Public record
Software health reportschema 0.26.0 · metrics 1.13.0 · 2026-07-22 15:26 UTC

evolbioinfo / gotree

Gotree: a set of command line tools and an API to manipulate phylogenetic trees.

Go · ShellGPL-2.0★ 150 stars⑂ 19 forkssince Jul 2016View on GitHub ↗

evolbioinfo/gotree holds a health index of 61 out of 100, placing it in the Moderate band. It scores highest on Engineering Quality (81/100) and lowest on Security (37/100). It was last updated 7 days ago. A single contributor accounts for most of its recent work.

61
overall / 100
Moderate

Software health index

Metrics are grouped into weighted categories on one standardized 1–100 scale. Overall starts as their weighted mean; when public evidence triggers the High-Risk Jurisdiction Policy, the rating is adjusted and receives an At risk ceiling of 49. AI Readiness sits outside the overall score.

61
Excellent85-100Exemplary; meets essentially all checked criteria
Good70-84Healthy; minor gaps
Moderate50-69Acceptable with notable gaps; review recommended
At risk30-49Significant weaknesses; adoption warrants caution
Critical1-29Severe problems (abandoned, single-maintainer, no hygiene)
VitalityCommunity &AdoptionSustainability &GovernanceEngineeringQualitySecurityAI Readiness

Score profile

Each axis is a category. The shape matters more than the average — a healthy subject fills the whole shape, while a spike-and-crater profile means strength in one dimension is masking risk in another.

Ownership

50 followers30 public repossince Feb 2017

This repository is backed by an organization — shared, accountable stewardship that can outlive any single maintainer.

Package ecosystems

RegistryPackageVersionDownloads / moVersionsLast publish
Gogithub.com/evolbioinfo/gotreev0.5.2-4022 days ago

Metrics by category

Vitality

Is the project alive — is code being written and are releases shipping?

68Moderate · 22% of overall
How it's scored
36/36Push recency — last push 7 days ago
6.9/36Commit cadence — 10/52 weeks with commits
14.1/18Commit volume — 36 commits in the last year
5/10OpenSSF Scorecard: Maintained — 6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5
Inputs used
commits_last_year36
human_commit_share0.95
days_since_last_push7
active_weeks_last_year10
How it's scored
27/27Ships releases — 53 releases published
36/36Release recency — latest release 6 days ago
12.6/27Release cadence — a release every ~217 days
0/10OpenSSF Scorecard: Signed-Releases — Project has not signed or included provenance with any releases.
Inputs used
releases_count53
latest_release_tagv0.5.2
releases_from_tagsno
days_since_latest_release6
mean_days_between_releases217

Community & Adoption

Does the project have users, downloads, attention, and a welcoming setup for contributors?

51Moderate · 18% of overall
How it's scored
35.3/60Stars — 150 stars
10.5/25Forks — 19 forks
5.6/15Watchers — 11 watchers
Inputs used
forks19
stars150
watchers11
growth_stateunverified
growth_factor_pct100
growth_unverified_reasonno_history
How it's scored
22.5/22.5README
22.5/22.5License — recognized license (GPL-2.0)
0/18CONTRIBUTING guide
0/13.5Code of conduct
0/7.2Issue template
0/6.3PR template
Inputs used
has_readmeyes
has_licenseyes
has_contributingno
has_issue_templateno
has_code_of_conductno
has_pull_request_templateno

Sustainability & Governance

Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?

63Moderate · 24% of overall
How it's scored
9/54Bus factor — 1 contributor(s) cover half of all commits
0.3/22.5Commit distribution — top contributor authored 99% of commits
6.8/13.5Contributor breadth — 5 contributors
6/10OpenSSF Scorecard: Contributors — project has 2 contributing companies or organizations -- score normalized to 6
Inputs used
bus_factor1
contributors_sampled5
top_contributor_share0.986
How it's scored
42.3/46.8Issue resolution — 90% of issues closed
38.2/38.3PR acceptance — 9/9 decided PRs merged
0/15OpenSSF Scorecard: Code-Review — Found 1/19 approved changesets -- score normalized to 0
Inputs used
merged_prs9
open_issues2
closed_issues19
issue_closed_ratio0.905
closed_unmerged_prs0
How it's scored
30/30Ownership backing — organization-owned
0/20Verified domain
12.3/25Owner reach — 50 followers of evolbioinfo
22.9/25Track record — 30 public repos, account ~9 yr old
Inputs used
followers50
owner_typeOrganization
is_verified
owner_loginevolbioinfo
public_repos30
account_age_days3,437
How it's scored
25/25Published & resolvable — 1 package(s) on go
35/35Publish recency — latest publish 22 days ago
20/20Version history — 40 published versions
20/20Not deprecated — active, not deprecated or yanked
Inputs used
packagesgithub.com/evolbioinfo/gotree
ecosystemsgo
any_deprecatedno
min_days_since_publish22

Engineering Quality

Are baseline engineering and documentation practices in place?

81Good · 20% of overall
How it's scored
24/24CI workflows — 1 workflow(s)
24/24Tests present
0/16Linter config
0/9.6Pre-commit hooks
0/6.4.editorconfig
20/20OpenSSF Scorecard: CI-Tests — 3 out of 3 merged PRs checked by a CI test -- score normalized to 10
Inputs used
has_ciyes
has_testsyes
has_editorconfigno
has_linter_configno
has_precommit_configno

Documentation

100Excellent
How it's scored
30/30README
25/25Documentation directory
15/15Documentation / homepage site — https://research.pasteur.fr/en/software/goalign-gotree/
10/10Repository description
10/10Topics — 7 topics
10/10Wiki
Inputs used
topicsphylogeny, newick, tree, tree-structure, itol, gotree, nexus
has_wikiyes
homepagehttps://research.pasteur.fr/en/software/goalign-gotree/
has_readmeyes
has_docs_diryes
has_descriptionyes

Security

Are visible security and supply-chain practices strong, without unresolved high-risk jurisdiction exposure?

37At risk · 16% of overall
How it's scored
7.5/7.5Binary-Artifacts — no binaries found in the repo
0/7.5Branch-Protection — no data
2.5/2.5CI-Tests — 3 out of 3 merged PRs checked by a CI test -- score normalized to 10
0/2.5CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected
0/7.5Code-Review — Found 1/19 approved changesets -- score normalized to 0
1.5/2.5Contributors — project has 2 contributing companies or organizations -- score normalized to 6
10/10Dangerous-Workflow — no dangerous workflow patterns detected
0/7.5Dependency-Update-Tool — no update tool detected
0/5Fuzzing — project is not fuzzed
2.5/2.5License — license file detected
3.8/7.5Maintained — 6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5
0/5Packaging — no data
0/5Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
0/5SAST — SAST tool is not run on all commits -- score normalized to 0
0/5Security-Policy — security policy file not detected
0/7.5Signed-Releases — Project has not signed or included provenance with any releases.
0/7.5Token-Permissions — detected GitHub workflow tokens with excessive permissions
0/7.5Vulnerabilities — 12 existing vulnerabilities detected
Inputs used
sourceopenssf_scorecard
checks_evaluated16
scorecard_versionv5.5.0
checks_inconclusive2
scorecard_aggregate3
Excluded from scoring (no data or not applicable): branch_protection, packaging. Remaining weights renormalized.
How it's scored
14/35Direct dependencies free of known advisories — 1 affected: golang.org/x/image v0.11.0 (high 7.5)
0/25Indirect dependencies free of known advisories — transitive set not separable from development and test dependencies in this scope
33.7/40No advisories left outstanding — 1 advisory-carrying package(s) unaddressed past 90 days; oldest published 756 days ago
Inputs used
sourceosv
advisories16
affected_packages4
assessed_packages39
unassessed_packages0
affected_by_severityhigh 1, moderate 1, unknown 2
direct_affected_packages1
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.

AI Readiness

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.

48At risk · 0% of overall
How it's scored
0/45Agent instructions — no CLAUDE.md / AGENTS.md / editor rules
0/15Machine-readable docs (llms.txt)
5.6/40Legible commit history — 10 of 95 human commits state their intent (structured subject or explanatory body)
Inputs used
has_llms_txtno
legible_history_share0.105
agent_instruction_files
agent_instruction_max_bytes
How it's scored
18/18One-command bootstrap — Makefile
22/22Automated tests
0/11Lint / format config
11/11Static type checking — Go (statically typed)
10/10Reproducible environment — lockfile
0/10Demonstrated agent practice — no agent-authored commits among the last 100
0/8Automated maintenance — no automated dependency updates observed
0/10OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
Inputs used
has_nixno
has_testsyes
lockfilesgo.sum
has_dockerfileno
typed_languageyes
bootstrap_filesMakefile
has_devcontainerno
has_linter_configno
typecheck_configs
agent_commit_share0
toolchain_manifestsgo.mod
dependency_bot_commit_share0
How it's scored
45/45Type-checkable code — Go (statically typed)
54.7/55Manageable file sizes — 1/180 source files over 60KB
Inputs used
primary_languageGo
largest_source_bytes61,630
source_files_sampled180
oversized_source_files1

Key facts

150GitHub stars
5contributors
36commits, last 12 months
7days since last push
53releases
1bus factor
2open issues
Gopackage ecosystems

Data collection warnings

  • Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token

More detail

Star and fork history 0 ★ / 19 ⇿
0Stars
19Forks
17Releases

When each star and fork was added, collected from GitHub and bucketed by day. Cumulative growth sits directly above the daily additions it is made of, so the two read against each other: steady organic accretion looks nothing like an abrupt, short-lived burst. Where that difference is measurable, it is reported as growth authenticity.

0481216201922018-122022-092026-06
Major 0Minor 3Patch 7

Each point covers 7 days.

OpenSSF Scorecard 3.0 / 10
3.0aggregate

Independent, tool-agnostic security assessment from the open-source OpenSSF Scorecard. Each check rewards a security practice, not a specific vendor's tool. Checks Scorecard could not determine are marked n/a and excluded from the security score (never counted as zero).Scorecard v5.5.0 · 2026-07-22 15:26 UTC

10Binary-Artifactsno binaries found in the repo
n/aBranch-Protectioninternal 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
10CI-Tests3 out of 3 merged PRs checked by a CI test -- score normalized to 10
0CII-Best-Practicesno effort to earn an OpenSSF best practices badge detected
0Code-ReviewFound 1/19 approved changesets -- score normalized to 0
6Contributorsproject has 2 contributing companies or organizations -- score normalized to 6
10Dangerous-Workflowno dangerous workflow patterns detected
0Dependency-Update-Toolno update tool detected
0Fuzzingproject is not fuzzed
10Licenselicense file detected
5Maintained6 commit(s) and 1 issue activity found in the last 90 days -- score normalized to 5
n/aPackagingpackaging workflow not detected
0Pinned-Dependenciesdependency not pinned by hash detected -- score normalized to 0
0SASTSAST tool is not run on all commits -- score normalized to 0
0Security-Policysecurity policy file not detected
0Signed-ReleasesProject has not signed or included provenance with any releases.
0Token-Permissionsdetected GitHub workflow tokens with excessive permissions
0Vulnerabilities12 existing vulnerabilities detected
Direct dependencies 11
RegistryPackageVersion constraintManifest
Gogithub.com/ajstarks/svgov0.0.0-20211024235047-1546f124cd8bgo.mod
Gogithub.com/evolbioinfo/goalignv0.3.7-0.20230906113011-fcecb09f9d43go.mod
Gogithub.com/fredericlemoine/bitsetv1.2.0go.mod
Gogithub.com/fredericlemoine/cobrashellv0.0.0-20180921081141-49c72f93426cgo.mod
Gogithub.com/fredericlemoine/gostatsv0.2.0go.mod
Gogithub.com/golang/freetypev0.0.0-20170609003504-e2365dfdc4a0go.mod
Gogithub.com/jlaffaye/ftpv0.0.0-20210307004419-5d4190119067go.mod
Gogithub.com/llgcode/draw2dv0.0.0-20210313082411-577c1ead272ago.mod
Gogithub.com/spf13/cobrav1.5.0go.mod
Gogolang.org/x/imagev0.11.0go.mod
Gogonum.org/v1/plotv0.14.0go.mod
All dependencies 39

Full resolved dependency set from the GitHub dependency graph: 11 direct and 28 indirect (transitive) packages. The transitive closure is complete when the repository commits a lockfile.

RegistryPackageVersionRelation
Gogithub.com/ajstarks/svgov0.0.0-20211024235047-1546f124cd8bdirect
Gogithub.com/evolbioinfo/goalignv0.3.7-0.20230906113011-fcecb09f9d43direct
Gogithub.com/fredericlemoine/bitsetv1.2.0direct
Gogithub.com/fredericlemoine/cobrashellv0.0.0-20180921081141-49c72f93426cdirect
Gogithub.com/fredericlemoine/gostatsv0.2.0direct
Gogithub.com/golang/freetypev0.0.0-20170609003504-e2365dfdc4a0direct
Gogithub.com/jlaffaye/ftpv0.0.0-20210307004419-5d4190119067direct
Gogithub.com/llgcode/draw2dv0.0.0-20210313082411-577c1ead272adirect
Gogithub.com/spf13/cobrav1.5.0direct
Gogolang.org/x/imagev0.11.0direct
Gogonum.org/v1/plotv0.14.0direct
Gogioui.orgv0.2.0indirect
Gogioui.org/cpuv0.0.0-20220412190645-f1e9e8c3b1f7indirect
Gogioui.org/shaderv1.0.6indirect
Gogioui.org/xv0.2.0indirect
Gogit.sr.ht/~sbinet/ggv0.5.0indirect
Gogithub.com/abiosoft/ishellv2.0.0+incompatibleindirect
Gogithub.com/abiosoft/readlinev0.0.0-20180607040430-155bce2042dbindirect
Gogithub.com/andybalholm/strokev0.0.0-20221221101821-bd29b49d73f0indirect
Gogithub.com/armon/go-radixv1.0.0indirect
Gogithub.com/campoy/embedmdv1.0.0indirect
Gogithub.com/fatih/colorv1.10.0indirect
Gogithub.com/flynn-archive/go-shlexv0.0.0-20150515145356-3f9db97f8568indirect
Gogithub.com/go-fonts/liberationv0.3.1indirect
Gogithub.com/go-latex/latexv0.0.0-20230307184459-12ec69307ad9indirect
Gogithub.com/go-pdf/fpdfv0.8.0indirect
Gogithub.com/go-text/typesettingv0.0.0-20230803102845-24e03d8b5372indirect
Gogithub.com/inconshreveable/mousetrapv1.0.1indirect
Gogithub.com/mattn/go-colorablev0.1.8indirect
Gogithub.com/mattn/go-isattyv0.0.12indirect
Gogithub.com/pmezard/go-difflibv1.0.0indirect
Gogithub.com/spf13/pflagv1.0.5indirect
Gogithub.com/ulikunitz/xzv0.5.10indirect
Gogolang.org/x/expv0.0.0-20230801115018-d63ba01acd4bindirect
Gogolang.org/x/exp/shinyv0.0.0-20230801115018-d63ba01acd4bindirect
Gogolang.org/x/sysv0.11.0indirect
Gogolang.org/x/textv0.12.0indirect
Gogonum.org/v1/gonumv0.14.0indirect
Gorsc.io/pdfv0.1.1indirect
Dependency advisories 4

This repository publishes no package the index resolves, so its own dependency graph was assessed — 39 packages, which also include development and test pins that never ship: 4 carry known advisories, of which 1 are direct.

PackageVersionRelationSeverityAdvisoriesFixed in
golang.org/x/imagev0.11.0directhigh120.43.0
github.com/ulikunitz/xzv0.5.10indirectmoderate20.5.15
golang.org/x/sysv0.11.0indirectunknown10.44.0
golang.org/x/textv0.12.0indirectunknown10.39.0

An advisory means the version recorded in the dependency graph falls inside an advisory’s affected range. Reachability is not analysed, and the graph includes development and test pins — a finding may concern tooling rather than shipped software.

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"
}

Scores are signals, not warranties. They reflect publicly visible practices on GitHub — not a code audit, and not a security guarantee.

Missing data is excluded and weights renormalized, never scored as zero. Methodology is versioned and open: metrics v1.13.0, schema v0.26.0 — full methodology · metrics wiki.

How one result sits in the wider record: aggregate statisticsGo.