{"id":25587,"name":"alphapept","description":"A modular, python-based framework for mass spectrometry. Powered by nbdev.","url":"https://github.com/mannlabs/alphapept","last_synced_at":"2025-09-05T02:51:42.929Z","repository":{"id":37927707,"uuid":"244647858","full_name":"MannLabs/alphapept","owner":"MannLabs","description":"A modular, python-based framework for mass spectrometry. Powered by nbdev.","archived":false,"fork":false,"pushed_at":"2024-04-19T15:51:13.000Z","size":213970,"stargazers_count":178,"open_issues_count":26,"forks_count":33,"subscribers_count":11,"default_branch":"master","last_synced_at":"2025-08-25T20:29:19.717Z","etag":null,"topics":["alphapept-ecosystem","bioinformatics","mass-spectrometry","proteomics"],"latest_commit_sha":null,"homepage":"https://mannlabs.github.io/alphapept/","language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"apache-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/MannLabs.png","metadata":{"files":{"readme":"README.md","changelog":"changelog.md","contributing":"docs/contributing.html","funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2020-03-03T13:48:32.000Z","updated_at":"2025-08-17T18:56:33.000Z","dependencies_parsed_at":"2023-02-12T22:16:43.186Z","dependency_job_id":"3ce80b6e-360b-4e6e-9a9c-48db4c869d7a","html_url":"https://github.com/MannLabs/alphapept","commit_stats":{"total_commits":1618,"total_committers":21,"mean_commits":77.04761904761905,"dds":"0.26823238566131025","last_synced_commit":"843de6b7b560b4ebaefdd9fbe533b65098df3b15"},"previous_names":[],"tags_count":24,"template":false,"template_full_name":"fastai/nbdev_template","purl":"pkg:github/MannLabs/alphapept","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/sbom","scorecard":{"id":89394,"data":{"date":"2025-08-11","repo":{"name":"github.com/MannLabs/alphapept","commit":"c81f6f7072cad940aa95328f49d6b6cb6b252669"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":1.8,"checks":[{"name":"Maintained","score":0,"reason":"0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0","details":null,"documentation":{"short":"Determines if the project is \"actively maintained\".","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#maintained"}},{"name":"Code-Review","score":0,"reason":"Found 0/21 approved changesets -- score normalized to 0","details":null,"documentation":{"short":"Determines if the project requires human code review before pull requests (aka merge requests) are merged.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#code-review"}},{"name":"Dangerous-Workflow","score":10,"reason":"no dangerous workflow patterns detected","details":null,"documentation":{"short":"Determines if the project's GitHub Action workflows avoid dangerous patterns.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#dangerous-workflow"}},{"name":"CII-Best-Practices","score":0,"reason":"no effort to earn an OpenSSF best practices badge detected","details":null,"documentation":{"short":"Determines if the project has an OpenSSF (formerly CII) Best Practices Badge.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#cii-best-practices"}},{"name":"Token-Permissions","score":0,"reason":"detected GitHub workflow tokens with excessive permissions","details":["Warn: no topLevel permission defined: .github/workflows/gpu_test.yml:1","Warn: no topLevel permission defined: .github/workflows/nbdev.yaml:1","Warn: no topLevel permission defined: .github/workflows/performance_test_installer.yml:1","Warn: no topLevel permission defined: .github/workflows/publish_on_pypi.yml:1","Warn: no topLevel permission defined: .github/workflows/quick_test.yml:1","Warn: no topLevel permission defined: .github/workflows/release.yml:1","Info: no jobLevel write permissions found"],"documentation":{"short":"Determines if the project's workflows follow the principle of least privilege.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#token-permissions"}},{"name":"Binary-Artifacts","score":1,"reason":"binaries present in source code","details":["Warn: binary detected: alphapept/ext/bruker/FF/linux64/libtbb.so.2:1","Warn: binary detected: alphapept/ext/bruker/FF/linux64/uff-cmdline2:1","Warn: binary detected: alphapept/ext/bruker/FF/win64/tbb.dll:1","Warn: binary detected: alphapept/ext/bruker/FF/win64/uff-cmdline2.exe:1","Warn: binary detected: alphapept/ext/bruker/libtimsdata.so:1","Warn: binary detected: alphapept/ext/bruker/timsdata.dll:1","Warn: binary detected: alphapept/ext/bruker/timsdata.lib:1","Warn: binary detected: alphapept/ext/thermo_fisher/ThermoFisher.CommonCore.Data.dll:1","Warn: binary detected: alphapept/ext/thermo_fisher/ThermoFisher.CommonCore.RawFileReader.dll:1"],"documentation":{"short":"Determines if the project has generated executable (binary) artifacts in the source repository.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#binary-artifacts"}},{"name":"Security-Policy","score":0,"reason":"security policy file not detected","details":["Warn: no security policy file detected","Warn: no security file to analyze","Warn: no security file to analyze","Warn: no security file to analyze"],"documentation":{"short":"Determines if the project has published a security policy.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#security-policy"}},{"name":"Packaging","score":-1,"reason":"packaging workflow not detected","details":["Warn: no GitHub/GitLab publishing workflow detected."],"documentation":{"short":"Determines if the project is published as a package that others can easily download, install, easily update, and uninstall.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#packaging"}},{"name":"Fuzzing","score":0,"reason":"project is not fuzzed","details":["Warn: no fuzzer integrations found"],"documentation":{"short":"Determines if the project uses fuzzing.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#fuzzing"}},{"name":"License","score":10,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Info: FSF or OSI recognized license: Apache License 2.0: LICENSE:0"],"documentation":{"short":"Determines if the project has defined a license.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#license"}},{"name":"Signed-Releases","score":0,"reason":"Project has not signed or included provenance with any releases.","details":["Warn: release artifact v0.5.0 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/103792332","Warn: release artifact v0.4.9 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/82561560","Warn: release artifact v0.4.8 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/74697066","Warn: release artifact v0.4.7 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/72427243","Warn: release artifact v0.4.6 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/68310553","Warn: release artifact v0.5.0 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/103792332","Warn: release artifact v0.4.9 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/82561560","Warn: release artifact v0.4.8 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/74697066","Warn: release artifact v0.4.7 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/72427243","Warn: release artifact v0.4.6 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/68310553"],"documentation":{"short":"Determines if the project cryptographically signs release artifacts.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#signed-releases"}},{"name":"Branch-Protection","score":-1,"reason":"internal error: error during branchesHandler.setup: internal error: githubv4.Query: Resource not accessible by integration","details":null,"documentation":{"short":"Determines if the default and release branches are protected with GitHub's branch protection settings.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#branch-protection"}},{"name":"Vulnerabilities","score":2,"reason":"8 existing vulnerabilities detected","details":["Warn: Project is vulnerable to: GHSA-6p56-wp2h-9hxr","Warn: Project is vulnerable to: GHSA-fpfv-jqm9-f5jm","Warn: Project is vulnerable to: PYSEC-2024-110 / GHSA-jw8x-6495-233v","Warn: Project is vulnerable to: PYSEC-2023-102","Warn: Project is vulnerable to: GHSA-g7vv-2v7x-gj9p","Warn: Project is vulnerable to: PYSEC-2023-292 / GHSA-9w2p-rh8c-v9g5","Warn: Project is vulnerable to: GHSA-8qw9-gf7w-42x5","Warn: Project is vulnerable to: PYSEC-2024-153 / GHSA-rxff-vr5r-8cj5"],"documentation":{"short":"Determines if the project has open, known unfixed vulnerabilities.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#vulnerabilities"}},{"name":"SAST","score":0,"reason":"SAST tool is not run on all commits -- score normalized to 0","details":["Warn: 0 commits out of 12 are checked with a SAST tool"],"documentation":{"short":"Determines if the project uses static code analysis.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#sast"}},{"name":"Pinned-Dependencies","score":0,"reason":"dependency not pinned by hash detected -- score normalized to 0","details":["Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/gpu_test.yml:11: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/gpu_test.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/nbdev.yaml:7: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/nbdev.yaml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/performance_test_installer.yml:13: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/performance_test_installer.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:13: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:39: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:40: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:59: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:72: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:83: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:84: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/quick_test.yml:16: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/quick_test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:24: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:42: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: containerImage not pinned by hash: Dockerfile:1: pin your Docker image by updating jupyter/base-notebook:python-3.8 to jupyter/base-notebook:python-3.8@sha256:a9cbf18d23e78c23441042501f1a5fa15c3baeae05ccddf6d98dc9624f1d0709","Warn: containerImage not pinned by hash: Dockerfile_bruker:1: pin your Docker image by updating ubuntu:20.04 to ubuntu:20.04@sha256:8feb4d8ca5354def3d8fce243717141ce31e2c428701f6682bd2fafe15388214","Warn: containerImage not pinned by hash: Dockerfile_thermo:1: pin your Docker image by updating jupyter/base-notebook:python-3.8 to jupyter/base-notebook:python-3.8@sha256:a9cbf18d23e78c23441042501f1a5fa15c3baeae05ccddf6d98dc9624f1d0709","Warn: pipCommand not pinned by hash: Dockerfile:24","Warn: pipCommand not pinned by hash: Dockerfile_bruker:6","Warn: pipCommand not pinned by hash: Dockerfile_bruker:13","Warn: pipCommand not pinned by hash: Dockerfile_bruker:14","Warn: pipCommand not pinned by hash: Dockerfile_thermo:23","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:16","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:17","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:18","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:19","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:20","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:23","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:24","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:25","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:22","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:23","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:24","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:25","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:26","Info:   0 out of   9 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   6 third-party GitHubAction dependencies pinned","Info:   0 out of   3 containerImage dependencies pinned","Info:   0 out of  18 pipCommand dependencies pinned"],"documentation":{"short":"Determines if the project has declared and pinned the dependencies of its build process.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#pinned-dependencies"}}]},"last_synced_at":"2025-08-15T07:36:54.073Z","repository_id":37927707,"created_at":"2025-08-15T07:36:54.074Z","updated_at":"2025-08-15T07:36:54.074Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273703694,"owners_count":25153001,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-05T02:00:09.113Z","response_time":402,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"owner":{"login":"MannLabs","name":"Mann Labs","uuid":"46714192","kind":"organization","description":"","email":null,"website":null,"location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/46714192?v=4","repositories_count":16,"last_synced_at":"2023-03-05T02:54:29.783Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/MannLabs","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-15T04:50:01.215Z","updated_at":"2023-03-05T02:54:29.793Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs/repositories"},"packages":[{"id":2638143,"name":"alphapept","ecosystem":"pypi","description":"A modular, python-based framework for mass spectrometry.","homepage":"https://github.com/mannlabs/alphapept","licenses":"MIT License","normalized_licenses":["MIT"],"repository_url":"https://github.com/mannlabs/alphapept","keywords_array":["MS","mass spectrometry","python","numba"],"namespace":null,"versions_count":18,"first_release_published_at":"2021-09-21T16:38:25.000Z","latest_release_published_at":"2024-04-19T15:54:41.000Z","latest_release_number":"0.5.3","last_synced_at":"2025-08-25T17:23:00.650Z","created_at":"2022-04-10T10:01:11.462Z","updated_at":"2025-08-25T22:21:47.994Z","registry_url":"https://pypi.org/project/alphapept/","install_command":"pip install alphapept --index-url https://pypi.org/simple","documentation_url":"https://alphapept.readthedocs.io/","metadata":{"funding":null,"documentation":null,"classifiers":["Development Status :: 3 - Alpha","Intended Audience :: Developers","License :: OSI Approved :: MIT License","Natural Language :: English","Programming Language :: Python :: 3.10","Programming Language :: Python :: 3.6","Programming Language :: Python :: 3.7","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9"],"normalized_name":"alphapept","project_status":null},"repo_metadata":{"id":37927707,"uuid":"244647858","full_name":"MannLabs/alphapept","owner":"MannLabs","description":"A modular, python-based framework for mass spectrometry. Powered by nbdev.","archived":false,"fork":false,"pushed_at":"2024-04-19T15:51:13.000Z","size":213970,"stargazers_count":178,"open_issues_count":26,"forks_count":33,"subscribers_count":11,"default_branch":"master","last_synced_at":"2025-08-25T20:29:19.717Z","etag":null,"topics":["alphapept-ecosystem","bioinformatics","mass-spectrometry","proteomics"],"latest_commit_sha":null,"homepage":"https://mannlabs.github.io/alphapept/","language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"apache-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/MannLabs.png","metadata":{"files":{"readme":"README.md","changelog":"changelog.md","contributing":"docs/contributing.html","funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.cff","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2020-03-03T13:48:32.000Z","updated_at":"2025-08-17T18:56:33.000Z","dependencies_parsed_at":"2023-02-12T22:16:43.186Z","dependency_job_id":"3ce80b6e-360b-4e6e-9a9c-48db4c869d7a","html_url":"https://github.com/MannLabs/alphapept","commit_stats":{"total_commits":1618,"total_committers":21,"mean_commits":77.04761904761905,"dds":"0.26823238566131025","last_synced_commit":"843de6b7b560b4ebaefdd9fbe533b65098df3b15"},"previous_names":[],"tags_count":24,"template":false,"template_full_name":"fastai/nbdev_template","purl":"pkg:github/MannLabs/alphapept","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/sbom","scorecard":{"id":89394,"data":{"date":"2025-08-11","repo":{"name":"github.com/MannLabs/alphapept","commit":"c81f6f7072cad940aa95328f49d6b6cb6b252669"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":1.8,"checks":[{"name":"Maintained","score":0,"reason":"0 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 0","details":null,"documentation":{"short":"Determines if the project is \"actively maintained\".","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#maintained"}},{"name":"Code-Review","score":0,"reason":"Found 0/21 approved changesets -- score normalized to 0","details":null,"documentation":{"short":"Determines if the project requires human code review before pull requests (aka merge requests) are merged.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#code-review"}},{"name":"Dangerous-Workflow","score":10,"reason":"no dangerous workflow patterns detected","details":null,"documentation":{"short":"Determines if the project's GitHub Action workflows avoid dangerous patterns.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#dangerous-workflow"}},{"name":"CII-Best-Practices","score":0,"reason":"no effort to earn an OpenSSF best practices badge detected","details":null,"documentation":{"short":"Determines if the project has an OpenSSF (formerly CII) Best Practices Badge.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#cii-best-practices"}},{"name":"Token-Permissions","score":0,"reason":"detected GitHub workflow tokens with excessive permissions","details":["Warn: no topLevel permission defined: .github/workflows/gpu_test.yml:1","Warn: no topLevel permission defined: .github/workflows/nbdev.yaml:1","Warn: no topLevel permission defined: .github/workflows/performance_test_installer.yml:1","Warn: no topLevel permission defined: .github/workflows/publish_on_pypi.yml:1","Warn: no topLevel permission defined: .github/workflows/quick_test.yml:1","Warn: no topLevel permission defined: .github/workflows/release.yml:1","Info: no jobLevel write permissions found"],"documentation":{"short":"Determines if the project's workflows follow the principle of least privilege.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#token-permissions"}},{"name":"Binary-Artifacts","score":1,"reason":"binaries present in source code","details":["Warn: binary detected: alphapept/ext/bruker/FF/linux64/libtbb.so.2:1","Warn: binary detected: alphapept/ext/bruker/FF/linux64/uff-cmdline2:1","Warn: binary detected: alphapept/ext/bruker/FF/win64/tbb.dll:1","Warn: binary detected: alphapept/ext/bruker/FF/win64/uff-cmdline2.exe:1","Warn: binary detected: alphapept/ext/bruker/libtimsdata.so:1","Warn: binary detected: alphapept/ext/bruker/timsdata.dll:1","Warn: binary detected: alphapept/ext/bruker/timsdata.lib:1","Warn: binary detected: alphapept/ext/thermo_fisher/ThermoFisher.CommonCore.Data.dll:1","Warn: binary detected: alphapept/ext/thermo_fisher/ThermoFisher.CommonCore.RawFileReader.dll:1"],"documentation":{"short":"Determines if the project has generated executable (binary) artifacts in the source repository.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#binary-artifacts"}},{"name":"Security-Policy","score":0,"reason":"security policy file not detected","details":["Warn: no security policy file detected","Warn: no security file to analyze","Warn: no security file to analyze","Warn: no security file to analyze"],"documentation":{"short":"Determines if the project has published a security policy.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#security-policy"}},{"name":"Packaging","score":-1,"reason":"packaging workflow not detected","details":["Warn: no GitHub/GitLab publishing workflow detected."],"documentation":{"short":"Determines if the project is published as a package that others can easily download, install, easily update, and uninstall.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#packaging"}},{"name":"Fuzzing","score":0,"reason":"project is not fuzzed","details":["Warn: no fuzzer integrations found"],"documentation":{"short":"Determines if the project uses fuzzing.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#fuzzing"}},{"name":"License","score":10,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Info: FSF or OSI recognized license: Apache License 2.0: LICENSE:0"],"documentation":{"short":"Determines if the project has defined a license.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#license"}},{"name":"Signed-Releases","score":0,"reason":"Project has not signed or included provenance with any releases.","details":["Warn: release artifact v0.5.0 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/103792332","Warn: release artifact v0.4.9 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/82561560","Warn: release artifact v0.4.8 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/74697066","Warn: release artifact v0.4.7 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/72427243","Warn: release artifact v0.4.6 not signed: https://api.github.com/repos/MannLabs/alphapept/releases/68310553","Warn: release artifact v0.5.0 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/103792332","Warn: release artifact v0.4.9 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/82561560","Warn: release artifact v0.4.8 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/74697066","Warn: release artifact v0.4.7 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/72427243","Warn: release artifact v0.4.6 does not have provenance: https://api.github.com/repos/MannLabs/alphapept/releases/68310553"],"documentation":{"short":"Determines if the project cryptographically signs release artifacts.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#signed-releases"}},{"name":"Branch-Protection","score":-1,"reason":"internal error: error during branchesHandler.setup: internal error: githubv4.Query: Resource not accessible by integration","details":null,"documentation":{"short":"Determines if the default and release branches are protected with GitHub's branch protection settings.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#branch-protection"}},{"name":"Vulnerabilities","score":2,"reason":"8 existing vulnerabilities detected","details":["Warn: Project is vulnerable to: GHSA-6p56-wp2h-9hxr","Warn: Project is vulnerable to: GHSA-fpfv-jqm9-f5jm","Warn: Project is vulnerable to: PYSEC-2024-110 / GHSA-jw8x-6495-233v","Warn: Project is vulnerable to: PYSEC-2023-102","Warn: Project is vulnerable to: GHSA-g7vv-2v7x-gj9p","Warn: Project is vulnerable to: PYSEC-2023-292 / GHSA-9w2p-rh8c-v9g5","Warn: Project is vulnerable to: GHSA-8qw9-gf7w-42x5","Warn: Project is vulnerable to: PYSEC-2024-153 / GHSA-rxff-vr5r-8cj5"],"documentation":{"short":"Determines if the project has open, known unfixed vulnerabilities.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#vulnerabilities"}},{"name":"SAST","score":0,"reason":"SAST tool is not run on all commits -- score normalized to 0","details":["Warn: 0 commits out of 12 are checked with a SAST tool"],"documentation":{"short":"Determines if the project uses static code analysis.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#sast"}},{"name":"Pinned-Dependencies","score":0,"reason":"dependency not pinned by hash detected -- score normalized to 0","details":["Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/gpu_test.yml:11: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/gpu_test.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/nbdev.yaml:7: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/nbdev.yaml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/performance_test_installer.yml:13: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/performance_test_installer.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:13: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:39: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:40: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:59: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:72: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:83: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish_on_pypi.yml:84: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/publish_on_pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/quick_test.yml:16: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/quick_test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:24: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/release.yml:42: update your workflow using https://app.stepsecurity.io/secureworkflow/MannLabs/alphapept/release.yml/master?enable=pin","Warn: containerImage not pinned by hash: Dockerfile:1: pin your Docker image by updating jupyter/base-notebook:python-3.8 to jupyter/base-notebook:python-3.8@sha256:a9cbf18d23e78c23441042501f1a5fa15c3baeae05ccddf6d98dc9624f1d0709","Warn: containerImage not pinned by hash: Dockerfile_bruker:1: pin your Docker image by updating ubuntu:20.04 to ubuntu:20.04@sha256:8feb4d8ca5354def3d8fce243717141ce31e2c428701f6682bd2fafe15388214","Warn: containerImage not pinned by hash: Dockerfile_thermo:1: pin your Docker image by updating jupyter/base-notebook:python-3.8 to jupyter/base-notebook:python-3.8@sha256:a9cbf18d23e78c23441042501f1a5fa15c3baeae05ccddf6d98dc9624f1d0709","Warn: pipCommand not pinned by hash: Dockerfile:24","Warn: pipCommand not pinned by hash: Dockerfile_bruker:6","Warn: pipCommand not pinned by hash: Dockerfile_bruker:13","Warn: pipCommand not pinned by hash: Dockerfile_bruker:14","Warn: pipCommand not pinned by hash: Dockerfile_thermo:23","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:16","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:17","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:18","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:19","Warn: pipCommand not pinned by hash: .github/workflows/gpu_test.yml:20","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:23","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:24","Warn: pipCommand not pinned by hash: .github/workflows/performance_test_installer.yml:25","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:22","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:23","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:24","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:25","Warn: pipCommand not pinned by hash: .github/workflows/quick_test.yml:26","Info:   0 out of   9 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   6 third-party GitHubAction dependencies pinned","Info:   0 out of   3 containerImage dependencies pinned","Info:   0 out of  18 pipCommand dependencies pinned"],"documentation":{"short":"Determines if the project has declared and pinned the dependencies of its build process.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#pinned-dependencies"}}]},"last_synced_at":"2025-08-15T07:36:54.073Z","repository_id":37927707,"created_at":"2025-08-15T07:36:54.074Z","updated_at":"2025-08-15T07:36:54.074Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":272140536,"owners_count":24880529,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-08-25T02:00:12.092Z","response_time":1107,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"},"owner_record":{"login":"MannLabs","name":"Mann Labs","uuid":"46714192","kind":"organization","description":"","email":null,"website":null,"location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/46714192?v=4","repositories_count":16,"last_synced_at":"2023-03-05T02:54:29.783Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/MannLabs","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-15T04:50:01.215Z","updated_at":"2023-03-05T02:54:29.793Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/MannLabs/repositories"},"tags":[{"name":"v0.5.0","sha":"e884f8fe23c37625856eb62b8a4d868ec163384b","kind":"commit","published_at":"2023-05-22T10:33:26.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.5.0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.5.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.5.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.5.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.5.0/manifests"},{"name":"v0.4.9","sha":"80c36044497877fa78a37aaeb80a2afac85f78dc","kind":"commit","published_at":"2022-11-06T19:41:16.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.9","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.9","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.9","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.9","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.9/manifests"},{"name":"v0.4.8","sha":"51b80f5426cc3057f72e0c1793a0c51a7f9d430c","kind":"commit","published_at":"2022-08-17T15:27:51.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.8","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.8","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.8","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.8","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.8/manifests"},{"name":"v0.4.7","sha":"e5ab5a5e35cadf501bbfb185b847b59f189c20ef","kind":"commit","published_at":"2022-07-20T13:05:47.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.7","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.7","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.7","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.7","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.7/manifests"},{"name":"v0.4.6","sha":"d100caec3513b51730006e6e322027fb49f81992","kind":"commit","published_at":"2022-05-31T14:25:24.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.6","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.6/manifests"},{"name":"v0.4.5","sha":"105e035a5b3785a6cd484915ad60807330b30fe5","kind":"commit","published_at":"2022-04-25T16:13:20.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.5","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.5/manifests"},{"name":"0.4.4","sha":"095920550201687f39278cadd9073b205e48947f","kind":"commit","published_at":"2022-03-27T07:46:34.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.4.4","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.4.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.4.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.4.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.4.4/manifests"},{"name":"v0.4.2","sha":"03154a5b2e1d4619b677e5400e302d2be3012f7b","kind":"commit","published_at":"2022-03-21T16:12:05.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.2","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.2/manifests"},{"name":"v0.4.1","sha":"4bfd1191b440478fd1d9ab600aba2c0a45576e95","kind":"commit","published_at":"2022-03-18T07:18:05.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.1","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.1/manifests"},{"name":"v0.4.0","sha":"a4a1155b820f3567e21a872e0883e653661efe2b","kind":"commit","published_at":"2022-03-11T14:30:45.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.4.0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.4.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.4.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.4.0/manifests"},{"name":"v0.3.33","sha":"864cae587e4286b63ae4d4537149f18f381c74e6","kind":"commit","published_at":"2022-02-16T18:18:08.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.3.33","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.3.33","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.3.33","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.33","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.33/manifests"},{"name":"v0.3.31","sha":"66fdc5a96e89bcfbbe886611159e21347c92dbe0","kind":"commit","published_at":"2021-12-10T15:29:51.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.3.31","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.3.31","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.3.31","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.31","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.31/manifests"},{"name":"v0.3.29","sha":"d580acde410326a21ef91f4a57d32122d3dd902e","kind":"commit","published_at":"2021-09-17T14:46:45.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.3.29","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.3.29","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.3.29","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.29","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.29/manifests"},{"name":"v0.3.28","sha":"9f93ae6b69e80b9d1c85553499c5cec77d7942f5","kind":"commit","published_at":"2021-08-30T11:16:40.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/v0.3.28","html_url":"https://github.com/MannLabs/alphapept/releases/tag/v0.3.28","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@v0.3.28","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.28","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/v0.3.28/manifests"},{"name":"0.3.26","sha":"3bfdb231b3597468d3dfbb88548bef4d3356d49e","kind":"commit","published_at":"2021-06-07T23:39:51.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.26","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.26","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.26","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.26","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.26/manifests"},{"name":"0.3.25","sha":"39444769e5f68ca5f1d1c09fcf567c699b18a068","kind":"commit","published_at":"2021-06-02T11:47:11.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.25","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.25","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.25","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.25","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.25/manifests"},{"name":"0.3.23-dev0","sha":"104ceb9e858575ea64dd4504a93e733521c7b91a","kind":"commit","published_at":"2021-05-25T19:01:27.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.23-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.23-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.23-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.23-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.23-dev0/manifests"},{"name":"0.3.22-dev0","sha":"6dbc23c97714a91e3ad5d961d28e84b533d46f14","kind":"commit","published_at":"2021-05-18T10:58:58.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.22-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.22-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.22-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.22-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.22-dev0/manifests"},{"name":"0.3.20-dev0","sha":"4eb3deeca2082714d0347ff446e03bf4f3e48351","kind":"commit","published_at":"2021-05-05T21:24:37.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.20-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.20-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.20-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.20-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.20-dev0/manifests"},{"name":"0.3.13-dev0","sha":"be90a9e7ab8df327baeefbb906dc050d8b073e12","kind":"commit","published_at":"2021-02-26T22:56:21.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.13-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.13-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.13-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.13-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.13-dev0/manifests"},{"name":"0.3.11-dev0","sha":"2ed0be42e54ff945e78e4986cf036e989eb4c021","kind":"commit","published_at":"2021-01-10T17:04:15.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.11-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.11-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.11-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.11-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.11-dev0/manifests"},{"name":"0.3.9-dev0","sha":"6e804a6625a4ca85d0d23a5964e92e7945b7e33b","kind":"commit","published_at":"2020-12-18T15:39:40.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.9-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.9-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.9-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.9-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.9-dev0/manifests"},{"name":"0.3.6-dev1","sha":"e69ac8462ca191675e130a2524af4e76776004d9","kind":"commit","published_at":"2020-12-12T15:16:46.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.6-dev1","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.6-dev1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.6-dev1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.6-dev1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.6-dev1/manifests"},{"name":"0.3.6-dev0","sha":"f496e86656cdb9502d1cae7b870c9bec63071ee2","kind":"commit","published_at":"2020-12-11T21:49:07.000Z","download_url":"https://codeload.github.com/MannLabs/alphapept/tar.gz/0.3.6-dev0","html_url":"https://github.com/MannLabs/alphapept/releases/tag/0.3.6-dev0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/MannLabs/alphapept@0.3.6-dev0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.6-dev0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/tags/0.3.6-dev0/manifests"}]},"repo_metadata_updated_at":"2025-08-25T22:21:47.993Z","dependent_packages_count":0,"downloads":216,"downloads_period":"last-month","dependent_repos_count":0,"rankings":{"downloads":13.11492306840718,"dependent_repos_count":67.3003134508997,"dependent_packages_count":10.082087700208083,"stargazers_count":6.077421891852166,"forks_count":7.309077300829029,"docker_downloads_count":null,"average":20.77676468243923},"purl":"pkg:pypi/alphapept","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/alphapept","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/alphapept","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/alphapept/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-25T20:18:07.509Z","issues_count":40,"pull_requests_count":73,"avg_time_to_close_issue":20155698.689655174,"avg_time_to_close_pull_request":2399008.7647058824,"issues_closed_count":29,"pull_requests_closed_count":68,"pull_request_authors_count":6,"issue_authors_count":29,"avg_comments_per_issue":1.8,"avg_comments_per_pull_request":1.5068493150684932,"merged_pull_requests_count":37,"bot_issues_count":0,"bot_pull_requests_count":55,"past_year_issues_count":6,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":93613.5,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":2,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":6,"past_year_avg_comments_per_issue":1.3333333333333333,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/issues","maintainers":[{"login":"straussmaximilian","count":19,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/straussmaximilian"},{"login":"swillems","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/swillems"},{"login":"SecretLake","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/SecretLake"},{"login":"felixriese","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/felixriese"},{"login":"DoerigC","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/DoerigC"}],"active_maintainers":[]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/alphapept/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/alphapept/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/alphapept/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/alphapept/related_packages","maintainers":[{"uuid":"MannLabs","login":"MannLabs","name":null,"email":null,"url":null,"packages_count":14,"html_url":"https://pypi.org/user/MannLabs/","role":null,"created_at":"2022-11-15T03:30:04.225Z","updated_at":"2022-11-15T03:30:04.225Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/MannLabs/packages"}],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":724962,"maintainers_count":308283,"namespaces_count":0,"keywords_count":237984,"github":"pypi","metadata":{"funded_packages_count":50481},"icon_url":"https://github.com/pypi.png","created_at":"2022-04-04T15:19:23.364Z","updated_at":"2025-09-04T05:23:51.177Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages","maintainers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers","namespaces_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/namespaces"}}],"commits":{"id":533782,"full_name":"MannLabs/alphapept","default_branch":"master","committers":[{"name":"Maximilian Strauss","email":"straussmaximilian@gmail.com","login":null,"count":1184},{"name":"Sander Willems","email":"swillems89@hotmail.com","login":null,"count":115},{"name":"Maximilian Strauss","email":"straussmaximilian@googlemail.com","login":null,"count":68},{"name":"dependabot[bot]","email":"49699333+dependabot[bot]","login":"dependabot[bot]","count":53},{"name":"dependabot-preview[bot]","email":"27856297+dependabot-preview[bot]","login":"dependabot-preview[bot]","count":53},{"name":"Zeng, Wen-Feng","email":"wzeng@biochem.mpg.de","login":null,"count":40},{"name":"ammarcsj","email":"70114795+ammarcsj","login":"ammarcsj","count":38},{"name":"Isabell Bludau","email":"isabell.bludau@gmail.com","login":null,"count":24},{"name":"VK","email":"vartika_k@icloud.com","login":null,"count":8},{"name":"Sander Willems","email":"swillems","login":"swillems","count":7},{"name":"hugokitano","email":"hkitano95@gmail.com","login":null,"count":5},{"name":"voytik","email":"jane.voytik@gmail.com","login":null,"count":4},{"name":"Zeng, Wen-Feng","email":"jalew188@gmail.com","login":null,"count":4},{"name":"mgleeming","email":"mgeleeming@gmail.com","login":null,"count":3},{"name":"github-actions[bot]","email":"41898282+github-actions[bot]","login":"github-actions[bot]","count":3},{"name":"mschwoer","email":"82171591+mschwoer","login":"mschwoer","count":2},{"name":"Cyril Matthey-Doret","email":"cyril.mattheydoret@gmail.com","login":null,"count":2},{"name":"elena-krismer","email":"elena.krismer@hotmail.com","login":null,"count":2},{"name":"mschwoer","email":"schwoerer@omicera.com","login":null,"count":1},{"name":"Roman Zenka","email":"zenka.roman@mayo.edu","login":null,"count":1},{"name":"mgleeming","email":"m.leeming@student.unimelb.edu.au","login":null,"count":1}],"total_commits":1618,"total_committers":21,"total_bot_commits":109,"total_bot_committers":3,"mean_commits":77.04761904761905,"dds":0.26823238566131025,"past_year_committers":[{"name":"Maximilian Strauss","email":"straussmaximilian@gmail.com","login":null,"count":52},{"name":"Zeng, Wen-Feng","email":"jalew188@gmail.com","login":null,"count":3}],"past_year_total_commits":55,"past_year_total_committers":2,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":27.5,"past_year_dds":0.054545454545454564,"last_synced_at":"2024-01-26T19:05:15.374Z","last_synced_commit":"843de6b7b560b4ebaefdd9fbe533b65098df3b15","created_at":"2023-03-09T03:54:40.142Z","updated_at":"2024-01-26T19:05:15.375Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-08-27T00:00:29.048Z","repositories_count":5479765,"commits_count":853308191,"contributors_count":31095157,"owners_count":906558,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"MannLabs/alphapept","html_url":"https://github.com/MannLabs/alphapept","last_synced_at":"2025-08-25T20:18:07.509Z","status":"error","issues_count":40,"pull_requests_count":73,"avg_time_to_close_issue":20155698.689655174,"avg_time_to_close_pull_request":2399008.7647058824,"issues_closed_count":29,"pull_requests_closed_count":68,"pull_request_authors_count":6,"issue_authors_count":29,"avg_comments_per_issue":1.8,"avg_comments_per_pull_request":1.5068493150684932,"merged_pull_requests_count":37,"bot_issues_count":0,"bot_pull_requests_count":55,"past_year_issues_count":6,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":93613.5,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":2,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":6,"past_year_avg_comments_per_issue":1.3333333333333333,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"created_at":"2023-05-14T08:49:24.361Z","updated_at":"2025-09-02T11:37:10.422Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/MannLabs%2Falphapept/issues","issue_labels_count":{"enhancement":2,"bug":1},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":23,"MEMBER":7,"CONTRIBUTOR":6,"COLLABORATOR":3},"pull_request_author_associations_count":{"CONTRIBUTOR":58,"MEMBER":15},"issue_authors":{"straussmaximilian":6,"JuliaS92":3,"ibludau":3,"mschwoer":2,"grandrea":2,"davidhoover":1,"lazear":1,"eliseneedham":1,"swillems":1,"lnelllwj":1,"tommasomari":1,"RobbinBouwmeester":1,"yc386":1,"jalew188":1,"DoerigC":1,"SecretLake":1,"yanzhou-boy":1,"AUldry":1,"heuselm":1,"kenll99minecart":1,"grimace9527":1,"msproteomics":1,"Chuanping-Zhao":1,"StephanEckert":1,"felixriese":1,"treitpeter":1,"gsaxena888":1,"im281":1},"pull_request_authors":{"dependabot[bot]":55,"straussmaximilian":13,"swillems":2,"mschwoer":1,"jalew188":1,"elena-krismer":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-02T00:00:07.986Z","repositories_count":10046970,"issues_count":30703881,"pull_requests_count":91794904,"authors_count":10467743,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"NONE":3},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{"Chuanping-Zhao":1,"davidhoover":1,"StephanEckert":1},"past_year_pull_request_authors":{},"maintainers":[{"login":"straussmaximilian","count":19,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/straussmaximilian"},{"login":"swillems","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/swillems"},{"login":"felixriese","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/felixriese"},{"login":"SecretLake","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/SecretLake"},{"login":"DoerigC","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/DoerigC"}],"active_maintainers":[]},"events":{"total":{"WatchEvent":10,"MemberEvent":6,"IssueCommentEvent":3,"ForkEvent":4},"last_year":{"WatchEvent":10,"MemberEvent":6,"IssueCommentEvent":3,"ForkEvent":4}},"keywords":["alphapept-ecosystem","bioinformatics","mass-spectrometry","proteomics"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/gpu_test.yml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.718Z","updated_at":"2023-02-12T22:16:42.718Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/gpu_test.yml","dependencies":[{"id":7599706081,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/nbdev.yaml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.740Z","updated_at":"2023-02-12T22:16:42.740Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/nbdev.yaml","dependencies":[{"id":7599707530,"package_name":"fastai/workflows/nbdev-ci","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/performance_test_installer.yml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.790Z","updated_at":"2023-02-12T22:16:42.790Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/performance_test_installer.yml","dependencies":[{"id":7599707649,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/publish_on_pypi.yml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.812Z","updated_at":"2023-02-12T22:16:42.812Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/publish_on_pypi.yml","dependencies":[{"id":7599707675,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7599707676,"package_name":"conda-incubator/setup-miniconda","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7599707677,"package_name":"pypa/gh-action-pypi-publish","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/quick_test.yml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.825Z","updated_at":"2023-02-12T22:16:42.825Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/quick_test.yml","dependencies":[{"id":7599707692,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/release.yml","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.848Z","updated_at":"2023-02-12T22:16:42.848Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/.github/workflows/release.yml","dependencies":[{"id":7599707758,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7599707759,"package_name":"actions/create-release","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7599707760,"package_name":"actions/upload-release-asset","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"pypi","filepath":"requirements/requirements.txt","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.856Z","updated_at":"2023-02-12T22:16:42.856Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/requirements/requirements.txt","dependencies":[{"id":7599708078,"package_name":"biopython","ecosystem":"pypi","requirements":"==1.79","direct":true,"kind":"runtime","optional":false},{"id":7599708084,"package_name":"click","ecosystem":"pypi","requirements":"\u003e=7.1.2","direct":true,"kind":"runtime","optional":false},{"id":7599708086,"package_name":"fastcore","ecosystem":"pypi","requirements":"==1.5.26","direct":true,"kind":"runtime","optional":false},{"id":7599708117,"package_name":"h5py","ecosystem":"pypi","requirements":"==3.7.0","direct":true,"kind":"runtime","optional":false},{"id":7599708119,"package_name":"matplotlib","ecosystem":"pypi","requirements":"==3.6.1","direct":true,"kind":"runtime","optional":false},{"id":7599708121,"package_name":"networkx","ecosystem":"pypi","requirements":"==2.8.6","direct":true,"kind":"runtime","optional":false},{"id":7599708124,"package_name":"numba","ecosystem":"pypi","requirements":"==0.55.2","direct":true,"kind":"runtime","optional":false},{"id":7599708127,"package_name":"numpy","ecosystem":"pypi","requirements":"==1.20.3","direct":true,"kind":"runtime","optional":false},{"id":7599708129,"package_name":"pandas","ecosystem":"pypi","requirements":"==1.4.3","direct":true,"kind":"runtime","optional":false},{"id":7599708131,"package_name":"psutil","ecosystem":"pypi","requirements":"==5.9.1","direct":true,"kind":"runtime","optional":false},{"id":7599708134,"package_name":"pyteomics","ecosystem":"pypi","requirements":"==4.5.5","direct":true,"kind":"runtime","optional":false},{"id":7599708137,"package_name":"pyyaml","ecosystem":"pypi","requirements":"==6.0","direct":true,"kind":"runtime","optional":false},{"id":7599708139,"package_name":"scikit-learn","ecosystem":"pypi","requirements":"==1.1.2","direct":true,"kind":"runtime","optional":false},{"id":7599708142,"package_name":"scipy","ecosystem":"pypi","requirements":"==1.8.1","direct":true,"kind":"runtime","optional":false},{"id":7599708144,"package_name":"SQLAlchemy","ecosystem":"pypi","requirements":"==1.4.39","direct":true,"kind":"runtime","optional":false},{"id":7599708146,"package_name":"tables","ecosystem":"pypi","requirements":"==3.6.1","direct":true,"kind":"runtime","optional":false},{"id":7599708148,"package_name":"tqdm","ecosystem":"pypi","requirements":"==4.64.0","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"pypi","filepath":"requirements/requirements_develop.txt","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:42.985Z","updated_at":"2023-02-12T22:16:42.985Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/requirements/requirements_develop.txt","dependencies":[{"id":7599709025,"package_name":"bumpversion","ecosystem":"pypi","requirements":"\u003e=0.6.0","direct":true,"kind":"development","optional":false},{"id":7599709026,"package_name":"jupyter_contrib_nbextensions","ecosystem":"pypi","requirements":"\u003e=0.5.1","direct":true,"kind":"development","optional":false},{"id":7599709027,"package_name":"jupyter","ecosystem":"pypi","requirements":"\u003e=1.0.0","direct":true,"kind":"development","optional":false},{"id":7599709028,"package_name":"nbdev","ecosystem":"pypi","requirements":"\u003e=2.0.0","direct":true,"kind":"development","optional":false},{"id":7599709029,"package_name":"pyinstaller","ecosystem":"pypi","requirements":"==5.2","direct":true,"kind":"development","optional":false},{"id":7599709030,"package_name":"twine","ecosystem":"pypi","requirements":"\u003e=3.4.1","direct":true,"kind":"development","optional":false},{"id":7599709031,"package_name":"wget","ecosystem":"pypi","requirements":"==3.2","direct":true,"kind":"development","optional":false}]},{"ecosystem":"pypi","filepath":"requirements/requirements_gui.txt","sha":null,"kind":"manifest","created_at":"2023-02-12T22:16:43.010Z","updated_at":"2023-02-12T22:16:43.010Z","repository_link":"https://github.com/MannLabs/alphapept/blob/master/requirements/requirements_gui.txt","dependencies":[{"id":7599709064,"package_name":"plotly_express","ecosystem":"pypi","requirements":"==0.4.1","direct":true,"kind":"runtime","optional":false},{"id":7599709065,"package_name":"streamlit-aggrid","ecosystem":"pypi","requirements":"==0.2.3.post2","direct":true,"kind":"runtime","optional":false},{"id":7599709066,"package_name":"streamlit","ecosystem":"pypi","requirements":"\u003e=1.13","direct":true,"kind":"runtime","optional":false},{"id":7599709067,"package_name":"watchdog","ecosystem":"pypi","requirements":"==2.1.9","direct":true,"kind":"runtime","optional":false},{"id":7599709068,"package_name":"wget","ecosystem":"pypi","requirements":"==3.2","direct":true,"kind":"runtime","optional":false}]}],"score":13.742539785108098,"created_at":"2025-09-04T15:50:57.591Z","updated_at":"2025-10-07T08:11:37.923Z","avatar_url":"https://github.com/MannLabs.png","language":"HTML","category":null,"sub_category":null,"monthly_downloads":216,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1038/s41467-024-46485-4"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["hack","mesh","data-profiling","interpretability","standardization","dynamic","pde","pinn","bridges","robust"],"project_url":"https://science.ecosyste.ms/api/v1/projects/25587","html_url":"https://science.ecosyste.ms/projects/25587"}