{"id":58535,"name":"macsylib","description":"Python library that help to detect of macromolecular, systems genetic pathways… in prokaryotes protein datasets","url":"https://github.com/gem-pasteur/macsylib","last_synced_at":"2025-09-05T15:12:49.003Z","repository":{"id":306932795,"uuid":"1027713961","full_name":"gem-pasteur/macsylib","owner":"gem-pasteur","description":"Python library that help to detect of macromolecular, systems genetic pathways… in prokaryotes protein datasets","archived":false,"fork":false,"pushed_at":"2025-08-18T14:24:26.000Z","size":23801,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":0,"default_branch":"main","last_synced_at":"2025-08-18T14:55:00.265Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"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/gem-pasteur.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"COPYING","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":"codemeta.json","zenodo":null}},"created_at":"2025-07-28T12:25:21.000Z","updated_at":"2025-08-12T13:37:34.000Z","dependencies_parsed_at":"2025-07-28T15:19:15.392Z","dependency_job_id":null,"html_url":"https://github.com/gem-pasteur/macsylib","commit_stats":null,"previous_names":["gem-pasteur/macsylib"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/gem-pasteur/macsylib","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur","download_url":"https://codeload.github.com/gem-pasteur/macsylib/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273775031,"owners_count":25165741,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-05T02:00:09.113Z","response_time":402,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"owner":{"login":"gem-pasteur","name":"gem-pasteur","uuid":"5920106","kind":"organization","description":"","email":null,"website":"https://research.pasteur.fr/en/team/microbial-evolutionary-genomics/","location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/5920106?v=4","repositories_count":5,"last_synced_at":"2024-04-16T23:40:30.730Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/gem-pasteur","funding_links":[],"total_stars":167,"followers":5,"following":0,"created_at":"2022-11-08T02:58:31.064Z","updated_at":"2024-04-16T23:40:31.618Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur/repositories"},"packages":[{"id":11985554,"name":"macsylib","ecosystem":"pypi","description":"MacSyLib: Python library that help to detect of macromolecular, systems genetic pathways… in prokaryotes protein datasets using systems modelling and similarity search.","homepage":"https://github.com/gem-pasteur/macsylib/","licenses":"gpl-3.0","normalized_licenses":["GPL-3.0"],"repository_url":"https://github.com/gem-pasteur/macsylib","keywords_array":["science","research","bioinformatic","microbiology","genomic","prokaryote","functional gene annotation"],"namespace":null,"versions_count":4,"first_release_published_at":"2025-08-07T09:13:13.000Z","latest_release_published_at":"2025-08-20T08:08:41.000Z","latest_release_number":"1.0.3","last_synced_at":"2025-08-20T08:15:17.160Z","created_at":"2025-08-07T09:15:34.235Z","updated_at":"2025-08-20T08:15:17.436Z","registry_url":"https://pypi.org/project/macsylib/","install_command":"pip install macsylib --index-url https://pypi.org/simple","documentation_url":"https://macsylib.readthedocs.io/en/latest/","metadata":{"funding":null,"documentation":"https://macsylib.readthedocs.io/en/latest/","classifiers":["Development Status :: 5 - Production/Stable","Environment :: Console","Intended Audience :: Science/Research","Operating System :: POSIX","Programming Language :: Python :: 3","Programming Language :: Python :: 3.10","Programming Language :: Python :: 3.11","Programming Language :: Python :: 3.12","Programming Language :: Python :: 3.13","Topic :: Scientific/Engineering :: Bio-Informatics"],"normalized_name":"macsylib","project_status":null},"repo_metadata":{"id":306932795,"uuid":"1027713961","full_name":"gem-pasteur/macsylib","owner":"gem-pasteur","description":"Python library that help to detect of macromolecular, systems genetic pathways… in prokaryotes protein datasets","archived":false,"fork":false,"pushed_at":"2025-08-05T14:03:11.000Z","size":23597,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":0,"default_branch":"main","last_synced_at":"2025-08-05T16:08:52.097Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"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/gem-pasteur.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"COPYING","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":"codemeta.json","zenodo":null}},"created_at":"2025-07-28T12:25:21.000Z","updated_at":"2025-08-05T14:03:16.000Z","dependencies_parsed_at":"2025-07-28T15:19:15.392Z","dependency_job_id":null,"html_url":"https://github.com/gem-pasteur/macsylib","commit_stats":null,"previous_names":["gem-pasteur/macsylib"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/gem-pasteur/macsylib","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur","download_url":"https://codeload.github.com/gem-pasteur/macsylib/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":271011688,"owners_count":24684391,"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":"2025-08-18T02:00:08.743Z","response_time":89,"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":"gem-pasteur","name":"gem-pasteur","uuid":"5920106","kind":"organization","description":"","email":null,"website":"https://research.pasteur.fr/en/team/microbial-evolutionary-genomics/","location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/5920106?v=4","repositories_count":5,"last_synced_at":"2024-04-16T23:40:30.730Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/gem-pasteur","funding_links":[],"total_stars":167,"followers":5,"following":0,"created_at":"2022-11-08T02:58:31.064Z","updated_at":"2024-04-16T23:40:31.618Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/gem-pasteur/repositories"},"tags":[]},"repo_metadata_updated_at":"2025-08-18T14:57:32.861Z","dependent_packages_count":0,"downloads":null,"downloads_period":"last-month","dependent_repos_count":0,"rankings":{"downloads":null,"dependent_repos_count":49.13873468325089,"dependent_packages_count":8.720013885506162,"stargazers_count":null,"forks_count":null,"docker_downloads_count":null,"average":28.929374284378525},"purl":"pkg:pypi/macsylib","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/pypi/macsylib","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/pypi/macsylib","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/pypi/macsylib/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":null,"versions_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/macsylib/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/macsylib/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/macsylib/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/packages/macsylib/related_packages","maintainers":[{"uuid":"bneron","login":"bneron","name":null,"email":null,"url":null,"packages_count":6,"html_url":"https://pypi.org/user/bneron/","role":"Owner","created_at":"2025-08-07T09:15:38.945Z","updated_at":"2025-08-07T09:15:38.945Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/pypi.org/maintainers/bneron/packages"}],"registry":{"name":"pypi.org","url":"https://pypi.org","ecosystem":"pypi","default":true,"packages_count":725183,"maintainers_count":308369,"namespaces_count":0,"keywords_count":238006,"github":"pypi","metadata":{"funded_packages_count":50519},"icon_url":"https://github.com/pypi.png","created_at":"2022-04-04T15:19:23.364Z","updated_at":"2025-09-05T05:40:58.860Z","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":{"message":"Repository syncing started."},"issues_stats":{"full_name":"gem-pasteur/macsylib","html_url":"https://github.com/gem-pasteur/macsylib","last_synced_at":null,"status":null,"issues_count":null,"pull_requests_count":null,"avg_time_to_close_issue":null,"avg_time_to_close_pull_request":null,"issues_closed_count":null,"pull_requests_closed_count":null,"pull_request_authors_count":null,"issue_authors_count":null,"avg_comments_per_issue":null,"avg_comments_per_pull_request":null,"merged_pull_requests_count":null,"bot_issues_count":null,"bot_pull_requests_count":null,"past_year_issues_count":null,"past_year_pull_requests_count":null,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":null,"past_year_pull_requests_closed_count":null,"past_year_pull_request_authors_count":null,"past_year_issue_authors_count":null,"past_year_avg_comments_per_issue":null,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":null,"past_year_bot_pull_requests_count":null,"past_year_merged_pull_requests_count":null,"created_at":"2025-09-05T15:12:17.249Z","updated_at":"2025-09-05T15:12:17.249Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/gem-pasteur%2Fmacsylib/issues","issue_labels_count":{},"pull_request_labels_count":{},"issue_author_associations_count":{},"pull_request_author_associations_count":{},"issue_authors":{},"pull_request_authors":{},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.444Z","repositories_count":10102346,"issues_count":31523475,"pull_requests_count":97727319,"authors_count":10703653,"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":{},"past_year_issue_authors":{},"past_year_pull_request_authors":{},"maintainers":[],"active_maintainers":[]},"events":{"total":{"DeleteEvent":1,"PushEvent":7,"CreateEvent":6},"last_year":{"DeleteEvent":1,"PushEvent":7,"CreateEvent":6}},"keywords":[],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/ruff.yml","sha":null,"kind":"manifest","created_at":"2025-07-28T15:19:13.920Z","updated_at":"2025-07-28T15:19:13.920Z","repository_link":"https://github.com/gem-pasteur/macsylib/blob/main/.github/workflows/ruff.yml","dependencies":[{"id":24382270842,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false},{"id":24382270843,"package_name":"chartboost/ruff-action","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/testing.yml","sha":null,"kind":"manifest","created_at":"2025-07-28T15:19:14.665Z","updated_at":"2025-07-28T15:19:14.665Z","repository_link":"https://github.com/gem-pasteur/macsylib/blob/main/.github/workflows/testing.yml","dependencies":[{"id":24382270962,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false},{"id":24382270963,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"v5","direct":true,"kind":"composite","optional":false},{"id":24382270964,"package_name":"codecov/codecov-action","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"pypi","filepath":"doc/requirements.txt","sha":null,"kind":"manifest","created_at":"2025-07-28T15:19:14.727Z","updated_at":"2025-07-28T15:19:14.727Z","repository_link":"https://github.com/gem-pasteur/macsylib/blob/main/doc/requirements.txt","dependencies":[{"id":24382270987,"package_name":"pygraphviz","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382270988,"package_name":"sphinx-rtd-theme","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382270989,"package_name":"sphinx_autodoc_typehints","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271440,"package_name":"sphinxcontrib-applehelp","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271441,"package_name":"sphinxcontrib-devhelp","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271442,"package_name":"sphinxcontrib-htmlhelp","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271443,"package_name":"sphinxcontrib-jsmath","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271444,"package_name":"sphinxcontrib-qthelp","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271445,"package_name":"sphinxcontrib-serializinghtml","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false},{"id":24382271446,"package_name":"sphinxcontrib-svg2pdfconverter","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]},{"ecosystem":"pypi","filepath":"pyproject.toml","sha":null,"kind":"manifest","created_at":"2025-07-28T15:19:15.326Z","updated_at":"2025-07-28T15:19:15.326Z","repository_link":"https://github.com/gem-pasteur/macsylib/blob/main/pyproject.toml","dependencies":[{"id":24382271468,"package_name":"colorlog","ecosystem":"pypi","requirements":"\u003e=4.0.2","direct":true,"kind":"runtime","optional":false},{"id":24382271469,"package_name":"PyYAML","ecosystem":"pypi","requirements":"\u003e=5.1.1","direct":true,"kind":"runtime","optional":false},{"id":24382271470,"package_name":"packaging","ecosystem":"pypi","requirements":"\u003e=18.0","direct":true,"kind":"runtime","optional":false},{"id":24382271471,"package_name":"networkx","ecosystem":"pypi","requirements":"\u003e=2.4","direct":true,"kind":"runtime","optional":false},{"id":24382271472,"package_name":"pandas","ecosystem":"pypi","requirements":"\u003e=1.03","direct":true,"kind":"runtime","optional":false},{"id":24382271473,"package_name":"colorama","ecosystem":"pypi","requirements":"\u003e=0.4.4","direct":true,"kind":"runtime","optional":false},{"id":24382271474,"package_name":"certifi","ecosystem":"pypi","requirements":"*","direct":true,"kind":"runtime","optional":false}]}],"score":null,"created_at":"2025-09-04T15:51:35.069Z","updated_at":"2025-11-04T15:58:51.097Z","avatar_url":"https://github.com/gem-pasteur.png","language":"Python","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://science.ecosyste.ms/api/v1/projects/58535","html_url":"https://science.ecosyste.ms/projects/58535"}