JSON-Rohbericht maschinenlesbar
{
"data": {
"repo": {
"topics": [
"genomics",
"structural-variants",
"structural-variation",
"bioinformatics"
],
"is_fork": false,
"size_kb": 163376,
"has_wiki": false,
"homepage": "https://broadinstitute.github.io/gatk-sv/",
"languages": {
"R": 716788,
"CSS": 4550,
"WDL": 1282298,
"Java": 65062,
"Shell": 632788,
"Cython": 1238,
"Python": 1881457,
"Dockerfile": 60441,
"JavaScript": 14252,
"Go Template": 229656,
"Jupyter Notebook": 199591
},
"pushed_at": "2026-07-31T19:28:45Z",
"created_at": "2020-06-18T20:52:07Z",
"owner_type": "Organization",
"updated_at": "2026-07-30T17:08:27Z",
"description": "A structural variation pipeline for short-read sequencing",
"is_archived": false,
"is_disabled": false,
"license_spdx": "BSD-3-Clause",
"default_branch": "main",
"license_spdx_raw": "BSD-3-Clause",
"primary_language": "Python",
"significant_languages": [
"Python",
"WDL",
"R",
"Shell"
]
},
"owner": {
"blog": "http://www.broadinstitute.org/",
"name": "Broad Institute",
"type": "Organization",
"login": "broadinstitute",
"company": null,
"location": "Cambridge, MA",
"followers": 1290,
"avatar_url": "https://avatars.githubusercontent.com/u/393552?v=4",
"created_at": "2010-09-09T16:37:46Z",
"is_verified": null,
"public_repos": 1515,
"account_age_days": 5804
},
"license": {
"state": "standard",
"spdx_id": "BSD-3-Clause",
"raw_spdx": "BSD-3-Clause",
"file_present": true,
"scorecard_found": true,
"profile_has_license": true
},
"activity": {
"releases": [
{
"tag": "v1.1.1",
"kind": "patch",
"published_at": "2026-07-13T21:54:04Z"
},
{
"tag": "v1.1",
"kind": "other",
"published_at": "2025-09-04T15:52:32Z"
},
{
"tag": "v1.0.5",
"kind": "patch",
"published_at": "2025-07-01T16:22:51Z"
},
{
"tag": "v1.0.4",
"kind": "patch",
"published_at": "2025-05-22T17:40:39Z"
},
{
"tag": "v1.0.3",
"kind": "patch",
"published_at": "2025-04-14T19:55:56Z"
},
{
"tag": "v1.0.2-hotfix",
"kind": "prerelease",
"published_at": "2025-02-10T17:26:57Z"
},
{
"tag": "v1.0.2",
"kind": "patch",
"published_at": "2025-02-06T16:40:19Z"
},
{
"tag": "v1.0.1",
"kind": "patch",
"published_at": "2024-11-21T20:45:06Z"
},
{
"tag": "v1.0",
"kind": "other",
"published_at": "2024-10-31T15:59:49Z"
},
{
"tag": "v0.29-beta",
"kind": "other",
"published_at": "2024-08-19T16:57:14Z"
},
{
"tag": "v0.28.5-beta",
"kind": "prerelease",
"published_at": "2024-05-02T19:31:09Z"
},
{
"tag": "v0.28.4-beta",
"kind": "prerelease",
"published_at": "2023-10-23T19:28:00Z"
},
{
"tag": "v0.28.3-beta",
"kind": "prerelease",
"published_at": "2023-08-21T19:15:38Z"
},
{
"tag": "v0.28.2-beta",
"kind": "prerelease",
"published_at": "2023-08-08T17:50:53Z"
},
{
"tag": "v0.28.1-beta",
"kind": "prerelease",
"published_at": "2023-06-28T17:03:53Z"
},
{
"tag": "v0.28-beta",
"kind": "other",
"published_at": "2023-06-27T16:20:27Z"
},
{
"tag": "v0.27.3-beta",
"kind": "prerelease",
"published_at": "2023-05-08T18:29:50Z"
},
{
"tag": "v0.27.2-beta",
"kind": "prerelease",
"published_at": "2023-05-01T18:25:12Z"
},
{
"tag": "v0.27.1-beta",
"kind": "prerelease",
"published_at": "2023-03-16T17:06:29Z"
},
{
"tag": "v0.27-beta",
"kind": "other",
"published_at": "2023-03-15T17:38:48Z"
},
{
"tag": "v0.26.10-beta",
"kind": "prerelease",
"published_at": "2023-03-02T02:53:33Z"
},
{
"tag": "v0.26.9-beta",
"kind": "prerelease",
"published_at": "2023-02-02T20:33:54Z"
},
{
"tag": "v0.26.8-beta",
"kind": "prerelease",
"published_at": "2023-01-05T16:00:58Z"
},
{
"tag": "v0.26.7-beta",
"kind": "prerelease",
"published_at": "2022-12-19T15:55:09Z"
},
{
"tag": "v0.26.6-beta",
"kind": "prerelease",
"published_at": "2022-12-15T17:44:15Z"
},
{
"tag": "v0.26.5-beta",
"kind": "prerelease",
"published_at": "2022-11-30T20:30:33Z"
},
{
"tag": "v0.26.4-beta",
"kind": "prerelease",
"published_at": "2022-10-12T15:45:53Z"
},
{
"tag": "v0.26.3-beta",
"kind": "prerelease",
"published_at": "2022-09-27T23:09:01Z"
},
{
"tag": "v0.26.2-beta",
"kind": "prerelease",
"published_at": "2022-09-22T16:59:17Z"
},
{
"tag": "v0.26.1-beta",
"kind": "prerelease",
"published_at": "2022-09-19T17:07:22Z"
},
{
"tag": "v0.26-beta",
"kind": "other",
"published_at": "2022-09-16T14:40:01Z"
},
{
"tag": "v0.25.1-beta",
"kind": "prerelease",
"published_at": "2022-09-08T16:11:41Z"
},
{
"tag": "v0.25-beta",
"kind": "other",
"published_at": "2022-08-26T19:07:00Z"
},
{
"tag": "v0.24.3-beta",
"kind": "prerelease",
"published_at": "2022-08-22T19:41:11Z"
},
{
"tag": "v0.24.2-beta",
"kind": "prerelease",
"published_at": "2022-08-18T18:48:26Z"
},
{
"tag": "v0.24.1-beta",
"kind": "prerelease",
"published_at": "2022-08-10T16:50:05Z"
},
{
"tag": "v0.24-beta",
"kind": "other",
"published_at": "2022-07-28T15:49:27Z"
},
{
"tag": "v0.23-beta",
"kind": "other",
"published_at": "2022-05-04T19:30:12Z"
},
{
"tag": "v0.22-beta",
"kind": "other",
"published_at": "2022-04-29T20:37:23Z"
},
{
"tag": "v0.9.1-beta-hotfix2",
"kind": "prerelease",
"published_at": "2022-04-14T18:48:44Z"
},
{
"tag": "v0.21-beta",
"kind": "other",
"published_at": "2022-04-13T18:38:42Z"
},
{
"tag": "v0.20.2-beta",
"kind": "prerelease",
"published_at": "2022-02-11T16:49:38Z"
},
{
"tag": "v0.20.1-beta",
"kind": "prerelease",
"published_at": "2022-02-03T19:40:21Z"
},
{
"tag": "v0.20-beta",
"kind": "other",
"published_at": "2022-02-03T19:38:09Z"
},
{
"tag": "v0.19.4-beta",
"kind": "prerelease",
"published_at": "2022-01-14T18:04:18Z"
},
{
"tag": "v0.19.3-beta",
"kind": "prerelease",
"published_at": "2021-12-21T20:17:01Z"
},
{
"tag": "v0.19.2-beta",
"kind": "prerelease",
"published_at": "2021-11-29T22:28:17Z"
},
{
"tag": "v0.19.1-beta",
"kind": "prerelease",
"published_at": "2021-11-15T23:02:01Z"
},
{
"tag": "v0.19-beta",
"kind": "other",
"published_at": "2021-11-15T22:15:32Z"
},
{
"tag": "v0.18.5-beta",
"kind": "prerelease",
"published_at": "2021-10-29T17:00:51Z"
},
{
"tag": "v0.18.4-beta",
"kind": "prerelease",
"published_at": "2021-10-19T22:57:18Z"
},
{
"tag": "v0.18.3-beta",
"kind": "prerelease",
"published_at": "2021-10-18T21:01:00Z"
},
{
"tag": "v0.18.2-beta",
"kind": "prerelease",
"published_at": "2021-09-28T15:35:05Z"
},
{
"tag": "v0.18.1-beta",
"kind": "prerelease",
"published_at": "2021-09-17T16:33:25Z"
},
{
"tag": "v0.18-beta",
"kind": "other",
"published_at": "2021-09-14T20:52:14Z"
},
{
"tag": "v0.17.4-beta",
"kind": "prerelease",
"published_at": "2021-09-03T22:08:59Z"
},
{
"tag": "v0.17.3-beta",
"kind": "prerelease",
"published_at": "2021-09-03T18:48:02Z"
},
{
"tag": "v0.17.2-beta",
"kind": "prerelease",
"published_at": "2021-08-30T19:21:44Z"
},
{
"tag": "v0.17.1-beta",
"kind": "prerelease",
"published_at": "2021-08-16T20:28:27Z"
},
{
"tag": "v0.17-beta",
"kind": "other",
"published_at": "2021-08-16T19:34:23Z"
},
{
"tag": "v0.16-beta",
"kind": "other",
"published_at": "2021-07-27T05:53:10Z"
},
{
"tag": "v0.15.1-beta",
"kind": "prerelease",
"published_at": "2021-06-28T14:31:19Z"
},
{
"tag": "v0.15-beta-hotfix",
"kind": "other",
"published_at": "2021-06-15T21:42:06Z"
},
{
"tag": "v0.15-beta",
"kind": "other",
"published_at": "2021-06-15T18:42:49Z"
},
{
"tag": "v0.14.3-beta",
"kind": "prerelease",
"published_at": "2021-05-18T16:36:48Z"
},
{
"tag": "v0.14.2-beta",
"kind": "prerelease",
"published_at": "2021-05-14T16:58:52Z"
},
{
"tag": "v0.14.1-beta",
"kind": "prerelease",
"published_at": "2021-05-07T20:03:17Z"
},
{
"tag": "v0.14-beta",
"kind": "other",
"published_at": "2021-04-20T17:19:14Z"
},
{
"tag": "v0.13.1-beta",
"kind": "prerelease",
"published_at": "2021-03-18T21:06:41Z"
},
{
"tag": "v0.13-beta",
"kind": "other",
"published_at": "2021-03-02T21:48:10Z"
},
{
"tag": "v0.12-beta",
"kind": "other",
"published_at": "2021-02-02T19:40:26Z"
},
{
"tag": "v0.11-beta",
"kind": "other",
"published_at": "2020-11-20T21:07:04Z"
},
{
"tag": "v0.9.1-beta-hotfix",
"kind": "prerelease",
"published_at": "2020-10-16T15:52:53Z"
},
{
"tag": "v0.10-beta",
"kind": "other",
"published_at": "2020-10-16T13:08:43Z"
},
{
"tag": "v0.9.1-beta",
"kind": "prerelease",
"published_at": "2020-10-07T19:07:05Z"
},
{
"tag": "v0.9-beta",
"kind": "other",
"published_at": "2020-09-14T19:40:00Z"
},
{
"tag": "v0.8.3-beta",
"kind": "prerelease",
"published_at": "2020-07-10T15:42:42Z"
},
{
"tag": "v0.8.2-beta",
"kind": "prerelease",
"published_at": "2020-07-01T19:03:54Z"
},
{
"tag": "v0.8.1-beta",
"kind": "prerelease",
"published_at": "2020-06-30T15:02:32Z"
}
],
"recent_commits": [
{
"oid": "0ccbe08ec7f90cdc8ff5bc81749ec7245c48bf8b",
"body": null,
"is_bot": false,
"headline": "Add SV-Shell docs. (#951)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-07-30T17:05:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c67283d4039f23d496901fe7de0cd027e1102a9b",
"body": null,
"is_bot": false,
"headline": "update license with current year (#944)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2026-07-07T17:40:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "84573c4fe99565e63fefa603c4b5715ea6ce26ca",
"body": null,
"is_bot": false,
"headline": "Add DRAGEN SVs to SV-Shell (#939)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-06-10T19:52:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0fa5f602339ffe12dadf0495ebdd2700df1fa819",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 24f0fd08",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2026-06-02T16:49:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "24f0fd08a57521c1412cc631fb1fb41903cb46a6",
"body": null,
"is_bot": false,
"headline": "Add STRipy to joint calling (#938)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2026-06-02T16:40:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b61d309109b1b8ce428019db64a9c7443e04064c",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 0639be96",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2026-05-30T13:56:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0639be96051665eb059e12a3ad7729396a70a548",
"body": null,
"is_bot": false,
"headline": "Fix stale docker builds (#940)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2026-05-30T11:23:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "51e1cd231ebcbfaebbf8d35e0ae040fee8f555a4",
"body": null,
"is_bot": false,
"headline": "Update python version in pytest action (#929)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-05-19T15:04:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2d44e3775026fd608f0d9628f34a468d1b7dbb88",
"body": null,
"is_bot": false,
"headline": "Update Docusarus version & dependencies (#941)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-05-18T22:18:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a992b6e5832dafa9cbc723b1196bc5f367a19b38",
"body": "… (#859)",
"is_bot": false,
"headline": "Remove outdated code and documentation related to evidence assessment…",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2026-05-15T19:08:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b44a111f0a1e5b09e08a14e297546ea93bcddc06",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 3be4e152",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2026-05-15T18:20:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "74cb7f14da2e32eebb0bb4130990cf2affd4271b",
"body": null,
"is_bot": false,
"headline": "SV-Shell WDL (#933)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-05-14T15:31:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3be4e15227b1bb450db9038189808382cfebe250",
"body": null,
"is_bot": false,
"headline": "Fix Stripy VCF sample ID (#937)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2026-05-13T22:22:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7eb2af1feea9f81a390caff211f6832c6e7f7ac5",
"body": null,
"is_bot": false,
"headline": "input template updates to accommodate scoregenotypes (#930)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2026-04-01T18:38:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "767780624ac0f97224b959f45b42ebcf53b95ece",
"body": null,
"is_bot": false,
"headline": "Ensure logging to both stdout & stderr in sv-shell (#932)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-03-27T14:59:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a12d65c43ea8c2463aa02daa95f340eb01901fe6",
"body": null,
"is_bot": false,
"headline": "Remove working directories after task completion (#926)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-03-11T18:51:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "64798a758fa5d17266c99cdb95c55dadeb973bb6",
"body": null,
"is_bot": false,
"headline": "Run cnmops on chromosome arms separately (#925)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-03-11T16:14:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "689eb83ed1e2877cd152be613c2e7b5cb280f2f3",
"body": null,
"is_bot": false,
"headline": "Update sv-shell docker. (#923)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-27T17:02:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "256a1c70682a1715a0175a9b47558113c0c8da18",
"body": null,
"is_bot": false,
"headline": "Add a GitHub action to enforce readonly files (#922)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-25T15:12:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5c020b4d9cba01ccc12f9d6acfbe17eea4798aae",
"body": null,
"is_bot": false,
"headline": "Add single-sample pipeline to sv-shell (#887)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-19T20:39:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a0cec9288c4992d6a1785f988520709cf4ab5052",
"body": "…es (#921)",
"is_bot": false,
"headline": "Sync sv-shell implementation of `MakeCohortVcf` with recent WDL updat…",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-11T17:04:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0c82b2820229069e7aa05c9d6e44bf09e8756b3e",
"body": null,
"is_bot": false,
"headline": "Implement the `GenotypeSVs` task in sv-shell (#920)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-11T17:04:14Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4e0d854c8c527cb5ec8041034c5258ebb136c663",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 797b7604",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2026-02-06T23:27:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "797b760468d9dba80610c51aeaa9b71506363ab6",
"body": null,
"is_bot": false,
"headline": "Migrate genotyping to GATK (#917)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2026-02-06T23:19:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b9b982261ca473a840295173db8851779d9c79c3",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 629c81be",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2026-02-06T21:12:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "629c81be2e015be687868e8f8651a0815041c905",
"body": null,
"is_bot": false,
"headline": "Implements the `MakeCohortVcf` workflow in sv-shell (#907)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-06T20:56:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2008dd47bff454152e56148f0f0a58eea683aba0",
"body": null,
"is_bot": false,
"headline": "Update sv_pipeline_docker.yml (#916)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-04T19:20:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "82a75e4333e4dc5007ae7c81587ea05f09812d56",
"body": null,
"is_bot": false,
"headline": "Delete inputs/values/dockers_azure.json (#914)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-02-03T23:50:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "10d2d8113616fcb691081d2c61dd22cb1e260586",
"body": null,
"is_bot": false,
"headline": "Migrate CleanVcf into GATK (#912)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2026-02-03T21:44:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3c3e7e622d045502c4eec412061f88ebda4011c8",
"body": null,
"is_bot": false,
"headline": "fix file path for binned CN plots in accordance with #858 (#905)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2026-01-29T22:00:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a1be457d487a8720c13dfad68edcf5d802a77b5a",
"body": null,
"is_bot": false,
"headline": "Replace root with an env variable in sv-shell scripts (#911)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-01-29T18:20:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f793bf81f56d5979f9933eb2d9df556b11a5d5a4",
"body": "…904)\n\n* Hardcode `noAddress: true` in GatherSampleEvidence & in the workflows it calls.\n\n* Enable noAddress in remaining gse tasks.\n\n* Enable noAddress in exec path of TrainGCNV\n\n* Enable noAddress in exec path of genotype batch\n\n* Revert \"Enable noAddress in exec path of genotype batch\"\n\nThis reverts commit dbdc91fb68c300984f55bda7356b782345baeff5.\n\n* Enable noAddress in exec path of the gather batch evidence workflow.\n\n* test\n\n* undo test\n\n* add noaddress to gcnv case\n\n* test\n\n* undo test",
"is_bot": false,
"headline": "Disable using external IP address in workflows with wide scatters (#…",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-01-29T18:17:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "41507c7932e0325abfd28780a531cf0e6c4b7671",
"body": "Co-authored-by: VJalili <VJalili@users.noreply.github.com>",
"is_bot": false,
"headline": "Scaling updates for GatherSampleEvidence (#906)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2026-01-28T21:41:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f601620151930d2bcad3c278add440c52ebf32ec",
"body": null,
"is_bot": false,
"headline": "Add stripy to sv-shell (#909)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-01-28T16:24:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b042fba2bb5a01c586f8ae05f57aaa2963101594",
"body": null,
"is_bot": false,
"headline": "Add the sv-shell equivalent of the single-sample-metrics workflow (#908)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2026-01-22T18:15:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3e01e2445643665e0a8f41d58967dcca1cae64a3",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 5b84101e",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-12-18T20:58:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5b84101e9c6ad21ec03dade149e83dcb07de4e96",
"body": null,
"is_bot": false,
"headline": "Implement the refine complex variants workflow in sv-shell (#900)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-12-18T20:22:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9d805bcc528194927745fb81333e73c6bad287d9",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by a06f272a",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-12-18T19:38:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a06f272aea282608d2e5337856f029175e9fb67b",
"body": null,
"is_bot": false,
"headline": "Trivial change to trigger docker build (#902)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-12-18T19:19:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cc7e9115a61786e525cb4751f3e5a6f942e672c1",
"body": null,
"is_bot": false,
"headline": "Revert dockstore and docker configs (#901)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-12-18T17:54:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2d5d8a44802548a184d7e57bcc967d2e611e8349",
"body": null,
"is_bot": false,
"headline": "New GenerateBatchMetrics workflow (#894)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-12-18T16:23:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e6d0be7f2576a9a0c8f5220baa391d8aeea41a2d",
"body": null,
"is_bot": false,
"headline": "Implement genotype complex variants module for sv-shell (#899)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-12-18T16:21:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "74e180c736ad625609499238ad97b5e49f75ea04",
"body": null,
"is_bot": false,
"headline": "Add the Resolve Complex Variants workflow to SV-Shell (#897)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-12-11T18:02:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b167c03d96cf4538c1ba9bbcee0f23c66968114e",
"body": null,
"is_bot": false,
"headline": "Implement gCNV case mode in sv-shell (#895)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-12-10T17:32:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ddba7112c75a0980ca3c88f803710fd03dd78981",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 76795a82",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-19T20:39:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "76795a826422293c30bbc265ddbc202802d19777",
"body": null,
"is_bot": false,
"headline": "Implement the ScoreGenotypes workflow in sv-shell",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-19T20:14:46Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dc8d35ab5833a75b6f0589ffd4baa106ebd463ac",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by fbe6e8b2",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-18T17:33:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fbe6e8b2b3e4d429e2147737ee9bea85b54c8b8a",
"body": "* draft gatk installation in sv-shell docker.\n\n* Enable sv-shell in build_docker.py",
"is_bot": false,
"headline": "Update and enable sv-shell Docker image in Docker automation (#892)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-18T17:08:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "eab3f4de84c1ba7e3a0171bb518895d1137e6898",
"body": "* Implement the filter genotypes module in sv-shell.\n\n* syntax bug fix.",
"is_bot": false,
"headline": "Implement the `FilterGenotypes` module in sv-shell (#891)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-17T19:00:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f4bd1f47e228f52354dbc09471130f213313900f",
"body": "* Fix mermaid diagram & all link to SL description.\n\n* simplify linking to sl description.",
"is_bot": false,
"headline": "Fix mermaid diagram & all link to SL description. (#890)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-17T16:02:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b6b7a5d090b063daa07b13fb7fa0c6db69e48ba5",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 99ad3600",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-15T19:07:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "99ad3600f8f2b33bca04b5ea28cd93eea666b760",
"body": null,
"is_bot": false,
"headline": "Implement the SV Annotate module in sv-shell (#886)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-15T18:57:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "798fa19b8abd777557983b1ded984586c73290be",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 7b56c3ac",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-14T21:32:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7b56c3ac8f67dfab0291545af10679795781d872",
"body": null,
"is_bot": false,
"headline": "Add STRipy to single-sample workflow (#889)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-11-14T21:19:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ad280f6e54f224a82cc8ab7e2a1410ecf95e82a5",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 3ce0ddd4",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-14T19:55:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3ce0ddd4367f4c26d6d33c0f668739b443922109",
"body": null,
"is_bot": false,
"headline": "Modify genotype filtering to ingest cutoffs from a table (#864)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-11-14T19:22:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8d48278c7b8ab01a7e6d7f6464dd87595860832d",
"body": null,
"is_bot": false,
"headline": "Implement sv concordance tool in sv-shell (#885)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-14T17:01:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ecdda8a71f2eefbf6f6d683853675f39696a6e30",
"body": null,
"is_bot": false,
"headline": "Add the JoinRawCalls workflow to sv-shell (#884)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-14T17:00:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cb89c92a386f9b657ccaac052d33c02ace7a965d",
"body": "… (#878)\n\n* Make all wd & output dirs created at the root.\n\n* Make all wd & output dirs created at the root.\n\n* Update gather sample evidence interface.\n\n* Make script paths abs.\n\n* Cleanup.",
"is_bot": false,
"headline": "Update sv-shell implementation of the Gather Sample Evidence workflow…",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-14T16:59:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ad4144ed197b2f4a7d3d75b26403a02f1482899f",
"body": null,
"is_bot": false,
"headline": "Enable DRAGEN SV in single sample mode (#875)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-11-14T16:45:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bd8d273b9108d461b59f22634da79dd646ccdb91",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 2a5a9471",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-11-14T16:30:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2a5a9471187d3e297c772331ea3460ed70751021",
"body": null,
"is_bot": false,
"headline": "Annotate retrotransposon deletions with a filter tag (#862)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-11-14T16:21:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f4dc9099e1f1c269fa9e67c9d89fa513c673c3d7",
"body": null,
"is_bot": false,
"headline": "Update evidence qc (#888)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-14T15:40:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ecc525989e071a29334d252714d292ce5a558fd7",
"body": null,
"is_bot": false,
"headline": "Remove/update references to MELT (#857)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2025-11-05T20:09:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5a0cd76c4b0228dfde6a1f4c34d3b83335c7bbe5",
"body": null,
"is_bot": false,
"headline": "Add combine batches. (#879)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-04T20:47:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e3cda0b49feae28caddde239218e89a910be9705",
"body": "…858)",
"is_bot": false,
"headline": "analysis vs filtered histograms; put ploidy data in EvQc directory (#…",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2025-11-04T20:10:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de3cd3c7a1b6bfdb8d66c73e5754f1b5fea68af9",
"body": "* Draft cluster batch\n\n* Draft cluster PESR\n\n* read contigs.\n\n* Add SV cluster.\n\n* check in\n\n* bug fix\n\n* Add concat vcfs task.\n\n* checkin\n\n* checkin\n\n* checkin\n\n* checkin clustering\n\n* Add exclude interval by interval overlap task.\n\n* Add GatkToSvtkVcf.\n\n* Implement concat vcfs & output section in cluster depth.\n\n* draft cluster batch\n\n* Update cluster batch.",
"is_bot": false,
"headline": "Implement cluster batch in sv-shell (#872)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-04T18:59:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d0d347d3934a323239ea5f4b39cbedabc46be9ce",
"body": null,
"is_bot": false,
"headline": "DeWDLize modules under GatherBatchEvidence (#830)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-11-04T18:21:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f0e2da1bc5ac7848afdf3f32a1d61fce9b48c7c8",
"body": "…877)",
"is_bot": false,
"headline": "add gnomad v4 benchmarking set to resources json and input configs (#…",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2025-11-04T18:12:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7ad73f9f66f5f758ff69462a75fa6d865d3d40a6",
"body": null,
"is_bot": false,
"headline": "Update README.md (#871)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-10-23T18:12:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1991c2cdd81274005fabbb60fafb50097d36081c",
"body": null,
"is_bot": false,
"headline": "Add Google analytics (#876)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-10-22T15:41:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ffad8f67ff75a2e071eaeb4b2f4f31f6cec1c9d7",
"body": null,
"is_bot": false,
"headline": "Fix single-sample stratification config in Cromwell test json (#874)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-10-16T18:56:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b5d5049c1327464056e27123442e44c2948c8bda",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 483973d6",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-10-02T20:12:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "483973d6db3a8a9ba8fa72c5756a8ab53e7877f4",
"body": "This PR includes code to refactor VCFs passed through GATK-SV to align it to Pysam's upgraded versions, which do not allow variants to have an END position that is less than its start position. As it stands, VCFs in GATK-SV only use the correct END format starting from the outputs of 13-ResolveCompl\n[…]\n position on the second chromosome, whereas the END field is set to pos. All downstream scripts that consume such VCFs are made to interpret BNDs with appropriate logic based on this updated END2 tag.",
"is_bot": false,
"headline": "Update representation of BNDs to be Pysam compatible (#835)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-10-02T19:23:53Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "5af2592e20a8fdcc7fe39d1bea4770b533fdc6b0",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 631368eb",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-09-04T15:43:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4fdac8f1da961efc14afee5d028f9ed9788c1fef",
"body": null,
"is_bot": false,
"headline": "Handle zero-length arrays in JoinRawCalls (#865)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2025-09-04T15:15:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e2e78dfb1fb7b436fa4652346ade6e5a5fac2b70",
"body": "* Update gatk commit.\n\n* Temp test gatk in docker.\n\n* Undo temp test gatk in docker.\n\n* Implement make_bincov_matrix.sh.\n\n* Improve & cleanup make_bincov_matrix.sh.\n\n* Add a sample input JSON for make_bincov_matrix.sh.\n\n* Write outputs to a json file.\n\n* Add an option to make_bincov_matrix to take a\n[…]\nmove blank space\n\n* Clean up & bugfix.\n\n* Clean up.\n\n* Remove inputs not currently needed.\n\n* We discussed to keep detailed logging & not include this option for simplicity.\n\n* Remove unused variable.",
"is_bot": false,
"headline": "Implement a bash version of the Evidence QC workflow (#855)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-09-03T19:01:13Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "77e84b755f2845026aa1dfb366454c997015a137",
"body": null,
"is_bot": false,
"headline": "Undo dockstore sync of GenotypeComplexVariants",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-09-03T18:27:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "631368ebc9ce2b55bda12c5aa22fa3e8da90ab31",
"body": "…ersed deletions (#850)\n\nThis PR is intended to enable passing in a custom breakpoint cutoff for dispersed duplication detection for complex events in GATK-SV. It sets this cutoff as 5000 by default, as opposed to 1000000 in the existing implementation.",
"is_bot": false,
"headline": "Enable passing a threshold to govern the window for detection of disp…",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-09-03T01:55:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "074f24b7591ba97982a60eea9a89984d163f92a4",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by f091af0b",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-09-02T19:55:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f091af0be6836446a9118f5db7cc3de9bde44fa6",
"body": "* Bug fix median coverage\n\n* temp add branch for dockstore synch.\n\n* Remove branch from dockstore sync",
"is_bot": false,
"headline": "Bug fix missing sample ID in median coverage (#863)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-09-02T19:25:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f8939d8c280d8b17189102ea14e709735c595227",
"body": null,
"is_bot": false,
"headline": "Plot SV counts for all VCFs in FilterBatchSites (#860)",
"author_name": "epiercehoffman",
"author_login": "epiercehoffman",
"committed_at": "2025-09-02T18:08:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6328e8628be9f1812b5074c1980e41cb709eacc9",
"body": null,
"is_bot": false,
"headline": "Fix code path in EvidenceQc when run_ploidy is false (#854)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-09-02T14:13:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4063060f795e69c1660d9eec713528cd54fac95b",
"body": "* Disable sv-shell and scramble dockers.\n\n* Set cran repo for the rBLAST package.\n\n* undo sv-shell and scramble disabling.\n\n* disable SV shell and scramble docker images.",
"is_bot": false,
"headline": "Disable sv-shell and scramble dockers. (#861)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-08-29T19:24:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d7a0c36ad9c57c844e41d8ddefbd0ebd7d7d57cc",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 697baf80",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-08-15T15:19:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2e312b085a4bbfb514ba1aad4dde02c6b1a6d5b7",
"body": "* Add the de novo pipeline to Dockstore.\n\n* Log stdout and stderr to separate files for each task & record their ET.\n\n* Bug fix input arg assignment.\n\n* Improve logging and recording stderr.\n\n* skip scramble if manta was skipped.\n\n* Bug fix incorrect use of backticks.\n\n* Improve argset portability.\n\n* log xtrace in terminal & stdout logs file.",
"is_bot": false,
"headline": "Log stdout and stderr of tasks in `sv_shell` (#843)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-08-15T15:01:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "697baf809a2b7008f84f21d490b31ddf2f5017ad",
"body": null,
"is_bot": false,
"headline": "Update reference genome in depth plots",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-08-15T14:41:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d6ab6e618a9c0a6666affc9e8873dfa4b444fa96",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 2cee07b8",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-08-14T16:37:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2cee07b89b53530c3c35780671ffe608eb12593c",
"body": null,
"is_bot": false,
"headline": "Refactor manta-vcf arg to input-vcf to match recent refactors. (#853)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-08-14T16:05:49Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "25d8034f099c2bccea85e5c09f9331618a80e377",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by c4f44ead",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-08-11T15:10:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c4f44eadf7991dbed4a10e08cd449410dd0a10b3",
"body": "* Initial commit\n\n* Modified dockstore sync to use correct branch name\n\n* Added dragen-sv params to cohort mode json templates\n\n* Resolved linting errors\n\n* Modified name of json param to pass womtool evaluation test\n\n* Removed dragen-cnv standardizer\n\n* Initial set of responses to PR comments\n\n* Re\n[…]\n\n* Modified argument to use -h rather than -z, which had conflict\n\n* Changed argument name for incorrect input\n\n* Updated param to -q\n\n---------\n\nCo-authored-by: Mark Walker <markw@broadinstitute.org>",
"is_bot": false,
"headline": "Enable DRAGEN-SV as a caller in cohort mode (#803)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-08-11T14:36:44Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "e0f0ce96342649386ca9a5b66cce2d6b1b4f3c1e",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 23d17304",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-08-04T16:21:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "23d17304dc6d6f01c7780e8efdc024ad67ef4ebd",
"body": null,
"is_bot": false,
"headline": "Single-sample pipeline update (#842)",
"author_name": "Mark Walker",
"author_login": "mwalker174",
"committed_at": "2025-08-04T15:54:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "93ae61349b4ee6690ff204b458c45778f30cce91",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 9e614379",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-08-01T14:50:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9e614379fe356fa4ada128bd851dc60f9231d23a",
"body": "…nceQc outputs (#814)\n\n* Integrated CN denoising script\n\n* Added variant counts by chr/svtype to evidenceqc table\n\n* Added EvidenceQC changes to dockstore\n\n* Reorganized qc table script for logical comprehension\n\n* Resolved flake8 linting issues\n\n* Updated to remove duplicates for pivot operation\n\n*\n[…]\ns to QC notebook\n\n* Reduced image dimensions by ~25% and resolution by ~50% - should result in ~35% of original file size\n\n* Use original image size but just reduce resolution\n\n* Remove dockstore sync",
"is_bot": false,
"headline": "Add denoised copy number plots and stratified variant counts to Evide…",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-07-31T22:34:02Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "f1f2fccd4d26c9c6ace4a5bc47778d26ab531ad5",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by 9d3e7872",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-07-30T18:24:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9d3e787223d8d58a1e8fbdfcabf446c390ccd76f",
"body": "* Add the de novo pipeline to Dockstore.\n\n* Enable collect PE/SR by default.",
"is_bot": false,
"headline": "Enable collect PE/SR by default on sv-shell (#846)",
"author_name": "Vahid",
"author_login": "VJalili",
"committed_at": "2025-07-30T18:03:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9483326cdf09ca98cd7e8bfa6401fb6c399f83de",
"body": null,
"is_bot": false,
"headline": "Update docker images list, triggered by f71901e9",
"author_name": "gatk-sv-bot",
"author_login": "gatk-sv-bot",
"committed_at": "2025-07-28T16:04:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f71901e983e72ef91b063186dfd7807bb1dd961c",
"body": "* Initial commit - excluded from gCNV training\n\n* corrected syntactical errors\n\n* Created test changes to RD R script\n\n* Satisfied WDL syntax constraints\n\n* Rolled back changes to use filtered_vcfs array\n\n* Removed runtime attribute\n\n* Integrated changes to FilterBatchSites\n\n* Resolve python linting\n[…]\ndate website/docs/modules/generate_batch_metrics.md\n\nCo-authored-by: Mark Walker <markw@broadinstitute.org>\n\n* Removed dockstore sync\n\n---------\n\nCo-authored-by: Mark Walker <markw@broadinstitute.org>",
"is_bot": false,
"headline": "Filter outlier samples in TrainGCNV and GenerateBatchMetrics (#717)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-07-28T15:32:39Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "7ae35b417968a982f503f061f922575fdb5ec03e",
"body": "* Initial commit\n\n* Updated WDL to reflect tool version in latest GATK docker version\n\n* Updated comment regarding clustering params\n\n* Initial commit\n\n* Updated to use more interpretable commands\n\n* Renamed param - was using mark's naming originally\n\n* Resolved syntax errors\n\n* Remove dockstore sync",
"is_bot": false,
"headline": "Update SVConcordance.wdl to enable stratified matching (#844)",
"author_name": "Karan Jaisingh",
"author_login": "kjaisingh",
"committed_at": "2025-07-25T21:17:42Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 79,
"commits_last_year": 94,
"latest_release_at": "2026-07-13T21:54:04Z",
"latest_release_tag": "v1.1.1",
"releases_from_tags": false,
"days_since_last_push": 0,
"active_weeks_last_year": 26,
"days_since_latest_release": 17,
"mean_days_between_releases": 77
},
"community": {
"has_readme": true,
"has_license": true,
"has_description": true,
"has_contributing": true,
"health_percentage": 75,
"has_issue_template": false,
"has_code_of_conduct": true,
"has_pull_request_template": false
},
"ecosystem": {
"packages": [
{
"name": "svtk",
"exists": true,
"license": "MIT",
"keywords": [],
"ecosystem": "pypi",
"matches_repo": false,
"registry_url": "https://pypi.org/project/svtk/",
"is_deprecated": false,
"latest_version": "0.2.0",
"repository_url": "https://github.com/simleek/displayarray",
"versions_count": 2,
"total_downloads": null,
"dependents_count": null,
"deprecation_note": null,
"maintainers_count": null,
"monthly_downloads": null,
"first_published_at": "2019-09-09T01:39:33.450926Z",
"latest_published_at": "2022-08-23T22:35:36.032196Z",
"latest_version_yanked": null,
"days_since_latest_publish": 1437
},
{
"name": "sv_utils",
"exists": true,
"license": "GPLv3",
"keywords": [
"Development Status :: 4 - Beta",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
"Operating System :: Unix",
"Programming Language :: Python :: 2.7",
"Programming Language :: Python :: 3.6",
"Programming Language :: Python :: 3.7",
"Topic :: Scientific/Engineering :: Bio-Informatics"
],
"ecosystem": "pypi",
"matches_repo": false,
"registry_url": "https://pypi.org/project/sv_utils/",
"is_deprecated": false,
"latest_version": "0.6.1",
"repository_url": "https://github.com/friend1ws/sv_utils",
"versions_count": 5,
"total_downloads": null,
"dependents_count": null,
"deprecation_note": null,
"maintainers_count": null,
"monthly_downloads": null,
"first_published_at": "2018-01-11T14:36:46.114770Z",
"latest_published_at": "2019-12-11T05:51:44.247273Z",
"latest_version_yanked": null,
"days_since_latest_publish": 2424
}
]
},
"popularity": {
"forks": 81,
"stars": 206,
"watchers": 11,
"fork_history": {
"days": [
{
"date": "2020-07-03",
"count": 1
},
{
"date": "2020-07-13",
"count": 1
},
{
"date": "2020-09-07",
"count": 1
},
{
"date": "2020-09-22",
"count": 1
},
{
"date": "2020-10-08",
"count": 1
},
{
"date": "2020-11-18",
"count": 1
},
{
"date": "2020-12-17",
"count": 1
},
{
"date": "2020-12-21",
"count": 1
},
{
"date": "2021-01-18",
"count": 1
},
{
"date": "2021-02-15",
"count": 1
},
{
"date": "2021-02-16",
"count": 1
},
{
"date": "2021-04-20",
"count": 1
},
{
"date": "2021-04-22",
"count": 1
},
{
"date": "2021-04-24",
"count": 1
},
{
"date": "2021-04-26",
"count": 1
},
{
"date": "2021-05-25",
"count": 1
},
{
"date": "2021-06-10",
"count": 1
},
{
"date": "2021-07-07",
"count": 1
},
{
"date": "2021-07-09",
"count": 1
},
{
"date": "2021-08-07",
"count": 1
},
{
"date": "2021-09-10",
"count": 1
},
{
"date": "2021-10-08",
"count": 1
},
{
"date": "2021-10-14",
"count": 1
},
{
"date": "2021-11-10",
"count": 1
},
{
"date": "2021-11-15",
"count": 1
},
{
"date": "2021-12-01",
"count": 1
},
{
"date": "2021-12-29",
"count": 1
},
{
"date": "2022-01-02",
"count": 1
},
{
"date": "2022-01-05",
"count": 2
},
{
"date": "2022-01-07",
"count": 1
},
{
"date": "2022-01-10",
"count": 1
},
{
"date": "2022-02-09",
"count": 1
},
{
"date": "2022-03-01",
"count": 1
},
{
"date": "2022-03-03",
"count": 1
},
{
"date": "2022-04-14",
"count": 1
},
{
"date": "2022-04-25",
"count": 2
},
{
"date": "2022-04-30",
"count": 1
},
{
"date": "2022-05-18",
"count": 1
},
{
"date": "2022-05-19",
"count": 1
},
{
"date": "2022-05-25",
"count": 1
},
{
"date": "2022-07-19",
"count": 1
},
{
"date": "2022-08-17",
"count": 1
},
{
"date": "2022-09-30",
"count": 1
},
{
"date": "2022-11-02",
"count": 2
},
{
"date": "2022-11-21",
"count": 1
},
{
"date": "2022-11-22",
"count": 1
},
{
"date": "2023-01-03",
"count": 1
},
{
"date": "2023-03-02",
"count": 1
},
{
"date": "2023-04-18",
"count": 1
},
{
"date": "2023-04-24",
"count": 1
},
{
"date": "2023-05-30",
"count": 1
},
{
"date": "2023-09-06",
"count": 1
},
{
"date": "2023-10-10",
"count": 1
},
{
"date": "2023-10-22",
"count": 1
},
{
"date": "2023-11-09",
"count": 1
},
{
"date": "2023-12-12",
"count": 1
},
{
"date": "2023-12-13",
"count": 1
},
{
"date": "2024-01-08",
"count": 1
},
{
"date": "2024-02-12",
"count": 1
},
{
"date": "2024-02-17",
"count": 1
},
{
"date": "2024-05-28",
"count": 1
},
{
"date": "2024-12-09",
"count": 1
},
{
"date": "2025-01-11",
"count": 1
},
{
"date": "2025-02-11",
"count": 1
},
{
"date": "2025-02-26",
"count": 1
},
{
"date": "2025-02-27",
"count": 1
},
{
"date": "2025-05-20",
"count": 2
},
{
"date": "2025-08-05",
"count": 1
},
{
"date": "2025-08-22",
"count": 1
},
{
"date": "2025-12-22",
"count": 1
},
{
"date": "2026-04-09",
"count": 1
},
{
"date": "2026-06-09",
"count": 1
},
{
"date": "2026-06-14",
"count": 1
},
{
"date": "2026-06-29",
"count": 1
},
{
"date": "2026-07-01",
"count": 1
},
{
"date": "2026-07-07",
"count": 1
}
],
"complete": true,
"collected": 80,
"total_forks": 81
},
"star_history": null,
"open_issues_and_prs": 131
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [
"notebooks"
],
"has_llms_txt": false,
"has_dockerfile": true,
"has_mcp_signal": false,
"bootstrap_files": [],
"api_schema_files": [],
"has_devcontainer": false,
"typecheck_configs": [],
"toolchain_manifests": [],
"largest_source_bytes": 120131,
"source_files_sampled": 255,
"oversized_source_files": 3,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [
"website/package.json"
],
"advisories": {
"error": null,
"scope": "published_package",
"source": "osv",
"findings": [],
"collected": true,
"malicious": [],
"truncated": false,
"by_severity": {},
"advisory_count": 0,
"affected_count": 0,
"assessed_count": 12,
"malicious_count": 0,
"assessed_package": "pypi:svtk@0.2.0",
"unassessed_count": 0,
"direct_affected_count": 0
},
"ecosystems": [
"npm"
],
"dependencies": [
{
"name": "@docusaurus/core",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^3.10.1"
},
{
"name": "@docusaurus/plugin-google-gtag",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^3.10.1"
},
{
"name": "@docusaurus/preset-classic",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^3.10.1"
},
{
"name": "@docusaurus/theme-mermaid",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^3.10.1"
},
{
"name": "@mdx-js/react",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^3.0.0"
},
{
"name": "clsx",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^2.0.0"
},
{
"name": "prism-react-renderer",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^2.3.0"
},
{
"name": "react",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^18.0.0"
},
{
"name": "react-dom",
"manifest": "website/package.json",
"ecosystem": "npm",
"version_constraint": "^18.0.0"
}
],
"all_dependencies": {
"error": null,
"source": "github-sbom",
"packages": [
{
"name": "@docusaurus/core",
"direct": true,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "@docusaurus/plugin-google-gtag",
"direct": true,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "@docusaurus/preset-classic",
"direct": true,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "@docusaurus/theme-mermaid",
"direct": true,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "@mdx-js/react",
"direct": true,
"version": "^3.0.0",
"ecosystem": "npm"
},
{
"name": "clsx",
"direct": true,
"version": "^2.0.0",
"ecosystem": "npm"
},
{
"name": "prism-react-renderer",
"direct": true,
"version": "^2.3.0",
"ecosystem": "npm"
},
{
"name": "react",
"direct": true,
"version": "^18.0.0",
"ecosystem": "npm"
},
{
"name": "react-dom",
"direct": true,
"version": "^18.0.0",
"ecosystem": "npm"
},
{
"name": "@docusaurus/module-type-aliases",
"direct": false,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "@docusaurus/types",
"direct": false,
"version": "^3.10.1",
"ecosystem": "npm"
},
{
"name": "argparse",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "click",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "cython",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "dill",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "intervaltree",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "jsonschema",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "matplotlib",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "multiprocessing-logging",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "natsort",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "nose",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "numpy",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "openpyxl",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "pandas",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "plotly",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "psutil",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "pybedtools",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "pympler",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "pysam",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "requests",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "scipy",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "seaborn",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "setuptools",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "statsmodels",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "tqdm",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "urllib3",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "wheel",
"direct": false,
"version": null,
"ecosystem": "pypi"
},
{
"name": "xlsxwriter",
"direct": false,
"version": null,
"ecosystem": "pypi"
}
],
"collected": true,
"truncated": false,
"total_count": 38,
"direct_count": 9,
"indirect_count": 29
}
},
"maintainership": {
"issues": {
"open_prs": 32,
"merged_prs": 560,
"open_issues": 99,
"closed_ratio": 0.637,
"closed_issues": 174,
"closed_unmerged_prs": 81
},
"bus_factor": 3,
"bot_contributors": 0,
"top_contributors": [
{
"type": "User",
"login": "VJalili",
"commits": 170,
"avatar_url": "https://avatars.githubusercontent.com/u/9027482?v=4"
},
{
"type": "User",
"login": "epiercehoffman",
"commits": 133,
"avatar_url": "https://avatars.githubusercontent.com/u/13224570?v=4"
},
{
"type": "User",
"login": "gatk-sv-bot",
"commits": 109,
"avatar_url": "https://avatars.githubusercontent.com/u/101641599?v=4"
},
{
"type": "User",
"login": "mwalker174",
"commits": 107,
"avatar_url": "https://avatars.githubusercontent.com/u/5686877?v=4"
},
{
"type": "User",
"login": "kjaisingh",
"commits": 36,
"avatar_url": "https://avatars.githubusercontent.com/u/31686667?v=4"
},
{
"type": "User",
"login": "cwhelan",
"commits": 33,
"avatar_url": "https://avatars.githubusercontent.com/u/709477?v=4"
},
{
"type": "User",
"login": "TedBrookings",
"commits": 18,
"avatar_url": "https://avatars.githubusercontent.com/u/6463752?v=4"
},
{
"type": "User",
"login": "kirtanav98",
"commits": 13,
"avatar_url": "https://avatars.githubusercontent.com/u/123595850?v=4"
},
{
"type": "User",
"login": "tedsharpe",
"commits": 10,
"avatar_url": "https://avatars.githubusercontent.com/u/9284156?v=4"
},
{
"type": "User",
"login": "RCollins13",
"commits": 10,
"avatar_url": "https://avatars.githubusercontent.com/u/7913924?v=4"
}
],
"contributors_sampled": 20,
"top_contributor_share": 0.254
},
"quality_signals": {
"has_ci": true,
"has_tests": true,
"ci_workflows": [
"docs.yml",
"pytest.yaml",
"readonly_check.yaml",
"sv_pipeline_docker.yml",
"testwdls.yaml"
],
"has_docs_dir": false,
"linter_configs": [
"tox.ini"
],
"has_editorconfig": false,
"has_linter_config": true,
"has_precommit_config": false
},
"security_signals": {
"lockfiles": [],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 9,
"reason": "binaries present in source code",
"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": "25 out of 25 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": 8,
"reason": "Found 25/30 approved changesets -- score normalized to 8",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 10,
"reason": "project has 8 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": "13 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": 0,
"reason": "dependency not pinned by hash detected -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#pinned-dependencies"
},
{
"name": "SAST",
"score": 5,
"reason": "SAST tool is not run on all commits -- score normalized to 5",
"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": 10,
"reason": "0 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "0ccbe08ec7f90cdc8ff5bc81749ec7245c48bf8b",
"ran_at": "2026-07-31T20:24:47Z",
"aggregate_score": 5.6,
"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": "2026-07-30T17:05:46Z",
"oldest_open_prs": [
{
"number": 364,
"created_at": "2022-06-29T16:00:17Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 416,
"created_at": "2022-09-23T00:34:32Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 435,
"created_at": "2022-10-05T16:37:34Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 446,
"created_at": "2022-10-12T15:35:51Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 496,
"created_at": "2023-02-11T13:20:02Z",
"last_comment_at": "2023-02-16T19:26:20Z",
"last_comment_author": "VJalili"
},
{
"number": 533,
"created_at": "2023-05-11T20:30:50Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 617,
"created_at": "2023-11-09T20:13:22Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 633,
"created_at": "2024-01-31T15:26:13Z",
"last_comment_at": "2024-04-29T15:16:41Z",
"last_comment_author": "mwalker174"
},
{
"number": 644,
"created_at": "2024-02-12T21:07:27Z",
"last_comment_at": "2024-02-14T16:52:32Z",
"last_comment_author": "VJalili"
},
{
"number": 653,
"created_at": "2024-03-08T18:54:28Z",
"last_comment_at": "2024-04-29T16:46:02Z",
"last_comment_author": "mwalker174"
},
{
"number": 654,
"created_at": "2024-03-11T18:16:53Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 662,
"created_at": "2024-04-02T17:12:00Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 668,
"created_at": "2024-04-25T19:55:57Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 675,
"created_at": "2024-05-13T16:43:25Z",
"last_comment_at": "2024-09-11T16:55:41Z",
"last_comment_author": "VJalili"
},
{
"number": 765,
"created_at": "2025-01-06T19:03:21Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 804,
"created_at": "2025-04-25T20:23:39Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 806,
"created_at": "2025-05-01T16:15:37Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 810,
"created_at": "2025-05-09T17:22:34Z",
"last_comment_at": "2025-05-27T15:41:11Z",
"last_comment_author": "epiercehoffman"
},
{
"number": 816,
"created_at": "2025-05-27T15:36:16Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 821,
"created_at": "2025-06-09T05:52:24Z",
"last_comment_at": "2025-06-10T20:31:52Z",
"last_comment_author": "epiercehoffman"
}
],
"last_merged_pr_at": "2026-07-30T17:05:08Z",
"ci_last_conclusion": "SUCCESS",
"oldest_open_issues": [
{
"number": 16,
"created_at": "2020-07-01T16:44:42Z",
"last_comment_at": "2022-05-13T17:52:35Z",
"last_comment_author": "ekarlins"
},
{
"number": 49,
"created_at": "2020-09-10T14:24:14Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 52,
"created_at": "2020-09-10T15:58:09Z",
"last_comment_at": "2021-11-16T21:45:14Z",
"last_comment_author": "mwalker174"
},
{
"number": 81,
"created_at": "2020-11-16T17:53:18Z",
"last_comment_at": "2021-11-16T21:21:00Z",
"last_comment_author": "mwalker174"
},
{
"number": 103,
"created_at": "2021-01-28T18:43:25Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 161,
"created_at": "2021-05-06T13:34:24Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 166,
"created_at": "2021-05-12T19:06:36Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 181,
"created_at": "2021-06-10T15:45:41Z",
"last_comment_at": "2021-11-16T21:27:01Z",
"last_comment_author": "mwalker174"
},
{
"number": 201,
"created_at": "2021-07-20T23:51:32Z",
"last_comment_at": "2025-07-26T19:06:34Z",
"last_comment_author": "kjaisingh"
},
{
"number": 223,
"created_at": "2021-09-03T16:15:41Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 234,
"created_at": "2021-09-17T18:02:51Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 265,
"created_at": "2021-11-22T15:56:36Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 269,
"created_at": "2021-12-01T17:34:49Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 277,
"created_at": "2022-01-04T21:05:39Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 310,
"created_at": "2022-03-14T16:35:53Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 327,
"created_at": "2022-04-01T14:59:28Z",
"last_comment_at": "2024-06-12T16:40:32Z",
"last_comment_author": "mwalker174"
},
{
"number": 336,
"created_at": "2022-04-25T16:41:35Z",
"last_comment_at": "2022-08-26T14:53:58Z",
"last_comment_author": "mwalker174"
},
{
"number": 355,
"created_at": "2022-06-10T13:21:15Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 360,
"created_at": "2022-06-21T16:03:29Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 363,
"created_at": "2022-06-29T15:03:35Z",
"last_comment_at": "2023-04-27T15:45:14Z",
"last_comment_author": "alsanju"
}
]
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/broadinstitute/gatk-sv",
"host": "github.com",
"name": "gatk-sv",
"owner": "broadinstitute"
},
"metrics": {
"overall": {
"key": "overall",
"band": "excellent",
"name": "Overall health",
"note": "The weighted overall 74 is calibrated to 88 on the published index scale (record calibration 2026-08-02).",
"notes": [
{
"code": "overall_calibration",
"params": {
"raw": 74,
"calibrated": 88,
"calibration": "2026-08-02"
}
}
],
"value": 88,
"inputs": {
"security": 65,
"vitality": 86,
"community": 71,
"governance": 76,
"calibration": "2026-08-02",
"engineering": 76,
"ai_readiness": 42,
"weighted_overall_raw": 74
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "excellent",
"name": "Vitality",
"value": 86,
"weight": 0.21,
"metrics": [
{
"key": "development_activity",
"band": "excellent",
"name": "Development activity",
"note": null,
"notes": [],
"value": 82,
"inputs": {
"commits_last_year": 94,
"human_commit_share": 1,
"days_since_last_push": 0,
"active_weeks_last_year": 26
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 0 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "push_recency",
"params": {
"days": 0
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "26/52 weeks with commits",
"points": 18,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 26
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "94 commits in the last year",
"points": 17.8,
"status": "partial",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 94
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "13 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": "excellent",
"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": 92,
"inputs": {
"releases_count": 79,
"latest_release_tag": "v1.1.1",
"releases_from_tags": false,
"days_since_latest_release": 17,
"mean_days_between_releases": 77
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "79 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 79
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 17 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 17
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~77 days",
"points": 19.8,
"status": "partial",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 77
}
}
],
"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": "exceptional",
"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": 3,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 3 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 3
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "good",
"name": "Community & Adoption",
"value": 71,
"weight": 0.17,
"metrics": [
{
"key": "popularity",
"band": "moderate",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 59,
"inputs": {
"forks": 81,
"stars": 206,
"watchers": 11,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "no_history"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "206 stars",
"points": 37.5,
"status": "partial",
"details": [
{
"code": "stars",
"params": {
"count": 206
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "81 forks",
"points": 15.9,
"status": "partial",
"details": [
{
"code": "forks",
"params": {
"count": 81
}
}
],
"max_points": 25
},
{
"key": "watchers",
"name": "Watchers",
"detail": "11 watchers",
"points": 5.6,
"status": "partial",
"details": [
{
"code": "watchers",
"params": {
"count": 11
}
}
],
"max_points": 15
}
]
},
{
"key": "community_health",
"band": "excellent",
"name": "Community health",
"note": null,
"notes": [],
"value": 85,
"inputs": {
"has_readme": true,
"has_license": true,
"readme_badges": null,
"has_contributing": true,
"has_issue_template": false,
"has_code_of_conduct": true,
"readme_badge_services": [],
"has_pull_request_template": false
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 22.5,
"status": "met",
"details": [],
"max_points": 22.5
},
{
"key": "license",
"name": "License",
"detail": "recognized license (BSD-3-Clause)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "BSD-3-Clause"
}
}
],
"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": 13.5,
"status": "met",
"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": 0,
"status": "missed",
"details": [],
"max_points": 6.3
}
]
}
],
"description": "Does the project have users, downloads, attention, and a welcoming setup for contributors?"
},
{
"key": "governance",
"band": "good",
"name": "Sustainability & Governance",
"value": 76,
"weight": 0.23,
"metrics": [
{
"key": "maintainer_resilience",
"band": "good",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 76,
"inputs": {
"bus_factor": 3,
"contributors_sampled": 20,
"top_contributor_share": 0.254
},
"components": [
{
"key": "bus_factor",
"name": "Bus factor",
"detail": "3 contributor(s) cover half of all commits",
"points": 36,
"status": "partial",
"details": [
{
"code": "bus_factor",
"params": {
"count": 3
}
}
],
"max_points": 54
},
{
"key": "commit_distribution",
"name": "Commit distribution",
"detail": "top contributor authored 25% of commits",
"points": 16.8,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 25
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "20 contributors",
"points": 13.5,
"status": "met",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 20
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 8 contributing companies or organizations",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "good",
"name": "Issue & PR responsiveness",
"note": "Excluded from scoring (no data or not applicable): Newcomer PR acceptance. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"newcomer_pr_acceptance"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 75,
"inputs": {
"merged_prs": 560,
"open_issues": 99,
"closed_issues": 174,
"prs_merged_7d": null,
"prs_decided_7d": null,
"prs_merged_30d": null,
"prs_decided_30d": null,
"issue_closed_ratio": 0.637,
"closed_unmerged_prs": 81,
"first_time_authors_30d": null,
"first_time_prs_merged_30d": null,
"first_time_prs_decided_30d": null
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "64% of issues closed",
"points": 26.8,
"status": "partial",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 64
}
}
],
"max_points": 42
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "560/641 decided PRs merged",
"points": 26.2,
"status": "partial",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 560,
"decided": 641
}
}
],
"max_points": 30
},
{
"key": "newcomer_pr_acceptance",
"name": "Newcomer PR acceptance",
"detail": "no first-time contributor's PR decided in 30d",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_newcomer_prs",
"params": {
"days": 30
}
}
],
"max_points": 13
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "Found 25/30 approved changesets -- score normalized to 8",
"points": 12,
"status": "partial",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "good",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 77,
"inputs": {
"followers": 1290,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "broadinstitute",
"public_repos": 1515,
"account_age_days": 5804
},
"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": "1,290 followers of broadinstitute",
"points": 22.4,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 1290,
"login": "broadinstitute"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "1515 public repos, account ~15 yr old",
"points": 25,
"status": "met",
"details": [
{
"code": "public_repos",
"params": {
"count": 1515
}
},
{
"code": "account_age_years",
"params": {
"years": 15
}
}
],
"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": 0.19,
"metrics": [
{
"key": "engineering_practices",
"band": "excellent",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 84,
"inputs": {
"has_ci": true,
"has_tests": true,
"has_editorconfig": false,
"has_linter_config": true,
"has_precommit_config": false
},
"components": [
{
"key": "ci_workflows",
"name": "CI workflows",
"detail": "5 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 5
}
}
],
"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": "tox.ini",
"points": 16,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "tox.ini"
}
}
],
"max_points": 16
},
{
"key": "pre_commit_hooks",
"name": "Pre-commit hooks",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 9.6
},
{
"key": "editorconfig",
"name": ".editorconfig",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 6.4
},
{
"key": "openssf_scorecard_ci_tests",
"name": "OpenSSF Scorecard: CI-Tests",
"detail": "25 out of 25 merged PRs checked by a CI test -- score normalized to 10",
"points": 20,
"status": "met",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "good",
"name": "Documentation",
"note": null,
"notes": [],
"value": 65,
"inputs": {
"topics": [
"genomics",
"structural-variants",
"structural-variation",
"bioinformatics"
],
"has_wiki": false,
"homepage": "https://broadinstitute.github.io/gatk-sv/",
"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": "https://broadinstitute.github.io/gatk-sv/",
"points": 15,
"status": "met",
"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": "4 topics",
"points": 10,
"status": "met",
"details": [
{
"code": "topics_count",
"params": {
"count": 4
}
}
],
"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": "good",
"name": "Security",
"value": 65,
"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": 56,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 15,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 3,
"scorecard_aggregate": 5.6
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "binaries present in source code",
"points": 6.8,
"status": "partial",
"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": "25 out of 25 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": "Found 25/30 approved changesets -- score normalized to 8",
"points": 6,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 8 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": "13 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 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "sast",
"name": "SAST",
"detail": "SAST tool is not run on all commits -- score normalized to 5",
"points": 2.5,
"status": "partial",
"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": "0 existing vulnerabilities detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "dependency_advisories",
"band": "exceptional",
"name": "Dependency advisories",
"note": "Excluded from scoring (no data or not applicable): No advisories left outstanding. Remaining weights renormalized. Matched the pypi:svtk@0.2.0 runtime dependency closure — what installing the published package pulls in — 12 packages. Reachability is not analyzed.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"no_advisories_left_outstanding"
]
}
},
{
"code": "weights_renormalized",
"params": {}
},
{
"code": "advisories_scope_published",
"params": {
"package": "pypi:svtk@0.2.0",
"assessed": 12
}
},
{
"code": "advisories_reachability",
"params": {}
}
],
"value": 100,
"inputs": {
"source": "osv",
"advisories": 0,
"affected_packages": 0,
"assessed_packages": 12,
"unassessed_packages": 0,
"affected_by_severity": "none",
"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": "no indirect dependency carries a known advisory",
"points": 25,
"status": "met",
"details": [
{
"code": "no_indirect_advisories",
"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": "exceptional",
"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": 12,
"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": "exceptional",
"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"
],
"commit_weight_rule": {
"min_commits": 50,
"min_commit_share": 0.1
},
"review_only_matches": 0,
"below_threshold_exposures": [],
"assessed_self_published_locations": 6
},
"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": "weak",
"name": "AI Readiness",
"value": 42,
"weight": 0.04,
"metrics": [
{
"key": "ai_agent_context",
"band": "weak",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 37,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.7,
"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": "70 of 100 human commits state their intent (structured subject or explanatory body)",
"points": 37.3,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 70,
"sampled": 100
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "weak",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 43,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [],
"has_dockerfile": true,
"typed_language": false,
"bootstrap_files": [],
"has_devcontainer": false,
"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": "tox.ini",
"points": 11,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "tox.ini"
}
}
],
"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": "Dockerfile",
"points": 10,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "Dockerfile"
}
}
],
"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 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
},
{
"key": "ai_code_legibility",
"band": "moderate",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 54,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 120131,
"source_files_sampled": 255,
"oversized_source_files": 3
},
"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": "3/255 source files over 60KB",
"points": 54.4,
"status": "partial",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 255,
"oversized": 3
}
}
],
"max_points": 55
}
]
},
{
"key": "ai_interfaces",
"band": "weak",
"name": "Machine-readable interfaces",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"example_dirs": [
"notebooks"
],
"has_mcp_signal": false,
"api_schema_files": []
},
"components": [
{
"key": "api_schema_openapi_graphql_proto",
"name": "API schema (OpenAPI/GraphQL/proto)",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 40
},
{
"key": "mcp_server",
"name": "MCP server",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 20
},
{
"key": "runnable_examples",
"name": "Runnable examples",
"detail": "notebooks",
"points": 40,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "notebooks"
}
}
],
"max_points": 40
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? Carries a deliberately small weight: agent tooling is a real maintenance signal, but its absence must never gate the top of the scale (calibration saturates at raw 91, so 100/100 remains reachable with AI Readiness at zero)."
}
],
"classification": {
"labels": [
"web-ui"
],
"scores": {
"web-ui": 4
},
"primary": "web-ui",
"evidence": [
{
"tier": "dependencies",
"label": "web-ui",
"source": "dep:react-dom",
"weight": 4
}
],
"artifacts": [],
"confidence": "low",
"host_extension": false,
"runs_as_process": true,
"consumed_by_code": false
},
"metrics_version": "2.3.1"
},
"warnings": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token",
"Could not fetch pypi package 'svqc' from its registry",
"pypi package 'svtk' points at a different repository (https://github.com/simleek/displayarray); excluded from ecosystem scoring",
"Could not fetch pypi package 'svtest' from its registry",
"pypi package 'sv_utils' points at a different repository (https://github.com/friend1ws/sv_utils); excluded from ecosystem scoring"
],
"report_type": "repository",
"generated_at": "2026-07-31T20:25:13.675172Z",
"schema_version": "0.27.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/b/broadinstitute/gatk-sv.svg",
"full_name": "broadinstitute/gatk-sv",
"license_state": "standard",
"license_spdx": "BSD-3-Clause"
}