Raw JSON report machine-readable
{
"data": {
"repo": {
"topics": [
"phylogeny",
"newick",
"tree",
"tree-structure",
"itol",
"gotree",
"nexus"
],
"is_fork": false,
"size_kb": 2145,
"has_wiki": true,
"homepage": "https://research.pasteur.fr/en/software/goalign-gotree/",
"languages": {
"Go": 659007,
"Shell": 80334,
"Makefile": 1853
},
"pushed_at": "2026-07-15T15:22:55Z",
"created_at": "2016-07-27T15:39:01Z",
"owner_type": "Organization",
"updated_at": "2026-07-15T15:41:21Z",
"description": "Gotree: a set of command line tools and an API to manipulate phylogenetic trees.",
"is_archived": false,
"is_disabled": false,
"license_spdx": "GPL-2.0",
"default_branch": "master",
"license_spdx_raw": "GPL-2.0",
"primary_language": "Go",
"significant_languages": [
"Go",
"Shell"
]
},
"owner": {
"blog": null,
"name": "Evolutionary Bioinformatics",
"type": "Organization",
"login": "evolbioinfo",
"company": null,
"location": "Paris, France",
"followers": 50,
"avatar_url": "https://avatars.githubusercontent.com/u/25950370?v=4",
"created_at": "2017-02-22T08:56:58Z",
"is_verified": null,
"public_repos": 30,
"account_age_days": 3437
},
"license": {
"state": "standard",
"spdx_id": "GPL-2.0",
"raw_spdx": "GPL-2.0",
"file_present": true,
"scorecard_found": true,
"profile_has_license": true
},
"activity": {
"releases": [
{
"tag": "v0.5.2",
"kind": "patch",
"published_at": "2026-07-15T15:30:34Z"
},
{
"tag": "v0.5.1",
"kind": "patch",
"published_at": "2025-12-15T14:44:16Z"
},
{
"tag": "v0.5.0",
"kind": "minor",
"published_at": "2025-07-09T15:38:33Z"
},
{
"tag": "v0.4.5",
"kind": "patch",
"published_at": "2023-11-28T16:29:51Z"
},
{
"tag": "v0.4.4",
"kind": "patch",
"published_at": "2022-12-09T11:24:19Z"
},
{
"tag": "v0.4.4a",
"kind": "other",
"published_at": "2022-06-29T09:33:36Z"
},
{
"tag": "v0.4.3",
"kind": "patch",
"published_at": "2022-04-14T08:03:45Z"
},
{
"tag": "v0.4.3a",
"kind": "other",
"published_at": "2021-11-26T15:27:29Z"
},
{
"tag": "v0.4.2",
"kind": "patch",
"published_at": "2021-09-07T09:11:03Z"
},
{
"tag": "v0.4.1",
"kind": "patch",
"published_at": "2021-03-10T15:59:18Z"
},
{
"tag": "v0.4.1c",
"kind": "other",
"published_at": "2021-01-15T14:15:41Z"
},
{
"tag": "v0.4.1b",
"kind": "other",
"published_at": "2021-01-06T22:28:22Z"
},
{
"tag": "v0.4.1a",
"kind": "other",
"published_at": "2020-08-24T14:02:02Z"
},
{
"tag": "v0.4.0",
"kind": "minor",
"published_at": "2020-03-10T13:23:51Z"
},
{
"tag": "v0.4.0a",
"kind": "other",
"published_at": "2020-02-05T21:22:20Z"
},
{
"tag": "v0.3.1",
"kind": "patch",
"published_at": "2019-10-02T15:24:10Z"
},
{
"tag": "v0.3.1a",
"kind": "other",
"published_at": "2019-06-17T12:37:46Z"
},
{
"tag": "v0.3.0",
"kind": "minor",
"published_at": "2019-04-29T09:20:27Z"
},
{
"tag": "v0.3.0a",
"kind": "other",
"published_at": "2018-09-21T14:24:41Z"
},
{
"tag": "v0.2.11",
"kind": "patch",
"published_at": "2018-08-02T14:16:16Z"
},
{
"tag": "v0.2.11a",
"kind": "other",
"published_at": "2018-05-07T14:33:56Z"
},
{
"tag": "v0.2.10",
"kind": "patch",
"published_at": "2018-04-10T12:47:52Z"
},
{
"tag": "v0.2.10c",
"kind": "other",
"published_at": "2018-03-26T09:56:51Z"
},
{
"tag": "v0.2.10b",
"kind": "other",
"published_at": "2018-03-14T10:50:16Z"
},
{
"tag": "v0.2.10a",
"kind": "other",
"published_at": "2018-03-12T09:24:06Z"
},
{
"tag": "v0.2.9",
"kind": "patch",
"published_at": "2018-03-08T13:01:39Z"
},
{
"tag": "v0.2.8b",
"kind": "other",
"published_at": "2018-03-02T13:30:00Z"
},
{
"tag": "v0.2.7",
"kind": "patch",
"published_at": "2018-02-02T09:15:01Z"
},
{
"tag": "v0.2.7b",
"kind": "other",
"published_at": "2018-01-23T13:53:49Z"
},
{
"tag": "v0.2.6",
"kind": "patch",
"published_at": "2018-01-09T13:07:53Z"
},
{
"tag": "v0.2.5",
"kind": "patch",
"published_at": "2018-01-08T17:11:36Z"
},
{
"tag": "v0.2.4",
"kind": "patch",
"published_at": "2017-11-06T10:30:31Z"
},
{
"tag": "v0.2.3",
"kind": "patch",
"published_at": "2017-09-06T07:26:33Z"
},
{
"tag": "v0.2.2",
"kind": "patch",
"published_at": "2017-07-03T12:08:40Z"
},
{
"tag": "v0.2.1",
"kind": "patch",
"published_at": "2017-06-09T13:11:02Z"
},
{
"tag": "v0.2.0",
"kind": "minor",
"published_at": "2017-04-25T12:25:55Z"
},
{
"tag": "v0.1.14-b",
"kind": "prerelease",
"published_at": "2017-04-04T09:34:03Z"
},
{
"tag": "v0.1.14-a",
"kind": "prerelease",
"published_at": "2017-03-31T12:59:26Z"
},
{
"tag": "v0.1.13",
"kind": "patch",
"published_at": "2017-03-10T15:41:05Z"
},
{
"tag": "v0.1.12",
"kind": "patch",
"published_at": "2017-03-01T08:51:39Z"
},
{
"tag": "v0.1.11",
"kind": "patch",
"published_at": "2017-02-22T11:12:47Z"
},
{
"tag": "v0.1.10",
"kind": "patch",
"published_at": "2017-02-17T13:48:35Z"
},
{
"tag": "v0.1.10-alpha",
"kind": "prerelease",
"published_at": "2017-02-16T15:56:25Z"
},
{
"tag": "v0.1.9",
"kind": "patch",
"published_at": "2017-02-13T12:04:11Z"
},
{
"tag": "v0.1.8",
"kind": "patch",
"published_at": "2017-01-30T16:01:54Z"
},
{
"tag": "v0.1.7",
"kind": "patch",
"published_at": "2017-01-13T15:47:27Z"
},
{
"tag": "v0.1.6",
"kind": "patch",
"published_at": "2016-12-12T09:15:16Z"
},
{
"tag": "v0.1.5",
"kind": "patch",
"published_at": "2016-12-08T17:00:40Z"
},
{
"tag": "v0.1.4",
"kind": "patch",
"published_at": "2016-11-29T14:47:58Z"
},
{
"tag": "v0.1.3",
"kind": "patch",
"published_at": "2016-11-09T12:45:46Z"
},
{
"tag": "v0.1.2",
"kind": "patch",
"published_at": "2016-10-31T10:02:23Z"
},
{
"tag": "v0.1.1",
"kind": "patch",
"published_at": "2016-10-05T13:14:53Z"
},
{
"tag": "v0.1.0",
"kind": "minor",
"published_at": "2016-10-05T12:08:53Z"
}
],
"recent_commits": [
{
"oid": "8ce3ce6eb5b14261b0be7ed2b1b02bcf22dfc305",
"body": "…pecial character #29",
"is_bot": false,
"headline": "Updated newick Parser to support quoted tip names containing newick s…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-06-30T07:47:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d066f5cdf0b8e29358cced433ccc0717387adb7d",
"body": null,
"is_bot": false,
"headline": "Merge branch 'master' into dev",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-06-30T07:24:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7e072fdb388fa41565d355507e804a016f1a2f08",
"body": "fix: correct Unkown->Unknown typo in error messages",
"is_bot": false,
"headline": "Merge pull request #31 from Jah-yee/master",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-06-30T07:23:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "847f5273122605c56adf48e134416ac2aed1b439",
"body": null,
"is_bot": false,
"headline": "fix: correct Unkown->Unknown typo in error messages",
"author_name": "Jah-yee",
"author_login": "Jah-yee",
"committed_at": "2026-06-30T05:52:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e0a02020f1e53a1ca2492ea093c2ed09ad52cd9b",
"body": "…n --outtipfile",
"is_bot": false,
"headline": "Added information on pruned tips as output of gotree prune with optio…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-06-11T12:07:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "01ea5a156df826751597bbe82a914875103b8665",
"body": "… change",
"is_bot": false,
"headline": "Added option --tip to brlen set: to select a unique extrnal branch to…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-06-10T10:55:06Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d7c541e5dd0d3adf98fe25bf958fa5047245a9ca",
"body": null,
"is_bot": false,
"headline": "Merge branch 'master' into tipneigbor",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-04-02T14:30:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "83cca67fdcf64af47f6f3318d3eebdcb417d45a4",
"body": null,
"is_bot": false,
"headline": "Corrected part of a bug in radial tree drawing #25",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-04-02T14:25:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "da6636167067bcfed93bd8814a2f6cf45b1890ea",
"body": null,
"is_bot": false,
"headline": "Merged master",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-27T13:27:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "752734de4534beca5a96146a90383a5b6649408e",
"body": null,
"is_bot": false,
"headline": "Added option --tip to gotree compare neighborhood",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-26T16:00:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ce5c3df83e07a220b4597ea4a97ee4bb226f456a",
"body": null,
"is_bot": false,
"headline": "Moved sort.go to sliceutils package",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-26T14:04:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9752a3d8f17096a7b0a44f765ed4070272738422",
"body": null,
"is_bot": false,
"headline": "Added test for gotree compare neighborhood",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-26T14:03:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8ab52855d08ba1567e62534a45be036da9eb32e0",
"body": null,
"is_bot": false,
"headline": "Added -m metric option to gotree compare neighborhood + documentation",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-26T08:40:42Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b4ef53cb666bf1bde0371104117f8318309d8d3c",
"body": null,
"is_bot": false,
"headline": "Add some tips functions",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-25T10:33:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4e3bb123d481138c061fdfe9497c1b2a69d98a0d",
"body": "…-functionalities\n\nUpdate README.md to reflect current functionalities",
"is_bot": false,
"headline": "Merge pull request #28 from evolbioinfo/copilot/update-readme-reflect…",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-13T16:38:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6382c3b3990d59978ea4b9d48d7d2ce6f557697d",
"body": null,
"is_bot": false,
"headline": "Update README.md",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-13T16:35:50Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "747998d197cdcd39b5d407838fac250029bf7668",
"body": null,
"is_bot": false,
"headline": "Update README.md",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-13T16:35:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "50c8109c0117a8656303bcb4a7508ef9773ba0c4",
"body": null,
"is_bot": false,
"headline": "Update README.md",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-13T16:35:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "49dc32de471437be4d60e89701745823bfc6ab6b",
"body": "Co-authored-by: fredericlemoine <16349382+fredericlemoine@users.noreply.github.com>",
"is_bot": true,
"headline": "Update README.md to reflect current functionalities",
"author_name": "copilot-swe-agent[bot]",
"author_login": "Copilot",
"committed_at": "2026-03-13T16:18:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "83349089033077482e4a04fdbec89679f19235e2",
"body": null,
"is_bot": true,
"headline": "Initial plan",
"author_name": "copilot-swe-agent[bot]",
"author_login": "Copilot",
"committed_at": "2026-03-13T16:12:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "13dffc07e076d1c71cac53bdb5c8f8ad59bfb4b2",
"body": "…rsity-option\n\ndocs: add `--diversity` flag to `gotree prune` docs and generate example SVGs",
"is_bot": false,
"headline": "Merge pull request #27 from evolbioinfo/copilot/add-gotree-prune-dive…",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-03-13T16:08:14Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f2ee59d52e976a9e49d84f272d29f68e79a41db0",
"body": "Co-authored-by: fredericlemoine <16349382+fredericlemoine@users.noreply.github.com>",
"is_bot": true,
"headline": "docs: generate prune_8.svg and prune_9.svg for diversity example",
"author_name": "copilot-swe-agent[bot]",
"author_login": "Copilot",
"committed_at": "2026-03-13T12:44:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c16fc05255ee267ced154bb482d62a272bed3c35",
"body": "Co-authored-by: fredericlemoine <16349382+fredericlemoine@users.noreply.github.com>",
"is_bot": true,
"headline": "docs: add --diversity option to gotree prune documentation",
"author_name": "copilot-swe-agent[bot]",
"author_login": "Copilot",
"committed_at": "2026-03-13T12:36:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cda92134c89bd5ac99aaca97de66839d1cffd00d",
"body": null,
"is_bot": true,
"headline": "Initial plan",
"author_name": "copilot-swe-agent[bot]",
"author_login": "Copilot",
"committed_at": "2026-03-13T12:33:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1f633c37a2d5db24161837e511669a74a03fb0b8",
"body": "…roach",
"is_bot": false,
"headline": "Upudated random number generator with seed: using the recommended app…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2026-01-09T17:42:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e576594639bbc5b8b161e090b84ae3a1b0170804",
"body": null,
"is_bot": false,
"headline": "Temporary setting to revert to old random seed handling",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T20:32:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "47f9aaefbb75438ba53186af838505706e13e9ed",
"body": null,
"is_bot": false,
"headline": "Updated to go 1.24.11",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T15:00:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0209ac631ce1999733abc0288ed7a130c0253b85",
"body": null,
"is_bot": false,
"headline": "Updated README",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T10:02:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9dd0d07b2f3bae130850715de7f55d04b960e3e4",
"body": null,
"is_bot": false,
"headline": "Updated README",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T10:01:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3e6b5c9f7fd289e2f93d10a08f2d970f835ab3a3",
"body": null,
"is_bot": false,
"headline": "Corrected conda badge",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T10:00:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a7fc2be39a5710c2c51a3e06edff88332971d3ff",
"body": null,
"is_bot": false,
"headline": "Updated conda badge",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-11T09:58:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "879a68baaf1808e63e0ada54831fba6131ac7bfe",
"body": null,
"is_bot": false,
"headline": "Parse confidence value from nextstrain tree",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-12-06T22:14:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "40ae0312eb25c9467def7b852ce459715d71411a",
"body": null,
"is_bot": false,
"headline": "Optimized update of the closest tip pairs in prune --diversity --random",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-10-22T17:29:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ad827fed30ab316d8fe6acb3d2843b98f69abc8c",
"body": "…rsity",
"is_bot": false,
"headline": "Added tree pruning keeping diversity gotree prune --random <x> --dive…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-10-22T15:53:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "42685fa03b646356cfe6d743ad34b6c32ff9c6df",
"body": "…nodes",
"is_bot": false,
"headline": "Added Closest Tips information (from each node+tips) in gotree stats …",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-10-22T11:57:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fe655a1d10e4984290a8d9d392a1203a277db740",
"body": null,
"is_bot": false,
"headline": "Updated logo",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-10-09T08:05:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "774366bd09c82c9497b7e35c952ee2eadce85703",
"body": null,
"is_bot": false,
"headline": "Added option --rooted to gotree resolve",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-07-09T15:18:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ad36c89db283c22e57fa08028a8ba9073b409ca1",
"body": null,
"is_bot": false,
"headline": "Added lines for rates in gotree rtt",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-07-09T13:11:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "344555820752eb3a589a66ebc41db08fa8332be5",
"body": null,
"is_bot": false,
"headline": "Updated rtt to plot internal nodes and tips with different colors",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-07-09T10:50:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0a833f3b6c63ad1e025ed97db6571564e02fec3e",
"body": "- updated the date parsing function to work with yyy-mm-dd dates",
"is_bot": false,
"headline": "- Added option to gotree rtt for selecting tips only",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-07-08T17:05:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a9b778702cbc3b08a4eae01cfc149e33e5bf446d",
"body": null,
"is_bot": false,
"headline": "Added rtt command",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-07-03T08:51:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fd00168e4a39916375acaa40f684108509ec5ab8",
"body": null,
"is_bot": false,
"headline": "Updated date parsing",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-06-25T16:04:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e2bf76bc7820ebda891d4508a2058e798e08cf8e",
"body": "…d postOrderRecur",
"is_bot": false,
"headline": "Added option --subtrees to gotree annotate + updated preOrderRecur an…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-06-05T12:08:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a0ef8849bde0449763d552d5406f58e1bf1f7477",
"body": null,
"is_bot": false,
"headline": "Corrected reroot outgroup with a 0 length branch",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2025-05-09T16:29:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a631422dbed3e92c91a1b27c2f8e3a24dfbc63f7",
"body": null,
"is_bot": false,
"headline": "Added doc + test",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-09-26T19:44:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bdbd8f1fb4f01a6dbef13a2a97530f95011bd1ba",
"body": null,
"is_bot": false,
"headline": "Renamed gotree prune date to cut date",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-09-26T19:17:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de3a2f0cba1706eb75d6e620a35224fc729be183",
"body": null,
"is_bot": false,
"headline": "Added max-date to gotree prune date",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-09-26T19:11:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "69fcc189c6eba071f6e2e255f49befe6f596f903",
"body": null,
"is_bot": false,
"headline": "Added cut min date command (gotree prune date --min-date)",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-09-26T17:38:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1b3333276c155191877693d4e5501f4d7783d5b2",
"body": null,
"is_bot": false,
"headline": "Moved dates functions",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-09-26T15:10:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7dfcea6fb113c06ead381e17532225d3318f55e3",
"body": null,
"is_bot": false,
"headline": "Merge branch 'master' of github.com:fredericlemoine/gotree",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-07-04T11:59:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "56d00aab23f035142481446c97b1b5fa00e65910",
"body": "Use a shebang to enforce running test.sh in bash",
"is_bot": false,
"headline": "Merge pull request #24 from krtab/shebang",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-04-29T11:48:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f44057354b2cc75e3e569244ff2920203eb51acf",
"body": "Commit b959a7f3eccdebda804206232a37f1d651f5dd5c was made because\n`test.sh` cannot run on systems where the default shell is not bash\ncompatible (e.g. zsh). (cf https://github.com/evolbioinfo/gotree/pull/23)\n\nA [shebang](https://en.wikipedia.org/wiki/Shebang_(Unix)) allows to\nforce the use of bash to interpret the shell script. This version\nusing `/usr/bin/env` should be the most portable.",
"is_bot": false,
"headline": "Use a shebang to enforce running test.sh in bash",
"author_name": "Arthur Carcano",
"author_login": "krtab",
"committed_at": "2024-04-29T08:06:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c8ec0e01417400a2d1a0ec8abcb064693a8a7450",
"body": "Fixing newick parsing",
"is_bot": false,
"headline": "Merge pull request #23 from lucblassel/trailing_whitespace",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-04-29T07:13:46Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b959a7f3eccdebda804206232a37f1d651f5dd5c",
"body": null,
"is_bot": false,
"headline": "Specifying bash as test.sh language",
"author_name": "Luc Blassel",
"author_login": "lucblassel",
"committed_at": "2024-04-28T09:40:24Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9f0bbccb9b4cd4693e1c70e3a4ae90fc222ce863",
"body": null,
"is_bot": false,
"headline": "Fixing newick parsing to accepts trailing whitespace after semicolon",
"author_name": "Luc Blassel",
"author_login": "lucblassel",
"committed_at": "2024-04-28T09:37:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b324e738b1ac3e3bb1945f50fb40132a9fbc2b5b",
"body": null,
"is_bot": false,
"headline": "Added options min-len and max-len to gotree brlen setrand",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-02-26T22:28:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "df34e913b4917e0a41a02bb491d8d66de32df979",
"body": null,
"is_bot": false,
"headline": "Corrected equal min dist branches in transfer index",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-02-08T16:14:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d6c626874c559d93c306d5456aee1a01c6b740a8",
"body": null,
"is_bot": false,
"headline": "Added --terminal option to comment comment clear",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-02-08T13:49:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8907260e4c8dcd1d05837bed784ea03552ebcd33",
"body": null,
"is_bot": false,
"headline": "Updated README",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-01-23T13:34:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4ded0776cdcec88cd534111963802c54a780b161",
"body": null,
"is_bot": false,
"headline": "Updated go to 1.21.6",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-01-18T15:24:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6b21f2da063df024311a5e6b0122e4d24c837a27",
"body": null,
"is_bot": false,
"headline": "Added missing file for option --eems",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-01-16T09:24:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b1a0a7146c8de242a3471fd8ccb47e5e0b9c3608",
"body": null,
"is_bot": false,
"headline": "Corrected output of compute mutations --eem",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-01-15T22:57:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "72dcae63e87b12dcd94391f03d8bc218b8afd102",
"body": null,
"is_bot": false,
"headline": "Added option --eems to goalign compute mutations",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2024-01-15T22:53:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7794869d6c5b00429ed52320f0d554f535f88915",
"body": null,
"is_bot": false,
"headline": "Added option --avg to gotree matrix",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-12-19T15:48:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8ba91256ec5a2f98fd2f8cc80904f4df998a2761",
"body": "…tations",
"is_bot": false,
"headline": "gotree ltt takes node dates from the tree if present, otherwise in mu…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-30T15:21:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6e5bc94a1f907cc9a7fce43b03cae1f9b4caac51",
"body": null,
"is_bot": false,
"headline": "Remove debug",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-30T15:19:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dcc8ecad99d2a2310ee9f2e25593ad7f55e96887",
"body": null,
"is_bot": false,
"headline": "Corrected gotree brlen add parameter name",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-29T15:28:16Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "48b98ab9ce78ca304df84c6a94cc5fa51ef950c3",
"body": null,
"is_bot": false,
"headline": "Added gotree brlen add command",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-29T15:27:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e903d370c0dfd5c72fc454c388e6ba73fc8d88b0",
"body": null,
"is_bot": false,
"headline": "Added ltt test",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-28T16:05:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4b435e03559aa29c3d3d8bb1b97d0a098ee9e780",
"body": null,
"is_bot": false,
"headline": "Updated README",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-28T15:57:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6d8d3780462087df625c6c89091d0aa91549b333",
"body": null,
"is_bot": false,
"headline": "Updated doc for gotree ltt",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-28T15:31:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8024b9625cd90d43bda1d9cadb38e62933472039",
"body": null,
"is_bot": false,
"headline": "Corrected ltt plot",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-28T15:31:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4eb6d87fe3536ba6af54986d5507445cb1d9c9b0",
"body": "…plot",
"is_bot": false,
"headline": "Added command gotree ltt : write lineage through time data, and draw …",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-28T14:56:25Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "37b384c43c9caa9041c008d0656717859307fef6",
"body": null,
"is_bot": false,
"headline": "Deduplicated same x lab points in gotree ltt",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-21T11:15:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "52f0d9fe9007f7227a3d3fb50009de8039a475fc",
"body": null,
"is_bot": false,
"headline": "Added ltt command",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-21T10:49:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9216c7b59efcaea45f9fc84f04810298e8930312",
"body": null,
"is_bot": false,
"headline": "Updated gotree collapse name doc",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-13T10:39:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "de95a71314a6806abec6644a64861971a52b6c52",
"body": null,
"is_bot": false,
"headline": "Merge branch 'master' into dev",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-12T15:28:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0b9f8fa0a45d2498011ff47afd0801802bee401e",
"body": null,
"is_bot": false,
"headline": "Added command : gotree collapse name",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-11-12T15:27:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "753a65f4fd977d03e6f777a818983d172328b98c",
"body": "… tip names #9",
"is_bot": false,
"headline": "Reverted support for quotes in comments, because of pb with quotes in…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-10-04T15:40:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c7e2aa160735f39e290450cf11f4ee0a415159d5",
"body": null,
"is_bot": false,
"headline": "Updated newick parser to allow ';' in comments",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-09-14T12:38:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b7837b643e8136617289f863710fcf756890b7a1",
"body": "…uotes",
"is_bot": false,
"headline": "Updated parser to take into account comments enclosed within single q…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-09-13T09:35:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "76f7e3981d033877e71a4ee2683b00951d703bfe",
"body": null,
"is_bot": false,
"headline": "Added command : gotree extract mutations",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-09-06T14:21:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "46057ab0dfaabce8217e0dc8f80fa5c30297963e",
"body": null,
"is_bot": false,
"headline": "Updated doc",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-31T15:03:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "55e4727dd1beba20b3c9a543c1306707f89b982c",
"body": null,
"is_bot": false,
"headline": "Updated +golang.org/x/sys",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-31T14:52:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ac4c61dc7ff0afbb694ab4cf4ee03062733ce8a9",
"body": null,
"is_bot": false,
"headline": "Updated +golang.org/x/image",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-31T14:49:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a61803bb4eecd504ec35f1594fa44253be79bbb2",
"body": "…i has been modified: Tree functions have been updated",
"is_bot": false,
"headline": "Added options --internal / --external to gotree brlen subcommands. ap…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-31T14:43:44Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a77e6775ba1f61d8c951072e32712eac6f6df76c",
"body": null,
"is_bot": false,
"headline": "Added the test described in #20 (by @lucblassel )",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-24T21:19:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9404121b428bf7987ae8fe75020319bb99f0a2c2",
"body": "Adding branch length aware metrics to `gotree compare trees`",
"is_bot": false,
"headline": "Merge pull request #20 from lucblassel/master",
"author_name": "fredericlemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-24T21:10:26Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "17b4a0c49078318c04229e0ab577a9b244732070",
"body": null,
"is_bot": false,
"headline": "Adding weighted to compare trees command doc",
"author_name": "Luc Blassel",
"author_login": "lucblassel",
"committed_at": "2023-05-24T18:18:56Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "16bb1aed47fd01b45169bc67bb42e28371a44349",
"body": "… trees`",
"is_bot": false,
"headline": "Adding branch-length aware tree comparison metrics to `gotree compare…",
"author_name": "Luc Blassel",
"author_login": "lucblassel",
"committed_at": "2023-05-24T18:11:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "287cf3370bc133bef16cf1383ecb5c3a96450a68",
"body": "…umeric order)",
"is_bot": false,
"headline": "gotree matrix now outputs matrices with always the same order (alphan…",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-05-24T14:23:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1b5691f7885e94f4a7226d32eabf663c59124833",
"body": null,
"is_bot": false,
"headline": "Updated gotree matrix --metric boot to consider tip branches",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-04-13T16:33:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "26ea287f5520a622168c4d469a9dc325b01ad530",
"body": null,
"is_bot": false,
"headline": "Added option --metric to 'gotree matrix' command",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-04-13T12:44:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4fb145be26f38ec0c79188dda9316fedff9c4f5e",
"body": null,
"is_bot": false,
"headline": "Corrected tindex computation for very distant bootstrap trees",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-02-14T15:04:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "65824c184df7d62a3210335aa9ae5a259ea18278",
"body": null,
"is_bot": false,
"headline": "removed test temp file",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-01-12T10:11:34Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "26c8903c0d97e5f96d7c63dfc9e564fe7a66de24",
"body": null,
"is_bot": false,
"headline": "Removed cpuprof file",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-01-12T10:10:47Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2a6c6e350b3565dafc639f367c67f4b62904a69f",
"body": null,
"is_bot": false,
"headline": "Merge Makefile",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-01-12T10:05:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3d3716b2a7bc1d7396460159499aac43d9d2f3e4",
"body": null,
"is_bot": false,
"headline": "Modified bin names in deploy",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-01-12T09:58:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e71b949028e0444a064b34f5786316d675166c8f",
"body": null,
"is_bot": false,
"headline": "Updated Makefile",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2023-01-02T12:22:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8eed8eb08920fd9574ee37886083a38a7620d842",
"body": null,
"is_bot": false,
"headline": "Updated Makefile",
"author_name": "Frederic Lemoine",
"author_login": "fredericlemoine",
"committed_at": "2022-12-09T11:17:06Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 53,
"commits_last_year": 36,
"latest_release_at": "2026-07-15T15:30:34Z",
"latest_release_tag": "v0.5.2",
"releases_from_tags": false,
"days_since_last_push": 7,
"active_weeks_last_year": 10,
"days_since_latest_release": 6,
"mean_days_between_releases": 217
},
"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": [
{
"name": "github.com/evolbioinfo/gotree",
"exists": true,
"license": null,
"keywords": [],
"ecosystem": "go",
"matches_repo": true,
"registry_url": "https://pkg.go.dev/github.com/evolbioinfo/gotree",
"is_deprecated": false,
"latest_version": "v0.5.2",
"repository_url": "https://github.com/evolbioinfo/gotree",
"versions_count": 40,
"total_downloads": null,
"dependents_count": null,
"deprecation_note": null,
"maintainers_count": null,
"monthly_downloads": null,
"first_published_at": null,
"latest_published_at": "2026-06-30T07:47:09Z",
"latest_version_yanked": null,
"days_since_latest_publish": 22
}
]
},
"popularity": {
"forks": 19,
"stars": 150,
"watchers": 11,
"fork_history": {
"days": [
{
"date": "2018-12-10",
"count": 1
},
{
"date": "2018-12-16",
"count": 1
},
{
"date": "2019-04-04",
"count": 1
},
{
"date": "2020-04-07",
"count": 1
},
{
"date": "2021-01-27",
"count": 2
},
{
"date": "2021-03-08",
"count": 1
},
{
"date": "2021-10-28",
"count": 1
},
{
"date": "2021-12-03",
"count": 1
},
{
"date": "2022-04-28",
"count": 1
},
{
"date": "2022-05-24",
"count": 1
},
{
"date": "2022-05-26",
"count": 1
},
{
"date": "2022-12-05",
"count": 1
},
{
"date": "2023-09-26",
"count": 1
},
{
"date": "2024-04-29",
"count": 1
},
{
"date": "2024-11-05",
"count": 1
},
{
"date": "2026-04-14",
"count": 1
},
{
"date": "2026-04-22",
"count": 1
},
{
"date": "2026-06-30",
"count": 1
}
],
"complete": true,
"collected": 19,
"total_forks": 19
},
"star_history": null,
"open_issues_and_prs": 2
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [],
"has_llms_txt": false,
"has_dockerfile": false,
"has_mcp_signal": false,
"bootstrap_files": [
"Makefile"
],
"api_schema_files": [],
"has_devcontainer": false,
"typecheck_configs": [],
"toolchain_manifests": [
"go.mod"
],
"largest_source_bytes": 61630,
"source_files_sampled": 180,
"oversized_source_files": 1,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [
"go.mod"
],
"advisories": {
"error": null,
"scope": "repository_graph",
"source": "osv",
"findings": [
{
"name": "golang.org/x/image",
"direct": true,
"version": "v0.11.0",
"severity": "high",
"ecosystem": "go",
"cvss_score": 7.5,
"advisory_ids": [
"GHSA-44p7-9xx4-hf2g",
"GHSA-9phm-fm57-rhg8",
"GHSA-q675-qj96-32m9",
"GO-2024-2937",
"GO-2026-4815",
"GO-2026-4961",
"GO-2026-4962",
"GO-2026-5031",
"GO-2026-5032",
"GO-2026-5061"
],
"fixed_version": "0.43.0",
"advisory_count": 12,
"oldest_advisory_days": 756
},
{
"name": "github.com/ulikunitz/xz",
"direct": false,
"version": "v0.5.10",
"severity": "moderate",
"ecosystem": "go",
"cvss_score": 5.3,
"advisory_ids": [
"GHSA-jc7w-c686-c4v9",
"GO-2025-3922"
],
"fixed_version": "0.5.15",
"advisory_count": 2,
"oldest_advisory_days": 327
},
{
"name": "golang.org/x/sys",
"direct": false,
"version": "v0.11.0",
"severity": "unknown",
"ecosystem": "go",
"cvss_score": null,
"advisory_ids": [
"GO-2026-5024"
],
"fixed_version": "0.44.0",
"advisory_count": 1,
"oldest_advisory_days": 60
},
{
"name": "golang.org/x/text",
"direct": false,
"version": "v0.12.0",
"severity": "unknown",
"ecosystem": "go",
"cvss_score": null,
"advisory_ids": [
"GO-2026-5970"
],
"fixed_version": "0.39.0",
"advisory_count": 1,
"oldest_advisory_days": 7
}
],
"collected": true,
"malicious": [],
"truncated": false,
"by_severity": {
"high": 1,
"unknown": 2,
"moderate": 1
},
"advisory_count": 16,
"affected_count": 4,
"assessed_count": 39,
"malicious_count": 0,
"assessed_package": null,
"unassessed_count": 0,
"direct_affected_count": 1
},
"ecosystems": [
"go"
],
"dependencies": [
{
"name": "github.com/ajstarks/svgo",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.0.0-20211024235047-1546f124cd8b"
},
{
"name": "github.com/evolbioinfo/goalign",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.3.7-0.20230906113011-fcecb09f9d43"
},
{
"name": "github.com/fredericlemoine/bitset",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v1.2.0"
},
{
"name": "github.com/fredericlemoine/cobrashell",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.0.0-20180921081141-49c72f93426c"
},
{
"name": "github.com/fredericlemoine/gostats",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.2.0"
},
{
"name": "github.com/golang/freetype",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.0.0-20170609003504-e2365dfdc4a0"
},
{
"name": "github.com/jlaffaye/ftp",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.0.0-20210307004419-5d4190119067"
},
{
"name": "github.com/llgcode/draw2d",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.0.0-20210313082411-577c1ead272a"
},
{
"name": "github.com/spf13/cobra",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v1.5.0"
},
{
"name": "golang.org/x/image",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.11.0"
},
{
"name": "gonum.org/v1/plot",
"manifest": "go.mod",
"ecosystem": "go",
"version_constraint": "v0.14.0"
}
],
"all_dependencies": {
"error": null,
"source": "github-sbom",
"packages": [
{
"name": "github.com/ajstarks/svgo",
"direct": true,
"version": "v0.0.0-20211024235047-1546f124cd8b",
"ecosystem": "go"
},
{
"name": "github.com/evolbioinfo/goalign",
"direct": true,
"version": "v0.3.7-0.20230906113011-fcecb09f9d43",
"ecosystem": "go"
},
{
"name": "github.com/fredericlemoine/bitset",
"direct": true,
"version": "v1.2.0",
"ecosystem": "go"
},
{
"name": "github.com/fredericlemoine/cobrashell",
"direct": true,
"version": "v0.0.0-20180921081141-49c72f93426c",
"ecosystem": "go"
},
{
"name": "github.com/fredericlemoine/gostats",
"direct": true,
"version": "v0.2.0",
"ecosystem": "go"
},
{
"name": "github.com/golang/freetype",
"direct": true,
"version": "v0.0.0-20170609003504-e2365dfdc4a0",
"ecosystem": "go"
},
{
"name": "github.com/jlaffaye/ftp",
"direct": true,
"version": "v0.0.0-20210307004419-5d4190119067",
"ecosystem": "go"
},
{
"name": "github.com/llgcode/draw2d",
"direct": true,
"version": "v0.0.0-20210313082411-577c1ead272a",
"ecosystem": "go"
},
{
"name": "github.com/spf13/cobra",
"direct": true,
"version": "v1.5.0",
"ecosystem": "go"
},
{
"name": "golang.org/x/image",
"direct": true,
"version": "v0.11.0",
"ecosystem": "go"
},
{
"name": "gonum.org/v1/plot",
"direct": true,
"version": "v0.14.0",
"ecosystem": "go"
},
{
"name": "gioui.org",
"direct": false,
"version": "v0.2.0",
"ecosystem": "go"
},
{
"name": "gioui.org/cpu",
"direct": false,
"version": "v0.0.0-20220412190645-f1e9e8c3b1f7",
"ecosystem": "go"
},
{
"name": "gioui.org/shader",
"direct": false,
"version": "v1.0.6",
"ecosystem": "go"
},
{
"name": "gioui.org/x",
"direct": false,
"version": "v0.2.0",
"ecosystem": "go"
},
{
"name": "git.sr.ht/~sbinet/gg",
"direct": false,
"version": "v0.5.0",
"ecosystem": "go"
},
{
"name": "github.com/abiosoft/ishell",
"direct": false,
"version": "v2.0.0+incompatible",
"ecosystem": "go"
},
{
"name": "github.com/abiosoft/readline",
"direct": false,
"version": "v0.0.0-20180607040430-155bce2042db",
"ecosystem": "go"
},
{
"name": "github.com/andybalholm/stroke",
"direct": false,
"version": "v0.0.0-20221221101821-bd29b49d73f0",
"ecosystem": "go"
},
{
"name": "github.com/armon/go-radix",
"direct": false,
"version": "v1.0.0",
"ecosystem": "go"
},
{
"name": "github.com/campoy/embedmd",
"direct": false,
"version": "v1.0.0",
"ecosystem": "go"
},
{
"name": "github.com/fatih/color",
"direct": false,
"version": "v1.10.0",
"ecosystem": "go"
},
{
"name": "github.com/flynn-archive/go-shlex",
"direct": false,
"version": "v0.0.0-20150515145356-3f9db97f8568",
"ecosystem": "go"
},
{
"name": "github.com/go-fonts/liberation",
"direct": false,
"version": "v0.3.1",
"ecosystem": "go"
},
{
"name": "github.com/go-latex/latex",
"direct": false,
"version": "v0.0.0-20230307184459-12ec69307ad9",
"ecosystem": "go"
},
{
"name": "github.com/go-pdf/fpdf",
"direct": false,
"version": "v0.8.0",
"ecosystem": "go"
},
{
"name": "github.com/go-text/typesetting",
"direct": false,
"version": "v0.0.0-20230803102845-24e03d8b5372",
"ecosystem": "go"
},
{
"name": "github.com/inconshreveable/mousetrap",
"direct": false,
"version": "v1.0.1",
"ecosystem": "go"
},
{
"name": "github.com/mattn/go-colorable",
"direct": false,
"version": "v0.1.8",
"ecosystem": "go"
},
{
"name": "github.com/mattn/go-isatty",
"direct": false,
"version": "v0.0.12",
"ecosystem": "go"
},
{
"name": "github.com/pmezard/go-difflib",
"direct": false,
"version": "v1.0.0",
"ecosystem": "go"
},
{
"name": "github.com/spf13/pflag",
"direct": false,
"version": "v1.0.5",
"ecosystem": "go"
},
{
"name": "github.com/ulikunitz/xz",
"direct": false,
"version": "v0.5.10",
"ecosystem": "go"
},
{
"name": "golang.org/x/exp",
"direct": false,
"version": "v0.0.0-20230801115018-d63ba01acd4b",
"ecosystem": "go"
},
{
"name": "golang.org/x/exp/shiny",
"direct": false,
"version": "v0.0.0-20230801115018-d63ba01acd4b",
"ecosystem": "go"
},
{
"name": "golang.org/x/sys",
"direct": false,
"version": "v0.11.0",
"ecosystem": "go"
},
{
"name": "golang.org/x/text",
"direct": false,
"version": "v0.12.0",
"ecosystem": "go"
},
{
"name": "gonum.org/v1/gonum",
"direct": false,
"version": "v0.14.0",
"ecosystem": "go"
},
{
"name": "rsc.io/pdf",
"direct": false,
"version": "v0.1.1",
"ecosystem": "go"
}
],
"collected": true,
"truncated": false,
"total_count": 39,
"direct_count": 11,
"indirect_count": 28
}
},
"maintainership": {
"issues": {
"open_prs": 0,
"merged_prs": 9,
"open_issues": 2,
"closed_ratio": 0.905,
"closed_issues": 19,
"closed_unmerged_prs": 0
},
"bus_factor": 1,
"bot_contributors": 1,
"top_contributors": [
{
"type": "User",
"login": "fredericlemoine",
"commits": 818,
"avatar_url": "https://avatars.githubusercontent.com/u/16349382?v=4"
},
{
"type": "User",
"login": "lucblassel",
"commits": 9,
"avatar_url": "https://avatars.githubusercontent.com/u/30524113?v=4"
},
{
"type": "User",
"login": "albertyw",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/3151040?v=4"
},
{
"type": "User",
"login": "krtab",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/53921575?v=4"
},
{
"type": "User",
"login": "Jah-yee",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/166608075?v=4"
}
],
"contributors_sampled": 5,
"top_contributor_share": 0.986
},
"quality_signals": {
"has_ci": true,
"has_tests": true,
"ci_workflows": [
"go.yml"
],
"has_docs_dir": true,
"linter_configs": [],
"has_editorconfig": false,
"has_linter_config": false,
"has_precommit_config": false
},
"security_signals": {
"lockfiles": [
"go.sum"
],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 10,
"reason": "no binaries found in the repo",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
},
{
"name": "Branch-Protection",
"score": null,
"reason": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
},
{
"name": "CI-Tests",
"score": 10,
"reason": "3 out of 3 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": 0,
"reason": "Found 1/19 approved changesets -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 6,
"reason": "project has 2 contributing companies or organizations -- score normalized to 6",
"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": 5,
"reason": "6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5",
"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": 0,
"reason": "Project has not signed or included provenance with any releases.",
"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": 0,
"reason": "12 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "8ce3ce6eb5b14261b0be7ed2b1b02bcf22dfc305",
"ran_at": "2026-07-22T15:26:42Z",
"aggregate_score": 3,
"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": "2026-07-03T15:23:46Z",
"oldest_open_prs": [],
"last_merged_pr_at": "2026-06-30T07:23:04Z",
"ci_last_conclusion": "SUCCESS",
"oldest_open_issues": [
{
"number": 18,
"created_at": "2022-03-14T03:00:34Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 25,
"created_at": "2024-05-30T13:12:15Z",
"last_comment_at": null,
"last_comment_author": null
}
]
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/evolbioinfo/gotree",
"host": "github.com",
"name": "gotree",
"owner": "evolbioinfo"
},
"metrics": {
"overall": {
"key": "overall",
"band": "moderate",
"name": "Overall health",
"note": null,
"notes": [],
"value": 61,
"inputs": {
"security": 37,
"vitality": 68,
"community": 51,
"governance": 63,
"engineering": 81
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "moderate",
"name": "Vitality",
"value": 68,
"weight": 0.22,
"metrics": [
{
"key": "development_activity",
"band": "moderate",
"name": "Development activity",
"note": null,
"notes": [],
"value": 62,
"inputs": {
"commits_last_year": 36,
"human_commit_share": 0.95,
"days_since_last_push": 7,
"active_weeks_last_year": 10
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 7 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "push_recency",
"params": {
"days": 7
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "10/52 weeks with commits",
"points": 6.9,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 10
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "36 commits in the last year",
"points": 14.1,
"status": "partial",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 36
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5",
"points": 5,
"status": "partial",
"details": [],
"max_points": 10
}
]
},
{
"key": "release_discipline",
"band": "good",
"name": "Release discipline",
"note": null,
"notes": [],
"value": 76,
"inputs": {
"releases_count": 53,
"latest_release_tag": "v0.5.2",
"releases_from_tags": false,
"days_since_latest_release": 6,
"mean_days_between_releases": 217
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "53 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 53
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 6 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 6
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~217 days",
"points": 12.6,
"status": "partial",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 217
}
}
],
"max_points": 27
},
{
"key": "openssf_scorecard_signed_releases",
"name": "OpenSSF Scorecard: Signed-Releases",
"detail": "Project has not signed or included provenance with any releases.",
"points": 0,
"status": "missed",
"details": [],
"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": 22,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 22 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 22
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "moderate",
"name": "Community & Adoption",
"value": 51,
"weight": 0.18,
"metrics": [
{
"key": "popularity",
"band": "moderate",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 51,
"inputs": {
"forks": 19,
"stars": 150,
"watchers": 11,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "no_history"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "150 stars",
"points": 35.3,
"status": "partial",
"details": [
{
"code": "stars",
"params": {
"count": 150
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "19 forks",
"points": 10.5,
"status": "partial",
"details": [
{
"code": "forks",
"params": {
"count": 19
}
}
],
"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": "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 (GPL-2.0)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "GPL-2.0"
}
}
],
"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": 63,
"weight": 0.24,
"metrics": [
{
"key": "maintainer_resilience",
"band": "critical",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 22,
"inputs": {
"bus_factor": 1,
"contributors_sampled": 5,
"top_contributor_share": 0.986
},
"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 99% of commits",
"points": 0.3,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 99
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "5 contributors",
"points": 6.8,
"status": "partial",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 5
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 2 contributing companies or organizations -- score normalized to 6",
"points": 6,
"status": "partial",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "good",
"name": "Issue & PR responsiveness",
"note": null,
"notes": [],
"value": 80,
"inputs": {
"merged_prs": 9,
"open_issues": 2,
"closed_issues": 19,
"issue_closed_ratio": 0.905,
"closed_unmerged_prs": 0
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "90% of issues closed",
"points": 42.3,
"status": "partial",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 90
}
}
],
"max_points": 46.75
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "9/9 decided PRs merged",
"points": 38.2,
"status": "met",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 9,
"decided": 9
}
}
],
"max_points": 38.25
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "Found 1/19 approved changesets -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "moderate",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 65,
"inputs": {
"followers": 50,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "evolbioinfo",
"public_repos": 30,
"account_age_days": 3437
},
"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": "50 followers of evolbioinfo",
"points": 12.3,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 50,
"login": "evolbioinfo"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "30 public repos, account ~9 yr old",
"points": 22.9,
"status": "partial",
"details": [
{
"code": "public_repos",
"params": {
"count": 30
}
},
{
"code": "account_age_years",
"params": {
"years": 9
}
}
],
"max_points": 25
}
]
},
{
"key": "package_maintenance",
"band": "excellent",
"name": "Package maintenance",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"packages": [
"github.com/evolbioinfo/gotree"
],
"ecosystems": "go",
"any_deprecated": false,
"min_days_since_publish": 22
},
"components": [
{
"key": "published_resolvable",
"name": "Published & resolvable",
"detail": "1 package(s) on go",
"points": 25,
"status": "met",
"details": [
{
"code": "packages_published",
"params": {
"count": 1,
"ecosystems": "go"
}
}
],
"max_points": 25
},
{
"key": "publish_recency",
"name": "Publish recency",
"detail": "latest publish 22 days ago",
"points": 35,
"status": "met",
"details": [
{
"code": "publish_recency",
"params": {
"days": 22
}
}
],
"max_points": 35
},
{
"key": "version_history",
"name": "Version history",
"detail": "40 published versions",
"points": 20,
"status": "met",
"details": [
{
"code": "published_versions",
"params": {
"count": 40
}
}
],
"max_points": 20
},
{
"key": "not_deprecated",
"name": "Not deprecated",
"detail": "active, not deprecated or yanked",
"points": 20,
"status": "met",
"details": [
{
"code": "package_not_deprecated",
"params": {}
}
],
"max_points": 20
}
]
}
],
"description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
},
{
"key": "engineering",
"band": "good",
"name": "Engineering Quality",
"value": 81,
"weight": 0.2,
"metrics": [
{
"key": "engineering_practices",
"band": "moderate",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 68,
"inputs": {
"has_ci": true,
"has_tests": true,
"has_editorconfig": false,
"has_linter_config": false,
"has_precommit_config": false
},
"components": [
{
"key": "ci_workflows",
"name": "CI workflows",
"detail": "1 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 1
}
}
],
"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": 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": "3 out of 3 merged PRs checked by a CI test -- score normalized to 10",
"points": 20,
"status": "met",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "excellent",
"name": "Documentation",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"topics": [
"phylogeny",
"newick",
"tree",
"tree-structure",
"itol",
"gotree",
"nexus"
],
"has_wiki": true,
"homepage": "https://research.pasteur.fr/en/software/goalign-gotree/",
"has_readme": true,
"has_docs_dir": true,
"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": 25,
"status": "met",
"details": [],
"max_points": 25
},
{
"key": "documentation_homepage_site",
"name": "Documentation / homepage site",
"detail": "https://research.pasteur.fr/en/software/goalign-gotree/",
"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": "7 topics",
"points": 10,
"status": "met",
"details": [
{
"code": "topics_count",
"params": {
"count": 7
}
}
],
"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": 37,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "at_risk",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Branch-Protection, Packaging. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"branch_protection",
"packaging"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 30,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 16,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 2,
"scorecard_aggregate": 3
},
"components": [
{
"key": "binary_artifacts",
"name": "Binary-Artifacts",
"detail": "no binaries found in the repo",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "branch_protection",
"name": "Branch-Protection",
"detail": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "3 out of 3 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 1/19 approved changesets -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 2 contributing companies or organizations -- score normalized to 6",
"points": 1.5,
"status": "partial",
"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": "6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5",
"points": 3.8,
"status": "partial",
"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": "Project has not signed or included provenance with any releases.",
"points": 0,
"status": "missed",
"details": [],
"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": "12 existing vulnerabilities detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "dependency_advisories",
"band": "moderate",
"name": "Dependency advisories",
"note": "Excluded from scoring (no data or not applicable): Indirect dependencies free of known advisories. Remaining weights renormalized. Matched 39 resolved dependencies against OSV. This repository publishes no package the index resolves, so the repository dependency graph was assessed instead. That graph mixes development and test pins with shipped dependencies, so only the declared runtime dependencies are scored; transitive findings are reported as context and excluded from the score. Reachability is not analyzed.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"indirect_dependencies_free_of_known_advisories"
]
}
},
{
"code": "weights_renormalized",
"params": {}
},
{
"code": "advisories_scope_repository",
"params": {
"assessed": 39
}
},
{
"code": "advisories_repo_graph_caveat",
"params": {}
},
{
"code": "advisories_reachability",
"params": {}
}
],
"value": 64,
"inputs": {
"source": "osv",
"advisories": 16,
"affected_packages": 4,
"assessed_packages": 39,
"unassessed_packages": 0,
"affected_by_severity": "high 1, moderate 1, unknown 2",
"direct_affected_packages": 1
},
"components": [
{
"key": "direct_dependencies_free_of_known_advisories",
"name": "Direct dependencies free of known advisories",
"detail": "1 affected: golang.org/x/image v0.11.0 (high 7.5)",
"points": 14,
"status": "partial",
"details": [
{
"code": "advisories_affected",
"params": {
"count": 1,
"packages": "golang.org/x/image v0.11.0 (high 7.5)"
}
}
],
"max_points": 35
},
{
"key": "indirect_dependencies_free_of_known_advisories",
"name": "Indirect dependencies free of known advisories",
"detail": "transitive set not separable from development and test dependencies in this scope",
"points": 0,
"status": "excluded",
"details": [
{
"code": "advisories_scope_not_separable",
"params": {}
}
],
"max_points": 25
},
{
"key": "no_advisories_left_outstanding",
"name": "No advisories left outstanding",
"detail": "1 advisory-carrying package(s) unaddressed past 90 days; oldest published 756 days ago",
"points": 33.7,
"status": "partial",
"details": [
{
"code": "advisories_stale",
"params": {
"days": 90,
"count": 1,
"oldest": 756
}
}
],
"max_points": 40
}
]
},
{
"key": "malicious_dependencies",
"band": "excellent",
"name": "Malicious dependencies",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"source": "osv",
"meaning": "reported as a malicious package by the OpenSSF corpus; the remedy is removal or moving off the compromised name, never an upgrade of the same artifact. Versions the registry has since pulled are listed but not scored",
"packages": [],
"red_flag": false,
"assessed_packages": 39,
"malicious_packages": 0,
"direct_malicious_packages": 0,
"withdrawn_malicious_packages": 0,
"installable_malicious_packages": 0
},
"components": [
{
"key": "no_dependency_reported_as_a_malicious_package",
"name": "No dependency reported as a malicious package",
"detail": "no dependency is reported as a malicious package",
"points": 100,
"status": "met",
"details": [
{
"code": "no_malicious_dependencies",
"params": {}
}
],
"max_points": 100
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 17
},
"components": [
{
"key": "policy_exposure_multiplier",
"name": "Policy exposure multiplier",
"detail": "no confirmed policy-scope location match",
"points": 100,
"status": "met",
"details": [
{
"code": "jurisdiction_no_match",
"params": {}
}
],
"max_points": 100
}
]
}
],
"description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
},
{
"key": "ai_readiness",
"band": "at_risk",
"name": "AI Readiness",
"value": 48,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "critical",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 6,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.105,
"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": "10 of 95 human commits state their intent (structured subject or explanatory body)",
"points": 5.6,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 10,
"sampled": 95
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "moderate",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 61,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [
"go.sum"
],
"has_dockerfile": false,
"typed_language": true,
"bootstrap_files": [
"Makefile"
],
"has_devcontainer": false,
"has_linter_config": false,
"typecheck_configs": [],
"agent_commit_share": 0,
"toolchain_manifests": [
"go.mod"
],
"dependency_bot_commit_share": 0
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": "Makefile",
"points": 18,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "Makefile"
}
}
],
"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": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 11
},
{
"key": "static_type_checking",
"name": "Static type checking",
"detail": "Go (statically typed)",
"points": 11,
"status": "met",
"details": [
{
"code": "statically_typed_language",
"params": {
"language": "Go"
}
}
],
"max_points": 11
},
{
"key": "reproducible_environment",
"name": "Reproducible environment",
"detail": "lockfile",
"points": 10,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "lockfile"
}
}
],
"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": "excellent",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"primary_language": "Go",
"largest_source_bytes": 61630,
"source_files_sampled": 180,
"oversized_source_files": 1
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Go (statically typed)",
"points": 45,
"status": "met",
"details": [
{
"code": "statically_typed_language",
"params": {
"language": "Go"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "1/180 source files over 60KB",
"points": 54.7,
"status": "partial",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 180,
"oversized": 1
}
}
],
"max_points": 55
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
}
],
"metrics_version": "1.13.0"
},
"warnings": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token"
],
"report_type": "repository",
"generated_at": "2026-07-22T15:26:54.842317Z",
"schema_version": "0.26.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/e/evolbioinfo/gotree.svg",
"full_name": "evolbioinfo/gotree",
"license_state": "standard",
"license_spdx": "GPL-2.0"
}