Informe JSON sin procesar legible por máquina
{
"data": {
"repo": {
"topics": [
"bowtie2",
"bwa-mem2",
"genomics",
"mapping",
"next-generation-sequencing",
"snakemake",
"snakemake-workflow",
"star-alignment",
"variant-calling"
],
"is_fork": false,
"size_kb": 2652,
"has_wiki": true,
"homepage": null,
"languages": {
"Python": 26975
},
"pushed_at": "2026-07-15T09:44:17Z",
"created_at": "2025-06-16T14:20:29Z",
"owner_type": "Organization",
"updated_at": "2026-07-15T09:44:14Z",
"description": "A Snakemake workflow for the mapping of reads to reference genomes, minimalistic and simple.",
"is_archived": false,
"is_disabled": false,
"license_spdx": "MIT",
"default_branch": "main",
"license_spdx_raw": "MIT",
"primary_language": "Python",
"significant_languages": [
"Python"
]
},
"owner": {
"blog": "mpusp.github.io",
"name": "Max Planck Unit for the Science of Pathogens",
"type": "Organization",
"login": "MPUSP",
"company": null,
"location": "Berlin, Germany",
"followers": 10,
"avatar_url": "https://avatars.githubusercontent.com/u/81688252?v=4",
"created_at": "2021-03-31T11:34:00Z",
"is_verified": null,
"public_repos": 21,
"account_age_days": 1943
},
"license": {
"state": "standard",
"spdx_id": "MIT",
"raw_spdx": "MIT",
"file_present": true,
"scorecard_found": true,
"profile_has_license": true
},
"activity": {
"releases": [
{
"tag": "v1.7.2",
"kind": "patch",
"published_at": "2026-07-15T09:44:17Z"
},
{
"tag": "v1.7.1",
"kind": "patch",
"published_at": "2026-07-15T08:43:19Z"
},
{
"tag": "v1.7.0",
"kind": "minor",
"published_at": "2026-06-17T07:16:51Z"
},
{
"tag": "v1.6.1",
"kind": "patch",
"published_at": "2026-03-30T13:11:41Z"
},
{
"tag": "v1.6.0",
"kind": "minor",
"published_at": "2026-03-22T06:58:46Z"
},
{
"tag": "v1.5.0",
"kind": "minor",
"published_at": "2025-12-18T14:04:29Z"
},
{
"tag": "v1.4.2",
"kind": "patch",
"published_at": "2025-12-11T10:59:57Z"
},
{
"tag": "v1.4.1",
"kind": "patch",
"published_at": "2025-09-25T08:54:41Z"
},
{
"tag": "v1.4.0",
"kind": "minor",
"published_at": "2025-09-17T12:20:20Z"
},
{
"tag": "v1.3.0",
"kind": "minor",
"published_at": "2025-09-15T07:18:10Z"
},
{
"tag": "v1.2.0",
"kind": "minor",
"published_at": "2025-08-12T08:25:30Z"
},
{
"tag": "v1.1.1",
"kind": "patch",
"published_at": "2025-06-20T14:01:05Z"
},
{
"tag": "v1.1.0",
"kind": "minor",
"published_at": "2025-06-19T13:44:20Z"
},
{
"tag": "v1.0.0",
"kind": "major",
"published_at": "2025-06-18T11:17:42Z"
}
],
"recent_commits": [
{
"oid": "3828803b2ad1a2aec7d62de977a29393747c614d",
"body": "chore(main): release 1.7.2",
"is_bot": false,
"headline": "Merge pull request #43 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T09:44:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8171fe853ec719a5524dd6c7f85eeb9d63a1501a",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.7.2",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2026-07-15T09:18:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3f409eb0457cddbb6dd73f54e8af0fe34df2f699",
"body": "fix: added missing dep",
"is_bot": false,
"headline": "Merge pull request #42 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T09:17:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "620438c872030ae607a5c2b00ffec5d7609d4ab7",
"body": null,
"is_bot": false,
"headline": "fix: added missing dep",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T09:05:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "65c1846d5105213e5156e3b05e69ce4d77da1ff5",
"body": "chore(main): release 1.7.1",
"is_bot": false,
"headline": "Merge pull request #41 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T08:43:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a569d3879826fcae2205239ed97c99e924bd530c",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.7.1",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2026-07-15T08:39:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a1c7c7a780eda2bbdade677ae035482a109267b6",
"body": "fix: container directive",
"is_bot": false,
"headline": "Merge pull request #40 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T08:39:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cc144dfa1dc34054bde7f8e23b30275f98e56cd1",
"body": null,
"is_bot": false,
"headline": "fix: formatting",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T08:24:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ba794aa60727bad4d4a06abdeb5d61de1a3bec31",
"body": null,
"is_bot": false,
"headline": "fix: container directive",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-07-15T08:19:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8e6f13d0b26d415877137fa8760ec154e454d712",
"body": "chore(main): release 1.7.0",
"is_bot": false,
"headline": "Merge pull request #38 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-06-17T07:16:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d327839cea136a668f691e7460964f355d0475ea",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.7.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2026-06-17T07:02:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "96ad5a0311b1ef3a5909f5d26ca69aaf12561a00",
"body": "feat: add long-read processing. fix samtools index suffix output.",
"is_bot": false,
"headline": "Merge pull request #37 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-06-17T07:02:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "704f74393d36e91c1ffd7c1f0f2ee90a641a905e",
"body": null,
"is_bot": false,
"headline": "fix: reorder rules by latest snakefmt",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-06-16T07:10:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "481024648f2aaf5fcb3d20d031fd386fc8dc4e0d",
"body": "…ing into dev",
"is_bot": false,
"headline": "Merge branch 'main' of https://github.com/MPUSP/snakemake-simple-mapp…",
"author_name": "Rina Ahmed-Begrich",
"author_login": "rabioinf",
"committed_at": "2026-06-16T06:44:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e38ca09e1533c3a6725e24e7c4538861d680bd9f",
"body": null,
"is_bot": false,
"headline": "fix: linting issue in freebayes rule.",
"author_name": "Rina Ahmed-Begrich",
"author_login": "rabioinf",
"committed_at": "2026-06-15T08:55:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dcc31fb6fc78a82c2bdaa0d2fcdb6aded9eb3892",
"body": null,
"is_bot": false,
"headline": "fix: modify input file for index.",
"author_name": "Rina Ahmed-Begrich",
"author_login": "rabioinf",
"committed_at": "2026-06-15T08:48:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d964651f8e2761eff168bbc246eaab8923d8f648",
"body": null,
"is_bot": false,
"headline": "fix: change samtools index suffix to 'bam.bai', closes #36",
"author_name": "Rina Ahmed-Begrich",
"author_login": "rabioinf",
"committed_at": "2026-06-15T08:41:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7d2b3cd8944bda0819e656a8b021188a7df48c78",
"body": null,
"is_bot": false,
"headline": "feat: added fastplong for long-read preprocessing, closes #35",
"author_name": "Rina Ahmed-Begrich",
"author_login": "rabioinf",
"committed_at": "2026-06-15T08:34:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de6def02355954fa5c3bcaea4421cdcf4b42634e",
"body": "chore(main): release 1.6.1",
"is_bot": false,
"headline": "Merge pull request #34 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-30T13:11:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "43af54901bccf28638155d5c78b803201fa88d17",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.6.1",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2026-03-30T13:11:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "df64f43f5c6df501810bc6093bbbbb2453d07436",
"body": "fix: added missing star options, bump wrappers",
"is_bot": false,
"headline": "Merge pull request #33 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-30T13:10:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7b39056293f0562b5501d860716eb38e06470ef4",
"body": null,
"is_bot": false,
"headline": "fix: bump all wrapper versions",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-26T16:49:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a414cf6515eb03f5fa776b8eac251688ed76507c",
"body": null,
"is_bot": false,
"headline": "fix: added star default options",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-26T16:38:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6a01510d57ac2f6ef748998a6ae3ecd901fe9566",
"body": "chore(main): release 1.6.0",
"is_bot": false,
"headline": "Merge pull request #32 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-22T06:58:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e623e2a34c3c095aedbfb808c758883820cfc66d",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.6.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2026-03-21T17:42:10Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cb4f7927328de20d1f727a4379c5dfb2eeb1cff7",
"body": "feat: update docs, CI workflows",
"is_bot": false,
"headline": "Merge pull request #31 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-21T17:41:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d619663d166e7e734047c6d9216bcfae6dcc0938",
"body": null,
"is_bot": false,
"headline": "fix: update badges",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-21T17:31:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1549c3415702563cb66480d2bdd844554acc956e",
"body": null,
"is_bot": false,
"headline": "feat: update README and config schema",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-20T18:47:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7c2bcc69ab59237fa52b18293053f6f02dcdbcf2",
"body": null,
"is_bot": false,
"headline": "fix: update CI workflows",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2026-03-20T18:30:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "19993ea815dda77b51ee54c433ba146d47355709",
"body": "chore(main): release 1.5.0",
"is_bot": false,
"headline": "Merge pull request #25 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-18T14:04:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ede909c277c1b71af021eebba40dc1c246744c2f",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.5.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-12-18T13:37:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7d991e9d3446805fec7ec42967d4c6304cf6bfe2",
"body": "fix: update to apptainer workflow",
"is_bot": false,
"headline": "Merge pull request #28 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-18T13:36:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1ba59836b06548d7c18dd1ca9d3fb574e2569b58",
"body": null,
"is_bot": false,
"headline": "fix: update to apptainer workflow",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-18T12:48:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c643bfd71e487b6802081363141f183dce75bb3f",
"body": "fix: paths to run wf in main dir",
"is_bot": false,
"headline": "Merge pull request #27 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-12T08:04:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7fecab2f516792f19db70f0c526005f81e04cea5",
"body": null,
"is_bot": false,
"headline": "fix: paths to run wf in main dir",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-12T08:04:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d5e752aa1c7269dc70b62e1e641ae449ba6c15db",
"body": "fix: corrected dir for building Dockerfile",
"is_bot": false,
"headline": "Merge pull request #26 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T15:18:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "79933c2709ca0eb5fbe7e70a18ab42124bbc1a52",
"body": null,
"is_bot": false,
"headline": "fix: corrected dir for building Dockerfile",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T15:17:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f0198f624fee081398c60121b3e85e51ebe365a5",
"body": "feat: enable apptainer deployment",
"is_bot": false,
"headline": "Merge pull request #24 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T14:37:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "927586d141dad666631dc38725b87394375f2e69",
"body": null,
"is_bot": false,
"headline": "fix: use empty array instead of empty string for no input",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T14:13:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "138414b5063a91567a7de2dc0ad987da2cb08b64",
"body": null,
"is_bot": false,
"headline": "feat: enable apptainer deployment",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T11:10:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0310f0122b837e640738b7f64b3be43c0c2df48c",
"body": null,
"is_bot": false,
"headline": "fix: chunks with default messaging turned off",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T11:09:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ec814a17ead66668cc580ef5c379cdf66c31b616",
"body": "chore(main): release 1.4.2",
"is_bot": false,
"headline": "Merge pull request #23 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-12-11T10:59:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e70af2d943477a6baad8154d4aefbbe81428c460",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.4.2",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-11-19T08:02:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "13a1e03b634ba6e1675135a9adf32bd9758fd184",
"body": "fix: minor fixes for next release",
"is_bot": false,
"headline": "Merge pull request #22 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-11-19T08:02:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f08d2017dae6c1de1f11bb5f24728056c6b32023",
"body": null,
"is_bot": false,
"headline": "fix: restrict number of variants for heatmaps",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-10-20T14:01:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6ab90c6cc0f8d3f2f6c53e3be5632e70c94c9d00",
"body": "chore(main): release 1.4.1",
"is_bot": false,
"headline": "Merge pull request #21 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-25T08:54:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3ef221d363cd66655919a1b18599c62b426c7a2b",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.4.1",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-09-25T08:36:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "865e6094607048153f1902439744aa654711fcd1",
"body": "fix: minor issues, formatting",
"is_bot": false,
"headline": "Merge pull request #20 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-25T08:35:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c7ec81ce3b1fd8ee96f229c1528e9bedda8fcf65",
"body": null,
"is_bot": false,
"headline": "fix: prevent rule from crashing when no variants were found at all",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-23T11:04:14Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "aa6a5d5dc6535591b1fba01a0f6a83f82dcdadde",
"body": null,
"is_bot": false,
"headline": "fix: removed unnecessary rdata export",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-22T14:30:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "029c1dfafe26354a1e3f773b5b3e29872920c99f",
"body": null,
"is_bot": false,
"headline": "fix: report chromosomes etc as tabs",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-22T08:29:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "25fabe20356f7b5d0edc70e779f274813c0c873c",
"body": null,
"is_bot": false,
"headline": "fix: removed phase attribute for exons and mRNAs",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-19T08:55:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a73ae15a195b11e2fb57852118ffb961037b7f33",
"body": "chore(main): release 1.4.0",
"is_bot": false,
"headline": "Merge pull request #19 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-17T12:20:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8f8df55cde33e18c26771cbc022897c55892dbc4",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.4.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-09-17T12:19:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "82cacb36fc7bf67cbbff7a218d02dcc6fcbbc80c",
"body": "feat: added new modules for mapping",
"is_bot": false,
"headline": "Merge pull request #18 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-17T12:19:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "538c7723f2a32cf25c7da1b41e607506df9f9813",
"body": null,
"is_bot": false,
"headline": "fix: prevent report from failing when no variants were found + format",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-17T10:58:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8f3d0cf9b1b920d870b26e7b60d33aee2fbb9f5a",
"body": null,
"is_bot": false,
"headline": "fix: tolerate empty genome input",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-17T10:25:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "532afeea3b91a37f55b0e0d09f86898881a21caf",
"body": null,
"is_bot": false,
"headline": "fix: added missing argument input to get_genome",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-17T09:43:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "aeeab0e22f185b785684b61d1051d14e3276fc99",
"body": null,
"is_bot": false,
"headline": "fix: minor changes config settings",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-16T15:02:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "99e95d1be49984cd061e894f996287d30cb2e3d5",
"body": null,
"is_bot": false,
"headline": "feat: added minimap2 as another mapper option",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T20:33:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "93d4500a26594bd774b3a240f45e3eab64096eac",
"body": null,
"is_bot": false,
"headline": "fix: expose extra args in config",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T17:47:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9dd4fa8931be24a20e5147a557d73e558f55ef7a",
"body": null,
"is_bot": false,
"headline": "feat: added STAR as a mapper option",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T12:54:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "96f51d7f242a4221ad0d3805723b073b408c3271",
"body": null,
"is_bot": false,
"headline": "feat: fix: added option to choose varaint caller to config",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T07:28:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f9356a5768362f153b2575bf9bda952bc14f96c9",
"body": "chore(main): release 1.3.0",
"is_bot": false,
"headline": "Merge pull request #16 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T07:17:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dbcd90ad7634167a596ae9335ff6772d1f0e8ae2",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.3.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-09-15T07:17:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "103ada16e44fed984e793e460a7004b31f90b81a",
"body": "feat: various improvements to variant effect prediction + viz",
"is_bot": false,
"headline": "Merge pull request #11 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-15T07:17:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9cdc49aba3422c258b5780cf5e4d73e8fae8994d",
"body": null,
"is_bot": false,
"headline": "feat: more detailed plots for report",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-12T14:01:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c4acfb164ca10cc6f50fd83559993bf2398f8b72",
"body": null,
"is_bot": false,
"headline": "feat: added genome plots to report",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-08T14:43:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5cf515029d910949d6e7f91caa4477674a0d40bd",
"body": null,
"is_bot": false,
"headline": "feat: added first draft of report for most important variants",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-03T16:06:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f883811997a54a3cfdcb42c2db98a71b6ca787b8",
"body": null,
"is_bot": false,
"headline": "feat: added rule to collect consensus variants",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-02T12:48:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "338d9eecfdd2be5da16015800d88550699718fe6",
"body": null,
"is_bot": false,
"headline": "fix: minor formatting",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-02T09:14:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d9456d994b11fc2ea08d3baa303167cb05ef6d8f",
"body": null,
"is_bot": false,
"headline": "fix: corrected urls to json schema",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-01T20:48:46Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "59c2e6973e5cf6795173e95c2191926b6ae8611b",
"body": null,
"is_bot": false,
"headline": "feat: added SnpEff part 2",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-09-01T20:37:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "52b4f1dc7565547ecb50363a51883b62c5cb85cd",
"body": null,
"is_bot": false,
"headline": "feat: added SnpEff part 1",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-12T11:47:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b3529fdbfac99b71d860d70a59fab53d0b513326",
"body": "chore(main): release 1.2.0",
"is_bot": false,
"headline": "Merge pull request #10 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-12T08:25:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7e25d133ea8686ff2b1bf931c52cb31839a158b9",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.2.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-08-12T07:02:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "354548aab52363677e957001245d177a9f00cae9",
"body": "feat: added VEP for variant prediction",
"is_bot": false,
"headline": "Merge pull request #9 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-12T07:01:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b2156eb40057aa11e37a0aa8abc09a5f830fcbd2",
"body": null,
"is_bot": false,
"headline": "fix: added missing documentation",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-07T13:35:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a01343b7dc40876012a9d4c45300e1077f1349e5",
"body": null,
"is_bot": false,
"headline": "fix: make multiqc recognize vep output",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-07T13:04:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8a9a948004d30e4c7df10f7c654504c6d2c33c87",
"body": null,
"is_bot": false,
"headline": "fix: more changes to convert NCBI to ensemble GFF format",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-07T12:55:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9d5d7a803ac15a97abf026cab8d1716362174f66",
"body": null,
"is_bot": false,
"headline": "fix: location of vep log file",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-07T09:09:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "250f3b1a791e0e5b7596a98778b5d3b589bc0366",
"body": null,
"is_bot": false,
"headline": "Merge branch 'main' into dev",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-07T06:16:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "82bd82574029c2753d139d27999d8099c99fd61f",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.1.1",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-08-07T06:15:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6d19814a813ff0d5cc7f05f0de8b69d28bc2f6f9",
"body": null,
"is_bot": false,
"headline": "fix: added script to reformat GFF for VEP",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-06T16:39:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9e9d940e2e6af376b58802ce8c47f7c53d0b7bdb",
"body": null,
"is_bot": false,
"headline": "feat: added variant effect prediction module",
"author_name": "jahn",
"author_login": "m-jahn",
"committed_at": "2025-08-06T12:45:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5351fbd6b752b649909e5658331647fc57f3f34d",
"body": "chore(main): release 1.1.1",
"is_bot": false,
"headline": "Merge pull request #7 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T14:00:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7d25820dccf14308ed0e3e13ef78b6df5b5b80ef",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.1.1",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-06-20T13:53:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "068d30d74c7ff6eb62deb5fc169ba7bd49f7a3a8",
"body": "fix: exposed parameters for some tools",
"is_bot": false,
"headline": "Merge pull request #6 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T13:52:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bbe6509361794ba3b4e0bff6e9e323297c647aaf",
"body": null,
"is_bot": false,
"headline": "fix: bug setting cores dynamically, use static number",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T13:40:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8667d70278cef36e6fc556a772e958fe85817f95",
"body": null,
"is_bot": false,
"headline": "fix: adjusted resource definitions",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T13:14:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5e7d8a3ce1c31c3f2023beb8adb36dd0b6f1b14c",
"body": null,
"is_bot": false,
"headline": "fix: adjusted resource allocation",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T12:50:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "55a0ac4addcbffb75d260eb5fb1524d0db1c1ba3",
"body": null,
"is_bot": false,
"headline": "fix: exposed parameters for some tools",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-20T11:26:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3e296538fa80e016dfbd6a909922deb9cfedb43b",
"body": "chore(main): release 1.1.0",
"is_bot": false,
"headline": "Merge pull request #5 from MPUSP/release-please--branches--main",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T13:44:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "57aa24cf1a2f3aec874bd10d30d3c9a3b83d0eb9",
"body": null,
"is_bot": true,
"headline": "chore(main): release 1.1.0",
"author_name": "github-actions[bot]",
"author_login": "github-actions[bot]",
"committed_at": "2025-06-19T13:43:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fc2fa4dc2608c840f012b3b8b0db276be450ba1b",
"body": "feat: various improvements regarding input options, docs",
"is_bot": false,
"headline": "Merge pull request #4 from MPUSP/dev",
"author_name": "Michael Jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T13:43:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5a7e89537b1cc4e6cd6e65ae1113f09871995ad6",
"body": null,
"is_bot": false,
"headline": "fix: explicit link to fasta index",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T13:24:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ce4c68c9fc91d4e6d60ad0464c5de91773d57762",
"body": null,
"is_bot": false,
"headline": "fix: update dag",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T09:34:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d4d49b8a60309e59aa60c49df51f377a7aa594ee",
"body": null,
"is_bot": false,
"headline": "feat: added freebayes as second variant caller",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T09:00:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "232a784899a34e3c8127965c387ba9d8d29aa141",
"body": null,
"is_bot": false,
"headline": "fix: removed unnecessary fastp_se rule",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-19T06:05:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "24be9b4ef86425142f5464185a2eb6e4bb5fc80d",
"body": null,
"is_bot": false,
"headline": "fix: added dag as workflow overview",
"author_name": "m-jahn",
"author_login": "m-jahn",
"committed_at": "2025-06-18T20:12:34Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 14,
"commits_last_year": 84,
"latest_release_at": "2026-07-15T09:44:17Z",
"latest_release_tag": "v1.7.2",
"releases_from_tags": false,
"days_since_last_push": 11,
"active_weeks_last_year": 15,
"days_since_latest_release": 11,
"mean_days_between_releases": 33.7
},
"community": {
"has_readme": true,
"has_license": true,
"has_description": true,
"has_contributing": false,
"health_percentage": 37,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": false
},
"ecosystem": {
"packages": []
},
"popularity": {
"forks": 1,
"stars": 1,
"watchers": 1,
"fork_history": {
"days": [
{
"date": "2025-11-14",
"count": 1
}
],
"complete": true,
"collected": 1,
"total_forks": 1
},
"star_history": null,
"open_issues_and_prs": 0
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [],
"has_llms_txt": false,
"has_dockerfile": false,
"has_mcp_signal": false,
"bootstrap_files": [],
"api_schema_files": [],
"has_devcontainer": false,
"typecheck_configs": [],
"toolchain_manifests": [],
"largest_source_bytes": 4066,
"source_files_sampled": 1,
"oversized_source_files": 0,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [],
"advisories": {
"error": null,
"scope": null,
"source": null,
"findings": [],
"collected": false,
"malicious": [],
"truncated": false,
"by_severity": {},
"advisory_count": 0,
"affected_count": 0,
"assessed_count": 0,
"malicious_count": 0,
"assessed_package": null,
"unassessed_count": 0,
"direct_affected_count": 0
},
"ecosystems": [],
"dependencies": [],
"all_dependencies": {
"error": "GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository",
"source": null,
"packages": [],
"collected": false,
"truncated": false,
"total_count": null,
"direct_count": null,
"indirect_count": null
}
},
"maintainership": {
"issues": {
"open_prs": 0,
"merged_prs": 31,
"open_issues": 0,
"closed_ratio": 1,
"closed_issues": 12,
"closed_unmerged_prs": 0
},
"bus_factor": 1,
"bot_contributors": 1,
"top_contributors": [
{
"type": "User",
"login": "m-jahn",
"commits": 94,
"avatar_url": "https://avatars.githubusercontent.com/u/32667667?v=4"
},
{
"type": "User",
"login": "rabioinf",
"commits": 5,
"avatar_url": "https://avatars.githubusercontent.com/u/21038107?v=4"
}
],
"contributors_sampled": 2,
"top_contributor_share": 0.949
},
"quality_signals": {
"has_ci": true,
"has_tests": false,
"ci_workflows": [
"conventional-prs.yml",
"deploy-apptainer.yml",
"release-please.yml",
"snakemake-tests.yml"
],
"has_docs_dir": false,
"linter_configs": [],
"has_editorconfig": false,
"has_linter_config": false,
"has_precommit_config": false
},
"security_signals": {
"lockfiles": [],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 10,
"reason": "no binaries found in the repo",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
},
{
"name": "Branch-Protection",
"score": 4,
"reason": "branch protection is not maximal on development and all release branches",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
},
{
"name": "CI-Tests",
"score": 4,
"reason": "5 out of 11 merged PRs checked by a CI test -- score normalized to 4",
"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": 2,
"reason": "Found 1/5 approved changesets -- score normalized to 2",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 10,
"reason": "project has 4 contributing companies or organizations",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#contributors"
},
{
"name": "Dangerous-Workflow",
"score": 10,
"reason": "no dangerous workflow patterns detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dangerous-workflow"
},
{
"name": "Dependency-Update-Tool",
"score": 0,
"reason": "no update tool detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dependency-update-tool"
},
{
"name": "Fuzzing",
"score": 0,
"reason": "project is not fuzzed",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#fuzzing"
},
{
"name": "License",
"score": 10,
"reason": "license file detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#license"
},
{
"name": "Maintained",
"score": 10,
"reason": "18 commit(s) and 3 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": 0,
"reason": "SAST tool is not run on all commits -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#sast"
},
{
"name": "Security-Policy",
"score": 0,
"reason": "security policy file not detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#security-policy"
},
{
"name": "Signed-Releases",
"score": null,
"reason": "no releases found",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#signed-releases"
},
{
"name": "Token-Permissions",
"score": 0,
"reason": "detected GitHub workflow tokens with excessive permissions",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#token-permissions"
},
{
"name": "Vulnerabilities",
"score": 10,
"reason": "0 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "3828803b2ad1a2aec7d62de977a29393747c614d",
"ran_at": "2026-07-27T08:19:34Z",
"aggregate_score": 4.6,
"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": "2026-07-15T10:02:57Z",
"oldest_open_prs": [],
"last_merged_pr_at": "2026-07-15T09:44:08Z",
"ci_last_conclusion": "SUCCESS",
"oldest_open_issues": []
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/MPUSP/snakemake-simple-mapping",
"host": "github.com",
"name": "snakemake-simple-mapping",
"owner": "MPUSP"
},
"metrics": {
"overall": {
"key": "overall",
"band": "moderate",
"name": "Overall health",
"note": null,
"notes": [],
"value": 51,
"inputs": {
"security": 46,
"vitality": 80,
"community": 24,
"governance": 54,
"engineering": 43
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "good",
"name": "Vitality",
"value": 80,
"weight": 0.22,
"metrics": [
{
"key": "development_activity",
"band": "moderate",
"name": "Development activity",
"note": null,
"notes": [],
"value": 66,
"inputs": {
"commits_last_year": 84,
"human_commit_share": 0.86,
"days_since_last_push": 11,
"active_weeks_last_year": 15
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 11 days ago",
"points": 28.8,
"status": "partial",
"details": [
{
"code": "push_recency",
"params": {
"days": 11
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "15/52 weeks with commits",
"points": 10.4,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 15
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "84 commits in the last year",
"points": 17.3,
"status": "partial",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 84
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "18 commit(s) and 3 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": 100,
"inputs": {
"releases_count": 14,
"latest_release_tag": "v1.7.2",
"releases_from_tags": false,
"days_since_latest_release": 11,
"mean_days_between_releases": 33.7
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "14 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 14
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 11 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 11
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~33.7 days",
"points": 27,
"status": "met",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 33.7
}
}
],
"max_points": 27
},
{
"key": "openssf_scorecard_signed_releases",
"name": "OpenSSF Scorecard: Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 10
}
]
},
{
"key": "abandonment",
"band": "excellent",
"name": "Abandonment",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"cap": null,
"state": "maintained",
"guards": [],
"signals": [],
"red_flag": false,
"multiplier_pct": 100,
"declared_reason": null,
"unverified_reason": null,
"unanswered_open_prs": null,
"unanswered_open_issues": null,
"days_since_last_merged_pr": null,
"days_since_last_human_commit": 11,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 11 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 11
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "critical",
"name": "Community & Adoption",
"value": 24,
"weight": 0.18,
"metrics": [
{
"key": "popularity",
"band": "critical",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 1,
"inputs": {
"forks": 1,
"stars": 1,
"watchers": 1,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "no_history"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "1 stars",
"points": 0,
"status": "missed",
"details": [
{
"code": "stars",
"params": {
"count": 1
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "1 forks",
"points": 0,
"status": "missed",
"details": [
{
"code": "forks",
"params": {
"count": 1
}
}
],
"max_points": 25
},
{
"key": "watchers",
"name": "Watchers",
"detail": "1 watchers",
"points": 0,
"status": "missed",
"details": [
{
"code": "watchers",
"params": {
"count": 1
}
}
],
"max_points": 15
}
]
},
{
"key": "community_health",
"band": "moderate",
"name": "Community health",
"note": null,
"notes": [],
"value": 50,
"inputs": {
"has_readme": true,
"has_license": true,
"has_contributing": false,
"has_issue_template": false,
"has_code_of_conduct": false,
"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 (MIT)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "MIT"
}
}
],
"max_points": 22.5
},
{
"key": "contributing_guide",
"name": "CONTRIBUTING guide",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 18
},
{
"key": "code_of_conduct",
"name": "Code of conduct",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 13.5
},
{
"key": "issue_template",
"name": "Issue template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.2
},
{
"key": "pr_template",
"name": "PR template",
"detail": null,
"points": 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": "moderate",
"name": "Sustainability & Governance",
"value": 54,
"weight": 0.24,
"metrics": [
{
"key": "maintainer_resilience",
"band": "critical",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 23,
"inputs": {
"bus_factor": 1,
"contributors_sampled": 2,
"top_contributor_share": 0.949
},
"components": [
{
"key": "bus_factor",
"name": "Bus factor",
"detail": "1 contributor(s) cover half of all commits",
"points": 9,
"status": "partial",
"details": [
{
"code": "bus_factor",
"params": {
"count": 1
}
}
],
"max_points": 54
},
{
"key": "commit_distribution",
"name": "Commit distribution",
"detail": "top contributor authored 95% of commits",
"points": 1.1,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 95
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "2 contributors",
"points": 2.7,
"status": "partial",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 2
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 4 contributing companies or organizations",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "excellent",
"name": "Issue & PR responsiveness",
"note": null,
"notes": [],
"value": 88,
"inputs": {
"merged_prs": 31,
"open_issues": 0,
"closed_issues": 12,
"issue_closed_ratio": 1,
"closed_unmerged_prs": 0
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "100% of issues closed",
"points": 46.8,
"status": "met",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 100
}
}
],
"max_points": 46.75
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "31/31 decided PRs merged",
"points": 38.2,
"status": "met",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 31,
"decided": 31
}
}
],
"max_points": 38.25
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "Found 1/5 approved changesets -- score normalized to 2",
"points": 3,
"status": "partial",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "moderate",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 58,
"inputs": {
"followers": 10,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "MPUSP",
"public_repos": 21,
"account_age_days": 1943
},
"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": "10 followers of MPUSP",
"points": 7.5,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 10,
"login": "MPUSP"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "21 public repos, account ~5 yr old",
"points": 20.4,
"status": "partial",
"details": [
{
"code": "public_repos",
"params": {
"count": 21
}
},
{
"code": "account_age_years",
"params": {
"years": 5
}
}
],
"max_points": 25
}
]
}
],
"description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
},
{
"key": "engineering",
"band": "at_risk",
"name": "Engineering Quality",
"value": 43,
"weight": 0.2,
"metrics": [
{
"key": "engineering_practices",
"band": "at_risk",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 32,
"inputs": {
"has_ci": true,
"has_tests": false,
"has_editorconfig": false,
"has_linter_config": false,
"has_precommit_config": false
},
"components": [
{
"key": "ci_workflows",
"name": "CI workflows",
"detail": "4 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 4
}
}
],
"max_points": 24
},
{
"key": "tests_present",
"name": "Tests present",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 24
},
{
"key": "linter_config",
"name": "Linter config",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"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": "5 out of 11 merged PRs checked by a CI test -- score normalized to 4",
"points": 8,
"status": "partial",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "moderate",
"name": "Documentation",
"note": null,
"notes": [],
"value": 60,
"inputs": {
"topics": [
"bowtie2",
"bwa-mem2",
"genomics",
"mapping",
"next-generation-sequencing",
"snakemake",
"snakemake-workflow",
"star-alignment",
"variant-calling"
],
"has_wiki": true,
"homepage": null,
"has_readme": true,
"has_docs_dir": false,
"has_description": true
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 30,
"status": "met",
"details": [],
"max_points": 30
},
{
"key": "documentation_directory",
"name": "Documentation directory",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 25
},
{
"key": "documentation_homepage_site",
"name": "Documentation / homepage site",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "repository_description",
"name": "Repository description",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "topics",
"name": "Topics",
"detail": "9 topics",
"points": 10,
"status": "met",
"details": [
{
"code": "topics_count",
"params": {
"count": 9
}
}
],
"max_points": 10
},
{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "at_risk",
"name": "Security",
"value": 46,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "at_risk",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Packaging, Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"packaging",
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 46,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 16,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 2,
"scorecard_aggregate": 4.6
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "no binaries found in the repo",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "branch_protection",
"name": "Branch-Protection",
"detail": "branch protection is not maximal on development and all release branches",
"points": 3,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "5 out of 11 merged PRs checked by a CI test -- score normalized to 4",
"points": 1,
"status": "partial",
"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 1/5 approved changesets -- score normalized to 2",
"points": 1.5,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 4 contributing companies or organizations",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "dangerous_workflow",
"name": "Dangerous-Workflow",
"detail": "no dangerous workflow patterns detected",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "dependency_update_tool",
"name": "Dependency-Update-Tool",
"detail": "no update tool detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "fuzzing",
"name": "Fuzzing",
"detail": "project is not fuzzed",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "license",
"name": "License",
"detail": "license file detected",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
"name": "Maintained",
"detail": "18 commit(s) and 3 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 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
"name": "Security-Policy",
"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "token_permissions",
"name": "Token-Permissions",
"detail": "detected GitHub workflow tokens with excessive permissions",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "vulnerabilities",
"name": "Vulnerabilities",
"detail": "0 existing vulnerabilities detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 5
},
"components": [
{
"key": "policy_exposure_multiplier",
"name": "Policy exposure multiplier",
"detail": "no confirmed policy-scope location match",
"points": 100,
"status": "met",
"details": [
{
"code": "jurisdiction_no_match",
"params": {}
}
],
"max_points": 100
}
]
}
],
"description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
},
{
"key": "ai_readiness",
"band": "critical",
"name": "AI Readiness",
"value": 24,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "at_risk",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 40,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.977,
"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": "84 of 86 human commits state their intent (structured subject or explanatory body)",
"points": 40,
"status": "met",
"details": [
{
"code": "legible_history",
"params": {
"legible": 84,
"sampled": 86
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "critical",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 1,
"inputs": {
"has_nix": false,
"has_tests": false,
"lockfiles": [],
"has_dockerfile": false,
"typed_language": false,
"bootstrap_files": [],
"has_devcontainer": false,
"has_linter_config": false,
"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": 0,
"status": "missed",
"details": [],
"max_points": 22
},
{
"key": "lint_format_config",
"name": "Lint / format config",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"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": null,
"points": 0,
"status": "missed",
"details": [],
"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": 55,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 4066,
"source_files_sampled": 1,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Python without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "Python"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/1 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 1,
"oversized": 0
}
}
],
"max_points": 55
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
}
],
"metrics_version": "1.13.0"
},
"warnings": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token",
"GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository"
],
"report_type": "repository",
"generated_at": "2026-07-27T08:19:51.096478Z",
"schema_version": "0.27.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/m/MPUSP/snakemake-simple-mapping.svg",
"full_name": "MPUSP/snakemake-simple-mapping",
"license_state": "standard",
"license_spdx": "MIT"
}