_HydRa_bk.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,033 copying build/lib/HydRa/training/train_and_evaluate_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,036 copying build/lib/HydRa/training/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,038 copying build/lib/HydRa/training/train_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,041 copying build/lib/HydRa/training/train_and_evaluate_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,044 copying build/lib/HydRa/training/train_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-15T04:56:13,047 creating build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,048 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,050 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,052 copying build/lib/HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,056 copying build/lib/HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,060 copying build/lib/HydRa/predictions/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,062 copying build/lib/HydRa/predictions/Occlusion_map.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,065 copying build/lib/HydRa/predictions/Occlusion_map_v2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,068 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-15T04:56:13,072 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,073 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,075 copying build/lib/HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,077 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 2023-12-15T04:56:13,079 copying build/lib/HydRa/preprocessing/Feature_generation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,081 copying build/lib/HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,083 copying build/lib/HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,085 copying build/lib/HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,088 copying build/lib/HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-15T04:56:13,090 copying build/lib/HydRa/preprocessing/predict_SS.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,092 copying build/lib/HydRa/preprocessing/get_SVM_seq_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,095 copying build/lib/HydRa/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,097 copying build/lib/HydRa/preprocessing/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,100 copying build/lib/HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-15T04:56:13,103 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:13,104 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 2023-12-15T04:56:13,107 copying build/lib/HydRa/preprocessing/Feature_selection/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-15T04:56:13,108 copying build/lib/HydRa/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:56:13,110 copying build/lib/HydRa/HydRa2_0_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:56:13,114 creating build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:56:13,115 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 2023-12-15T04:56:17,461 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 2023-12-15T04:56:17,463 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 2023-12-15T04:56:17,481 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 2023-12-15T04:56:17,496 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 2023-12-15T04:56:17,499 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 2023-12-15T04:56:17,564 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 2023-12-15T04:56:17,566 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 2023-12-15T04:56:17,627 copying build/lib/HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:56:17,631 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 2023-12-15T04:56:18,527 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:56:18,552 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-15T04:56:18,579 copying build/lib/HydRa/HydRa_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:56:18,582 copying build/lib/HydRa/test_data_load.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-15T04:56:18,584 creating build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:56:18,584 copying build/lib/HydRa/models/Sequence_class.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:56:18,587 copying build/lib/HydRa/models/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:56:18,589 copying build/lib/HydRa/models/DNN_seq.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-15T04:56:18,593 creating build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:18,594 copying build/lib/HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:18,638 copying build/lib/HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:18,640 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 2023-12-15T04:56:18,760 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 2023-12-15T04:56:18,924 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 2023-12-15T04:56:18,926 copying build/lib/HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:18,956 copying build/lib/HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:18,958 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 2023-12-15T04:56:18,960 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 2023-12-15T04:56:18,981 copying build/lib/HydRa/data/protVec_100d_3grams.csv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:19,111 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 2023-12-15T04:56:19,146 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 2023-12-15T04:56:19,220 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 2023-12-15T04:56:19,248 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 2023-12-15T04:56:19,250 copying build/lib/HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:19,252 copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:19,296 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 2023-12-15T04:56:19,484 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 2023-12-15T04:56:19,502 copying build/lib/HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:19,504 copying build/lib/HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,086 copying build/lib/HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,166 copying build/lib/HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,310 copying build/lib/HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,341 copying build/lib/HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,397 copying build/lib/HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,399 copying build/lib/HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,401 copying build/lib/HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,406 copying build/lib/HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-15T04:56:20,472 creating build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:56:20,473 copying build/lib/HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:56:20,475 copying build/lib/HydRa/evaluation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-15T04:56:20,477 running install_egg_info 2023-12-15T04:56:20,505 Copying hydra_rbp.egg-info to build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.30-py3.11.egg-info 2023-12-15T04:56:20,518 running install_scripts 2023-12-15T04:56:20,536 creating build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.30.dist-info/WHEEL 2023-12-15T04:56:20,539 creating '/tmp/pip-wheel-3enaar89/hydra_rbp-0.1.21.30-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-12-15T04:56:20,544 adding 'HydRa/HydRa2_0_predict.py' 2023-12-15T04:56:20,548 adding 'HydRa/HydRa_predict.py' 2023-12-15T04:56:20,549 adding 'HydRa/__init__.py' 2023-12-15T04:56:20,551 adding 'HydRa/test_data_load.py' 2023-12-15T04:56:20,943 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv' 2023-12-15T04:56:21,310 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv' 2023-12-15T04:56:23,493 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls' 2023-12-15T04:56:24,050 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv' 2023-12-15T04:56:24,799 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv' 2023-12-15T04:56:28,183 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-15T04:56:29,375 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-15T04:56:32,772 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk' 2023-12-15T04:56:33,414 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-15T04:56:33,989 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-15T04:56:34,050 adding 'HydRa/data/Combined10RBPlist_uniprotID_20190716.txt' 2023-12-15T04:56:34,094 adding 'HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt' 2023-12-15T04:56:34,096 adding 'HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-15T04:56:34,098 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl' 2023-12-15T04:56:34,100 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl' 2023-12-15T04:56:35,224 adding 'HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv' 2023-12-15T04:56:35,252 adding 'HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-15T04:56:36,954 adding 'HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt' 2023-12-15T04:56:37,012 adding 'HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt' 2023-12-15T04:56:37,014 adding 'HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:56:37,016 adding 'HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:56:40,344 adding 'HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt' 2023-12-15T04:56:40,589 adding 'HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:56:40,591 adding 'HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-15T04:56:42,063 adding 'HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt' 2023-12-15T04:56:42,572 adding 'HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls' 2023-12-15T04:56:43,151 adding 'HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls' 2023-12-15T04:56:45,634 adding 'HydRa/data/protVec_100d_3grams.csv' 2023-12-15T04:56:45,690 adding 'HydRa/evaluation/ROC_PR_AUC_analysis.py' 2023-12-15T04:56:45,692 adding 'HydRa/evaluation/__init__.py' 2023-12-15T04:56:45,697 adding 'HydRa/models/DNN_seq.py' 2023-12-15T04:56:45,701 adding 'HydRa/models/Sequence_class.py' 2023-12-15T04:56:45,703 adding 'HydRa/models/__init__.py' 2023-12-15T04:56:45,936 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-15T04:56:46,839 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-15T04:56:47,086 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json' 2023-12-15T04:56:47,740 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5' 2023-12-15T04:56:47,765 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json' 2023-12-15T04:56:48,378 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5' 2023-12-15T04:56:48,409 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-15T04:56:48,416 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-15T04:56:48,514 adding 'HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-15T04:56:48,619 adding 'HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-15T04:56:55,228 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl' 2023-12-15T04:56:58,528 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl' 2023-12-15T04:56:59,063 adding 'HydRa/predictions/Occlusion_1D_analysis_2.py' 2023-12-15T04:56:59,231 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py' 2023-12-15T04:56:59,234 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py' 2023-12-15T04:56:59,370 adding 'HydRa/predictions/Occlusion_map.py' 2023-12-15T04:56:59,425 adding 'HydRa/predictions/Occlusion_map_v2.py' 2023-12-15T04:56:59,434 adding 'HydRa/predictions/Occlusion_map_v2_HydRa2_0.py' 2023-12-15T04:56:59,444 adding 'HydRa/predictions/Occlusion_map_v3_HydRa2_0.py' 2023-12-15T04:56:59,446 adding 'HydRa/predictions/__init__.py' 2023-12-15T04:56:59,450 adding 'HydRa/preprocessing/Get_All_selected_SVM_features.py' 2023-12-15T04:56:59,452 adding 'HydRa/preprocessing/PPI_feature_generation.py' 2023-12-15T04:56:59,453 adding 'HydRa/preprocessing/__init__.py' 2023-12-15T04:56:59,455 adding 'HydRa/preprocessing/get_SVM_seq_features.py' 2023-12-15T04:56:59,456 adding 'HydRa/preprocessing/predict_SS.py' 2023-12-15T04:56:59,458 adding 'HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py' 2023-12-15T04:56:59,460 adding 'HydRa/preprocessing/Feature_generation/PPI_feature_generation.py' 2023-12-15T04:56:59,461 adding 'HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py' 2023-12-15T04:56:59,463 adding 'HydRa/preprocessing/Feature_generation/__init__.py' 2023-12-15T04:56:59,464 adding 'HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py' 2023-12-15T04:56:59,466 adding 'HydRa/preprocessing/Feature_generation/kmer_table_generation.py' 2023-12-15T04:56:59,467 adding 'HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py' 2023-12-15T04:56:59,470 adding 'HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py' 2023-12-15T04:56:59,471 adding 'HydRa/preprocessing/Feature_selection/__init__.py' 2023-12-15T04:56:59,473 adding 'HydRa/training/__init__.py' 2023-12-15T04:56:59,477 adding 'HydRa/training/train_HydRa.py' 2023-12-15T04:56:59,482 adding 'HydRa/training/train_HydRa2_0.py' 2023-12-15T04:56:59,487 adding 'HydRa/training/train_and_evaluate_HydRa.py' 2023-12-15T04:56:59,492 adding 'HydRa/training/train_and_evaluate_HydRa2_0.py' 2023-12-15T04:56:59,497 adding 'HydRa/training/train_and_evaluate_HydRa_bk.py' 2023-12-15T04:56:59,500 adding 'hydra_rbp-0.1.21.30.dist-info/LICENSE' 2023-12-15T04:56:59,502 adding 'hydra_rbp-0.1.21.30.dist-info/METADATA' 2023-12-15T04:56:59,503 adding 'hydra_rbp-0.1.21.30.dist-info/WHEEL' 2023-12-15T04:56:59,504 adding 'hydra_rbp-0.1.21.30.dist-info/entry_points.txt' 2023-12-15T04:56:59,506 adding 'hydra_rbp-0.1.21.30.dist-info/top_level.txt' 2023-12-15T04:56:59,508 adding 'hydra_rbp-0.1.21.30.dist-info/RECORD' 2023-12-15T04:56:59,612 removing build/bdist.linux-armv7l/wheel 2023-12-15T04:56:59,882 Building wheel for hydra-rbp (setup.py): finished with status 'done' 2023-12-15T04:57:01,183 Created wheel for hydra-rbp: filename=hydra_rbp-0.1.21.30-py3-none-any.whl size=53775130 sha256=997fd56e129174ba095b515d6883360d8b23cca3c8c83ddeb33c988e0bcc39c8 2023-12-15T04:57:01,184 Stored in directory: /tmp/pip-ephem-wheel-cache-g_hz3byp/wheels/f8/f0/61/15a717b26a8767d68b84cb561343cfd21dd4f3bda4458d8ef3 2023-12-15T04:57:01,216 Successfully built hydra-rbp 2023-12-15T04:57:02,761 Removed build tracker: '/tmp/pip-build-tracker-t5aei9cb'