{"id":13664290,"name":"python-deeptools","ecosystem":"debian","description":null,"homepage":"https://github.com/deeptools/deepTools","licenses":"other","normalized_licenses":["Other"],"repository_url":"https://github.com/deeptools/deepTools","keywords_array":["misc"],"namespace":"main","versions_count":1,"first_release_published_at":"2026-02-12T10:03:20.728Z","latest_release_published_at":"2026-02-12T10:03:20.728Z","latest_release_number":"3.5.6+dfsg-1","last_synced_at":"2026-03-14T09:03:15.022Z","created_at":"2026-02-12T10:03:20.349Z","updated_at":"2026-03-14T09:03:15.022Z","registry_url":"https://tracker.debian.org/pkg/python-deeptools","install_command":"apt-get install python-deeptools","documentation_url":"https://packages.debian.org/trixie/python-deeptools","metadata":{"component":"main","architecture":"all","priority":"extra","binary":"python3-deeptools","standards_version":"4.7.0","maintainer":"Debian Med Packaging Team \u003cdebian-med-packaging@lists.alioth.debian.org\u003e","build_depends":"debhelper-compat (= 13), dh-sequence-python3, pybuild-plugin-pyproject, python3-all, python3-setuptools, python3-numpy, python3-scipy, python3-matplotlib, python3-pysam, python3-py2bit, python3-numpydoc, python3-pybigwig, python3-plotly, python3-deeptoolsintervals, python3-pytest \u003c!nocheck\u003e","build_depends_indep":null,"build_depends_arch":null},"repo_metadata":{"id":37493386,"uuid":"11253779","full_name":"deeptools/deepTools","owner":"deeptools","description":"Tools to process and analyze deep sequencing data.","archived":false,"fork":false,"pushed_at":"2025-07-23T08:37:22.000Z","size":126482,"stargazers_count":752,"open_issues_count":177,"forks_count":220,"subscribers_count":37,"default_branch":"master","last_synced_at":"2026-01-25T01:57:17.191Z","etag":null,"topics":["bioinformatics","chip-seq","genomics","ngs","python","rna-seq"],"latest_commit_sha":null,"homepage":null,"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/deeptools.png","metadata":{"files":{"readme":"README.md","changelog":"CHANGES.txt","contributing":".github/CONTRIBUTING.md","funding":null,"license":"LICENSE.txt","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,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2013-07-08T12:30:28.000Z","updated_at":"2026-01-13T14:39:23.000Z","dependencies_parsed_at":"2023-02-04T02:32:22.648Z","dependency_job_id":"52fc70be-6819-4fd7-9653-b958dce343ac","html_url":"https://github.com/deeptools/deepTools","commit_stats":null,"previous_names":["fidelram/deeptools"],"tags_count":63,"template":false,"template_full_name":null,"purl":"pkg:github/deeptools/deepTools","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/deeptools","download_url":"https://codeload.github.com/deeptools/deepTools/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools/sbom","scorecard":{"id":332270,"data":{"date":"2025-08-11","repo":{"name":"github.com/deeptools/deepTools","commit":"ea0f68bb4a1587d713dacb3791861308751ef7d0"},"scorecard":{"version":"v5.2.1-40-gf6ed084d","commit":"f6ed084d17c9236477efd66e5b258b9d4cc7b389"},"score":4.1,"checks":[{"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":"Token-Permissions","score":0,"reason":"detected GitHub workflow tokens with excessive permissions","details":["Warn: no topLevel permission defined: .github/workflows/planemo.yml:1","Warn: no topLevel permission defined: .github/workflows/pypi.yml:1","Warn: no topLevel permission defined: .github/workflows/test.yml:1","Info: no jobLevel write permissions found"],"documentation":{"short":"Determines if the project's workflows follow the principle of least privilege.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#token-permissions"}},{"name":"Code-Review","score":3,"reason":"Found 3/9 approved changesets -- score normalized to 3","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":"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":"Packaging","score":-1,"reason":"packaging workflow not detected","details":["Warn: no GitHub/GitLab publishing workflow detected."],"documentation":{"short":"Determines if the project is published as a package that others can easily download, install, easily update, and uninstall.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#packaging"}},{"name":"Maintained","score":0,"reason":"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":"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":"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":"License","score":9,"reason":"license file detected","details":["Info: project has a license file: LICENSE.txt: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":"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":"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":-1,"reason":"internal error: error during branchesHandler.setup: internal error: githubv4.Query: Resource not accessible by integration","details":null,"documentation":{"short":"Determines if the default and release branches are protected with GitHub's branch protection settings.","url":"https://github.com/ossf/scorecard/blob/f6ed084d17c9236477efd66e5b258b9d4cc7b389/docs/checks.md#branch-protection"}},{"name":"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/planemo.yml:19: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/planemo.yml:20: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/planemo.yml:34: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/planemo.yml:43: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/planemo.yml:47: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/planemo.yml:52: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: third-party GitHubAction not pinned by hash: .github/workflows/planemo.yml:57: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/planemo.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/pypi.yml:18: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/pypi.yml:19: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/pypi.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:43: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:44: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:62: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:74: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:75: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:79: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:95: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:96: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: GitHub-owned GitHubAction not pinned by hash: .github/workflows/test.yml:14: update your workflow using https://app.stepsecurity.io/secureworkflow/deeptools/deepTools/test.yml/master?enable=pin","Warn: pipCommand not pinned by hash: .github/workflows/planemo.yml:30","Warn: pipCommand not pinned by hash: .github/workflows/pypi.yml:25","Warn: pipCommand not pinned by hash: .github/workflows/test.yml:50","Warn: pipCommand not pinned by hash: .github/workflows/test.yml:85","Warn: pipCommand not pinned by hash: .github/workflows/test.yml:89","Warn: pipCommand not pinned by hash: .github/workflows/test.yml:102","Info:   0 out of  15 GitHub-owned GitHubAction dependencies pinned","Info:   0 out of   3 third-party GitHubAction dependencies pinned","Info:   0 out of   6 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 30 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":"2025-08-18T03:54:30.761Z","repository_id":37493386,"created_at":"2025-08-18T03:54:30.761Z","updated_at":"2025-08-18T03:54:30.761Z"},"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29363027,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-02-12T08:51:36.827Z","status":"ssl_error","status_checked_at":"2026-02-12T08:51:26.849Z","response_time":55,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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"}},"repo_metadata_updated_at":"2026-02-12T10:16:36.416Z","dependent_packages_count":0,"downloads":null,"downloads_period":null,"dependent_repos_count":0,"rankings":{"downloads":null,"dependent_repos_count":0.0,"dependent_packages_count":0.0,"stargazers_count":null,"forks_count":null,"docker_downloads_count":null,"average":100},"purl":"pkg:deb/debian/python-deeptools?arch=source\u0026distro=debian-13\u0026repository_url=https://packages.debian.org/trixie","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/debian/python-deeptools","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/debian/python-deeptools","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/debian/python-deeptools/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2026-01-17T15:17:44.543Z","issues_count":65,"pull_requests_count":53,"avg_time_to_close_issue":9984749.82142857,"avg_time_to_close_pull_request":1888434.0,"issues_closed_count":28,"pull_requests_closed_count":36,"pull_request_authors_count":15,"issue_authors_count":59,"avg_comments_per_issue":0.9384615384615385,"avg_comments_per_pull_request":0.07547169811320754,"merged_pull_requests_count":31,"bot_issues_count":0,"bot_pull_requests_count":1,"past_year_issues_count":17,"past_year_pull_requests_count":33,"past_year_avg_time_to_close_issue":8806.0,"past_year_avg_time_to_close_pull_request":628258.1666666666,"past_year_issues_closed_count":3,"past_year_pull_requests_closed_count":18,"past_year_pull_request_authors_count":12,"past_year_issue_authors_count":16,"past_year_avg_comments_per_issue":0.47058823529411764,"past_year_avg_comments_per_pull_request":0.06060606060606061,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":16,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/deeptools%2FdeepTools/issues","maintainers":[{"login":"WardDeb","count":26,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/WardDeb"},{"login":"SaimMomin12","count":7,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/SaimMomin12"},{"login":"pavanvidem","count":4,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/pavanvidem"},{"login":"NavandarM","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/NavandarM"},{"login":"adRn-s","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/adRn-s"},{"login":"gerikson","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/gerikson"}],"active_maintainers":[{"login":"WardDeb","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/WardDeb"},{"login":"adRn-s","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/adRn-s"},{"login":"NavandarM","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/NavandarM"}]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/debian-13/packages/python-deeptools/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/debian-13/packages/python-deeptools/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/debian-13/packages/python-deeptools/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/debian-13/packages/python-deeptools/related_packages","codemeta_url":"https://packages.ecosyste.ms/api/v1/registries/debian-13/packages/python-deeptools/codemeta","maintainers":[]}