2023-12-14T21:36:39,994 Created temporary directory: /tmp/pip-build-tracker-omyy2ezu 2023-12-14T21:36:39,996 Initialized build tracking at /tmp/pip-build-tracker-omyy2ezu 2023-12-14T21:36:39,996 Created build tracker: /tmp/pip-build-tracker-omyy2ezu 2023-12-14T21:36:39,997 Entered build tracker: /tmp/pip-build-tracker-omyy2ezu 2023-12-14T21:36:39,997 Created temporary directory: /tmp/pip-wheel-bv73nupo 2023-12-14T21:36:40,001 Created temporary directory: /tmp/pip-ephem-wheel-cache-0xyu404t 2023-12-14T21:36:40,023 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-12-14T21:36:40,026 2 location(s) to search for versions of hydra-rbp: 2023-12-14T21:36:40,026 * https://pypi.org/simple/hydra-rbp/ 2023-12-14T21:36:40,026 * https://www.piwheels.org/simple/hydra-rbp/ 2023-12-14T21:36:40,027 Fetching project page and analyzing links: https://pypi.org/simple/hydra-rbp/ 2023-12-14T21:36:40,028 Getting page https://pypi.org/simple/hydra-rbp/ 2023-12-14T21:36:40,029 Found index url https://pypi.org/simple/ 2023-12-14T21:36:40,247 Fetched page https://pypi.org/simple/hydra-rbp/ as application/vnd.pypi.simple.v1+json 2023-12-14T21:36:40,249 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 2023-12-14T21:36:40,250 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 2023-12-14T21:36:40,250 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) 2023-12-14T21:36:40,251 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 2023-12-14T21:36:40,252 Fetching project page and analyzing links: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-14T21:36:40,253 Getting page https://www.piwheels.org/simple/hydra-rbp/ 2023-12-14T21:36:40,254 Found index url https://www.piwheels.org/simple/ 2023-12-14T21:36:40,419 Fetched page https://www.piwheels.org/simple/hydra-rbp/ as text/html 2023-12-14T21:36:40,421 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) 2023-12-14T21:36:40,422 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) 2023-12-14T21:36:40,423 Skipping link: not a file: https://www.piwheels.org/simple/hydra-rbp/ 2023-12-14T21:36:40,423 Skipping link: not a file: https://pypi.org/simple/hydra-rbp/ 2023-12-14T21:36:40,443 Given no hashes to check 1 links for project 'hydra-rbp': discarding no candidates 2023-12-14T21:36:40,463 Collecting hydra-rbp==0.1.21.29 2023-12-14T21:36:40,465 Created temporary directory: /tmp/pip-unpack-_s2fkg2g 2023-12-14T21:36:40,709 Downloading hydra_rbp-0.1.21.29.tar.gz (52.4 MB) 2023-12-14T21:36:59,033 Added hydra-rbp==0.1.21.29 from https://files.pythonhosted.org/packages/49/44/f12c30956623421691997bd996a83708903dbf9f1a0aef3f06b3b209c780/hydra_rbp-0.1.21.29.tar.gz to build tracker '/tmp/pip-build-tracker-omyy2ezu' 2023-12-14T21:36:59,035 Running setup.py (path:/tmp/pip-wheel-bv73nupo/hydra-rbp_f31f1aa488f046f89feacac525f38cfc/setup.py) egg_info for package hydra-rbp 2023-12-14T21:36:59,036 Created temporary directory: /tmp/pip-pip-egg-info-hp36jptj 2023-12-14T21:36:59,037 Preparing metadata (setup.py): started 2023-12-14T21:36:59,039 Running command python setup.py egg_info 2023-12-14T21:36:59,756 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-14T21:36:59,756 !! 2023-12-14T21:36:59,757 ******************************************************************************** 2023-12-14T21:36:59,757 Requirements should be satisfied by a PEP 517 installer. 2023-12-14T21:36:59,758 If you are using pip, you can try `pip install --use-pep517`. 2023-12-14T21:36:59,758 ******************************************************************************** 2023-12-14T21:36:59,759 !! 2023-12-14T21:36:59,760 dist.fetch_build_eggs(dist.setup_requires) 2023-12-14T21:37:02,673 running egg_info 2023-12-14T21:37:02,674 creating /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info 2023-12-14T21:37:02,701 writing /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/PKG-INFO 2023-12-14T21:37:02,705 writing dependency_links to /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/dependency_links.txt 2023-12-14T21:37:02,707 writing entry points to /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/entry_points.txt 2023-12-14T21:37:02,708 writing requirements to /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/requires.txt 2023-12-14T21:37:02,709 writing top-level names to /tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/top_level.txt 2023-12-14T21:37:02,711 writing manifest file '/tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/SOURCES.txt' 2023-12-14T21:37:02,825 reading manifest file '/tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/SOURCES.txt' 2023-12-14T21:37:02,827 reading manifest template 'MANIFEST.in' 2023-12-14T21:37:02,830 adding license file 'LICENSE' 2023-12-14T21:37:02,834 writing manifest file '/tmp/pip-pip-egg-info-hp36jptj/hydra_rbp.egg-info/SOURCES.txt' 2023-12-14T21:37:02,945 Preparing metadata (setup.py): finished with status 'done' 2023-12-14T21:37:02,950 Source in /tmp/pip-wheel-bv73nupo/hydra-rbp_f31f1aa488f046f89feacac525f38cfc has version 0.1.21.29, which satisfies requirement hydra-rbp==0.1.21.29 from https://files.pythonhosted.org/packages/49/44/f12c30956623421691997bd996a83708903dbf9f1a0aef3f06b3b209c780/hydra_rbp-0.1.21.29.tar.gz 2023-12-14T21:37:02,951 Removed hydra-rbp==0.1.21.29 from https://files.pythonhosted.org/packages/49/44/f12c30956623421691997bd996a83708903dbf9f1a0aef3f06b3b209c780/hydra_rbp-0.1.21.29.tar.gz from build tracker '/tmp/pip-build-tracker-omyy2ezu' 2023-12-14T21:37:02,957 Created temporary directory: /tmp/pip-unpack-0wd8q1vv 2023-12-14T21:37:02,958 Created temporary directory: /tmp/pip-unpack-b7luvld6 2023-12-14T21:37:02,972 Building wheels for collected packages: hydra-rbp 2023-12-14T21:37:02,976 Created temporary directory: /tmp/pip-wheel-6g2chnbb 2023-12-14T21:37:02,976 Building wheel for hydra-rbp (setup.py): started 2023-12-14T21:37:02,978 Destination directory: /tmp/pip-wheel-6g2chnbb 2023-12-14T21:37:02,978 Running command python setup.py bdist_wheel 2023-12-14T21:37:03,666 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:80: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2023-12-14T21:37:03,666 !! 2023-12-14T21:37:03,668 ******************************************************************************** 2023-12-14T21:37:03,668 Requirements should be satisfied by a PEP 517 installer. 2023-12-14T21:37:03,669 If you are using pip, you can try `pip install --use-pep517`. 2023-12-14T21:37:03,669 ******************************************************************************** 2023-12-14T21:37:03,670 !! 2023-12-14T21:37:03,671 dist.fetch_build_eggs(dist.setup_requires) 2023-12-14T21:37:04,187 running bdist_wheel 2023-12-14T21:37:04,319 running build 2023-12-14T21:37:04,320 running build_py 2023-12-14T21:37:04,350 creating build 2023-12-14T21:37:04,350 creating build/lib 2023-12-14T21:37:04,351 creating build/lib/HydRa 2023-12-14T21:37:04,352 copying HydRa/HydRa2_0_predict.py -> build/lib/HydRa 2023-12-14T21:37:04,355 copying HydRa/__init__.py -> build/lib/HydRa 2023-12-14T21:37:04,356 copying HydRa/HydRa_predict.py -> build/lib/HydRa 2023-12-14T21:37:04,359 copying HydRa/test_data_load.py -> build/lib/HydRa 2023-12-14T21:37:04,361 creating build/lib/HydRa/preprocessing 2023-12-14T21:37:04,361 copying HydRa/preprocessing/predict_SS.py -> build/lib/HydRa/preprocessing 2023-12-14T21:37:04,363 copying HydRa/preprocessing/__init__.py -> build/lib/HydRa/preprocessing 2023-12-14T21:37:04,365 copying HydRa/preprocessing/get_SVM_seq_features.py -> build/lib/HydRa/preprocessing 2023-12-14T21:37:04,367 copying HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/lib/HydRa/preprocessing 2023-12-14T21:37:04,369 copying HydRa/preprocessing/PPI_feature_generation.py -> build/lib/HydRa/preprocessing 2023-12-14T21:37:04,371 creating build/lib/HydRa/predictions 2023-12-14T21:37:04,372 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,374 copying HydRa/predictions/__init__.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,376 copying HydRa/predictions/Occlusion_1D_analysis_2.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,377 copying HydRa/predictions/Occlusion_map_v2.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,380 copying HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,383 copying HydRa/predictions/Occlusion_map.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,386 copying HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,390 copying HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/lib/HydRa/predictions 2023-12-14T21:37:04,394 creating build/lib/HydRa/training 2023-12-14T21:37:04,395 copying HydRa/training/train_HydRa2_0.py -> build/lib/HydRa/training 2023-12-14T21:37:04,397 copying HydRa/training/train_HydRa.py -> build/lib/HydRa/training 2023-12-14T21:37:04,400 copying HydRa/training/__init__.py -> build/lib/HydRa/training 2023-12-14T21:37:04,402 copying HydRa/training/train_and_evaluate_HydRa2_0.py -> build/lib/HydRa/training 2023-12-14T21:37:04,405 copying HydRa/training/train_and_evaluate_HydRa_bk.py -> build/lib/HydRa/training 2023-12-14T21:37:04,407 copying HydRa/training/train_and_evaluate_HydRa.py -> build/lib/HydRa/training 2023-12-14T21:37:04,411 creating build/lib/HydRa/evaluation 2023-12-14T21:37:04,412 copying HydRa/evaluation/__init__.py -> build/lib/HydRa/evaluation 2023-12-14T21:37:04,413 copying HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/lib/HydRa/evaluation 2023-12-14T21:37:04,415 creating build/lib/HydRa/models 2023-12-14T21:37:04,416 copying HydRa/models/__init__.py -> build/lib/HydRa/models 2023-12-14T21:37:04,418 copying HydRa/models/Sequence_class.py -> build/lib/HydRa/models 2023-12-14T21:37:04,421 copying HydRa/models/DNN_seq.py -> build/lib/HydRa/models 2023-12-14T21:37:04,425 creating build/lib/HydRa/preprocessing/Feature_selection 2023-12-14T21:37:04,426 copying HydRa/preprocessing/Feature_selection/__init__.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-14T21:37:04,428 copying HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py -> build/lib/HydRa/preprocessing/Feature_selection 2023-12-14T21:37:04,431 creating build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,431 copying HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,434 copying HydRa/preprocessing/Feature_generation/__init__.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,435 copying HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,437 copying HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,438 copying HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,441 copying HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,442 copying HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/lib/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:04,443 running egg_info 2023-12-14T21:37:04,471 writing hydra_rbp.egg-info/PKG-INFO 2023-12-14T21:37:04,474 writing dependency_links to hydra_rbp.egg-info/dependency_links.txt 2023-12-14T21:37:04,476 writing entry points to hydra_rbp.egg-info/entry_points.txt 2023-12-14T21:37:04,477 writing requirements to hydra_rbp.egg-info/requires.txt 2023-12-14T21:37:04,478 writing top-level names to hydra_rbp.egg-info/top_level.txt 2023-12-14T21:37:04,522 reading manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-14T21:37:04,525 reading manifest template 'MANIFEST.in' 2023-12-14T21:37:04,528 adding license file 'LICENSE' 2023-12-14T21:37:04,533 writing manifest file 'hydra_rbp.egg-info/SOURCES.txt' 2023-12-14T21:37:04,535 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.data' is absent from the `packages` configuration. 2023-12-14T21:37:04,536 !! 2023-12-14T21:37:04,537 ******************************************************************************** 2023-12-14T21:37:04,537 ############################ 2023-12-14T21:37:04,538 # Package would be ignored # 2023-12-14T21:37:04,538 ############################ 2023-12-14T21:37:04,539 Python recognizes 'HydRa.data' as an importable package[^1], 2023-12-14T21:37:04,539 but it is absent from setuptools' `packages` configuration. 2023-12-14T21:37:04,541 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-14T21:37:04,541 package, please make sure that 'HydRa.data' is explicitly added 2023-12-14T21:37:04,542 to the `packages` configuration field. 2023-12-14T21:37:04,543 Alternatively, you can also rely on setuptools' discovery methods 2023-12-14T21:37:04,544 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-14T21:37:04,544 instead of `find_packages(...)`/`find:`). 2023-12-14T21:37:04,545 You can read more about "package discovery" on setuptools documentation page: 2023-12-14T21:37:04,546 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-14T21:37:04,547 If you don't want 'HydRa.data' to be distributed and are 2023-12-14T21:37:04,548 already explicitly excluding 'HydRa.data' via 2023-12-14T21:37:04,549 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-14T21:37:04,549 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-14T21:37:04,550 combination with a more fine grained `package-data` configuration. 2023-12-14T21:37:04,551 You can read more about "package data files" on setuptools documentation page: 2023-12-14T21:37:04,552 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-14T21:37:04,567 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-14T21:37:04,570 even if it does not contain any `.py` files. 2023-12-14T21:37:04,571 On the other hand, currently there is no concept of package data 2023-12-14T21:37:04,571 directory, all directories are treated like packages. 2023-12-14T21:37:04,572 ******************************************************************************** 2023-12-14T21:37:04,573 !! 2023-12-14T21:37:04,573 check.warn(importable) 2023-12-14T21:37:04,574 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:207: _Warning: Package 'HydRa.pre_trained' is absent from the `packages` configuration. 2023-12-14T21:37:04,574 !! 2023-12-14T21:37:04,575 ******************************************************************************** 2023-12-14T21:37:04,576 ############################ 2023-12-14T21:37:04,576 # Package would be ignored # 2023-12-14T21:37:04,577 ############################ 2023-12-14T21:37:04,577 Python recognizes 'HydRa.pre_trained' as an importable package[^1], 2023-12-14T21:37:04,577 but it is absent from setuptools' `packages` configuration. 2023-12-14T21:37:04,578 This leads to an ambiguous overall configuration. If you want to distribute this 2023-12-14T21:37:04,579 package, please make sure that 'HydRa.pre_trained' is explicitly added 2023-12-14T21:37:04,580 to the `packages` configuration field. 2023-12-14T21:37:04,589 Alternatively, you can also rely on setuptools' discovery methods 2023-12-14T21:37:04,592 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2023-12-14T21:37:04,593 instead of `find_packages(...)`/`find:`). 2023-12-14T21:37:04,594 You can read more about "package discovery" on setuptools documentation page: 2023-12-14T21:37:04,595 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2023-12-14T21:37:04,596 If you don't want 'HydRa.pre_trained' to be distributed and are 2023-12-14T21:37:04,597 already explicitly excluding 'HydRa.pre_trained' via 2023-12-14T21:37:04,597 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2023-12-14T21:37:04,598 you can try to use `exclude_package_data`, or `include-package-data=False` in 2023-12-14T21:37:04,599 combination with a more fine grained `package-data` configuration. 2023-12-14T21:37:04,600 You can read more about "package data files" on setuptools documentation page: 2023-12-14T21:37:04,601 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2023-12-14T21:37:04,603 [^1]: For Python, any directory (with suitable naming) can be imported, 2023-12-14T21:37:04,604 even if it does not contain any `.py` files. 2023-12-14T21:37:04,605 On the other hand, currently there is no concept of package data 2023-12-14T21:37:04,605 directory, all directories are treated like packages. 2023-12-14T21:37:04,606 ******************************************************************************** 2023-12-14T21:37:04,607 !! 2023-12-14T21:37:04,608 check.warn(importable) 2023-12-14T21:37:04,609 creating build/lib/HydRa/data 2023-12-14T21:37:04,609 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-14T21:37:04,610 copying HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-14T21:37:04,610 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls -> build/lib/HydRa/data 2023-12-14T21:37:04,712 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-14T21:37:04,740 copying HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/lib/HydRa/data 2023-12-14T21:37:04,789 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-14T21:37:04,962 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-14T21:37:05,039 copying HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk -> build/lib/HydRa/data 2023-12-14T21:37:05,199 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/lib/HydRa/data 2023-12-14T21:37:05,233 copying HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv -> build/lib/HydRa/data 2023-12-14T21:37:05,266 copying HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,271 copying HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,276 copying HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-14T21:37:05,278 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl -> build/lib/HydRa/data 2023-12-14T21:37:05,281 copying HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-14T21:37:05,283 copying HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/lib/HydRa/data 2023-12-14T21:37:05,368 copying HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/lib/HydRa/data 2023-12-14T21:37:05,370 copying HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,515 copying HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,517 copying HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,520 copying HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-14T21:37:05,522 copying HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/lib/HydRa/data 2023-12-14T21:37:06,093 copying HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-14T21:37:06,095 copying HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/lib/HydRa/data 2023-12-14T21:37:06,097 copying HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/lib/HydRa/data 2023-12-14T21:37:06,162 copying HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/lib/HydRa/data 2023-12-14T21:37:06,190 copying HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/lib/HydRa/data 2023-12-14T21:37:06,223 copying HydRa/data/protVec_100d_3grams.csv -> build/lib/HydRa/data 2023-12-14T21:37:06,345 creating build/lib/HydRa/pre_trained 2023-12-14T21:37:06,346 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-14T21:37:06,375 copying HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-14T21:37:06,401 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 2023-12-14T21:37:06,404 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 2023-12-14T21:37:06,466 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 2023-12-14T21:37:06,468 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 2023-12-14T21:37:06,535 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-14T21:37:06,539 copying HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/lib/HydRa/pre_trained 2023-12-14T21:37:06,542 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 2023-12-14T21:37:06,562 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 2023-12-14T21:37:06,578 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 2023-12-14T21:37:09,823 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 2023-12-14T21:37:10,765 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-12-14T21:37:10,765 !! 2023-12-14T21:37:10,766 ******************************************************************************** 2023-12-14T21:37:10,767 Please avoid running ``setup.py`` directly. 2023-12-14T21:37:10,767 Instead, use pypa/build, pypa/installer or other 2023-12-14T21:37:10,768 standards-based tools. 2023-12-14T21:37:10,769 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-12-14T21:37:10,769 ******************************************************************************** 2023-12-14T21:37:10,770 !! 2023-12-14T21:37:10,771 self.initialize_options() 2023-12-14T21:37:10,793 installing to build/bdist.linux-armv7l/wheel 2023-12-14T21:37:10,794 running install 2023-12-14T21:37:10,818 running install_lib 2023-12-14T21:37:10,845 creating build/bdist.linux-armv7l 2023-12-14T21:37:10,846 creating build/bdist.linux-armv7l/wheel 2023-12-14T21:37:10,847 creating build/bdist.linux-armv7l/wheel/HydRa 2023-12-14T21:37:10,849 copying build/lib/HydRa/HydRa2_0_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-14T21:37:10,852 creating build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:10,853 copying build/lib/HydRa/data/Combined10RBPlist_uniprotID_20190716.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:10,858 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 2023-12-14T21:37:10,967 copying build/lib/HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:10,968 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 2023-12-14T21:37:10,970 copying build/lib/HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,002 copying build/lib/HydRa/data/protVec_100d_3grams.csv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,126 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 2023-12-14T21:37:11,129 copying build/lib/HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,130 copying build/lib/HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,133 copying build/lib/HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,206 copying build/lib/HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,208 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 2023-12-14T21:37:11,230 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 2023-12-14T21:37:11,399 copying build/lib/HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,963 copying build/lib/HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:11,996 copying build/lib/HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,001 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 2023-12-14T21:37:12,032 copying build/lib/HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,070 copying build/lib/HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,071 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 2023-12-14T21:37:12,090 copying build/lib/HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,122 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 2023-12-14T21:37:12,149 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 2023-12-14T21:37:12,317 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 2023-12-14T21:37:12,320 copying build/lib/HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,398 copying build/lib/HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,400 copying build/lib/HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt -> build/bdist.linux-armv7l/wheel/HydRa/data 2023-12-14T21:37:12,556 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 2023-12-14T21:37:12,628 copying build/lib/HydRa/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-14T21:37:12,630 copying build/lib/HydRa/HydRa_predict.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-14T21:37:12,633 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,635 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-14T21:37:12,636 copying build/lib/HydRa/preprocessing/Feature_selection/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_selection 2023-12-14T21:37:12,637 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 2023-12-14T21:37:12,640 copying build/lib/HydRa/preprocessing/predict_SS.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,642 creating build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,643 copying build/lib/HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,645 copying build/lib/HydRa/preprocessing/Feature_generation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,647 copying build/lib/HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,649 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 2023-12-14T21:37:12,650 copying build/lib/HydRa/preprocessing/Feature_generation/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,653 copying build/lib/HydRa/preprocessing/Feature_generation/kmer_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,654 copying build/lib/HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing/Feature_generation 2023-12-14T21:37:12,656 copying build/lib/HydRa/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,658 copying build/lib/HydRa/preprocessing/get_SVM_seq_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,660 copying build/lib/HydRa/preprocessing/Get_All_selected_SVM_features.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,662 copying build/lib/HydRa/preprocessing/PPI_feature_generation.py -> build/bdist.linux-armv7l/wheel/HydRa/preprocessing 2023-12-14T21:37:12,665 creating build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,666 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,668 copying build/lib/HydRa/predictions/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,670 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,672 copying build/lib/HydRa/predictions/Occlusion_map_v2.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,675 copying build/lib/HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,678 copying build/lib/HydRa/predictions/Occlusion_map.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,681 copying build/lib/HydRa/predictions/Occlusion_map_v3_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,684 copying build/lib/HydRa/predictions/Occlusion_map_v2_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/predictions 2023-12-14T21:37:12,688 creating build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,689 copying build/lib/HydRa/training/train_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,692 copying build/lib/HydRa/training/train_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,695 copying build/lib/HydRa/training/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,697 copying build/lib/HydRa/training/train_and_evaluate_HydRa2_0.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,700 copying build/lib/HydRa/training/train_and_evaluate_HydRa_bk.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,702 copying build/lib/HydRa/training/train_and_evaluate_HydRa.py -> build/bdist.linux-armv7l/wheel/HydRa/training 2023-12-14T21:37:12,706 creating build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-14T21:37:12,707 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-14T21:37:12,732 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 2023-12-14T21:37:12,735 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 2023-12-14T21:37:12,751 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 2023-12-14T21:37:14,380 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 2023-12-14T21:37:14,449 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 2023-12-14T21:37:17,457 copying build/lib/HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-14T21:37:17,461 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 2023-12-14T21:37:17,464 copying build/lib/HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5 -> build/bdist.linux-armv7l/wheel/HydRa/pre_trained 2023-12-14T21:37:17,488 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 2023-12-14T21:37:17,506 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 2023-12-14T21:37:17,510 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 2023-12-14T21:37:17,569 creating build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-14T21:37:17,570 copying build/lib/HydRa/evaluation/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-14T21:37:17,571 copying build/lib/HydRa/evaluation/ROC_PR_AUC_analysis.py -> build/bdist.linux-armv7l/wheel/HydRa/evaluation 2023-12-14T21:37:17,574 creating build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-14T21:37:17,574 copying build/lib/HydRa/models/__init__.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-14T21:37:17,576 copying build/lib/HydRa/models/Sequence_class.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-14T21:37:17,579 copying build/lib/HydRa/models/DNN_seq.py -> build/bdist.linux-armv7l/wheel/HydRa/models 2023-12-14T21:37:17,582 copying build/lib/HydRa/test_data_load.py -> build/bdist.linux-armv7l/wheel/HydRa 2023-12-14T21:37:17,583 running install_egg_info 2023-12-14T21:37:17,612 Copying hydra_rbp.egg-info to build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.29-py3.11.egg-info 2023-12-14T21:37:17,625 running install_scripts 2023-12-14T21:37:17,642 creating build/bdist.linux-armv7l/wheel/hydra_rbp-0.1.21.29.dist-info/WHEEL 2023-12-14T21:37:17,644 creating '/tmp/pip-wheel-6g2chnbb/hydra_rbp-0.1.21.29-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2023-12-14T21:37:17,649 adding 'HydRa/HydRa2_0_predict.py' 2023-12-14T21:37:17,653 adding 'HydRa/HydRa_predict.py' 2023-12-14T21:37:17,654 adding 'HydRa/__init__.py' 2023-12-14T21:37:17,656 adding 'HydRa/test_data_load.py' 2023-12-14T21:37:18,041 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_menthaBioPlex_STRING.tsv' 2023-12-14T21:37:18,405 adding 'HydRa/data/Classification_cv_scores_AllRuns_SONAR+_final_Ensemble_17_3_7_3_combined10RBPlist_noSS_menthaBioPlex_STRING.tsv' 2023-12-14T21:37:20,552 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_AddNoSS_trainedWithWholeDataset.xls' 2023-12-14T21:37:21,104 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_noSS_trainedWithWholeDataset.tsv' 2023-12-14T21:37:21,842 adding 'HydRa/data/Classification_scores_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_trainedWithWholeDataset.tsv' 2023-12-14T21:37:25,171 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-14T21:37:26,345 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-14T21:37:29,689 adding 'HydRa/data/Classification_scores_TrainingWithTheWholeProteinSet_final_model_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv.bk' 2023-12-14T21:37:30,318 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING.tsv' 2023-12-14T21:37:30,899 adding 'HydRa/data/Classification_scores_reference_cv_HydRa2.0_DNN_SVM_ProteinBERT_menthaBioPlex_STRING_noSS.tsv' 2023-12-14T21:37:30,950 adding 'HydRa/data/Combined10RBPlist_uniprotID_20190716.txt' 2023-12-14T21:37:30,993 adding 'HydRa/data/Combined8RBPlist_plusOOPSXRNAXsharedRBPs_uniprotID_20190717.txt' 2023-12-14T21:37:30,996 adding 'HydRa/data/FromOrelOcclRun_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-14T21:37:30,997 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_avg_zscores_statistics.pkl' 2023-12-14T21:37:30,999 adding 'HydRa/data/HydRa2.0_noSS_Occlusion_maps_seqSVM_seqDNN_ProteinBERT_proteinLengthWiseFib_scores_statistics.pkl' 2023-12-14T21:37:32,104 adding 'HydRa/data/HydRa2.0_proteins_with_RBP_categories_RBPflagCorrected_Nov2021_new.tsv' 2023-12-14T21:37:32,135 adding 'HydRa/data/HydRa_v4_7_3_Occlusion_maps_seqSVM_seqDNN_scores_statistics.pkl' 2023-12-14T21:37:33,809 adding 'HydRa/data/STRING_v10.5_uniprot_edgelist_withoutExperimentalData.txt' 2023-12-14T21:37:33,872 adding 'HydRa/data/SVM_AAC_chi2_alpha0.01_selected_features_From_WholeDataSet_AACname.txt' 2023-12-14T21:37:33,874 adding 'HydRa/data/SVM_SS_11mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-14T21:37:33,876 adding 'HydRa/data/SVM_SS_15mer_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-14T21:37:37,120 adding 'HydRa/data/SVM_SeqFeature_table_comined_all_selected_features_From_WholeDataset_12Apr_AACname.txt' 2023-12-14T21:37:37,366 adding 'HydRa/data/SVM_mer3_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-14T21:37:37,367 adding 'HydRa/data/SVM_mer4_chi2_alpha0.01_with_LinearSVC_selected_features_From_WholeDataSet.txt' 2023-12-14T21:37:38,825 adding 'HydRa/data/mentha20180108_BioPlex2.0_edgelist.txt' 2023-12-14T21:37:39,359 adding 'HydRa/data/menthaBioPlex_feature_table_combined10RBPlist.xls' 2023-12-14T21:37:39,933 adding 'HydRa/data/menthaBioPlex_separatedSTRING_feature_table_combined8RBPlistAddingOOPSXRNAX.xls' 2023-12-14T21:37:42,276 adding 'HydRa/data/protVec_100d_3grams.csv' 2023-12-14T21:37:42,331 adding 'HydRa/evaluation/ROC_PR_AUC_analysis.py' 2023-12-14T21:37:42,332 adding 'HydRa/evaluation/__init__.py' 2023-12-14T21:37:42,337 adding 'HydRa/models/DNN_seq.py' 2023-12-14T21:37:42,339 adding 'HydRa/models/Sequence_class.py' 2023-12-14T21:37:42,341 adding 'HydRa/models/__init__.py' 2023-12-14T21:37:42,567 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-14T21:37:42,798 adding 'HydRa/pre_trained/CNN_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-14T21:37:42,810 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_structure.json' 2023-12-14T21:37:43,409 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_model_weights.h5' 2023-12-14T21:37:43,435 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_structure.json' 2023-12-14T21:37:44,032 adding 'HydRa/pre_trained/DNN_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_model_weights.h5' 2023-12-14T21:37:44,063 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_OOPSXRNAXadded.h5' 2023-12-14T21:37:44,070 adding 'HydRa/pre_trained/DenseI21_5_autoencoder_2CNN2MaxPool_64filter5_2poollength_first1500aa_withRBPs_noSS_OOPSXRNAXadded.h5' 2023-12-14T21:37:44,166 adding 'HydRa/pre_trained/SVM_PPI_MB-S_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-14T21:37:44,270 adding 'HydRa/pre_trained/SVM_PPI_MB_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pkl' 2023-12-14T21:37:49,042 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_ModelFile.pickle.pkl' 2023-12-14T21:37:53,393 adding 'HydRa/pre_trained/SVM_seqOnly_trainedWithWholeDataset_menthaBioPlexSTRING_Final_Model_v4_7_3_MenthaBioPlex_STRING_AddingOOPSXRNAXlabels_newSklearn0.22.1_noSS_WithNoSSmodel_ModelFile.pickle.pkl' 2023-12-14T21:37:53,806 adding 'HydRa/predictions/Occlusion_1D_analysis_2.py' 2023-12-14T21:37:53,811 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124.py' 2023-12-14T21:37:53,812 adding 'HydRa/predictions/Occlusion_1D_analysis_SONARplus_intrinsic_on_WuhanVirus_20200124_ensScore.py' 2023-12-14T21:37:53,817 adding 'HydRa/predictions/Occlusion_map.py' 2023-12-14T21:37:53,823 adding 'HydRa/predictions/Occlusion_map_v2.py' 2023-12-14T21:37:53,832 adding 'HydRa/predictions/Occlusion_map_v2_HydRa2_0.py' 2023-12-14T21:37:53,842 adding 'HydRa/predictions/Occlusion_map_v3_HydRa2_0.py' 2023-12-14T21:37:53,843 adding 'HydRa/predictions/__init__.py' 2023-12-14T21:37:53,846 adding 'HydRa/preprocessing/Get_All_selected_SVM_features.py' 2023-12-14T21:37:53,847 adding 'HydRa/preprocessing/PPI_feature_generation.py' 2023-12-14T21:37:53,848 adding 'HydRa/preprocessing/__init__.py' 2023-12-14T21:37:53,850 adding 'HydRa/preprocessing/get_SVM_seq_features.py' 2023-12-14T21:37:53,851 adding 'HydRa/preprocessing/predict_SS.py' 2023-12-14T21:37:53,853 adding 'HydRa/preprocessing/Feature_generation/AAC_feature_table_generation.py' 2023-12-14T21:37:53,854 adding 'HydRa/preprocessing/Feature_generation/PPI_feature_generation.py' 2023-12-14T21:37:53,856 adding 'HydRa/preprocessing/Feature_generation/Secondary_structure_prediction.py' 2023-12-14T21:37:53,857 adding 'HydRa/preprocessing/Feature_generation/__init__.py' 2023-12-14T21:37:53,859 adding 'HydRa/preprocessing/Feature_generation/get_PPI_feature_mat_MB_STRING.py' 2023-12-14T21:37:53,860 adding 'HydRa/preprocessing/Feature_generation/kmer_table_generation.py' 2023-12-14T21:37:53,861 adding 'HydRa/preprocessing/Feature_generation/run_get_PPI_feature_mat_MB_STRING_addingOOPSXRNAXlabelsV2.py' 2023-12-14T21:37:53,863 adding 'HydRa/preprocessing/Feature_selection/Feature_selection_for_each_feature_after_chi2Filtering_forFinalTraining.py' 2023-12-14T21:37:53,864 adding 'HydRa/preprocessing/Feature_selection/__init__.py' 2023-12-14T21:37:53,866 adding 'HydRa/training/__init__.py' 2023-12-14T21:37:53,870 adding 'HydRa/training/train_HydRa.py' 2023-12-14T21:37:53,875 adding 'HydRa/training/train_HydRa2_0.py' 2023-12-14T21:37:53,880 adding 'HydRa/training/train_and_evaluate_HydRa.py' 2023-12-14T21:37:53,885 adding 'HydRa/training/train_and_evaluate_HydRa2_0.py' 2023-12-14T21:37:53,890 adding 'HydRa/training/train_and_evaluate_HydRa_bk.py' 2023-12-14T21:37:53,892 adding 'hydra_rbp-0.1.21.29.dist-info/LICENSE' 2023-12-14T21:37:53,894 adding 'hydra_rbp-0.1.21.29.dist-info/METADATA' 2023-12-14T21:37:53,895 adding 'hydra_rbp-0.1.21.29.dist-info/WHEEL' 2023-12-14T21:37:53,896 adding 'hydra_rbp-0.1.21.29.dist-info/entry_points.txt' 2023-12-14T21:37:53,897 adding 'hydra_rbp-0.1.21.29.dist-info/top_level.txt' 2023-12-14T21:37:53,899 adding 'hydra_rbp-0.1.21.29.dist-info/RECORD' 2023-12-14T21:37:53,929 removing build/bdist.linux-armv7l/wheel 2023-12-14T21:37:54,177 Building wheel for hydra-rbp (setup.py): finished with status 'done' 2023-12-14T21:37:55,287 Created wheel for hydra-rbp: filename=hydra_rbp-0.1.21.29-py3-none-any.whl size=53775104 sha256=e1ffbf05d3124e9af44781389df5f63a7ba227f3dcf8c98cbdb55b4eda436c9b 2023-12-14T21:37:55,288 Stored in directory: /tmp/pip-ephem-wheel-cache-0xyu404t/wheels/b2/e0/54/44a5c4973e2835124481d53e715cdf00ba1d090b664f6fb7f2 2023-12-14T21:37:55,319 Successfully built hydra-rbp 2023-12-14T21:37:56,575 Removed build tracker: '/tmp/pip-build-tracker-omyy2ezu'