{"id":64647,"name":"rmsd","description":"Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format","url":"https://github.com/charnley/rmsd","last_synced_at":"2025-09-08T13:14:14.216Z","repository":{"id":8221343,"uuid":"9659218","full_name":"charnley/rmsd","owner":"charnley","description":"Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format","archived":false,"fork":false,"pushed_at":"2025-07-25T19:24:46.000Z","size":589,"stargazers_count":538,"open_issues_count":3,"forks_count":121,"subscribers_count":15,"default_branch":"master","last_synced_at":"2025-07-25T22:38:23.739Z","etag":null,"topics":["alignment","assignment","atoms","kabsch","molecule","pdb","reordering","rmsd","structure","xyz"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-2-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/charnley.png","metadata":{"files":{"readme":"README.rst","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2013-04-24T22:46:14.000Z","updated_at":"2025-07-16T08:56:06.000Z","dependencies_parsed_at":"2023-01-13T15:00:49.057Z","dependency_job_id":"a559d554-23b3-488e-af0a-64e1d72321d8","html_url":"https://github.com/charnley/rmsd","commit_stats":{"total_commits":267,"total_committers":19,"mean_commits":"14.052631578947368","dds":0.1685393258426966,"last_synced_commit":"21cc9af3870d166d42ed0dbcc54a2dad9f2c9de1"},"previous_names":[],"tags_count":16,"template":false,"template_full_name":null,"purl":"pkg:github/charnley/rmsd","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/sbom","scorecard":{"id":274631,"data":{"date":"2025-08-11","repo":{"name":"github.com/charnley/rmsd","commit":"69788525106fb69b94a9cb8fa7785020919d1287"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":2.9,"checks":[{"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":"Maintained","score":0,"reason":"1 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":"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":"Code-Review","score":1,"reason":"Found 3/30 approved changesets -- score normalized to 1","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":"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/publish.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/charnley/rmsd/publish.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish.yml:16: update your workflow using https://app.stepsecurity.io/secureworkflow/charnley/rmsd/publish.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:23: update your workflow using https://app.stepsecurity.io/secureworkflow/charnley/rmsd/test.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/test.yml:24: update your workflow using https://app.stepsecurity.io/secureworkflow/charnley/rmsd/test.yml/master?enable=pin","Warn: pipCommand not pinned by hash: .github/workflows/publish.yml:21","Warn: pipCommand not pinned by hash: .github/workflows/publish.yml:22","Info:   0 out of   3 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   1 third-party GitHubAction dependencies pinned","Info:   0 out of   2 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"}},{"name":"Token-Permissions","score":0,"reason":"detected GitHub workflow tokens with excessive permissions","details":["Warn: no topLevel permission defined: .github/workflows/publish.yml:1","Warn: no topLevel permission defined: .github/workflows/test.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":10,"reason":"no binaries found in the repo","details":null,"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":"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":"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":"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: BSD 2-Clause \"Simplified\" License: 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":-1,"reason":"no releases found","details":null,"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":3,"reason":"branch protection is not maximal on development and all release branches","details":["Info: 'allow deletion' disabled on branch 'master'","Info: 'force pushes' disabled on branch 'master'","Warn: 'branch protection settings apply to administrators' is disabled on branch 'master'","Warn: could not determine whether codeowners review is allowed","Warn: no status checks found to merge onto branch 'master'","Warn: PRs are not required to make changes on branch 'master'; or we don't have data to detect it.If you think it might be the latter, make sure to run Scorecard with a PAT or use Repo Rules (that are always public) instead of Branch Protection settings"],"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":0,"reason":"13 existing vulnerabilities detected","details":["Warn: Project is vulnerable to: GHSA-44cc-43rp-5947","Warn: Project is vulnerable to: PYSEC-2021-130 / GHSA-4952-p58q-6crx","Warn: Project is vulnerable to: GHSA-9q39-rmj3-p4r2","Warn: Project is vulnerable to: PYSEC-2018-34 / GHSA-2fc2-6r4j-p65h","Warn: Project is vulnerable to: PYSEC-2021-856 / GHSA-5545-2q6w-2gh6","Warn: Project is vulnerable to: PYSEC-2019-108 / GHSA-9fq2-x9r6-wfmf","Warn: Project is vulnerable to: PYSEC-2018-33 / GHSA-cw6w-4rcx-xphc","Warn: Project is vulnerable to: PYSEC-2021-857 / GHSA-f7c7-j99h-c22f","Warn: Project is vulnerable to: GHSA-fpfv-jqm9-f5jm","Warn: Project is vulnerable to: PYSEC-2017-1 / GHSA-frgw-fgh6-9g52","Warn: Project is vulnerable to: PYSEC-2019-156 / GHSA-xp76-357g-9wqq","Warn: Project is vulnerable to: PYSEC-2023-102","Warn: Project is vulnerable to: PYSEC-2023-114"],"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 18 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"}}]},"last_synced_at":"2025-08-17T14:08:49.545Z","repository_id":8221343,"created_at":"2025-08-17T14:08:49.545Z","updated_at":"2025-08-17T14:08:49.545Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274189942,"owners_count":25238069,"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":"2025-09-08T02:00:09.813Z","response_time":121,"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":"charnley","name":"Jimmy C. Kromann","uuid":"2011468","kind":"user","description":"Quantum chemistry, cheminformatics and machine learning. Working as a data scientist in the pharmaceutical industry.","email":"","website":null,"location":"Basel, Switzerland","twitter":"jckromann","company":"Pharma","icon_url":"https://avatars.githubusercontent.com/u/2011468?u=047ddbeca04dd7540e2caa9fd9989bf95d5fd682\u0026v=4","repositories_count":19,"last_synced_at":"2023-03-27T12:22:12.265Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/charnley","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-04T02:24:11.927Z","updated_at":"2023-03-27T12:22:12.507Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley/repositories"},"packages":[{"id":5302988,"name":"rmsd","ecosystem":"conda","description":"Calculate root-mean-square deviation (RMSD) between two sets of cartesian coordinates (XYZ or PDB format), using rotation (fx. Kabsch algorithm), atom reordering (fx. Hungarian algorithm), and axis reflections, resulting in the minimal RMSD.","homepage":"https://github.com/charnley/rmsd","licenses":"BSD-2-Clause","normalized_licenses":["BSD-2-Clause"],"repository_url":"https://github.com/charnley/rmsd","keywords_array":[],"namespace":null,"versions_count":2,"first_release_published_at":"2020-02-29T15:29:47.000Z","latest_release_published_at":"2020-02-29T15:29:47.000Z","latest_release_number":"1.3.2","last_synced_at":"2025-08-26T04:05:32.859Z","created_at":"2022-10-03T16:13:55.161Z","updated_at":"2025-08-26T04:05:32.859Z","registry_url":"https://anaconda.org/conda-forge/rmsd","install_command":"conda install -c conda-forge rmsd","documentation_url":null,"metadata":{},"repo_metadata":{"id":8221343,"uuid":"9659218","full_name":"charnley/rmsd","owner":"charnley","description":"Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format","archived":false,"fork":false,"pushed_at":"2025-07-25T19:24:46.000Z","size":589,"stargazers_count":538,"open_issues_count":3,"forks_count":121,"subscribers_count":15,"default_branch":"master","last_synced_at":"2025-07-25T22:38:23.739Z","etag":null,"topics":["alignment","assignment","atoms","kabsch","molecule","pdb","reordering","rmsd","structure","xyz"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-2-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/charnley.png","metadata":{"files":{"readme":"README.rst","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2013-04-24T22:46:14.000Z","updated_at":"2025-07-16T08:56:06.000Z","dependencies_parsed_at":"2023-01-13T15:00:49.057Z","dependency_job_id":"a559d554-23b3-488e-af0a-64e1d72321d8","html_url":"https://github.com/charnley/rmsd","commit_stats":{"total_commits":267,"total_committers":19,"mean_commits":"14.052631578947368","dds":0.1685393258426966,"last_synced_commit":"21cc9af3870d166d42ed0dbcc54a2dad9f2c9de1"},"previous_names":[],"tags_count":16,"template":false,"template_full_name":null,"purl":"pkg:github/charnley/rmsd","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":267116036,"owners_count":24038623,"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":"2025-07-26T02:00:08.937Z","response_time":62,"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":"charnley","name":"Jimmy C. Kromann","uuid":"2011468","kind":"user","description":"Quantum chemistry, cheminformatics and machine learning. Working as a data scientist in the pharmaceutical industry.","email":"","website":null,"location":"Basel, Switzerland","twitter":"jckromann","company":"Pharma","icon_url":"https://avatars.githubusercontent.com/u/2011468?u=047ddbeca04dd7540e2caa9fd9989bf95d5fd682\u0026v=4","repositories_count":19,"last_synced_at":"2023-03-27T12:22:12.265Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/charnley","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-04T02:24:11.927Z","updated_at":"2023-03-27T12:22:12.507Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley/repositories"},"tags":[{"name":"rmsd-1.6.4","sha":"ad3fe3cdd26d399cd9f64de7140146653210c390","kind":"commit","published_at":"2025-01-13T16:53:56.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.4","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.4/manifests"},{"name":"rmsd-1.6.3","sha":"bc31675aea72754b12c35e595a9a2c7f0323db9e","kind":"commit","published_at":"2025-01-11T15:46:58.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.3","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.3/manifests"},{"name":"rmsd-1.6.2","sha":"a3cc18e023f7ca9baf740f27f11513a069f41733","kind":"commit","published_at":"2024-12-23T13:41:53.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.2","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.2/manifests"},{"name":"rmsd-1.6.1","sha":"5ea5a21d03a00d9bedcc3733b260da921f77595a","kind":"commit","published_at":"2024-11-30T16:49:06.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.1/manifests"},{"name":"rmsd-1.6.0","sha":"e1f07139b1d3b90c4a36d3a4a589692b14e1e0a6","kind":"commit","published_at":"2024-11-28T19:46:27.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.0/manifests"},{"name":"rmsd-1.5.1","sha":"dcca78e7abb4ab605871074044ceb0ae31ba9409","kind":"commit","published_at":"2023-01-06T17:03:02.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.5.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.5.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.5.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.1/manifests"},{"name":"rmsd-1.5.0","sha":"17872c02d723c00e3851a676fccb3bc3992e5450","kind":"commit","published_at":"2022-12-23T11:39:03.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.5.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.5.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.5.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.0/manifests"},{"name":"rmsd-1.4","sha":"ad4f15069c0a28f1a553a7e53dc54ff0812969ba","kind":"commit","published_at":"2020-10-31T15:15:21.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.4","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.4/manifests"},{"name":"rmsd-1.3.2","sha":"32254144f10fa16ab561a763c0283a7e62627655","kind":"commit","published_at":"2019-01-03T12:52:24.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.2","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.2/manifests"},{"name":"rmsd-1.3.1","sha":"9e12ace994c67077763bf0109b0ed947a2237e23","kind":"commit","published_at":"2018-11-21T12:49:29.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.1/manifests"},{"name":"rmsd-1.3.0","sha":"6cbb9ff847f29ec278d41a428b2ba167d774e10e","kind":"commit","published_at":"2018-11-21T12:33:18.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.0/manifests"},{"name":"rmsd-1.2.7","sha":"53e00846651c2678d6aaceb46ad898fbe8bf890a","kind":"commit","published_at":"2018-05-22T08:47:43.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.7","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.7","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.7","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.7","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.7/manifests"},{"name":"rmsd-1.2.6","sha":"2a8c31ac25bc4dd3fb288a44cf371ea996dbdf8b","kind":"commit","published_at":"2018-02-10T14:53:31.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.6","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.6/manifests"},{"name":"rmsd-1.2.5","sha":"0c8e9ec552b3596b0a69f90ef54b8304e1309df1","kind":"commit","published_at":"2017-05-22T19:48:43.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.5","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.5/manifests"},{"name":"v1.1","sha":"8a51c46fc2b6824053e3a0edbe2039c9e1474eed","kind":"commit","published_at":"2016-02-29T08:08:12.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/v1.1","html_url":"https://github.com/charnley/rmsd/releases/tag/v1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@v1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.1/manifests"},{"name":"v1.0","sha":"6ff4a4cf7fbd7b431543c36ee5f9047d79fd5f6e","kind":"commit","published_at":"2015-10-19T13:25:14.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/v1.0","html_url":"https://github.com/charnley/rmsd/releases/tag/v1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@v1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.0/manifests"}]},"repo_metadata_updated_at":"2025-07-26T04:00:19.480Z","dependent_packages_count":1,"downloads":null,"downloads_period":null,"dependent_repos_count":4,"rankings":{"downloads":null,"dependent_repos_count":16.1784520185638,"dependent_packages_count":28.983482209691104,"stargazers_count":20.235540695643493,"forks_count":18.029841808473478,"docker_downloads_count":null,"average":20.85682918309297},"purl":"pkg:conda/rmsd","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/conda/rmsd","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/conda/rmsd","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/conda/rmsd/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-07-02T07:05:35.835Z","issues_count":59,"pull_requests_count":59,"avg_time_to_close_issue":15606542.45614035,"avg_time_to_close_pull_request":4072485.661016949,"issues_closed_count":57,"pull_requests_closed_count":59,"pull_request_authors_count":25,"issue_authors_count":48,"avg_comments_per_issue":3.23728813559322,"avg_comments_per_pull_request":0.864406779661017,"merged_pull_requests_count":46,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":3,"past_year_pull_requests_count":14,"past_year_avg_time_to_close_issue":742784.6666666666,"past_year_avg_time_to_close_pull_request":140828.2142857143,"past_year_issues_closed_count":3,"past_year_pull_requests_closed_count":14,"past_year_pull_request_authors_count":4,"past_year_issue_authors_count":2,"past_year_avg_comments_per_issue":3.0,"past_year_avg_comments_per_pull_request":0.35714285714285715,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":13,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/issues","maintainers":[{"login":"charnley","count":21,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"},{"login":"cstein","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cstein"},{"login":"larsbratholm","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/larsbratholm"}],"active_maintainers":[{"login":"charnley","count":11,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/packages/rmsd/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/packages/rmsd/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/packages/rmsd/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/packages/rmsd/related_packages","maintainers":[],"registry":{"name":"conda-forge.org","url":"https://conda-forge.org","ecosystem":"conda","default":false,"packages_count":20636,"maintainers_count":0,"namespaces_count":0,"keywords_count":13414,"github":"conda-forge","metadata":{"kind":"conda-forge","key":"CondaForge","api":"https://conda.anaconda.org","funded_packages_count":2190},"icon_url":"https://github.com/conda-forge.png","created_at":"2022-10-03T15:37:08.743Z","updated_at":"2025-09-08T06:53:21.618Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/packages","maintainers_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/maintainers","namespaces_url":"https://packages.ecosyste.ms/api/v1/registries/conda-forge.org/namespaces"}},{"id":2904596,"name":"rmsd","ecosystem":"pypi","description":"Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format","homepage":"https://github.com/charnley/rmsd","licenses":"MIT License","normalized_licenses":["MIT"],"repository_url":"https://github.com/charnley/rmsd","keywords_array":["pdb","atoms","kabsch","reordering","rotation","xyz","rmsd"],"namespace":null,"versions_count":14,"first_release_published_at":"2023-09-08T04:36:18.964Z","latest_release_published_at":"2025-01-13T16:55:56.000Z","latest_release_number":"1.6.4","last_synced_at":"2025-07-26T03:59:57.501Z","created_at":"2022-04-10T12:29:19.868Z","updated_at":"2025-07-26T04:00:19.481Z","registry_url":"https://pypi.org/project/rmsd/","install_command":"pip install rmsd --index-url https://pypi.org/simple","documentation_url":"https://rmsd.readthedocs.io/","metadata":{"funding":null,"documentation":null,"classifiers":["Intended Audience :: Developers","Intended Audience :: Science/Research","License :: OSI Approved :: MIT License","Programming Language :: Python","Programming Language :: Python :: 3","Topic :: Scientific/Engineering :: Chemistry"],"normalized_name":"rmsd"},"repo_metadata":{"id":8221343,"uuid":"9659218","full_name":"charnley/rmsd","owner":"charnley","description":"Calculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format","archived":false,"fork":false,"pushed_at":"2025-07-25T19:24:46.000Z","size":589,"stargazers_count":538,"open_issues_count":3,"forks_count":121,"subscribers_count":15,"default_branch":"master","last_synced_at":"2025-07-25T22:38:23.739Z","etag":null,"topics":["alignment","assignment","atoms","kabsch","molecule","pdb","reordering","rmsd","structure","xyz"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-2-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/charnley.png","metadata":{"files":{"readme":"README.rst","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2013-04-24T22:46:14.000Z","updated_at":"2025-07-16T08:56:06.000Z","dependencies_parsed_at":"2023-01-13T15:00:49.057Z","dependency_job_id":"a559d554-23b3-488e-af0a-64e1d72321d8","html_url":"https://github.com/charnley/rmsd","commit_stats":{"total_commits":267,"total_committers":19,"mean_commits":"14.052631578947368","dds":0.1685393258426966,"last_synced_commit":"21cc9af3870d166d42ed0dbcc54a2dad9f2c9de1"},"previous_names":[],"tags_count":16,"template":false,"template_full_name":null,"purl":"pkg:github/charnley/rmsd","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":267116036,"owners_count":24038623,"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":"2025-07-26T02:00:08.937Z","response_time":62,"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":"charnley","name":"Jimmy C. Kromann","uuid":"2011468","kind":"user","description":"Quantum chemistry, cheminformatics and machine learning. Working as a data scientist in the pharmaceutical industry.","email":"","website":null,"location":"Basel, Switzerland","twitter":"jckromann","company":"Pharma","icon_url":"https://avatars.githubusercontent.com/u/2011468?u=047ddbeca04dd7540e2caa9fd9989bf95d5fd682\u0026v=4","repositories_count":19,"last_synced_at":"2023-03-27T12:22:12.265Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/charnley","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-04T02:24:11.927Z","updated_at":"2023-03-27T12:22:12.507Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/charnley/repositories"},"tags":[{"name":"rmsd-1.6.4","sha":"ad3fe3cdd26d399cd9f64de7140146653210c390","kind":"commit","published_at":"2025-01-13T16:53:56.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.4","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.4/manifests"},{"name":"rmsd-1.6.3","sha":"bc31675aea72754b12c35e595a9a2c7f0323db9e","kind":"commit","published_at":"2025-01-11T15:46:58.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.3","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.3/manifests"},{"name":"rmsd-1.6.2","sha":"a3cc18e023f7ca9baf740f27f11513a069f41733","kind":"commit","published_at":"2024-12-23T13:41:53.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.2","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.2/manifests"},{"name":"rmsd-1.6.1","sha":"5ea5a21d03a00d9bedcc3733b260da921f77595a","kind":"commit","published_at":"2024-11-30T16:49:06.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.1/manifests"},{"name":"rmsd-1.6.0","sha":"e1f07139b1d3b90c4a36d3a4a589692b14e1e0a6","kind":"commit","published_at":"2024-11-28T19:46:27.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.6.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.6.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.6.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.6.0/manifests"},{"name":"rmsd-1.5.1","sha":"dcca78e7abb4ab605871074044ceb0ae31ba9409","kind":"commit","published_at":"2023-01-06T17:03:02.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.5.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.5.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.5.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.1/manifests"},{"name":"rmsd-1.5.0","sha":"17872c02d723c00e3851a676fccb3bc3992e5450","kind":"commit","published_at":"2022-12-23T11:39:03.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.5.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.5.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.5.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.5.0/manifests"},{"name":"rmsd-1.4","sha":"ad4f15069c0a28f1a553a7e53dc54ff0812969ba","kind":"commit","published_at":"2020-10-31T15:15:21.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.4","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.4/manifests"},{"name":"rmsd-1.3.2","sha":"32254144f10fa16ab561a763c0283a7e62627655","kind":"commit","published_at":"2019-01-03T12:52:24.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.2","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.2/manifests"},{"name":"rmsd-1.3.1","sha":"9e12ace994c67077763bf0109b0ed947a2237e23","kind":"commit","published_at":"2018-11-21T12:49:29.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.1","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.1/manifests"},{"name":"rmsd-1.3.0","sha":"6cbb9ff847f29ec278d41a428b2ba167d774e10e","kind":"commit","published_at":"2018-11-21T12:33:18.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.3.0","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.3.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.3.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.3.0/manifests"},{"name":"rmsd-1.2.7","sha":"53e00846651c2678d6aaceb46ad898fbe8bf890a","kind":"commit","published_at":"2018-05-22T08:47:43.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.7","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.7","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.7","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.7","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.7/manifests"},{"name":"rmsd-1.2.6","sha":"2a8c31ac25bc4dd3fb288a44cf371ea996dbdf8b","kind":"commit","published_at":"2018-02-10T14:53:31.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.6","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.6/manifests"},{"name":"rmsd-1.2.5","sha":"0c8e9ec552b3596b0a69f90ef54b8304e1309df1","kind":"commit","published_at":"2017-05-22T19:48:43.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/rmsd-1.2.5","html_url":"https://github.com/charnley/rmsd/releases/tag/rmsd-1.2.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@rmsd-1.2.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/rmsd-1.2.5/manifests"},{"name":"v1.1","sha":"8a51c46fc2b6824053e3a0edbe2039c9e1474eed","kind":"commit","published_at":"2016-02-29T08:08:12.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/v1.1","html_url":"https://github.com/charnley/rmsd/releases/tag/v1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@v1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.1/manifests"},{"name":"v1.0","sha":"6ff4a4cf7fbd7b431543c36ee5f9047d79fd5f6e","kind":"commit","published_at":"2015-10-19T13:25:14.000Z","download_url":"https://codeload.github.com/charnley/rmsd/tar.gz/v1.0","html_url":"https://github.com/charnley/rmsd/releases/tag/v1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/charnley/rmsd@v1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/tags/v1.0/manifests"}]},"repo_metadata_updated_at":"2025-07-26T04:00:19.481Z","dependent_packages_count":9,"downloads":4261,"downloads_period":"last-month","dependent_repos_count":25,"rankings":{"downloads":1.1907053328276775,"dependent_repos_count":2.8983490561542027,"dependent_packages_count":1.1377219253579687,"stargazers_count":3.133033878310982,"forks_count":4.406448256344679,"docker_downloads_count":null,"average":2.5532516897991018},"purl":"pkg:pypi/rmsd","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/rmsd","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/rmsd","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/rmsd/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-07-02T07:05:35.835Z","issues_count":59,"pull_requests_count":59,"avg_time_to_close_issue":15606542.45614035,"avg_time_to_close_pull_request":4072485.661016949,"issues_closed_count":57,"pull_requests_closed_count":59,"pull_request_authors_count":25,"issue_authors_count":48,"avg_comments_per_issue":3.23728813559322,"avg_comments_per_pull_request":0.864406779661017,"merged_pull_requests_count":46,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":3,"past_year_pull_requests_count":14,"past_year_avg_time_to_close_issue":742784.6666666666,"past_year_avg_time_to_close_pull_request":140828.2142857143,"past_year_issues_closed_count":3,"past_year_pull_requests_closed_count":14,"past_year_pull_request_authors_count":4,"past_year_issue_authors_count":2,"past_year_avg_comments_per_issue":3.0,"past_year_avg_comments_per_pull_request":0.35714285714285715,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":13,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/issues","maintainers":[{"login":"charnley","count":21,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"},{"login":"cstein","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cstein"},{"login":"larsbratholm","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/larsbratholm"}],"active_maintainers":[{"login":"charnley","count":11,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/rmsd/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/rmsd/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/rmsd/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/rmsd/related_packages","maintainers":[{"uuid":"charnley","login":"charnley","name":null,"email":null,"url":null,"packages_count":2,"html_url":"https://pypi.org/user/charnley/","role":null,"created_at":"2023-01-06T18:12:21.524Z","updated_at":"2023-01-06T18:12:21.524Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/charnley/packages"}],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":726140,"maintainers_count":308800,"namespaces_count":0,"keywords_count":238245,"github":"pypi","metadata":{"funded_packages_count":50579},"icon_url":"https://github.com/pypi.png","created_at":"2022-04-04T15:19:23.364Z","updated_at":"2025-09-08T05:32:36.857Z","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":34710,"full_name":"charnley/rmsd","default_branch":"master","committers":[{"name":"Jimmy Charnley Kromann","email":"jimmy@charnley.dk","login":"charnley","count":226},{"name":"Kasper Primdal Lauritzen","email":"kplauritzen@gmail.com","login":"KPLauritzen","count":8},{"name":"Lars Andersen Bratholm","email":"larsbratholm@gmail.com","login":"larsbratholm","count":8},{"name":"Ashafix","email":"maximili.peters@mail.huji.ac.il","login":"Ashafix","count":7},{"name":"xg590","email":"43154552+xg590","login":"xg590","count":5},{"name":"Casper Steinmann","email":"casper.steinmann@gmail.com","login":"cstein","count":3},{"name":"Henrique M. Cezar","email":"henrique.musseli@gmail.com","login":"hmcezar","count":2},{"name":"Kâmuran İmran","email":"73625486+kamurani","login":"kamurani","count":1},{"name":"Inigo Iribarren Aguirre","email":"63478598+iribirii","login":"iribirii","count":1},{"name":"Maxim A. Dubinnyi","email":"dumkas@yandex.ru","login":"dubinnyi","count":1},{"name":"Fábio Madeira","email":"fbiomadeira@gmail.com","login":"biomadeira","count":1},{"name":"Charlie Laughton","email":"CharlieLaughton","login":"CharlieLaughton","count":1},{"name":"Anders Steen Christensen","email":"andersx","login":"andersx","count":1},{"name":"Termo","email":"termopeten@gmail.com","login":"TermeHansen","count":1},{"name":"Yuri","email":"yuri@rawbw.com","login":"yurivict","count":1},{"name":"aandi","email":"andreas@kempe.biz","login":"aandi","count":1},{"name":"benjfitz","email":"34842595+benjfitz","login":"benjfitz","count":1},{"name":"mcocdawc","email":"oskar.weser@gmail.com","login":"mcocdawc","count":1},{"name":"nbehrnd","email":"nbehrnd","login":"nbehrnd","count":1}],"total_commits":271,"total_committers":19,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":14.263157894736842,"dds":0.16605166051660514,"past_year_committers":[{"name":"Jimmy C. Kromann","email":"jimmy@charnley.dk","login":"charnley","count":16}],"past_year_total_commits":16,"past_year_total_committers":1,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":16.0,"past_year_dds":0.0,"last_synced_at":"2025-05-28T16:37:42.964Z","last_synced_commit":"ad3fe3cdd26d399cd9f64de7140146653210c390","created_at":"2023-03-07T16:57:25.483Z","updated_at":"2025-05-28T16:37:42.964Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-08-25T00:00:24.730Z","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":"charnley/rmsd","html_url":"https://github.com/charnley/rmsd","last_synced_at":"2025-08-31T10:24:18.310Z","status":null,"issues_count":59,"pull_requests_count":63,"avg_time_to_close_issue":15883173.5,"avg_time_to_close_pull_request":4072485.661016949,"issues_closed_count":56,"pull_requests_closed_count":59,"pull_request_authors_count":26,"issue_authors_count":48,"avg_comments_per_issue":3.2203389830508473,"avg_comments_per_pull_request":0.8095238095238095,"merged_pull_requests_count":46,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":3,"past_year_pull_requests_count":18,"past_year_avg_time_to_close_issue":1056575.0,"past_year_avg_time_to_close_pull_request":140828.2142857143,"past_year_issues_closed_count":2,"past_year_pull_requests_closed_count":14,"past_year_pull_request_authors_count":5,"past_year_issue_authors_count":2,"past_year_avg_comments_per_issue":2.6666666666666665,"past_year_avg_comments_per_pull_request":0.2777777777777778,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":13,"created_at":"2023-05-10T21:59:30.796Z","updated_at":"2025-09-03T05:31:21.316Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/charnley%2Frmsd/issues","issue_labels_count":{"enhancement":8,"bug":7,"question":2},"pull_request_labels_count":{"bug":2},"issue_author_associations_count":{"NONE":45,"CONTRIBUTOR":13,"OWNER":1,"COLLABORATOR":1},"pull_request_author_associations_count":{"OWNER":31,"CONTRIBUTOR":30,"NONE":8,"COLLABORATOR":5},"issue_authors":{"nbehrnd":5,"KPLauritzen":3,"yurivict":3,"Jellby":3,"oyileo":2,"JonKragskow":1,"tccyl":1,"cassguff":1,"yahtree":1,"emiliecauet":1,"marekyggdrasil":1,"Qmi3":1,"rsysadmin-com":1,"Z-Jeff":1,"senjoro":1,"nabraham47":1,"mns-csharp":1,"yazdan12555":1,"charnley":1,"smcolby":1,"samirelanduk":1,"zhuravlf":1,"proteneer":1,"ahorvath":1,"SherlockQiu":1,"raji-pixel":1,"hmcezar":1,"WhenMelancholy":1,"smheidrich":1,"cossio":1,"JensVK":1,"epeisach":1,"andersx":1,"larsbratholm":1,"puckvg":1,"bertrand-caron":1,"SingletC":1,"livaschar":1,"avocadit":1,"jgarcianafria":1,"vaibhavadixit":1,"KingisNitro":1,"Megaterium":1,"polyluxus":1,"dimbleby":1,"share1992":1,"brielletilson":1,"Koushikphy":1,"rafaelpap":1},"pull_request_authors":{"charnley":31,"KPLauritzen":6,"nbehrnd":4,"andersx":3,"cstein":3,"aneshkamoudry":2,"takafumi-shiraogawa":2,"iribirii":2,"larsbratholm":2,"benjfitz":2,"hmcezar":2,"IliasChair":1,"ryancoleman":1,"kamurani":1,"yochannah":1,"yurivict":1,"biomadeira":1,"TermeHansen":1,"CharlieLaughton":1,"dubinnyi":1,"mcocdawc":1,"dimbleby":1,"aandi":1,"Ashafix":1,"ddemapan":1,"xg590":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:17.013Z","repositories_count":10166699,"issues_count":32013288,"pull_requests_count":100268859,"authors_count":10729412,"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":{"enhancement":1},"past_year_pull_request_labels_count":{"bug":2},"past_year_issue_author_associations_count":{"CONTRIBUTOR":2,"NONE":2},"past_year_pull_request_author_associations_count":{"OWNER":22,"NONE":4,"CONTRIBUTOR":2},"past_year_issue_authors":{"yurivict":2,"dimbleby":1,"yazdan12555":1},"past_year_pull_request_authors":{"charnley":22,"aneshkamoudry":2,"takafumi-shiraogawa":2,"IliasChair":1,"dimbleby":1},"maintainers":[{"login":"charnley","count":32,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"},{"login":"cstein","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cstein"},{"login":"larsbratholm","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/larsbratholm"}],"active_maintainers":[{"login":"charnley","count":22,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/charnley"}]},"events":{"total":{"CreateEvent":17,"ReleaseEvent":5,"IssuesEvent":12,"WatchEvent":42,"DeleteEvent":15,"IssueCommentEvent":20,"PushEvent":89,"PullRequestReviewEvent":2,"PullRequestReviewCommentEvent":1,"PullRequestEvent":25,"ForkEvent":8},"last_year":{"CreateEvent":17,"ReleaseEvent":5,"IssuesEvent":12,"WatchEvent":42,"DeleteEvent":15,"IssueCommentEvent":20,"PushEvent":89,"PullRequestReviewEvent":2,"PullRequestReviewCommentEvent":1,"PullRequestEvent":25,"ForkEvent":8}},"keywords":["alignment","assignment","atoms","kabsch","molecule","pdb","reordering","rmsd","structure","xyz"],"dependencies":[{"ecosystem":"conda","filepath":"environment.yml","sha":null,"kind":"manifest","created_at":"2022-08-06T22:15:29.034Z","updated_at":"2022-08-06T22:15:29.034Z","repository_link":"https://github.com/charnley/rmsd/blob/master/environment.yml","dependencies":[{"id":586710773,"package_name":"matplotlib","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710774,"package_name":"mypy","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710775,"package_name":"numpy","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710776,"package_name":"pre-commit","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710777,"package_name":"pylint","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710778,"package_name":"pytest","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710779,"package_name":"pytest-cov","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false},{"id":586710780,"package_name":"scipy","ecosystem":"conda","requirements":"","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"pypi","filepath":"requirements.txt","sha":null,"kind":"manifest","created_at":"2022-08-06T22:15:29.164Z","updated_at":"2022-08-06T22:15:29.164Z","repository_link":"https://github.com/charnley/rmsd/blob/master/requirements.txt","dependencies":[{"id":586711045,"package_name":"numpy","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":586711046,"package_name":"scipy","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"pypi","filepath":"setup.py","sha":null,"kind":"manifest","created_at":"2022-08-06T22:15:29.253Z","updated_at":"2022-08-06T22:15:29.253Z","repository_link":"https://github.com/charnley/rmsd/blob/master/setup.py","dependencies":[{"id":586711120,"package_name":"numpy","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":586711121,"package_name":"scipy","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/publish.yml","sha":null,"kind":"manifest","created_at":"2023-01-13T15:00:48.980Z","updated_at":"2023-01-13T15:00:48.980Z","repository_link":"https://github.com/charnley/rmsd/blob/master/.github/workflows/publish.yml","dependencies":[{"id":6879261999,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":6879262000,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/test.yml","sha":null,"kind":"manifest","created_at":"2023-01-13T15:00:49.025Z","updated_at":"2023-01-13T15:00:49.025Z","repository_link":"https://github.com/charnley/rmsd/blob/master/.github/workflows/test.yml","dependencies":[{"id":6879262022,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":6879262023,"package_name":"conda-incubator/setup-miniconda","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]}],"score":17.604461090796658,"created_at":"2025-09-08T11:18:34.679Z","updated_at":"2025-10-07T08:24:48.460Z","avatar_url":"https://github.com/charnley.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":4261,"funding_links":[],"readme_doi_urls":["http://dx.doi.org/10.1107/S0567739476001873","http://dx.doi.org/10.1016/1049-9660(91)90036-o","http://dx.doi.org/10.1109/TAES.2016.140952","https://doi.org/10.1063/1.5126701"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["bioinformatics","biopython","dna","genomics","phylogenetics","protein","protein-structure","sequence-alignment"],"project_url":"https://science.ecosyste.ms/api/v1/projects/64647","html_url":"https://science.ecosyste.ms/projects/64647"}