{"id":1799,"name":"OSTIR","description":"OSTIR: open source translation initiation rate prediction - Published in JOSS (2021)","url":"https://github.com/barricklab/ostir","last_synced_at":"2025-09-04T16:34:05.395Z","repository":{"id":37076568,"uuid":"187904349","full_name":"barricklab/ostir","owner":"barricklab","description":"Software for predicting translation initiation rates in bacteria","archived":false,"fork":false,"pushed_at":"2025-07-30T19:23:03.000Z","size":7178,"stargazers_count":29,"open_issues_count":3,"forks_count":9,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-08-28T01:42:55.536Z","etag":null,"topics":["bioengineering","rna-structure","synthetic-biology"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/barricklab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"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":".zenodo.json"}},"created_at":"2019-05-21T19:54:43.000Z","updated_at":"2025-08-04T13:29:47.000Z","dependencies_parsed_at":"2024-03-14T17:01:57.643Z","dependency_job_id":"9d37cfd9-c2ee-4374-a3a8-5c59e5566d9a","html_url":"https://github.com/barricklab/ostir","commit_stats":{"total_commits":132,"total_committers":6,"mean_commits":22.0,"dds":0.6363636363636364,"last_synced_commit":"a655129e5c152b524822f4af60661b5eadf8707a"},"previous_names":[],"tags_count":10,"template":false,"template_full_name":null,"purl":"pkg:github/barricklab/ostir","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/sbom","scorecard":{"id":226077,"data":{"date":"2025-08-11","repo":{"name":"github.com/barricklab/ostir","commit":"4c0eb9919e5c9612c60e218d53ea190bc57daea8"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":4.3,"checks":[{"name":"Code-Review","score":0,"reason":"Found 2/30 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":"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":"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":"Maintained","score":2,"reason":"2 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 2","details":null,"documentation":{"short":"Determines if the project is \"actively maintained\".","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#maintained"}},{"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: jobLevel 'contents' permission set to 'write': .github/workflows/publish-to-pypi.yml:63","Warn: no topLevel permission defined: .github/workflows/package_and_test.yml:1","Warn: no topLevel permission defined: .github/workflows/publish-to-pypi.yml:1","Warn: no topLevel permission defined: .github/workflows/publish-to-test-pypi.yml:1"],"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":"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":"Vulnerabilities","score":10,"reason":"0 existing vulnerabilities detected","details":null,"documentation":{"short":"Determines if the project has open, known unfixed vulnerabilities.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#vulnerabilities"}},{"name":"License","score":10,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Info: FSF or OSI recognized license: GNU General Public License v3.0: 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":"Packaging","score":10,"reason":"packaging workflow detected","details":["Info: Project packages its releases by way of GitHub Actions.: .github/workflows/publish-to-pypi.yml:32"],"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":"Signed-Releases","score":8,"reason":"1 out of the last 1 releases have a total of 1 signed artifacts.","details":["Info: signed release artifact: OSTIR-1.1.3-py3-none-any.whl.sigstore.json: https://github.com/barricklab/ostir/releases/tag/v1.1.3","Warn: release artifact v1.1.3 does not have provenance: https://api.github.com/repos/barricklab/ostir/releases/186699584"],"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":0,"reason":"branch protection not enabled on development/release branches","details":["Warn: branch protection not enabled for branch 'master'"],"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":"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/package_and_test.yml:24: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/package_and_test.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/package_and_test.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/package_and_test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:12: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:47: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:52: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:68: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:73: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:12: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:47: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:52: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: containerImage not pinned by hash: Dockerfile.anaconda:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.miniconda:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.miniforge:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.viennarna:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: downloadThenRun not pinned by hash: Dockerfile.anaconda:9","Warn: downloadThenRun not pinned by hash: Dockerfile.miniconda:9","Warn: pipCommand not pinned by hash: Dockerfile.viennarna:10-12","Warn: pipCommand not pinned by hash: .github/workflows/publish-to-pypi.yml:20","Warn: pipCommand not pinned by hash: .github/workflows/publish-to-test-pypi.yml:20","Info:   0 out of  10 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   4 third-party GitHubAction dependencies pinned","Info:   0 out of   4 containerImage dependencies pinned","Info:   0 out of   2 downloadThenRun dependencies pinned","Info:   0 out of   3 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":"SAST","score":0,"reason":"SAST tool is not run on all commits -- score normalized to 0","details":["Warn: 0 commits out of 3 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":"2025-08-17T03:51:48.972Z","repository_id":37076568,"created_at":"2025-08-17T03:51:48.972Z","updated_at":"2025-08-17T03:51:48.972Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273517463,"owners_count":25119778,"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":"2025-09-03T02:00:09.631Z","response_time":76,"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":"barricklab","name":"Barrick Lab","uuid":"11457754","kind":"organization","description":"Barrick Lab at the University of Texas at Austin","email":null,"website":"http://barricklab.org","location":"Austin, TX","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/11457754?v=4","repositories_count":15,"last_synced_at":"2023-02-28T18:40:31.775Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/barricklab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-11T20:17:42.014Z","updated_at":"2023-02-28T18:40:31.797Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab/repositories"},"packages":[{"id":2842809,"name":"ostir","ecosystem":"pypi","description":"Open Source Transcription Initiation Rates","homepage":"https://github.com/barricklab/ostir","licenses":"GNU General Public License v3 or later (GPLv3+)","normalized_licenses":["GPL-2.0","GPL-2.0+"],"repository_url":"https://github.com/barricklab/ostir","keywords_array":[],"namespace":null,"versions_count":12,"first_release_published_at":"2020-11-24T16:53:39.000Z","latest_release_published_at":"2024-11-21T17:18:42.000Z","latest_release_number":"1.1.3","last_synced_at":"2025-09-03T22:04:25.388Z","created_at":"2022-04-10T11:58:25.258Z","updated_at":"2025-09-04T08:56:15.138Z","registry_url":"https://pypi.org/project/ostir/","install_command":"pip install ostir --index-url https://pypi.org/simple","documentation_url":"https://ostir.readthedocs.io/","metadata":{"funding":null,"documentation":null,"classifiers":["License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)","Operating System :: OS Independent","Programming Language :: Python :: 3"],"normalized_name":"ostir","project_status":null},"repo_metadata":{"id":37076568,"uuid":"187904349","full_name":"barricklab/ostir","owner":"barricklab","description":"Software for predicting translation initiation rates in bacteria","archived":false,"fork":false,"pushed_at":"2025-07-30T19:23:03.000Z","size":7178,"stargazers_count":29,"open_issues_count":3,"forks_count":9,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-08-28T01:42:55.536Z","etag":null,"topics":["bioengineering","rna-structure","synthetic-biology"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/barricklab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"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":".zenodo.json"}},"created_at":"2019-05-21T19:54:43.000Z","updated_at":"2025-08-04T13:29:47.000Z","dependencies_parsed_at":"2024-03-14T17:01:57.643Z","dependency_job_id":"9d37cfd9-c2ee-4374-a3a8-5c59e5566d9a","html_url":"https://github.com/barricklab/ostir","commit_stats":{"total_commits":132,"total_committers":6,"mean_commits":22.0,"dds":0.6363636363636364,"last_synced_commit":"a655129e5c152b524822f4af60661b5eadf8707a"},"previous_names":[],"tags_count":10,"template":false,"template_full_name":null,"purl":"pkg:github/barricklab/ostir","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/sbom","scorecard":{"id":226077,"data":{"date":"2025-08-11","repo":{"name":"github.com/barricklab/ostir","commit":"4c0eb9919e5c9612c60e218d53ea190bc57daea8"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":4.3,"checks":[{"name":"Code-Review","score":0,"reason":"Found 2/30 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":"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":"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":"Maintained","score":2,"reason":"2 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 2","details":null,"documentation":{"short":"Determines if the project is \"actively maintained\".","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#maintained"}},{"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: jobLevel 'contents' permission set to 'write': .github/workflows/publish-to-pypi.yml:63","Warn: no topLevel permission defined: .github/workflows/package_and_test.yml:1","Warn: no topLevel permission defined: .github/workflows/publish-to-pypi.yml:1","Warn: no topLevel permission defined: .github/workflows/publish-to-test-pypi.yml:1"],"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":"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":"Vulnerabilities","score":10,"reason":"0 existing vulnerabilities detected","details":null,"documentation":{"short":"Determines if the project has open, known unfixed vulnerabilities.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#vulnerabilities"}},{"name":"License","score":10,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Info: FSF or OSI recognized license: GNU General Public License v3.0: 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":"Packaging","score":10,"reason":"packaging workflow detected","details":["Info: Project packages its releases by way of GitHub Actions.: .github/workflows/publish-to-pypi.yml:32"],"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":"Signed-Releases","score":8,"reason":"1 out of the last 1 releases have a total of 1 signed artifacts.","details":["Info: signed release artifact: OSTIR-1.1.3-py3-none-any.whl.sigstore.json: https://github.com/barricklab/ostir/releases/tag/v1.1.3","Warn: release artifact v1.1.3 does not have provenance: https://api.github.com/repos/barricklab/ostir/releases/186699584"],"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":0,"reason":"branch protection not enabled on development/release branches","details":["Warn: branch protection not enabled for branch 'master'"],"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":"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/package_and_test.yml:24: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/package_and_test.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/package_and_test.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/package_and_test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:12: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:47: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:52: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:68: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-pypi.yml:73: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:12: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:27: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:47: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/publish-to-test-pypi.yml:52: update your workflow using https://app.stepsecurity.io/secureworkflow/barricklab/ostir/publish-to-test-pypi.yml/master?enable=pin","Warn: containerImage not pinned by hash: Dockerfile.anaconda:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.miniconda:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.miniforge:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: containerImage not pinned by hash: Dockerfile.viennarna:1: pin your Docker image by updating python:latest to python:latest@sha256:b3e52dd22ff14e2e6dcbc0f028f743dc037c74258e9af3d0a2fd8e6617d94d72","Warn: downloadThenRun not pinned by hash: Dockerfile.anaconda:9","Warn: downloadThenRun not pinned by hash: Dockerfile.miniconda:9","Warn: pipCommand not pinned by hash: Dockerfile.viennarna:10-12","Warn: pipCommand not pinned by hash: .github/workflows/publish-to-pypi.yml:20","Warn: pipCommand not pinned by hash: .github/workflows/publish-to-test-pypi.yml:20","Info:   0 out of  10 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   4 third-party GitHubAction dependencies pinned","Info:   0 out of   4 containerImage dependencies pinned","Info:   0 out of   2 downloadThenRun dependencies pinned","Info:   0 out of   3 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":"SAST","score":0,"reason":"SAST tool is not run on all commits -- score normalized to 0","details":["Warn: 0 commits out of 3 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":"2025-08-17T03:51:48.972Z","repository_id":37076568,"created_at":"2025-08-17T03:51:48.972Z","updated_at":"2025-08-17T03:51:48.972Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273517463,"owners_count":25119778,"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":"2025-09-03T02:00:09.631Z","response_time":76,"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":"barricklab","name":"Barrick Lab","uuid":"11457754","kind":"organization","description":"Barrick Lab at the University of Texas at Austin","email":null,"website":"http://barricklab.org","location":"Austin, TX","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/11457754?v=4","repositories_count":15,"last_synced_at":"2023-02-28T18:40:31.775Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/barricklab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-11T20:17:42.014Z","updated_at":"2023-02-28T18:40:31.797Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab/repositories"},"tags":[{"name":"master","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/master","html_url":"https://github.com/barricklab/ostir/releases/tag/master","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@master","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master/manifests"},{"name":"v1.1.3","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.3","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3/manifests"},{"name":"v1.1.2","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.2","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2/manifests"},{"name":"v1.1.1","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.1","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1/manifests"},{"name":"v1.1.0","sha":"ddd75072b7ddc7dc9679e39a5e5d14734e6a4f2c","kind":"commit","published_at":"2022-11-08T22:13:15.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.0","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0/manifests"},{"name":"v1.0.6","sha":"26f6bcb294c88f89281a73b745d9b0398e059941","kind":"commit","published_at":"2021-08-20T18:27:47.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.6","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6/manifests"},{"name":"v1.0.5","sha":"f7bb1cc6e225ed8834b3f95c47be146194f35935","kind":"commit","published_at":"2021-07-01T00:01:29.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.5","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5/manifests"},{"name":"1.0.4","sha":"e98a4aed537239b33c6c18ece28fb9b4a0a69939","kind":"commit","published_at":"2021-06-03T22:36:00.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.4","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4/manifests"},{"name":"1.0.3","sha":"aab929a6b2a66cdccbd0db4644ca85a1b5681b1e","kind":"commit","published_at":"2021-05-27T16:12:03.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.3","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3/manifests"},{"name":"1.0.0","sha":"f765fe2a943155539401f103eeb4c302f9d7e836","kind":"commit","published_at":"2021-04-24T16:02:54.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.0","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0/manifests"}]},"repo_metadata_updated_at":"2025-09-04T08:56:15.137Z","dependent_packages_count":1,"downloads":253,"downloads_period":"last-month","dependent_repos_count":1,"rankings":{"downloads":29.386106808052283,"dependent_repos_count":21.559058535118407,"dependent_packages_count":10.108852264313626,"stargazers_count":18.526412746019723,"forks_count":15.368540057212353,"docker_downloads_count":null,"average":18.989794082143277},"purl":"pkg:pypi/ostir","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/ostir","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/ostir","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/ostir/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-31T20:34:11.917Z","issues_count":9,"pull_requests_count":5,"avg_time_to_close_issue":9016254.166666666,"avg_time_to_close_pull_request":1066928.2,"issues_closed_count":6,"pull_requests_closed_count":5,"pull_request_authors_count":4,"issue_authors_count":6,"avg_comments_per_issue":1.3333333333333333,"avg_comments_per_pull_request":1.0,"merged_pull_requests_count":5,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":2,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":2593176.0,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":2,"past_year_pull_request_authors_count":2,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":2.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":2,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/issues","maintainers":[{"login":"croots","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}],"active_maintainers":[{"login":"croots","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir/related_packages","maintainers":[{"uuid":"croots","login":"croots","name":null,"email":null,"url":null,"packages_count":6,"html_url":"https://pypi.org/user/croots/","role":null,"created_at":"2022-11-21T06:57:17.113Z","updated_at":"2022-11-21T06:57:17.113Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/croots/packages"},{"uuid":"jbarrick","login":"jbarrick","name":null,"email":null,"url":null,"packages_count":7,"html_url":"https://pypi.org/user/jbarrick/","role":null,"created_at":"2024-08-15T11:43:38.042Z","updated_at":"2024-08-15T11:43:38.042Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/jbarrick/packages"}],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":724721,"maintainers_count":308192,"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"}},{"id":4497081,"name":"ostir50","ecosystem":"pypi","description":"Open Source Transcription Initiation Rates","homepage":"https://github.com/barricklab/ostir","licenses":"GNU General Public License v3 or later (GPLv3+)","normalized_licenses":["GPL-2.0","GPL-2.0+"],"repository_url":"https://github.com/barricklab/ostir","keywords_array":[],"namespace":null,"versions_count":1,"first_release_published_at":"2022-07-05T09:38:16.000Z","latest_release_published_at":"2022-07-05T09:38:16.000Z","latest_release_number":"1.0.6","last_synced_at":"2025-02-22T18:53:39.987Z","created_at":"2022-07-05T09:40:49.605Z","updated_at":"2025-08-06T07:20:50.492Z","registry_url":"https://pypi.org/project/ostir50/","install_command":"pip install ostir50 --index-url https://pypi.org/simple","documentation_url":"https://ostir50.readthedocs.io/","metadata":{"normalized_name":"ostir50"},"repo_metadata":{"id":37076568,"uuid":"187904349","full_name":"barricklab/ostir","owner":"barricklab","description":"Software for predicting translation initiation rates in bacteria","archived":false,"fork":false,"pushed_at":"2024-11-21T17:20:31.000Z","size":7174,"stargazers_count":27,"open_issues_count":3,"forks_count":9,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-07-30T03:55:22.676Z","etag":null,"topics":["bioengineering","rna-structure","synthetic-biology"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/barricklab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"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":".zenodo.json"}},"created_at":"2019-05-21T19:54:43.000Z","updated_at":"2025-07-08T09:36:31.000Z","dependencies_parsed_at":"2024-03-14T17:01:57.643Z","dependency_job_id":"9d37cfd9-c2ee-4374-a3a8-5c59e5566d9a","html_url":"https://github.com/barricklab/ostir","commit_stats":{"total_commits":132,"total_committers":6,"mean_commits":22.0,"dds":0.6363636363636364,"last_synced_commit":"a655129e5c152b524822f4af60661b5eadf8707a"},"previous_names":[],"tags_count":10,"template":false,"template_full_name":null,"purl":"pkg:github/barricklab/ostir","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":268850943,"owners_count":24317317,"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":"2025-08-05T02:00:12.334Z","response_time":2576,"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":"barricklab","name":"Barrick Lab","uuid":"11457754","kind":"organization","description":"Barrick Lab at the University of Texas at Austin","email":null,"website":"http://barricklab.org","location":"Austin, TX","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/11457754?v=4","repositories_count":15,"last_synced_at":"2023-02-28T18:40:31.775Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/barricklab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-11T20:17:42.014Z","updated_at":"2023-02-28T18:40:31.797Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab/repositories"},"tags":[{"name":"master","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/master","html_url":"https://github.com/barricklab/ostir/releases/tag/master","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@master","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master/manifests"},{"name":"v1.1.3","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.3","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3/manifests"},{"name":"v1.1.2","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.2","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2/manifests"},{"name":"v1.1.1","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.1","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1/manifests"},{"name":"v1.1.0","sha":"ddd75072b7ddc7dc9679e39a5e5d14734e6a4f2c","kind":"commit","published_at":"2022-11-08T22:13:15.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.0","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0/manifests"},{"name":"v1.0.6","sha":"26f6bcb294c88f89281a73b745d9b0398e059941","kind":"commit","published_at":"2021-08-20T18:27:47.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.6","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6/manifests"},{"name":"v1.0.5","sha":"f7bb1cc6e225ed8834b3f95c47be146194f35935","kind":"commit","published_at":"2021-07-01T00:01:29.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.5","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5/manifests"},{"name":"1.0.4","sha":"e98a4aed537239b33c6c18ece28fb9b4a0a69939","kind":"commit","published_at":"2021-06-03T22:36:00.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.4","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4/manifests"},{"name":"1.0.3","sha":"aab929a6b2a66cdccbd0db4644ca85a1b5681b1e","kind":"commit","published_at":"2021-05-27T16:12:03.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.3","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3/manifests"},{"name":"1.0.0","sha":"f765fe2a943155539401f103eeb4c302f9d7e836","kind":"commit","published_at":"2021-04-24T16:02:54.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.0","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0/manifests"}]},"repo_metadata_updated_at":"2025-08-06T07:20:50.492Z","dependent_packages_count":0,"downloads":0,"downloads_period":null,"dependent_repos_count":0,"rankings":{"downloads":50.88054450241676,"dependent_repos_count":6.3313285686171925,"dependent_packages_count":4.842154778075906,"stargazers_count":18.229839154830877,"forks_count":14.427106082932942,"average":18.942194617374735},"purl":"pkg:pypi/ostir50","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/ostir50","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/ostir50","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/ostir50/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-05T11:19:43.765Z","issues_count":9,"pull_requests_count":5,"avg_time_to_close_issue":9016254.166666666,"avg_time_to_close_pull_request":1066928.2,"issues_closed_count":6,"pull_requests_closed_count":5,"pull_request_authors_count":4,"issue_authors_count":6,"avg_comments_per_issue":1.3333333333333333,"avg_comments_per_pull_request":1.0,"merged_pull_requests_count":5,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":1,"past_year_pull_requests_count":2,"past_year_avg_time_to_close_issue":1029.0,"past_year_avg_time_to_close_pull_request":2593176.0,"past_year_issues_closed_count":1,"past_year_pull_requests_closed_count":2,"past_year_pull_request_authors_count":2,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":1.0,"past_year_avg_comments_per_pull_request":2.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":2,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/issues","maintainers":[{"login":"croots","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}],"active_maintainers":[{"login":"croots","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir50/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir50/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir50/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir50/related_packages","maintainers":[],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":724721,"maintainers_count":308192,"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"}},{"id":4497062,"name":"ostir-50","ecosystem":"pypi","description":"Open Source Transcription Initiation Rates","homepage":"https://github.com/barricklab/ostir","licenses":"GNU General Public License v3 or later (GPLv3+)","normalized_licenses":["GPL-2.0","GPL-2.0+"],"repository_url":"https://github.com/barricklab/ostir","keywords_array":[],"namespace":null,"versions_count":1,"first_release_published_at":"2022-07-05T09:29:22.000Z","latest_release_published_at":"2022-07-05T09:29:22.000Z","latest_release_number":"1.0.6","last_synced_at":"2024-12-21T19:17:43.110Z","created_at":"2022-07-05T09:30:45.771Z","updated_at":"2025-08-06T07:20:50.486Z","registry_url":"https://pypi.org/project/ostir-50/","install_command":"pip install ostir-50 --index-url https://pypi.org/simple","documentation_url":"https://ostir-50.readthedocs.io/","metadata":{"normalized_name":"ostir-50"},"repo_metadata":{"id":37076568,"uuid":"187904349","full_name":"barricklab/ostir","owner":"barricklab","description":"Software for predicting translation initiation rates in bacteria","archived":false,"fork":false,"pushed_at":"2024-11-21T17:20:31.000Z","size":7174,"stargazers_count":27,"open_issues_count":3,"forks_count":9,"subscribers_count":3,"default_branch":"master","last_synced_at":"2025-07-30T03:55:22.676Z","etag":null,"topics":["bioengineering","rna-structure","synthetic-biology"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-3.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/barricklab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"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":".zenodo.json"}},"created_at":"2019-05-21T19:54:43.000Z","updated_at":"2025-07-08T09:36:31.000Z","dependencies_parsed_at":"2024-03-14T17:01:57.643Z","dependency_job_id":"9d37cfd9-c2ee-4374-a3a8-5c59e5566d9a","html_url":"https://github.com/barricklab/ostir","commit_stats":{"total_commits":132,"total_committers":6,"mean_commits":22.0,"dds":0.6363636363636364,"last_synced_commit":"a655129e5c152b524822f4af60661b5eadf8707a"},"previous_names":[],"tags_count":10,"template":false,"template_full_name":null,"purl":"pkg:github/barricklab/ostir","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":268850943,"owners_count":24317317,"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":"2025-08-05T02:00:12.334Z","response_time":2576,"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":"barricklab","name":"Barrick Lab","uuid":"11457754","kind":"organization","description":"Barrick Lab at the University of Texas at Austin","email":null,"website":"http://barricklab.org","location":"Austin, TX","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/11457754?v=4","repositories_count":15,"last_synced_at":"2023-02-28T18:40:31.775Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/barricklab","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-11T20:17:42.014Z","updated_at":"2023-02-28T18:40:31.797Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/barricklab/repositories"},"tags":[{"name":"master","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/master","html_url":"https://github.com/barricklab/ostir/releases/tag/master","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@master","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/master/manifests"},{"name":"v1.1.3","sha":"9a1a5744bd70f28313a342ba9bf7946c8cd12bd2","kind":"commit","published_at":"2024-11-21T17:17:08.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.3","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.3/manifests"},{"name":"v1.1.2","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.2","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.2/manifests"},{"name":"v1.1.1","sha":"20dc0fb3b0be465678df3caa7aeec8282ade39c5","kind":"commit","published_at":"2024-03-14T15:56:43.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.1","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.1/manifests"},{"name":"v1.1.0","sha":"ddd75072b7ddc7dc9679e39a5e5d14734e6a4f2c","kind":"commit","published_at":"2022-11-08T22:13:15.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.1.0","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.1.0/manifests"},{"name":"v1.0.6","sha":"26f6bcb294c88f89281a73b745d9b0398e059941","kind":"commit","published_at":"2021-08-20T18:27:47.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.6","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.6","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.6","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.6/manifests"},{"name":"v1.0.5","sha":"f7bb1cc6e225ed8834b3f95c47be146194f35935","kind":"commit","published_at":"2021-07-01T00:01:29.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/v1.0.5","html_url":"https://github.com/barricklab/ostir/releases/tag/v1.0.5","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@v1.0.5","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/v1.0.5/manifests"},{"name":"1.0.4","sha":"e98a4aed537239b33c6c18ece28fb9b4a0a69939","kind":"commit","published_at":"2021-06-03T22:36:00.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.4","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.4/manifests"},{"name":"1.0.3","sha":"aab929a6b2a66cdccbd0db4644ca85a1b5681b1e","kind":"commit","published_at":"2021-05-27T16:12:03.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.3","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.3","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.3","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.3/manifests"},{"name":"1.0.0","sha":"f765fe2a943155539401f103eeb4c302f9d7e836","kind":"commit","published_at":"2021-04-24T16:02:54.000Z","download_url":"https://codeload.github.com/barricklab/ostir/tar.gz/1.0.0","html_url":"https://github.com/barricklab/ostir/releases/tag/1.0.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/barricklab/ostir@1.0.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/tags/1.0.0/manifests"}]},"repo_metadata_updated_at":"2025-08-06T07:20:50.486Z","dependent_packages_count":0,"downloads":0,"downloads_period":null,"dependent_repos_count":0,"rankings":{"downloads":50.88054450241676,"dependent_repos_count":6.3313285686171925,"dependent_packages_count":4.842154778075906,"stargazers_count":18.229839154830877,"forks_count":14.427106082932942,"average":18.942194617374735},"purl":"pkg:pypi/ostir-50","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/ostir-50","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/ostir-50","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/ostir-50/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-05T11:19:43.765Z","issues_count":9,"pull_requests_count":5,"avg_time_to_close_issue":9016254.166666666,"avg_time_to_close_pull_request":1066928.2,"issues_closed_count":6,"pull_requests_closed_count":5,"pull_request_authors_count":4,"issue_authors_count":6,"avg_comments_per_issue":1.3333333333333333,"avg_comments_per_pull_request":1.0,"merged_pull_requests_count":5,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":1,"past_year_pull_requests_count":2,"past_year_avg_time_to_close_issue":1029.0,"past_year_avg_time_to_close_pull_request":2593176.0,"past_year_issues_closed_count":1,"past_year_pull_requests_closed_count":2,"past_year_pull_request_authors_count":2,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":1.0,"past_year_avg_comments_per_pull_request":2.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":2,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/issues","maintainers":[{"login":"croots","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}],"active_maintainers":[{"login":"croots","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir-50/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir-50/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir-50/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/ostir-50/related_packages","maintainers":[],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":724721,"maintainers_count":308192,"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":624152,"full_name":"barricklab/ostir","default_branch":"master","committers":[{"name":"Cameron","email":"croots@utexas.edu","login":"croots","count":109},{"name":"Jeffrey Barrick","email":"jeffrey.e.barrick@gmail.com","login":"jeffreybarrick","count":46},{"name":"ajlukasiewicz","email":"ajlukasiewicz@utexas.edu","login":"ajlukasiewicz","count":2},{"name":"Yiduo Wang","email":"61599656+yiduo-wang-32","login":"yiduo-wang-32","count":1},{"name":"Luilver Garcés Briñas","email":"luilver@gmail.com","login":"luilver","count":1}],"total_commits":159,"total_committers":5,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":31.8,"dds":0.3144654088050315,"past_year_committers":[{"name":"croots","email":"38054423+croots","login":"croots","count":18},{"name":"Yiduo Wang","email":"61599656+yiduo-wang-32","login":"yiduo-wang-32","count":1}],"past_year_total_commits":19,"past_year_total_committers":2,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":9.5,"past_year_dds":0.052631578947368474,"last_synced_at":"2025-08-07T07:37:30.029Z","last_synced_commit":"4c0eb9919e5c9612c60e218d53ea190bc57daea8","created_at":"2023-03-09T08:07:00.331Z","updated_at":"2025-08-07T07:37:30.189Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/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":"barricklab/ostir","html_url":"https://github.com/barricklab/ostir","last_synced_at":"2025-08-31T20:34:11.917Z","status":"error","issues_count":9,"pull_requests_count":5,"avg_time_to_close_issue":9016254.166666666,"avg_time_to_close_pull_request":1066928.2,"issues_closed_count":6,"pull_requests_closed_count":5,"pull_request_authors_count":4,"issue_authors_count":6,"avg_comments_per_issue":1.3333333333333333,"avg_comments_per_pull_request":1.0,"merged_pull_requests_count":5,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":0,"past_year_pull_requests_count":2,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":2593176.0,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":2,"past_year_pull_request_authors_count":2,"past_year_issue_authors_count":0,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":2.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":2,"created_at":"2023-05-14T21:44:21.351Z","updated_at":"2025-09-02T21:31:25.073Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/barricklab%2Fostir/issues","issue_labels_count":{"enhancement":2,"help wanted":1},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":5,"CONTRIBUTOR":3,"COLLABORATOR":1},"pull_request_author_associations_count":{"CONTRIBUTOR":4,"NONE":2,"COLLABORATOR":2},"issue_authors":{"jeffreybarrick":3,"jhahnfeld":2,"croots":1,"luilver":1,"cclough":1,"biseiohkawara":1},"pull_request_authors":{"croots":3,"yiduo-wang-32":2,"luilver":2,"ajlukasiewicz":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-02T00:00:07.986Z","repositories_count":10042729,"issues_count":30645220,"pull_requests_count":91402388,"authors_count":10443886,"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":{},"past_year_pull_request_author_associations_count":{"COLLABORATOR":2},"past_year_issue_authors":{},"past_year_pull_request_authors":{"croots":2},"maintainers":[{"login":"croots","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}],"active_maintainers":[{"login":"croots","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/croots"}]},"events":{"total":{"ReleaseEvent":1,"WatchEvent":7,"IssueCommentEvent":7,"PushEvent":15,"PullRequestEvent":2,"CreateEvent":2},"last_year":{"ReleaseEvent":1,"WatchEvent":7,"IssueCommentEvent":7,"PushEvent":15,"PullRequestEvent":2,"CreateEvent":2}},"keywords":["bioengineering","rna-structure","synthetic-biology"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/package_and_test.yml","sha":null,"kind":"manifest","created_at":"2023-01-31T07:46:08.154Z","updated_at":"2023-01-31T07:46:08.154Z","repository_link":"https://github.com/barricklab/ostir/blob/master/.github/workflows/package_and_test.yml","dependencies":[{"id":7266623967,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"pypi","filepath":"setup.py","sha":null,"kind":"manifest","created_at":"2023-01-31T07:46:08.471Z","updated_at":"2023-01-31T07:46:08.471Z","repository_link":"https://github.com/barricklab/ostir/blob/master/setup.py","dependencies":[{"id":7266628290,"package_name":"numpy","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/python_publish.yml","sha":null,"kind":"manifest","created_at":"2024-03-14T17:01:56.093Z","updated_at":"2024-03-14T17:01:56.093Z","repository_link":"https://github.com/barricklab/ostir/blob/master/.github/workflows/python_publish.yml","dependencies":[{"id":16817231383,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":16817231384,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":16817231385,"package_name":"pypa/gh-action-pypi-publish","ecosystem":"actions","requirements":"27b31702a0e7fc50959f5ad993c78deac1bdfc29","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"pypi","filepath":"environment.yml","sha":null,"kind":"manifest","created_at":"2024-03-14T17:01:56.168Z","updated_at":"2024-03-14T17:01:56.168Z","repository_link":"https://github.com/barricklab/ostir/blob/master/environment.yml","dependencies":[]},{"ecosystem":"pypi","filepath":"pyproject.toml","sha":null,"kind":"manifest","created_at":"2024-03-14T17:01:56.173Z","updated_at":"2024-03-14T17:01:56.173Z","repository_link":"https://github.com/barricklab/ostir/blob/master/pyproject.toml","dependencies":[]}],"score":10.624249900129048,"created_at":"2025-09-04T09:17:52.735Z","updated_at":"2025-10-07T08:04:34.934Z","avatar_url":"https://github.com/barricklab.png","language":"Python","category":"Scientific Software","sub_category":"Peer-reviewed","monthly_downloads":253,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/1799","html_url":"https://science.ecosyste.ms/projects/1799","bibtex_url":"https://science.ecosyste.ms/projects/1799/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/1799/export.apalike"}