{"id":64973,"name":"carveme","description":"CarveMe: genome-scale metabolic model reconstruction","url":"https://github.com/cdanielmachado/carveme","last_synced_at":"2025-09-08T13:18:11.768Z","repository":{"id":50998178,"uuid":"98427373","full_name":"cdanielmachado/carveme","owner":"cdanielmachado","description":"CarveMe: genome-scale metabolic model reconstruction","archived":false,"fork":false,"pushed_at":"2025-04-14T09:01:59.000Z","size":127059,"stargazers_count":178,"open_issues_count":51,"forks_count":58,"subscribers_count":9,"default_branch":"master","last_synced_at":"2025-08-28T20:22:32.628Z","etag":null,"topics":["genome-scale","metabolism","modeling","python","reconstruction"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/cdanielmachado.png","metadata":{"files":{"readme":"README.md","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":"2017-07-26T13:43:30.000Z","updated_at":"2025-08-11T09:26:44.000Z","dependencies_parsed_at":"2022-09-26T21:51:04.500Z","dependency_job_id":"e79d148e-432b-4177-bc60-1b9f280ed215","html_url":"https://github.com/cdanielmachado/carveme","commit_stats":{"total_commits":131,"total_committers":7,"mean_commits":"18.714285714285715","dds":0.04580152671755722,"last_synced_commit":"d828270863dea9b945301da6eb83bb1827c97de4"},"previous_names":[],"tags_count":11,"template":false,"template_full_name":null,"purl":"pkg:github/cdanielmachado/carveme","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/sbom","scorecard":{"id":269481,"data":{"date":"2025-08-11","repo":{"name":"github.com/cdanielmachado/carveme","commit":"81bc38966850fd87e1b91f070e6dfae212681d17"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":3.5,"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":"Code-Review","score":1,"reason":"Found 3/27 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":"Token-Permissions","score":-1,"reason":"No tokens found","details":null,"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":"Dangerous-Workflow","score":-1,"reason":"no workflows found","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":"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":"Maintained","score":0,"reason":"0 commit(s) and 1 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":"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":"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":9,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Warn: project license file does not contain an FSF or OSI license."],"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'","Info: 'branch protection settings apply to administrators' is required to merge 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":"Pinned-Dependencies","score":-1,"reason":"no dependencies found","details":null,"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 6 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":"2025-08-17T12:58:49.955Z","repository_id":50998178,"created_at":"2025-08-17T12:58:49.955Z","updated_at":"2025-08-17T12:58:49.955Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274190478,"owners_count":25238170,"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":"cdanielmachado","name":"Daniel Machado","uuid":"2588245","kind":"user","description":"Computational Biologist","email":"","website":"https://www.ntnu.edu/employees/daniel.machado","location":null,"twitter":"randomdan1el","company":"NTNU","icon_url":"https://avatars.githubusercontent.com/u/2588245?u=ec4811ff35048589c53efaa96885a47c612056c1\u0026v=4","repositories_count":19,"last_synced_at":"2023-08-05T21:02:09.001Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/cdanielmachado","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-06T13:00:59.576Z","updated_at":"2023-08-05T21:02:09.042Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado/repositories"},"packages":[{"id":2664971,"name":"carveme","ecosystem":"pypi","description":"CarveMe: automated metabolic model reconstruction","homepage":"https://github.com/cdanielmachado/carveme","licenses":"Apache Software License 2.0","normalized_licenses":["Apache-2.0"],"repository_url":"https://github.com/cdanielmachado/carveme","keywords_array":["carveme"],"namespace":null,"versions_count":17,"first_release_published_at":"2017-08-01T09:14:06.000Z","latest_release_published_at":"2025-08-28T14:00:20.000Z","latest_release_number":"1.6.5","last_synced_at":"2025-08-28T14:01:13.832Z","created_at":"2022-04-10T10:17:35.563Z","updated_at":"2025-08-28T14:43:32.143Z","registry_url":"https://pypi.org/project/carveme/","install_command":"pip install carveme --index-url https://pypi.org/simple","documentation_url":"https://carveme.readthedocs.io/","metadata":{"funding":null,"documentation":null,"classifiers":["Development Status :: 5 - Production/Stable","Environment :: Console","Intended Audience :: Science/Research","License :: OSI Approved :: Apache Software License","Programming Language :: Python :: 3.10","Programming Language :: Python :: 3.11","Programming Language :: Python :: 3.12","Programming Language :: Python :: 3.13","Programming Language :: Python :: 3.8","Programming Language :: Python :: 3.9","Topic :: Scientific/Engineering :: Bio-Informatics"],"normalized_name":"carveme","project_status":null},"repo_metadata":{"id":50998178,"uuid":"98427373","full_name":"cdanielmachado/carveme","owner":"cdanielmachado","description":"CarveMe: genome-scale metabolic model reconstruction","archived":false,"fork":false,"pushed_at":"2025-04-14T09:01:59.000Z","size":127059,"stargazers_count":178,"open_issues_count":51,"forks_count":58,"subscribers_count":9,"default_branch":"master","last_synced_at":"2025-08-16T21:46:51.239Z","etag":null,"topics":["genome-scale","metabolism","modeling","python","reconstruction"],"latest_commit_sha":null,"homepage":"","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/cdanielmachado.png","metadata":{"files":{"readme":"README.md","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":"2017-07-26T13:43:30.000Z","updated_at":"2025-08-11T09:26:44.000Z","dependencies_parsed_at":"2022-09-26T21:51:04.500Z","dependency_job_id":"e79d148e-432b-4177-bc60-1b9f280ed215","html_url":"https://github.com/cdanielmachado/carveme","commit_stats":{"total_commits":131,"total_committers":7,"mean_commits":"18.714285714285715","dds":0.04580152671755722,"last_synced_commit":"d828270863dea9b945301da6eb83bb1827c97de4"},"previous_names":[],"tags_count":11,"template":false,"template_full_name":null,"purl":"pkg:github/cdanielmachado/carveme","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/sbom","scorecard":{"id":269481,"data":{"date":"2025-08-11","repo":{"name":"github.com/cdanielmachado/carveme","commit":"81bc38966850fd87e1b91f070e6dfae212681d17"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":3.5,"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":"Code-Review","score":1,"reason":"Found 3/27 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":"Token-Permissions","score":-1,"reason":"No tokens found","details":null,"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":"Dangerous-Workflow","score":-1,"reason":"no workflows found","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":"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":"Maintained","score":0,"reason":"0 commit(s) and 1 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":"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":"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":9,"reason":"license file detected","details":["Info: project has a license file: LICENSE:0","Warn: project license file does not contain an FSF or OSI license."],"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'","Info: 'branch protection settings apply to administrators' is required to merge 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":"Pinned-Dependencies","score":-1,"reason":"no dependencies found","details":null,"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 6 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":"2025-08-17T12:58:49.955Z","repository_id":50998178,"created_at":"2025-08-17T12:58:49.955Z","updated_at":"2025-08-17T12:58:49.955Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":272511020,"owners_count":24947148,"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":"2025-08-28T02:00:10.768Z","response_time":74,"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":"cdanielmachado","name":"Daniel Machado","uuid":"2588245","kind":"user","description":"Computational Biologist","email":"","website":"https://www.ntnu.edu/employees/daniel.machado","location":null,"twitter":"randomdan1el","company":"NTNU","icon_url":"https://avatars.githubusercontent.com/u/2588245?u=ec4811ff35048589c53efaa96885a47c612056c1\u0026v=4","repositories_count":19,"last_synced_at":"2023-08-05T21:02:09.001Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/cdanielmachado","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-06T13:00:59.576Z","updated_at":"2023-08-05T21:02:09.042Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cdanielmachado/repositories"},"tags":[{"name":"1.6.0","sha":"bfe87bdb1005664283d482dc20ee2e91001269ab","kind":"commit","published_at":"2023-11-08T13:10:46.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.6.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.6.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.6.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.6.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.6.0/manifests"},{"name":"1.5.2","sha":"b7b7015f0775654e0756e4dd50f6418e374e0a3f","kind":"commit","published_at":"2023-05-22T07:36:18.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.5.2","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.5.2","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.5.2","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.2","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.2/manifests"},{"name":"1.5.1","sha":"08f44e3e180730a881fbd73f8af03fa8e1f5895a","kind":"commit","published_at":"2021-06-03T13:04:53.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.5.1","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.5.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.5.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.1/manifests"},{"name":"1.5.0","sha":"0f2f48de40fbb6ba6fc98ede73ae031af3263013","kind":"commit","published_at":"2021-04-19T12:03:27.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.5.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.5.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.5.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.5.0/manifests"},{"name":"1.4.1","sha":"6a9b158ef0988b738f495b0a7666a452d694ad48","kind":"commit","published_at":"2020-10-13T08:26:07.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.4.1","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.4.1","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.4.1","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.4.1","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.4.1/manifests"},{"name":"1.4.0","sha":"72f8e1190ca08c4704f53aa3b58b421c747cebb8","kind":"commit","published_at":"2020-09-16T11:40:54.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.4.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.4.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.4.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.4.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.4.0/manifests"},{"name":"1.3.0","sha":"63a55cce8b7981614a09d4b27b2fdb5f9ca69c79","kind":"commit","published_at":"2020-09-11T08:34:15.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.3.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.3.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.3.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.3.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.3.0/manifests"},{"name":"1.2.0","sha":"2b83f9c24ec8489a8fa4f3158fdfe9f253c2f607","kind":"commit","published_at":"2018-05-28T15:24:27.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.2.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.2.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.2.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.2.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.2.0/manifests"},{"name":"1.1.0","sha":"1c9558c0494cab441596a226bec82a9c3a7f3526","kind":"commit","published_at":"2018-01-16T10:30:05.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.1.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.1.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.1.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.1.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.1.0/manifests"},{"name":"1.0.0","sha":"86e1ef8a39f3f1af32309162894e4f8d999bf955","kind":"commit","published_at":"2017-11-09T09:03:34.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/1.0.0","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/1.0.0","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@1.0.0","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.0.0","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/1.0.0/manifests"},{"name":"0.1.4","sha":"b6a01646356931b785839fe7aef14e6c273a315b","kind":"commit","published_at":"2017-08-01T12:35:54.000Z","download_url":"https://codeload.github.com/cdanielmachado/carveme/tar.gz/0.1.4","html_url":"https://github.com/cdanielmachado/carveme/releases/tag/0.1.4","dependencies_parsed_at":null,"dependency_job_id":null,"purl":"pkg:github/cdanielmachado/carveme@0.1.4","tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/0.1.4","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/tags/0.1.4/manifests"}]},"repo_metadata_updated_at":"2025-08-28T14:43:32.143Z","dependent_packages_count":0,"downloads":543,"downloads_period":"last-month","dependent_repos_count":10,"rankings":{"downloads":7.489423384212689,"dependent_repos_count":4.591775589285477,"dependent_packages_count":10.117827917587048,"stargazers_count":6.726687760301221,"forks_count":5.856491697992603,"docker_downloads_count":3.6540685729938667,"average":6.406045820395484},"purl":"pkg:pypi/carveme","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/carveme","docker_dependents_count":0,"docker_downloads_count":0,"usage_url":"https://repos.ecosyste.ms/usage/pypi/carveme","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/carveme/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-16T21:46:51.540Z","issues_count":132,"pull_requests_count":7,"avg_time_to_close_issue":10364417.666666666,"avg_time_to_close_pull_request":99686.66666666667,"issues_closed_count":87,"pull_requests_closed_count":6,"pull_request_authors_count":5,"issue_authors_count":104,"avg_comments_per_issue":2.9166666666666665,"avg_comments_per_pull_request":0.2857142857142857,"merged_pull_requests_count":6,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":12,"past_year_pull_requests_count":1,"past_year_avg_time_to_close_issue":2908183.75,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":4,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":11,"past_year_avg_comments_per_issue":1.5,"past_year_avg_comments_per_pull_request":0.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/issues","maintainers":[{"login":"cdanielmachado","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cdanielmachado"}],"active_maintainers":[]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/carveme/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/carveme/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/carveme/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/carveme/related_packages","maintainers":[{"uuid":"dmachado","login":"dmachado","name":null,"email":null,"url":null,"packages_count":7,"html_url":"https://pypi.org/user/dmachado/","role":null,"created_at":"2023-02-23T18:49:12.475Z","updated_at":"2023-02-23T18:49:12.475Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/dmachado/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":547186,"full_name":"cdanielmachado/carveme","default_branch":"master","committers":[{"name":"Daniel","email":"cdanielmachado@gmail.com","login":null,"count":125},{"name":"Benjamin Sanchez","email":"bjsanchezb@gmail.com","login":null,"count":1},{"name":"Matthias König","email":"konigmatt@googlemail.com","login":null,"count":1},{"name":"Mike Mundy","email":"mundy.michael@mayo.edu","login":null,"count":1},{"name":"Filip Rotnes","email":"filip.rotnes@NMBU.NO","login":null,"count":1},{"name":"Silvia Talavera Marcos","email":"stalaveramarcos@gmail.com","login":null,"count":1},{"name":"Daniel Machado","email":"cdanielmachado","login":"cdanielmachado","count":1}],"total_commits":131,"total_committers":7,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":18.714285714285715,"dds":0.04580152671755722,"past_year_committers":[{"name":"Daniel Machado","email":"cdanielmachado@gmail.com","login":null,"count":8}],"past_year_total_commits":8,"past_year_total_committers":1,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":8.0,"past_year_dds":0.0,"last_synced_at":"2023-10-25T13:55:26.453Z","last_synced_commit":"d828270863dea9b945301da6eb83bb1827c97de4","created_at":"2023-03-09T04:28:35.363Z","updated_at":"2023-10-25T13:55:26.455Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:16.827Z","repositories_count":5480922,"commits_count":853648687,"contributors_count":31109504,"owners_count":906585,"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":"cdanielmachado/carveme","html_url":"https://github.com/cdanielmachado/carveme","last_synced_at":"2025-08-28T14:47:42.822Z","status":"error","issues_count":132,"pull_requests_count":7,"avg_time_to_close_issue":10364417.666666666,"avg_time_to_close_pull_request":99686.66666666667,"issues_closed_count":87,"pull_requests_closed_count":6,"pull_request_authors_count":5,"issue_authors_count":104,"avg_comments_per_issue":2.9166666666666665,"avg_comments_per_pull_request":0.2857142857142857,"merged_pull_requests_count":6,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":12,"past_year_pull_requests_count":1,"past_year_avg_time_to_close_issue":2908183.75,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":4,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":11,"past_year_avg_comments_per_issue":1.5,"past_year_avg_comments_per_pull_request":0.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"created_at":"2023-05-14T10:17:02.974Z","updated_at":"2025-09-03T02:06:36.701Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/cdanielmachado%2Fcarveme/issues","issue_labels_count":{"enhancement":3},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":130,"CONTRIBUTOR":3,"OWNER":2},"pull_request_author_associations_count":{"NONE":4,"OWNER":3,"CONTRIBUTOR":2},"issue_authors":{"franciscozorrilla":5,"iuliachiciudean":3,"jolespin":3,"NatashaJorge":3,"shumantov":2,"rcolpo":2,"wupeng1998":2,"microbial-cookie":2,"cdanielmachado":2,"SilasK":2,"Brunokemon":2,"lazzarigioele":2,"NantiaL":2,"lcottret":2,"SPD20":2,"dotPiano":2,"jiuchuyuan":2,"AnisMansouri":2,"juz4karen":2,"shreyanshumale":2,"Xingchen-Bian":2,"GediminasA":2,"jzaabat":1,"behzadk":1,"AzizBenA":1,"aini-bio":1,"famosab":1,"yqq-79":1,"rafafernandes96":1,"Buiboni":1,"Duleosol":1,"Rodriguez0101":1,"dtmvandenberg":1,"jbholm":1,"Ezio0o":1,"kako-f":1,"ryan-boobybiome":1,"leuschjanphilipp":1,"djinnome":1,"nick-youngblut":1,"filrot":1,"PaulJames201":1,"stefcamp":1,"silviamorins":1,"stephane-wang":1,"weihua74771":1,"Thomas-tang880":1,"JosuaCarl":1,"vrmarcelino":1,"tapj":1,"Chenjlin28":1,"BenjaSanchez":1,"aliyalakhani":1,"PolTorrentTornos":1,"mmp3":1,"rodsanpas":1,"AnnyMais03":1,"jnesme":1,"green34567":1,"zhangzn19":1,"Sail6666":1,"zoelwl":1,"xuetingyue":1,"PandengWang":1,"rhernandvel":1,"ryanreyn":1,"parsanayyara":1,"jccvila":1,"silvtal":1,"Gscorreia89":1,"phantomas1234":1,"bcoltman":1,"ZhichengJU":1,"lumlukwp":1,"arianccbasile":1,"Robaina":1,"mfeierabend":1,"smoretti":1,"ChenCongZ":1,"pbelmann":1,"marlaux":1,"sulheim":1,"Mushahid2521":1,"chumphati":1,"AlexandrePelletier":1,"Sanrrone":1,"Shlomit840":1,"pushing2":1,"jorgeln0":1,"Noonanav":1,"afvrbanac":1,"bananabenana":1,"ilnamkang":1,"NTDevika":1,"fcastillo1993":1,"ghost":1,"zoey-rw":1,"chadsmith123":1,"raysteven":1,"joelmhaske":1,"PedroMTQ":1,"leopoldche":1,"Dodolove725":1,"Baizhou12138":1,"stelmo":1,"Ming314":1,"shacharje1":1},"pull_request_authors":{"cdanielmachado":3,"nickp60":2,"djinnome":1,"silvtal":1,"filrot":1,"BenjaSanchez":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":{},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"NONE":10,"CONTRIBUTOR":1},"past_year_pull_request_author_associations_count":{"NONE":2},"past_year_issue_authors":{"AnnyMais03":1,"BenjaSanchez":1,"Brunokemon":1,"ChenCongZ":1,"green34567":1,"Ming314":1,"NTDevika":1,"ryanreyn":1,"wupeng1998":1,"xuetingyue":1,"ZhichengJU":1},"past_year_pull_request_authors":{"nickp60":2},"maintainers":[{"login":"cdanielmachado","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cdanielmachado"}],"active_maintainers":[]},"events":{"total":{"IssuesEvent":9,"WatchEvent":20,"IssueCommentEvent":16,"PushEvent":3,"PullRequestEvent":1,"ForkEvent":6},"last_year":{"IssuesEvent":9,"WatchEvent":20,"IssueCommentEvent":16,"PushEvent":3,"PullRequestEvent":1,"ForkEvent":6}},"keywords":["genome-scale","metabolism","modeling","python","reconstruction"],"dependencies":[],"score":13.696796839356837,"created_at":"2025-09-08T11:18:36.037Z","updated_at":"2025-10-07T08:24:52.815Z","avatar_url":"https://github.com/cdanielmachado.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":543,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1093/nar/gky537"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["biochemistry","bioinformatics","cell-design","cobra","computational-biology","flux","metabolic-models","metabolic-network","sbml","sbml-model"],"project_url":"https://science.ecosyste.ms/api/v1/projects/64973","html_url":"https://science.ecosyste.ms/projects/64973"}