Informe JSON sin procesar legible por máquina
{
"data": {
"repo": {
"topics": [],
"is_fork": false,
"size_kb": 11352,
"has_wiki": false,
"homepage": null,
"languages": {
"HTML": 2594,
"Groovy": 39563,
"Python": 265116,
"Nextflow": 154293
},
"pushed_at": "2026-07-24T12:57:05Z",
"created_at": "2023-09-21T15:12:15Z",
"owner_type": "Organization",
"updated_at": "2026-07-23T11:55:55Z",
"description": "A comprehensive prokaryotic genome annotation pipeline",
"is_archived": false,
"is_disabled": false,
"license_spdx": "Apache-2.0",
"default_branch": "main",
"license_spdx_raw": "Apache-2.0",
"primary_language": "Python",
"significant_languages": [
"Python",
"Nextflow"
]
},
"owner": {
"blog": "https://www.ebi.ac.uk/metagenomics/",
"name": "MGnify",
"type": "Organization",
"login": "EBI-Metagenomics",
"company": null,
"location": "Genome Campus, UK",
"followers": 172,
"avatar_url": "https://avatars.githubusercontent.com/u/32897658?v=4",
"created_at": "2017-10-18T09:37:50Z",
"is_verified": null,
"public_repos": 225,
"account_age_days": 3204
},
"license": {
"state": "standard",
"spdx_id": "Apache-2.0",
"raw_spdx": "Apache-2.0",
"file_present": true,
"scorecard_found": true,
"profile_has_license": true
},
"activity": {
"releases": [
{
"tag": "v1.6.0",
"kind": "minor",
"published_at": "2026-07-13T15:54:42Z"
},
{
"tag": "v1.5.0",
"kind": "minor",
"published_at": "2025-11-17T12:02:18Z"
},
{
"tag": "v1.4.0",
"kind": "minor",
"published_at": "2024-12-23T10:57:41Z"
},
{
"tag": "v1.3",
"kind": "other",
"published_at": "2024-07-23T12:22:03Z"
},
{
"tag": "v1.2",
"kind": "other",
"published_at": "2024-07-02T14:32:47Z"
},
{
"tag": "v1.1",
"kind": "other",
"published_at": "2024-06-05T16:05:29Z"
},
{
"tag": "v1.0",
"kind": "other",
"published_at": "2024-04-16T14:33:32Z"
}
],
"recent_commits": [
{
"oid": "98f3ceb8bbb26c4862b28fafc5977491d0a15dad",
"body": "Dev",
"is_bot": false,
"headline": "Merge pull request #75 from EBI-Metagenomics/dev",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2026-07-13T15:31:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cec86ea8aa8b4f6651d51a5d2493ddd6880294c6",
"body": "Fix/docs",
"is_bot": false,
"headline": "Merge pull request #76 from EBI-Metagenomics/fix/docs",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2026-07-13T15:28:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de23e1852c4b981037f705c13dfcb09a01913921",
"body": null,
"is_bot": false,
"headline": "Version bump and author list update",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-07-13T15:10:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "50dd3a5d66d937e80257ba5dc71df760bdf6d3fa",
"body": null,
"is_bot": false,
"headline": "Documentation edits",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-07-13T15:02:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "502fd1e7c6c3f1a88018c422c73ba076934615b9",
"body": "Added a new --add_slow_tools mode and incorporated a version check",
"is_bot": false,
"headline": "Merge pull request #72 from EBI-Metagenomics/expand_functionality",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2026-07-13T13:25:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "60c08ca90c28291fada7e1bf641544dd5809b4c5",
"body": null,
"is_bot": false,
"headline": "Fix pre-commit: end-of-file newlines and trailing whitespace",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-29T11:56:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2a57d7fff0a3feda8a5fe03ca9bbb99d78bda271",
"body": null,
"is_bot": false,
"headline": "Moved annotate_gff.nf to main.nf at annotate_gff/",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-29T11:46:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7e0342fd67466a272013899ca1a082a75aee37a1",
"body": "…cript declarations errors because there are many blocks outside from the main workflow {}",
"is_bot": false,
"headline": "Addressed linting errors related to Statements cannot be mixed with s…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-29T11:45:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0f25b256613856b7ecdea0f32cd1315630817021",
"body": null,
"is_bot": false,
"headline": "Moved all custom validation checks to a separate .groovy file.",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-29T11:43:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5acef38e4ccdcfe8db17e152a550602d4f84a3f3",
"body": "… and removed nf-test.",
"is_bot": false,
"headline": "Corrected comment, added annotate_gff.nf to main.nf at annotate_gff/,…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-29T11:41:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6a06d0586820e768edbd5d83b6fa8c95ef9f9b23",
"body": null,
"is_bot": false,
"headline": "Added missing ch_versions for ANNOTATE_GFF",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-28T10:43:46Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7d7a3a764a7639b7f2082b7185791258318c9394",
"body": "…ments in nextflow.config.",
"is_bot": false,
"headline": "Addressed comments in PR #72 around nf-test and removed redundant com…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-26T10:00:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "37c277fceda1b0948ddf1da2e22574115e081106",
"body": "…t back",
"is_bot": false,
"headline": "Changed the version to test the version check, and forgot to change i…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-19T14:50:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d624b4821b2bc9c11a153388fe7f40384c222652",
"body": "…version check.",
"is_bot": false,
"headline": "Update the README.md adding the --add_slow_tools functionalities and …",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-18T14:10:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2b445673fff6ee0f3cceb204becb6cf1f9b6c663",
"body": null,
"is_bot": false,
"headline": "Remove trailing whitespaces from files.",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-18T13:37:49Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1e283835af863f150ab05ee5ef9661161288dc9c",
"body": "…ll annotation tools\n\nSeven scenarios: stub, allow_missing_files with slow tools, fast-mode full annotation,\nmalformed eggNOG header, empty eggNOG file, corrupted GFF lines, and add_slow_tools mode. Per-line CDS assertion verify each tool's attributes land on the correct feature rather than anywhere in the file. Includes nf-test.config excluding nf-core modules from local runs.",
"is_bot": false,
"headline": "Add nf-test suite for ANNOTATE_GFF with synthetic fixtures covering a…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-18T13:14:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4dfda7a9135286210105858cca54045a2157a968",
"body": "…ersion by reading the version recorded in pipeline_info/software_versions.yml. The version check is skipped if --ignore_version_mismatch is used.",
"is_bot": false,
"headline": "Verify that the fast-run results were produced by the same pipeline v…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-15T09:45:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ee24bc07561df59e45f62be7cd4ec9dfeca23498",
"body": "…used in the samplesheet.",
"is_bot": false,
"headline": "Update README including a pipeline error when duplicate prefixes are …",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-14T12:48:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1401135eb51a7dc5764368e1df042bf6774dcb56",
"body": "…n tool outputs to be absent (downgrade missing-file errors to warnings)",
"is_bot": false,
"headline": "Added a new --allow-missing-files parameter allowing optional fast-ru…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-06T17:09:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a31a2ac6deb37b2d25a11ec6f26a216b6eaacd25",
"body": "…s into --outdir",
"is_bot": false,
"headline": "New --skip_fast_staging parameter which skips staging fast-run output…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-06T16:42:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6640b87e658e75f12db3168789619cc95f0487e3",
"body": "…NOG, ncRNA, tRNA into their own required category, because they are required by annotate_gff.py. I also added a duplicate prefix guard, checking the samplesheet for duplicate prefixes, and producing a helpful error, before the pipeline starts.",
"is_bot": false,
"headline": "Added a new REQUIRED_ANNOTATION_INPUTS constant in .groovy moving Egg…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-06T13:36:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1f34ea600e97178e662e1e4b87781ffbb34aa549",
"body": "…les from previous --fast run",
"is_bot": false,
"headline": "Adjust --add-slow-tools so that it can load prokka or bakta output fi…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-06T13:11:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9fd3be77403dfeae1361e7e358c8c1a8bffe4dfd",
"body": "…oovy file",
"is_bot": false,
"headline": "Add extra checks per --fast output sample for --add-slow-tools in .gr…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-05-06T09:44:49Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fe0be16233aa7bd6599bac61998d633f85dea477",
"body": "…slow_tools. Added a new stage_fast_outputs.nf module which in priority order stages the fast run output files per sample recursively using cp -r (hard-link copy) and if this fails, it uses rsync for cross-device/cloud scenarios. publishDir is configured in conf/modules.config consistent with the other modules.",
"is_bot": false,
"headline": "Combine slow + fast output results in a common output dir when --add_…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-28T10:27:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2565edca6b83e3a8424620b1be52eed2444d3440",
"body": "…ovy. Throw errors and warnings if specific files are missing from the fast-run output checking for every sample.",
"is_bot": false,
"headline": "Add add_slow_tools - specific validation in WorkflowMettannotator.gro…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-28T09:02:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "13882480316394fecaeb07b67859e45787458a4b",
"body": null,
"is_bot": false,
"headline": "Merge branch 'pr-71' into expand_functionality",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-10T14:44:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fc28f4141527c2fbba694cd3fd29c98280c45077",
"body": null,
"is_bot": false,
"headline": "Fixed versions",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T13:23:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "acf01bd663788c5de679d5253e8c802f5fedf690",
"body": null,
"is_bot": false,
"headline": "Fixed versions",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T13:22:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dddaa90b86afbd3614561640e10e07a25f649292",
"body": null,
"is_bot": false,
"headline": "Ran prettier on README",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T12:37:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5aeaa1b9417bf7b06c902677354858dd06d5e578",
"body": null,
"is_bot": false,
"headline": "Fixed versions",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T12:28:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "08d14d03cf8cb4c2a5c869869b9b8f30ffa6b717",
"body": null,
"is_bot": false,
"headline": "Fixed versions",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T12:26:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "29f1b9dd77dca39b5cb992a876a64f29b523d8bd",
"body": "…re loaded in --add-slow-tools. All file channels (faa, gbk, gff, eggnog, ncrna, trna, crisprcas, amr, antismash, gecco, dbcan, defense_finder, pseudofinder) now use this shared helper.\n\nRe-key slow-tool outputs (InterProScan, SanntiS, UniFire) by prefix for consistent joining, and consolidate fast + slow results into a single annotate_gff_input channel before passing to ANNOTATE_GFF.",
"is_bot": false,
"headline": "Introduce a load_files function to standardise how existing results a…",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-10T12:08:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b8e55f5b36b5bf4b75a28c89dfc1fe906ce39722",
"body": "Added new add_slow_tools parameter to enable splitting annotation workflow\ninto fast and slow tool stages. This allows running computationally\nexpensive tools (InterProScan, Unifire, Sanntis) separately from the\ninitial fast annotation pipeline.",
"is_bot": false,
"headline": "feat: implement fast/slow workflow split with add_slow_tools mode",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-10T12:08:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cfc9e985543465f0524885a47e1c8f74d11429c8",
"body": null,
"is_bot": false,
"headline": "Added add_slow_tools to nextflow.config and schema.",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-10T12:08:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "01e6c88ad252b5258ce34d0ff2ff3c5fd7cab7b6",
"body": null,
"is_bot": false,
"headline": "Add validation checks for --add-slow-tools.",
"author_name": "ChristinaVasil",
"author_login": "ChristinaVasil",
"committed_at": "2026-04-10T12:08:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "39c77c78d8abca03d8e5b163e9caf4750cb767c3",
"body": null,
"is_bot": false,
"headline": "Version format fix",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-10T10:49:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "73c452b6b348d9488ab8eef2ce490fc7ca5d35e9",
"body": null,
"is_bot": false,
"headline": "Fixed IPS version",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-09T16:38:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e5e960b6872fc3410234a0957ac9479c17acc2f2",
"body": null,
"is_bot": false,
"headline": "Removed hardcoded IPS version",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-09T16:35:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f363f1cce159b87e607dbf8a9d7a2922c578775b",
"body": null,
"is_bot": false,
"headline": "Updated UniFIRE",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-07T16:58:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "481b743dfdc3e0371426591ee12fa0164e9f6f82",
"body": null,
"is_bot": false,
"headline": "Fixed IPS version in README",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-07T16:47:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0a29e528a600d287c059695ebf8932cdd2e94002",
"body": null,
"is_bot": false,
"headline": "Removed hardcoded IPS version",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2026-04-07T16:46:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "54a823123e42be6b9f88326f34bc368ccc78fcbb",
"body": "…rator\n\nDebug/antismash gff generator\nThis PR fix the #64 after debugging the code in the mgnify pipelines toolkit (MPT) here EBI-Metagenomics/mgnify-pipelines-toolkit#143. Tests were added to the MPT repo.",
"is_bot": false,
"headline": "Merge pull request #67 from EBI-Metagenomics/debug/antismash_gff_gene…",
"author_name": "Alejandra Escobar",
"author_login": "Ales-ibt",
"committed_at": "2026-03-25T11:24:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "275a4b5860ee01ab51d367ca6e9aa4f80bf342f7",
"body": null,
"is_bot": false,
"headline": "Update container definition for ANTISMASH_TO_GFF process",
"author_name": "Alejandra Escobar",
"author_login": "Ales-ibt",
"committed_at": "2026-03-25T11:22:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "eb464b914cee07fbf38c1b030604901bcb91f0a9",
"body": null,
"is_bot": false,
"headline": "Remove the setuptools upgrade",
"author_name": "Martin Beracochea",
"author_login": "mberacochea",
"committed_at": "2026-03-19T12:39:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3e2d619de2bc156bb4ff27eec62ed4da4fa8fb80",
"body": null,
"is_bot": false,
"headline": "Install setuptools after nf-core",
"author_name": "Martin Beracochea",
"author_login": "mberacochea",
"committed_at": "2026-03-19T12:31:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f7379d3afd11211ba89018c28c3e97c13add4260",
"body": null,
"is_bot": false,
"headline": "Change Python version from 3.12 to 3.11 in workflow",
"author_name": "Alejandra Escobar",
"author_login": "Ales-ibt",
"committed_at": "2026-03-18T12:21:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3da519707377e66665dd30ec10af5f411a010dc1",
"body": "Upgrade setuptools and wheel during dependency installation.",
"is_bot": false,
"headline": "Add setuptools and wheel installation step",
"author_name": "Alejandra Escobar",
"author_login": "Ales-ibt",
"committed_at": "2026-03-18T12:18:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6b69817b8a3275f89ced43102ddd7923358f1990",
"body": null,
"is_bot": false,
"headline": "Update container version for ANTISMASH_TO_GFF process",
"author_name": "Alejandra Escobar",
"author_login": "Ales-ibt",
"committed_at": "2026-03-18T11:57:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2f1d961ab4b71bbeba8cd000ede43d06a576a7b6",
"body": null,
"is_bot": false,
"headline": "Updated IPS and UniFIRE versions",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-27T09:19:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6f43d1bb89a8fbbdcbc589e6927222b854f0274e",
"body": "Dev",
"is_bot": false,
"headline": "Merge pull request #60 from EBI-Metagenomics/dev",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-17T11:10:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ea1129d939242c913d31a51380c1c8ea5c9ad7f6",
"body": "Co-authored-by: Martín Beracochea <mbc@ebi.ac.uk>",
"is_bot": false,
"headline": "Update conf/test.config",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-17T11:07:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8fd320cdc537ae0b6d6925a511e0dc8317386dd0",
"body": "Co-authored-by: Martín Beracochea <mbc@ebi.ac.uk>",
"is_bot": false,
"headline": "Update bin/annotate_gff.py",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-17T11:00:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "72c2308cb9d3654e2529df090f7f32785a8710bf",
"body": "Co-authored-by: Martín Beracochea <mbc@ebi.ac.uk>",
"is_bot": false,
"headline": "Update .github/workflows/pytest_ci.yml",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-17T10:58:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a447b31db47d837ad59d32c85baaf2ca526834fd",
"body": null,
"is_bot": false,
"headline": "Fixed version",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-17T09:10:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "10a97c8d991dfc96a5db2c3b19f0557af70faaa7",
"body": null,
"is_bot": false,
"headline": "Run pre-commit fixes",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-16T20:00:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e0cb7d853a2bac21a09fab4ebc1043272d19e943",
"body": null,
"is_bot": false,
"headline": "Added the description of the --organism option to the README",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-16T19:23:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cbd5a9398da6a2bc53b7a59bbdbd1c9528593953",
"body": null,
"is_bot": false,
"headline": "Updated documentation",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-14T21:05:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9ce4fe7eb7780b7955d508096d15d401240623a1",
"body": "…string",
"is_bot": false,
"headline": "return not_found in AMRFINDER_PLUS_GET_SPECIES_NAME instead of empty …",
"author_name": "ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-11-13T16:27:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b8f4acc3d8b45c28fc17647819c7632995c78fc9",
"body": null,
"is_bot": false,
"headline": "Updated db versions in the schema",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-11T13:17:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6aa03ab1c7b8424ef7bf761da8e95d2a31f62ac4",
"body": null,
"is_bot": false,
"headline": "Added a fix for empty antiSMASH results",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-10T13:16:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4e0d6caca5a626f6f8d22cd72a83dc625eda8cb9",
"body": null,
"is_bot": false,
"headline": "Added the diamond extension to the pseudofinder db",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-11-10T10:01:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4bcf387026d4803ff8d9bda3a0610d18e9448591",
"body": null,
"is_bot": false,
"headline": "add unconditional retry to ANTISMASH",
"author_name": "ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-10-24T11:58:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a2611532038a70afa714453e447ffea90e3f9cbd",
"body": "…re dump",
"is_bot": false,
"headline": "run AMRFINDER_PLUS with 1 cpu on 3rd attempt to help against blast co…",
"author_name": "ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-10-24T11:57:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e148f58b305c2af0f0ee58a33d965489279240ca",
"body": null,
"is_bot": false,
"headline": "update config to decrease the speed of submitting and checking jobs",
"author_name": "ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-10-20T10:06:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ba6564c063fee440a2998cf3eb1718da0849a2e4",
"body": "…PLUS",
"is_bot": false,
"headline": "move 'error_retry' from AMRFINDER_PLUS_GET_SPECIES_NAME to AMRFINDER_…",
"author_name": "ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-10-20T09:59:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e47eff305bf8e2895a0134776d4daa95daa745ad",
"body": null,
"is_bot": false,
"headline": "Added retry to eggnog for stability",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-16T02:00:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a4e302f5a3d5595054c0149eefb5bf01b55e67e9",
"body": null,
"is_bot": false,
"headline": "Temporarily increased queuesize and changed version number",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-15T13:39:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d741dfc783bd179908313fca91259b22a5d7d6c9",
"body": null,
"is_bot": false,
"headline": "Added an override flag to eggnog mapper",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-15T13:38:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5aed2435066457d3aa6431a39e5fb50ab8c32d35",
"body": "…s missing in the compliant GFF",
"is_bot": false,
"headline": "Added a fix to pseudofinder post-processing to deal with short contig…",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-10T09:11:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "673991b176712138c9ffdefec03bae64d8c19215",
"body": null,
"is_bot": false,
"headline": "Edited label format",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-09T18:12:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5dc9ad0acfedbf43d8bd108c847f1e617758b16d",
"body": null,
"is_bot": false,
"headline": "Changed labels on AMRFinderPlus to increase memory and add retries",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-08T12:41:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5aa5b4f411000dbd99aa192c298698f3097d3088",
"body": null,
"is_bot": false,
"headline": "Added a renaming step for the dbcan sub db",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-06T16:18:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "137a5dca4f440ca0898ae65776ffa9115257c476",
"body": "…ig names and the fix avoids this issue",
"is_bot": false,
"headline": "Fixed merging of antismash into the main gff - antismash changes cont…",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-10-06T08:16:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bf7b1aa22303fc9d54d216c88ec70b3c9c74a765",
"body": null,
"is_bot": false,
"headline": "Added memory to pseudofinder",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T23:25:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "acf172df53840b151562341a17de2ca4b40479eb",
"body": null,
"is_bot": false,
"headline": "Increased memory for prokka",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:50:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "728fecb675008ec92192308e906769d4e74a5504",
"body": null,
"is_bot": false,
"headline": "Added a comment for AMR taxonomy fetching",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:42:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5e6864ba5660e7e660f5c5d2749d9ce47594ac81",
"body": null,
"is_bot": false,
"headline": "Formatted with black",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:28:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4266fde458e7955f5473db1f896ef022198ab93c",
"body": "Bigfix: rename contigs before and after Prokka",
"is_bot": false,
"headline": "Merge pull request #58 from EBI-Metagenomics/bigfix/rename_contigs",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:24:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6b5bf8faa8de0100e016fc4d00d44d61c4fbf326",
"body": null,
"is_bot": false,
"headline": "Merge branch 'dev' into bigfix/rename_contigs",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:23:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "808d252a1107e8de42ad6f282b75c09c2d2be8da",
"body": "Feature/updates",
"is_bot": false,
"headline": "Merge pull request #59 from EBI-Metagenomics/feature/updates",
"author_name": "tgurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:21:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "71e0d03a81081b6cefb80702f61ea88cc649fd5d",
"body": null,
"is_bot": false,
"headline": "Added a comment",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T22:12:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cb86e041816b8ff55dac520442a94aebf2cf91e5",
"body": null,
"is_bot": false,
"headline": "Updated antismash result handling to include new annotation formats",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T12:58:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a3db8607eec7d58204dd82cd487de33e58fc68f5",
"body": "…ults",
"is_bot": false,
"headline": "Changed feature type taken from antiSMASH to match the new parser res…",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-30T12:02:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "12615d01d9d8a15320df32aee04afb768cc6916d",
"body": null,
"is_bot": false,
"headline": "Removed semicolon at the end of the line",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T21:13:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "63b47acf35f21b7f639ff0e08b0f4f91b5907263",
"body": null,
"is_bot": false,
"headline": "Fixed the CRISPR post-processing script to work with pipes in names",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T19:59:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "02f9fdf16581031f4bc38f1ae733d708f036b70c",
"body": "…lkit",
"is_bot": false,
"headline": "Switched antismash postprocessing from a standalone script to the too…",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T12:47:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c8660c98562c309446d5cd4b5b05ef95b4a582dd",
"body": null,
"is_bot": false,
"headline": "Updated test config",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T10:14:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "caad06cf77889657009d803ac58f109ad4acde1b",
"body": null,
"is_bot": false,
"headline": "Fixed line splitting",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T02:53:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5fc88c9293701eb1b709081c906dac15c580768a",
"body": null,
"is_bot": false,
"headline": "Added operons to AMR annotations",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T02:41:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4e6009e25c7433c207f010a7958509e2a99e0c8d",
"body": null,
"is_bot": false,
"headline": "Fixed file extension",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T01:00:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f83f45f3559729f8858ea4e8c6bb72e1df8e5aed",
"body": null,
"is_bot": false,
"headline": "Fixed typo",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T00:55:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "10be56412fa81011cc61926dc048af4324510d6e",
"body": null,
"is_bot": false,
"headline": "Updated dbcan command",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T00:53:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f77a223077c398d8db0bd2567c96041fb610bdab",
"body": null,
"is_bot": false,
"headline": "Updated dbcan version",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-29T00:02:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6ea0375530745f8cfa6a4bcdb7a7787cb4f3d58a",
"body": null,
"is_bot": false,
"headline": "remove conda directive in RENAME_CONTIGS process",
"author_name": "Sofia Ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-09-25T13:11:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f0b2ad0fbd002d156048d938a27734f72f272018",
"body": null,
"is_bot": false,
"headline": "delete redundunt output modified_fna from rename_contigs module",
"author_name": "Sofia Ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-09-25T13:10:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "06bdc782038d43c56558d746f7ce44a34bfa2465",
"body": null,
"is_bot": false,
"headline": "Added a comment to the AMRFinderPlus module",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-24T15:37:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9bda257c7293e3f7ed0db9f4c89188b0d0283bfd",
"body": null,
"is_bot": false,
"headline": "add nf-test for rename_contigs module",
"author_name": "Sofia Ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-09-24T09:54:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "049fdc0e0af36827c8a56fc165107472eba31879",
"body": null,
"is_bot": false,
"headline": "add nf-test workdir to gitignore",
"author_name": "Sofia Ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-09-24T09:50:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0749f1444939e596887b04a6a609c73be66766b3",
"body": null,
"is_bot": false,
"headline": "move SHORTEN_CONTIG_NAMES outside of if ( params.bakta ) block to be DRY",
"author_name": "Sofia Ochkalova",
"author_login": "ochkalova",
"committed_at": "2025-09-22T10:29:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "83aff2bc09abe19f7f0e107c1fa25bd332f0d3b1",
"body": null,
"is_bot": false,
"headline": "Modified result publishing",
"author_name": "Tatiana Gurbich",
"author_login": "tgurbich",
"committed_at": "2025-09-17T14:07:05Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 7,
"commits_last_year": 201,
"latest_release_at": "2026-07-13T15:54:42Z",
"latest_release_tag": "v1.6.0",
"releases_from_tags": false,
"days_since_last_push": 3,
"active_weeks_last_year": 24,
"days_since_latest_release": 14,
"mean_days_between_releases": 136.3
},
"community": {
"has_readme": true,
"has_license": true,
"has_description": true,
"has_contributing": true,
"health_percentage": 62,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": true
},
"ecosystem": {
"packages": []
},
"popularity": {
"forks": 10,
"stars": 91,
"watchers": 5,
"fork_history": {
"days": [
{
"date": "2024-02-29",
"count": 1
},
{
"date": "2024-05-19",
"count": 1
},
{
"date": "2024-07-23",
"count": 1
},
{
"date": "2024-09-27",
"count": 1
},
{
"date": "2025-05-28",
"count": 1
},
{
"date": "2025-12-07",
"count": 1
},
{
"date": "2025-12-12",
"count": 1
},
{
"date": "2026-03-18",
"count": 1
},
{
"date": "2026-04-29",
"count": 1
},
{
"date": "2026-05-12",
"count": 1
}
],
"complete": true,
"collected": 10,
"total_forks": 10
},
"star_history": null,
"open_issues_and_prs": 11
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [],
"has_llms_txt": false,
"has_dockerfile": false,
"has_mcp_signal": false,
"bootstrap_files": [],
"api_schema_files": [],
"has_devcontainer": true,
"typecheck_configs": [],
"toolchain_manifests": [],
"largest_source_bytes": 40655,
"source_files_sampled": 34,
"oversized_source_files": 0,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [
"requirements-dev.txt"
],
"advisories": {
"error": null,
"scope": "repository_graph",
"source": "osv",
"findings": [
{
"name": "black",
"direct": false,
"version": "24.8.0",
"severity": "critical",
"ecosystem": "pypi",
"cvss_score": 9.8,
"advisory_ids": [
"GHSA-3936-cmfr-pm3m",
"PYSEC-2026-2120",
"PYSEC-2026-2121"
],
"fixed_version": "26.3.1",
"advisory_count": 3,
"oldest_advisory_days": 138
},
{
"name": "pytest",
"direct": false,
"version": "8.3.3",
"severity": "moderate",
"ecosystem": "pypi",
"cvss_score": 6.8,
"advisory_ids": [
"GHSA-6w46-j5rx-g56g",
"PYSEC-2026-1845"
],
"fixed_version": "9.0.3",
"advisory_count": 2,
"oldest_advisory_days": 186
}
],
"collected": true,
"malicious": [],
"truncated": false,
"by_severity": {
"critical": 1,
"moderate": 1
},
"advisory_count": 5,
"affected_count": 2,
"assessed_count": 5,
"malicious_count": 0,
"assessed_package": null,
"unassessed_count": 0,
"direct_affected_count": 0
},
"ecosystems": [
"pypi"
],
"dependencies": [],
"all_dependencies": {
"error": null,
"source": "github-sbom",
"packages": [
{
"name": "black",
"direct": false,
"version": "24.8.0",
"ecosystem": "pypi"
},
{
"name": "pytest",
"direct": false,
"version": "8.3.3",
"ecosystem": "pypi"
},
{
"name": "pytest-datadir",
"direct": false,
"version": "1.5.0",
"ecosystem": "pypi"
},
{
"name": "pytest-workflow",
"direct": false,
"version": "2.1.0",
"ecosystem": "pypi"
},
{
"name": "ruff",
"direct": false,
"version": "0.6.8",
"ecosystem": "pypi"
}
],
"collected": true,
"truncated": false,
"total_count": 5,
"direct_count": 0,
"indirect_count": 5
}
},
"maintainership": {
"issues": {
"open_prs": 3,
"merged_prs": 54,
"open_issues": 8,
"closed_ratio": 0.429,
"closed_issues": 6,
"closed_unmerged_prs": 5
},
"bus_factor": 1,
"bot_contributors": 0,
"top_contributors": [
{
"type": "User",
"login": "tgurbich",
"commits": 701,
"avatar_url": "https://avatars.githubusercontent.com/u/63121037?v=4"
},
{
"type": "User",
"login": "mberacochea",
"commits": 167,
"avatar_url": "https://avatars.githubusercontent.com/u/1123897?v=4"
},
{
"type": "User",
"login": "ochkalova",
"commits": 30,
"avatar_url": "https://avatars.githubusercontent.com/u/61541445?v=4"
},
{
"type": "User",
"login": "ChristinaVasil",
"commits": 25,
"avatar_url": "https://avatars.githubusercontent.com/u/39655952?v=4"
},
{
"type": "User",
"login": "Ales-ibt",
"commits": 6,
"avatar_url": "https://avatars.githubusercontent.com/u/26798122?v=4"
}
],
"contributors_sampled": 5,
"top_contributor_share": 0.755
},
"quality_signals": {
"has_ci": true,
"has_tests": true,
"ci_workflows": [
"branch.yml",
"ci.yml",
"clean-up.yml",
"fix-linting.yml",
"linting.yml",
"linting_comment.yml",
"pytest_ci.yml"
],
"has_docs_dir": false,
"linter_configs": [
".ruff.toml"
],
"has_editorconfig": true,
"has_linter_config": true,
"has_precommit_config": true
},
"security_signals": {
"lockfiles": [],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 10,
"reason": "no binaries found in the repo",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
},
{
"name": "Branch-Protection",
"score": null,
"reason": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
},
{
"name": "CI-Tests",
"score": 10,
"reason": "4 out of 4 merged PRs checked by a CI test -- score normalized to 10",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#ci-tests"
},
{
"name": "CII-Best-Practices",
"score": 0,
"reason": "no effort to earn an OpenSSF best practices badge detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#cii-best-practices"
},
{
"name": "Code-Review",
"score": 10,
"reason": "all changesets reviewed",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 10,
"reason": "project has 4 contributing companies or organizations",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#contributors"
},
{
"name": "Dangerous-Workflow",
"score": 10,
"reason": "no dangerous workflow patterns detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dangerous-workflow"
},
{
"name": "Dependency-Update-Tool",
"score": 0,
"reason": "no update tool detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dependency-update-tool"
},
{
"name": "Fuzzing",
"score": 0,
"reason": "project is not fuzzed",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#fuzzing"
},
{
"name": "License",
"score": 10,
"reason": "license file detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#license"
},
{
"name": "Maintained",
"score": 10,
"reason": "23 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#maintained"
},
{
"name": "Packaging",
"score": null,
"reason": "packaging workflow not detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#packaging"
},
{
"name": "Pinned-Dependencies",
"score": 3,
"reason": "dependency not pinned by hash detected -- score normalized to 3",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#pinned-dependencies"
},
{
"name": "SAST",
"score": 0,
"reason": "SAST tool is not run on all commits -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#sast"
},
{
"name": "Security-Policy",
"score": 0,
"reason": "security policy file not detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#security-policy"
},
{
"name": "Signed-Releases",
"score": null,
"reason": "no releases found",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#signed-releases"
},
{
"name": "Token-Permissions",
"score": 0,
"reason": "detected GitHub workflow tokens with excessive permissions",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#token-permissions"
},
{
"name": "Vulnerabilities",
"score": 7,
"reason": "3 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "98f3ceb8bbb26c4862b28fafc5977491d0a15dad",
"ran_at": "2026-07-28T02:49:09Z",
"aggregate_score": 5.5,
"scorecard_version": "v5.5.0"
},
"has_codeql_workflow": false,
"has_security_policy": false,
"has_dependabot_config": false
},
"contribution_flow": {
"collected": true,
"ci_last_run_at": "2026-07-26T02:31:11Z",
"oldest_open_prs": [
{
"number": 56,
"created_at": "2025-05-01T11:46:29Z",
"last_comment_at": "2025-07-16T13:13:10Z",
"last_comment_author": "mberacochea"
},
{
"number": 73,
"created_at": "2026-07-08T10:53:06Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 74,
"created_at": "2026-07-10T13:16:04Z",
"last_comment_at": "2026-07-21T12:32:49Z",
"last_comment_author": "mberacochea"
}
],
"last_merged_pr_at": "2026-07-13T15:31:42Z",
"ci_last_conclusion": "SUCCESS",
"oldest_open_issues": [
{
"number": 57,
"created_at": "2025-07-15T07:21:59Z",
"last_comment_at": "2025-07-16T13:48:32Z",
"last_comment_author": "ndreey"
},
{
"number": 61,
"created_at": "2025-12-04T22:20:08Z",
"last_comment_at": "2026-01-08T20:24:50Z",
"last_comment_author": "VictorRua1993"
},
{
"number": 62,
"created_at": "2026-02-17T21:22:38Z",
"last_comment_at": "2026-02-20T11:51:58Z",
"last_comment_author": "tgurbich"
},
{
"number": 63,
"created_at": "2026-02-20T23:35:36Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 64,
"created_at": "2026-02-24T12:52:54Z",
"last_comment_at": "2026-03-13T14:23:26Z",
"last_comment_author": "SamD28"
},
{
"number": 66,
"created_at": "2026-03-13T16:45:20Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 68,
"created_at": "2026-03-18T16:45:02Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 69,
"created_at": "2026-03-18T19:51:18Z",
"last_comment_at": null,
"last_comment_author": null
}
]
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/EBI-Metagenomics/mettannotator",
"host": "github.com",
"name": "mettannotator",
"owner": "EBI-Metagenomics"
},
"metrics": {
"overall": {
"key": "overall",
"band": "moderate",
"name": "Overall health",
"note": null,
"notes": [],
"value": 68,
"inputs": {
"security": 64,
"vitality": 82,
"community": 59,
"governance": 56,
"engineering": 76
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "good",
"name": "Vitality",
"value": 82,
"weight": 0.22,
"metrics": [
{
"key": "development_activity",
"band": "good",
"name": "Development activity",
"note": null,
"notes": [],
"value": 81,
"inputs": {
"commits_last_year": 201,
"human_commit_share": 1,
"days_since_last_push": 3,
"active_weeks_last_year": 24
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 3 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "push_recency",
"params": {
"days": 3
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "24/52 weeks with commits",
"points": 16.6,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 24
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "201 commits in the last year",
"points": 18,
"status": "met",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 201
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "23 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "release_discipline",
"band": "good",
"name": "Release discipline",
"note": "Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"openssf_scorecard_signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 84,
"inputs": {
"releases_count": 7,
"latest_release_tag": "v1.6.0",
"releases_from_tags": false,
"days_since_latest_release": 14,
"mean_days_between_releases": 136.3
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "7 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 7
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 14 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 14
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~136.3 days",
"points": 12.6,
"status": "partial",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 136.3
}
}
],
"max_points": 27
},
{
"key": "openssf_scorecard_signed_releases",
"name": "OpenSSF Scorecard: Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 10
}
]
},
{
"key": "abandonment",
"band": "excellent",
"name": "Abandonment",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"cap": null,
"state": "maintained",
"guards": [],
"signals": [],
"red_flag": false,
"multiplier_pct": 100,
"declared_reason": null,
"unverified_reason": null,
"unanswered_open_prs": null,
"unanswered_open_issues": null,
"days_since_last_merged_pr": null,
"days_since_last_human_commit": 14,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 14 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 14
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "moderate",
"name": "Community & Adoption",
"value": 59,
"weight": 0.18,
"metrics": [
{
"key": "popularity",
"band": "at_risk",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 43,
"inputs": {
"forks": 10,
"stars": 91,
"watchers": 5,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "no_history"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "91 stars",
"points": 31.7,
"status": "partial",
"details": [
{
"code": "stars",
"params": {
"count": 91
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "10 forks",
"points": 8,
"status": "partial",
"details": [
{
"code": "forks",
"params": {
"count": 10
}
}
],
"max_points": 25
},
{
"key": "watchers",
"name": "Watchers",
"detail": "5 watchers",
"points": 3.3,
"status": "partial",
"details": [
{
"code": "watchers",
"params": {
"count": 5
}
}
],
"max_points": 15
}
]
},
{
"key": "community_health",
"band": "good",
"name": "Community health",
"note": null,
"notes": [],
"value": 77,
"inputs": {
"has_readme": true,
"has_license": true,
"has_contributing": true,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": true
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 22.5,
"status": "met",
"details": [],
"max_points": 22.5
},
{
"key": "license",
"name": "License",
"detail": "recognized license (Apache-2.0)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "Apache-2.0"
}
}
],
"max_points": 22.5
},
{
"key": "contributing_guide",
"name": "CONTRIBUTING guide",
"detail": null,
"points": 18,
"status": "met",
"details": [],
"max_points": 18
},
{
"key": "code_of_conduct",
"name": "Code of conduct",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 13.5
},
{
"key": "issue_template",
"name": "Issue template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.2
},
{
"key": "pr_template",
"name": "PR template",
"detail": null,
"points": 6.3,
"status": "met",
"details": [],
"max_points": 6.3
}
]
}
],
"description": "Does the project have users, downloads, attention, and a welcoming setup for contributors?"
},
{
"key": "governance",
"band": "moderate",
"name": "Sustainability & Governance",
"value": 56,
"weight": 0.24,
"metrics": [
{
"key": "maintainer_resilience",
"band": "at_risk",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 31,
"inputs": {
"bus_factor": 1,
"contributors_sampled": 5,
"top_contributor_share": 0.755
},
"components": [
{
"key": "bus_factor",
"name": "Bus factor",
"detail": "1 contributor(s) cover half of all commits",
"points": 9,
"status": "partial",
"details": [
{
"code": "bus_factor",
"params": {
"count": 1
}
}
],
"max_points": 54
},
{
"key": "commit_distribution",
"name": "Commit distribution",
"detail": "top contributor authored 76% of commits",
"points": 5.5,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 76
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "5 contributors",
"points": 6.8,
"status": "partial",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 5
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 4 contributing companies or organizations",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "good",
"name": "Issue & PR responsiveness",
"note": null,
"notes": [],
"value": 70,
"inputs": {
"merged_prs": 54,
"open_issues": 8,
"closed_issues": 6,
"issue_closed_ratio": 0.429,
"closed_unmerged_prs": 5
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "43% of issues closed",
"points": 20.1,
"status": "partial",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 43
}
}
],
"max_points": 46.75
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "54/59 decided PRs merged",
"points": 35,
"status": "partial",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 54,
"decided": 59
}
}
],
"max_points": 38.25
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "all changesets reviewed",
"points": 15,
"status": "met",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "good",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 71,
"inputs": {
"followers": 172,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "EBI-Metagenomics",
"public_repos": 225,
"account_age_days": 3204
},
"components": [
{
"key": "ownership_backing",
"name": "Ownership backing",
"detail": "organization-owned",
"points": 30,
"status": "met",
"details": [
{
"code": "owner_organization",
"params": {}
}
],
"max_points": 30
},
{
"key": "verified_domain",
"name": "Verified domain",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 20
},
{
"key": "owner_reach",
"name": "Owner reach",
"detail": "172 followers of EBI-Metagenomics",
"points": 16.1,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 172,
"login": "EBI-Metagenomics"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "225 public repos, account ~8 yr old",
"points": 25,
"status": "met",
"details": [
{
"code": "public_repos",
"params": {
"count": 225
}
},
{
"code": "account_age_years",
"params": {
"years": 8
}
}
],
"max_points": 25
}
]
}
],
"description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
},
{
"key": "engineering",
"band": "good",
"name": "Engineering Quality",
"value": 76,
"weight": 0.2,
"metrics": [
{
"key": "engineering_practices",
"band": "excellent",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"has_ci": true,
"has_tests": true,
"has_editorconfig": true,
"has_linter_config": true,
"has_precommit_config": true
},
"components": [
{
"key": "ci_workflows",
"name": "CI workflows",
"detail": "7 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 7
}
}
],
"max_points": 24
},
{
"key": "tests_present",
"name": "Tests present",
"detail": null,
"points": 24,
"status": "met",
"details": [],
"max_points": 24
},
{
"key": "linter_config",
"name": "Linter config",
"detail": ".ruff.toml",
"points": 16,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": ".ruff.toml"
}
}
],
"max_points": 16
},
{
"key": "pre_commit_hooks",
"name": "Pre-commit hooks",
"detail": null,
"points": 9.6,
"status": "met",
"details": [],
"max_points": 9.6
},
{
"key": "editorconfig",
"name": ".editorconfig",
"detail": null,
"points": 6.4,
"status": "met",
"details": [],
"max_points": 6.4
},
{
"key": "openssf_scorecard_ci_tests",
"name": "OpenSSF Scorecard: CI-Tests",
"detail": "4 out of 4 merged PRs checked by a CI test -- score normalized to 10",
"points": 20,
"status": "met",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "at_risk",
"name": "Documentation",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"topics": [],
"has_wiki": false,
"homepage": null,
"has_readme": true,
"has_docs_dir": false,
"has_description": true
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 30,
"status": "met",
"details": [],
"max_points": 30
},
{
"key": "documentation_directory",
"name": "Documentation directory",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 25
},
{
"key": "documentation_homepage_site",
"name": "Documentation / homepage site",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "repository_description",
"name": "Repository description",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "topics",
"name": "Topics",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
},
{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "moderate",
"name": "Security",
"value": 64,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "moderate",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Branch-Protection, Packaging, Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"branch_protection",
"packaging",
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 55,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 15,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 3,
"scorecard_aggregate": 5.5
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "no binaries found in the repo",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "branch_protection",
"name": "Branch-Protection",
"detail": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "4 out of 4 merged PRs checked by a CI test -- score normalized to 10",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "cii_best_practices",
"name": "CII-Best-Practices",
"detail": "no effort to earn an OpenSSF best practices badge detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 2.5
},
{
"key": "code_review",
"name": "Code-Review",
"detail": "all changesets reviewed",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 4 contributing companies or organizations",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "dangerous_workflow",
"name": "Dangerous-Workflow",
"detail": "no dangerous workflow patterns detected",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "dependency_update_tool",
"name": "Dependency-Update-Tool",
"detail": "no update tool detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "fuzzing",
"name": "Fuzzing",
"detail": "project is not fuzzed",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "license",
"name": "License",
"detail": "license file detected",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
"name": "Maintained",
"detail": "23 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
"name": "Packaging",
"detail": "packaging workflow not detected",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 5
},
{
"key": "pinned_dependencies",
"name": "Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 3",
"points": 1.5,
"status": "partial",
"details": [],
"max_points": 5
},
{
"key": "sast",
"name": "SAST",
"detail": "SAST tool is not run on all commits -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
"name": "Security-Policy",
"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "token_permissions",
"name": "Token-Permissions",
"detail": "detected GitHub workflow tokens with excessive permissions",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "vulnerabilities",
"name": "Vulnerabilities",
"detail": "3 existing vulnerabilities detected",
"points": 5.2,
"status": "partial",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "dependency_advisories",
"band": "excellent",
"name": "Dependency advisories",
"note": "Excluded from scoring (no data or not applicable): Indirect dependencies free of known advisories, No advisories left outstanding. Remaining weights renormalized. Matched 5 resolved dependencies against OSV. This repository publishes no package the index resolves, so the repository dependency graph was assessed instead. That graph mixes development and test pins with shipped dependencies, so only the declared runtime dependencies are scored; transitive findings are reported as context and excluded from the score. Reachability is not analyzed.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"indirect_dependencies_free_of_known_advisories",
"no_advisories_left_outstanding"
]
}
},
{
"code": "weights_renormalized",
"params": {}
},
{
"code": "advisories_scope_repository",
"params": {
"assessed": 5
}
},
{
"code": "advisories_repo_graph_caveat",
"params": {}
},
{
"code": "advisories_reachability",
"params": {}
}
],
"value": 100,
"inputs": {
"source": "osv",
"advisories": 5,
"affected_packages": 2,
"assessed_packages": 5,
"unassessed_packages": 0,
"affected_by_severity": "critical 1, moderate 1",
"direct_affected_packages": 0
},
"components": [
{
"key": "direct_dependencies_free_of_known_advisories",
"name": "Direct dependencies free of known advisories",
"detail": "no direct dependency carries a known advisory",
"points": 35,
"status": "met",
"details": [
{
"code": "no_direct_advisories",
"params": {}
}
],
"max_points": 35
},
{
"key": "indirect_dependencies_free_of_known_advisories",
"name": "Indirect dependencies free of known advisories",
"detail": "transitive set not separable from development and test dependencies in this scope",
"points": 0,
"status": "excluded",
"details": [
{
"code": "advisories_scope_not_separable",
"params": {}
}
],
"max_points": 25
},
{
"key": "no_advisories_left_outstanding",
"name": "No advisories left outstanding",
"detail": "no advisory carries a publication date",
"points": 0,
"status": "excluded",
"details": [
{
"code": "advisories_no_publication_date",
"params": {}
}
],
"max_points": 40
}
]
},
{
"key": "malicious_dependencies",
"band": "excellent",
"name": "Malicious dependencies",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"source": "osv",
"meaning": "reported as a malicious package by the OpenSSF corpus; the remedy is removal or moving off the compromised name, never an upgrade of the same artifact. Versions the registry has since pulled are listed but not scored",
"packages": [],
"red_flag": false,
"assessed_packages": 5,
"malicious_packages": 0,
"direct_malicious_packages": 0,
"withdrawn_malicious_packages": 0,
"installable_malicious_packages": 0
},
"components": [
{
"key": "no_dependency_reported_as_a_malicious_package",
"name": "No dependency reported as a malicious package",
"detail": "no dependency is reported as a malicious package",
"points": 100,
"status": "met",
"details": [
{
"code": "no_malicious_dependencies",
"params": {}
}
],
"max_points": 100
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 5
},
"components": [
{
"key": "policy_exposure_multiplier",
"name": "Policy exposure multiplier",
"detail": "no confirmed policy-scope location match",
"points": 100,
"status": "met",
"details": [
{
"code": "jurisdiction_no_match",
"params": {}
}
],
"max_points": 100
}
]
}
],
"description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
},
{
"key": "ai_readiness",
"band": "at_risk",
"name": "AI Readiness",
"value": 34,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "critical",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 8,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.16,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"components": [
{
"key": "agent_instructions",
"name": "Agent instructions",
"detail": "no CLAUDE.md / AGENTS.md / editor rules",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_instructions",
"params": {}
}
],
"max_points": 45
},
{
"key": "machine_readable_docs_llms_txt",
"name": "Machine-readable docs (llms.txt)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "legible_commit_history",
"name": "Legible commit history",
"detail": "16 of 100 human commits state their intent (structured subject or explanatory body)",
"points": 8.5,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 16,
"sampled": 100
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "at_risk",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 46,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [],
"has_dockerfile": false,
"typed_language": false,
"bootstrap_files": [],
"has_devcontainer": true,
"has_linter_config": true,
"typecheck_configs": [],
"agent_commit_share": 0,
"toolchain_manifests": [],
"dependency_bot_commit_share": 0
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 18
},
{
"key": "automated_tests",
"name": "Automated tests",
"detail": null,
"points": 22,
"status": "met",
"details": [],
"max_points": 22
},
{
"key": "lint_format_config",
"name": "Lint / format config",
"detail": ".ruff.toml",
"points": 11,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": ".ruff.toml"
}
}
],
"max_points": 11
},
{
"key": "static_type_checking",
"name": "Static type checking",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 11
},
{
"key": "reproducible_environment",
"name": "Reproducible environment",
"detail": "devcontainer",
"points": 10,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "devcontainer"
}
}
],
"max_points": 10
},
{
"key": "demonstrated_agent_practice",
"name": "Demonstrated agent practice",
"detail": "no agent-authored commits among the last 100",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_authored_commits",
"params": {
"sampled": 100
}
}
],
"max_points": 10
},
{
"key": "automated_maintenance",
"name": "Automated maintenance",
"detail": "no automated dependency updates observed",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_dependency_automation",
"params": {}
}
],
"max_points": 8
},
{
"key": "openssf_scorecard_pinned_dependencies",
"name": "OpenSSF Scorecard: Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 3",
"points": 3,
"status": "partial",
"details": [],
"max_points": 10
}
]
},
{
"key": "ai_code_legibility",
"band": "moderate",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 55,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 40655,
"source_files_sampled": 34,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Python without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "Python"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/34 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 34,
"oversized": 0
}
}
],
"max_points": 55
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
}
],
"metrics_version": "1.13.0"
},
"warnings": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token"
],
"report_type": "repository",
"generated_at": "2026-07-28T02:49:25.825434Z",
"schema_version": "0.27.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/e/EBI-Metagenomics/mettannotator.svg",
"full_name": "EBI-Metagenomics/mettannotator",
"license_state": "standard",
"license_spdx": "Apache-2.0"
}