Public recordModerate
Software health reportschema 0.31.0 · metrics 2.5.0 · 2026-08-05 08:23 UTC
artic-network / fieldbioinformatics
The ARTIC fieldbioinformatics pipeline
artic-network/fieldbioinformatics holds a health index of 60 out of 100, placing it in the Moderate band. It scores highest on Vitality (73/100) and lowest on AI Readiness (30/100). It was last updated 19 days ago. 2 contributors account for most of its recent work.
60
overall / 100Software health index
Metrics are grouped into weighted categories on one standardized 1–100 scale. Overall starts as their weighted mean, calibrated against the distribution of the public record so bands carry percentile meaning; when public evidence triggers the High-Risk Jurisdiction Policy, the rating is adjusted and receives an At Risk ceiling of 34.
60
Exceptional93-100The record's top tier (≈ top 5%); essentially all checked criteria met
Excellent80-92Strong across the board; minor gaps
Good65-79Healthy; gaps are limited and manageable
Moderate50-64Acceptable with notable gaps; review recommended
Weak35-49Material weaknesses across several areas
At Risk20-34Significant weaknesses; adoption warrants caution
Critical1-19Severe problems (abandoned, single-maintainer, no hygiene)
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.
The weighted overall 57 is calibrated to 60 on the published index scale (record calibration 2026-08-02).
Ownership
ARTICnetworkOrganization
81 followers56 public repossince Jul 2017
This repository is backed by an organization — shared, accountable stewardship that can outlive any single maintainer.
Metrics by category
Vitality
Is the project alive — is code being written and are releases shipping?
73
Development activity
55Moderate
How it's scored
| 28.8/36 | Push recency — last push 19 days ago |
| 8.3/36 | Commit cadence — 12/52 weeks with commits |
| 11.5/18 | Commit volume — 18 commits in the last year |
| 6/10 | OpenSSF Scorecard: Maintained — 4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6 |
Inputs used
| commits_last_year | 18 |
| human_commit_share | 1 |
| days_since_last_push | 19 |
| active_weeks_last_year | 12 |
Release discipline
100Exceptional
How it's scored
| 27/27 | Ships releases — 45 releases published |
| 36/36 | Release recency — latest release 19 days ago |
| 27/27 | Release cadence — a release every ~34.2 days |
| 0/10 | OpenSSF Scorecard: Signed-Releases — no data |
Inputs used
| releases_count | 45 |
| latest_release_tag | v1.11.1 |
| releases_from_tags | no |
| days_since_latest_release | 19 |
| mean_days_between_releases | 34.2 |
Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.
Community & Adoption
Does the project have users, downloads, attention, and a welcoming setup for contributors?
42
Popularity & adoption
56Moderate
How it's scored
| 34.5/60 | Stars — 135 stars |
| 15.4/25 | Forks — 71 forks |
| 6/15 | Watchers — 13 watchers |
Inputs used
| forks | 71 |
| stars | 135 |
| watchers | 13 |
| growth_state | unverified |
| growth_factor_pct | 100 |
| growth_unverified_reason | no_history |
Community health
25At Risk
How it's scored
| 0/22.5 | README |
| 22.5/22.5 | License — recognized license (MIT) |
| 0/18 | CONTRIBUTING guide |
| 0/13.5 | Code of conduct |
| 0/7.2 | Issue template |
| 0/6.3 | PR template |
Inputs used
| has_readme | no |
| has_license | no |
| readme_badges | 4 |
| has_contributing | no |
| has_issue_template | no |
| has_code_of_conduct | no |
| readme_badge_services | github.com, readthedocs.org, shields.io |
| has_pull_request_template | no |
Sustainability & Governance
Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?
68
Maintainer resilience (bus factor)
62Moderate
How it's scored
| 25.2/54 | Bus factor — 2 contributor(s) cover half of all commits |
| 13/22.5 | Commit distribution — top contributor authored 42% of commits |
| 13.5/13.5 | Contributor breadth — 11 contributors |
| 10/10 | OpenSSF Scorecard: Contributors — project has 26 contributing companies or organizations |
Inputs used
| bus_factor | 2 |
| contributors_sampled | 11 |
| top_contributor_share | 0.424 |
How it's scored
| 40.8/42 | Issue resolution — 97% of issues closed |
| 22.7/30 | PR acceptance — 69/91 decided PRs merged |
| 0/13 | Newcomer PR acceptance — no first-time contributor's PR decided in 30d |
| 1.5/15 | OpenSSF Scorecard: Code-Review — Found 3/30 approved changesets -- score normalized to 1 |
Inputs used
| merged_prs | 69 |
| open_issues | 3 |
| closed_issues | 102 |
| prs_merged_7d | 0 |
| prs_decided_7d | 0 |
| prs_merged_30d | 1 |
| prs_decided_30d | 1 |
| issue_closed_ratio | 0.971 |
| closed_unmerged_prs | 22 |
| first_time_authors_30d | 0 |
| first_time_prs_merged_30d | 0 |
| first_time_prs_decided_30d | 0 |
Excluded from scoring (no data or not applicable): newcomer_pr_acceptance. Remaining weights renormalized.
Ownership & stewardship
69Good
How it's scored
| 30/30 | Ownership backing — organization-owned |
| 0/20 | Verified domain |
| 13.8/25 | Owner reach — 81 followers of artic-network |
| 24.8/25 | Track record — 56 public repos, account ~9 yr old |
Inputs used
| followers | 81 |
| owner_type | Organization |
| is_verified | — |
| owner_login | artic-network |
| public_repos | 56 |
| account_age_days | 3,312 |
Engineering Quality
Are baseline engineering and documentation practices in place?
56
Engineering practices
60Moderate
How it's scored
| 24/24 | CI workflows — 3 workflow(s) |
| 24/24 | Tests present |
| 0/16 | Linter config |
| 0/9.6 | Pre-commit hooks |
| 0/6.4 | .editorconfig |
| 12/20 | OpenSSF Scorecard: CI-Tests — 13 out of 19 merged PRs checked by a CI test -- score normalized to 6 |
Inputs used
| has_ci | yes |
| has_tests | yes |
| has_editorconfig | no |
| has_linter_config | no |
| has_precommit_config | no |
Documentation
50Moderate
How it's scored
| 0/30 | README |
| 25/25 | Documentation directory |
| 15/15 | Documentation / homepage site — https://artic.network/ |
| 0/10 | Repository description |
| 0/10 | Topics |
| 10/10 | Wiki |
Inputs used
| topics | — |
| has_wiki | yes |
| homepage | https://artic.network/ |
| has_readme | no |
| has_docs_dir | yes |
| has_description | no |
Security
Are visible security and supply-chain practices strong, without unresolved high-risk jurisdiction exposure?
43
Security posture
43Weak
How it's scored
| 7.5/7.5 | Binary-Artifacts — no binaries found in the repo |
| 0/7.5 | Branch-Protection — branch protection not enabled on development/release branches |
| 1.5/2.5 | CI-Tests — 13 out of 19 merged PRs checked by a CI test -- score normalized to 6 |
| 0/2.5 | CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected |
| 0.8/7.5 | Code-Review — Found 3/30 approved changesets -- score normalized to 1 |
| 2.5/2.5 | Contributors — project has 26 contributing companies or organizations |
| 10/10 | Dangerous-Workflow — no dangerous workflow patterns detected |
| 0/7.5 | Dependency-Update-Tool — no update tool detected |
| 0/5 | Fuzzing — project is not fuzzed |
| 2.5/2.5 | License — license file detected |
| 4.5/7.5 | Maintained — 4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6 |
| 5/5 | Packaging — packaging workflow detected |
| 0/5 | Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
| 0/5 | SAST — SAST tool is not run on all commits -- score normalized to 0 |
| 0/5 | Security-Policy — security policy file not detected |
| 0/7.5 | Signed-Releases — no data |
| 0/7.5 | Token-Permissions — detected GitHub workflow tokens with excessive permissions |
| 7.5/7.5 | Vulnerabilities — 0 existing vulnerabilities detected |
Inputs used
| source | openssf_scorecard |
| checks_evaluated | 17 |
| scorecard_version | v5.5.0 |
| checks_inconclusive | 1 |
| scorecard_aggregate | 4.3 |
Excluded from scoring (no data or not applicable): signed_releases. Remaining weights renormalized.
AI Readiness
How well is the repo equipped to be developed and maintained with AI coding agents? Carries a deliberately small weight (4%): agent tooling is a real maintenance signal, but a repository with none can still reach 100/100.
30
Agent context & guidance
16Critical
How it's scored
| 0/45 | Agent instructions — no CLAUDE.md / AGENTS.md / editor rules |
| 0/15 | Machine-readable docs (llms.txt) |
| 16.5/40 | Legible commit history — 31 of 100 human commits state their intent (structured subject or explanatory body) |
Inputs used
| has_llms_txt | no |
| legible_history_share | 0.31 |
| agent_instruction_files | — |
| agent_instruction_max_bytes | — |
How it's scored
| 0/18 | One-command bootstrap |
| 22/22 | Automated tests |
| 0/11 | Lint / format config |
| 0/11 | Static type checking |
| 10/10 | Reproducible environment — Dockerfile |
| 0/10 | Demonstrated agent practice — no agent-authored commits among the last 100 |
| 0/8 | Automated maintenance — no automated dependency updates observed |
| 0/10 | OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0 |
Inputs used
| has_nix | no |
| has_tests | yes |
| lockfiles | — |
| has_dockerfile | yes |
| typed_language | no |
| bootstrap_files | — |
| has_devcontainer | no |
| has_linter_config | no |
| typecheck_configs | — |
| agent_commit_share | 0 |
| toolchain_manifests | — |
| dependency_bot_commit_share | 0 |
Code legibility for models
55Moderate
How it's scored
| 0/45 | Type-checkable code — Python without a type-check config |
| 55/55 | Manageable file sizes — 0/83 source files over 60KB |
Inputs used
| primary_language | Python |
| largest_source_bytes | 37,619 |
| source_files_sampled | 83 |
| oversized_source_files | 0 |
Key facts
135GitHub stars
11contributors
18commits, last 12 months
19days since last push
45releases
2bus factor
3open issues
PyPIpackage ecosystems
Data collection warnings
- Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token
- Community profile unavailable
- Could not fetch pypi package 'artic' from its registry
- GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository
More detail
Star and fork history 0 ★ / 71 ⇿
0Stars
71Forks
36Releases
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.
Major 0Minor 4Patch 30
Each point covers 7 days.
OpenSSF Scorecard 4.3 / 10
4.3aggregate
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).
| 10 | Binary-Artifacts | no binaries found in the repo |
| 0 | Branch-Protection | branch protection not enabled on development/release branches |
| 6 | CI-Tests | 13 out of 19 merged PRs checked by a CI test -- score normalized to 6 |
| 0 | CII-Best-Practices | no effort to earn an OpenSSF best practices badge detected |
| 1 | Code-Review | Found 3/30 approved changesets -- score normalized to 1 |
| 10 | Contributors | project has 26 contributing companies or organizations |
| 10 | Dangerous-Workflow | no dangerous workflow patterns detected |
| 0 | Dependency-Update-Tool | no update tool detected |
| 0 | Fuzzing | project is not fuzzed |
| 10 | License | license file detected |
| 6 | Maintained | 4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6 |
| 10 | Packaging | packaging workflow detected |
| 0 | Pinned-Dependencies | dependency not pinned by hash detected -- score normalized to 0 |
| 0 | SAST | SAST tool is not run on all commits -- score normalized to 0 |
| 0 | Security-Policy | security policy file not detected |
| n/a | Signed-Releases | no releases found |
| 0 | Token-Permissions | detected GitHub workflow tokens with excessive permissions |
| 10 | Vulnerabilities | 0 existing vulnerabilities detected |
All dependencies not collected
The resolved dependency set could not be collected for this report: GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository
Raw JSON report machine-readable
{
"data": {
"icon": {
"bytes": 1298188,
"width": 5000,
"height": 5000,
"rejected": [
{
"url": "https://raw.githubusercontent.com/artic-network/artic-doc/refs/heads/main/images/viruses/sars-cov-2_icon.svg",
"reason": "dimensions undeclared",
"source_type": "homepage"
},
{
"url": "https://artic.network/images/favicon.ico",
"reason": "too small (16x16)",
"source_type": "homepage"
},
{
"url": "https://artic.network/favicon.ico",
"reason": "HTTP 404",
"source_type": "homepage"
}
],
"collected": true,
"media_type": "image/png",
"source_url": "https://raw.githubusercontent.com/artic-network/fieldbioinformatics/master/docs/artic-logo.png?raw=true?",
"source_type": "readme",
"content_hash": "0cd6213e32a206e2d259dd32597fba75206d6b05bb9c6588a487fbd3b4f9b394",
"candidates_considered": 4
},
"repo": {
"topics": [],
"is_fork": true,
"size_kb": 4331,
"has_wiki": true,
"homepage": "https://artic.network/",
"languages": {
"R": 1157,
"Shell": 4142,
"Python": 299252,
"Makefile": 1976,
"Dockerfile": 788
},
"pushed_at": "2026-07-16T14:20:41Z",
"created_at": "2018-02-26T14:37:14Z",
"owner_type": "Organization",
"updated_at": "2026-07-30T02:04:31Z",
"description": "The ARTIC fieldbioinformatics pipeline",
"is_archived": false,
"is_disabled": false,
"license_spdx": "MIT",
"default_branch": "master",
"license_spdx_raw": "MIT",
"primary_language": "Python",
"significant_languages": [
"Python"
]
},
"owner": {
"blog": "http://artic.network",
"name": "ARTICnetwork",
"type": "Organization",
"login": "artic-network",
"company": null,
"location": null,
"followers": 81,
"avatar_url": "https://avatars.githubusercontent.com/u/30041437?v=4",
"created_at": "2017-07-10T08:45:32Z",
"is_verified": null,
"public_repos": 56,
"account_age_days": 3312
},
"license": {
"state": "standard",
"spdx_id": "MIT",
"raw_spdx": "MIT",
"file_present": true,
"scorecard_found": true,
"profile_has_license": false
},
"activity": {
"releases": [
{
"tag": "v1.11.1",
"kind": "patch",
"published_at": "2026-07-16T14:20:41Z"
},
{
"tag": "v1.11.0",
"kind": "minor",
"published_at": "2026-06-29T11:36:13Z"
},
{
"tag": "v1.10.3",
"kind": "patch",
"published_at": "2026-06-15T15:22:25Z"
},
{
"tag": "v1.10.2",
"kind": "patch",
"published_at": "2026-06-10T11:07:39Z"
},
{
"tag": "v1.10.1",
"kind": "patch",
"published_at": "2026-04-28T14:30:57Z"
},
{
"tag": "v1.10.0",
"kind": "minor",
"published_at": "2026-04-10T09:07:55Z"
},
{
"tag": "v1.9.1",
"kind": "patch",
"published_at": "2026-03-19T10:15:30Z"
},
{
"tag": "v1.9.0",
"kind": "minor",
"published_at": "2026-02-24T16:19:10Z"
},
{
"tag": "v1.8.5",
"kind": "patch",
"published_at": "2025-10-17T12:13:07Z"
},
{
"tag": "v1.8.4",
"kind": "patch",
"published_at": "2025-09-11T09:40:16Z"
},
{
"tag": "v1.8.3",
"kind": "patch",
"published_at": "2025-09-11T06:38:48Z"
},
{
"tag": "v1.8.2",
"kind": "patch",
"published_at": "2025-09-10T12:12:36Z"
},
{
"tag": "v1.8.1",
"kind": "patch",
"published_at": "2025-08-29T11:24:20Z"
},
{
"tag": "v1.8.0",
"kind": "minor",
"published_at": "2025-08-26T14:16:44Z"
},
{
"tag": "v1.7.5",
"kind": "patch",
"published_at": "2025-07-17T11:23:13Z"
},
{
"tag": "v1.7.4",
"kind": "patch",
"published_at": "2025-07-15T14:31:50Z"
},
{
"tag": "v1.7.3",
"kind": "patch",
"published_at": "2025-06-12T13:14:47Z"
},
{
"tag": "v1.7.2",
"kind": "patch",
"published_at": "2025-06-11T12:39:31Z"
},
{
"tag": "v1.7.1",
"kind": "patch",
"published_at": "2025-06-06T16:07:03Z"
},
{
"tag": "v1.7.0",
"kind": "minor",
"published_at": "2025-06-06T14:40:22Z"
},
{
"tag": "v1.6.5",
"kind": "patch",
"published_at": "2025-06-06T13:05:28Z"
},
{
"tag": "v1.6.4",
"kind": "patch",
"published_at": "2025-05-22T08:56:00Z"
},
{
"tag": "v1.6.3",
"kind": "patch",
"published_at": "2025-05-08T14:21:12Z"
},
{
"tag": "v1.6.2",
"kind": "patch",
"published_at": "2025-03-09T08:03:50Z"
},
{
"tag": "v1.6.1",
"kind": "patch",
"published_at": "2025-01-23T12:30:01Z"
},
{
"tag": "v1.6.0",
"kind": "minor",
"published_at": "2025-01-06T16:49:20Z"
},
{
"tag": "v1.5.8",
"kind": "patch",
"published_at": "2024-12-10T14:38:37Z"
},
{
"tag": "v1.5.7",
"kind": "patch",
"published_at": "2024-12-04T11:21:12Z"
},
{
"tag": "v1.5.6",
"kind": "patch",
"published_at": "2024-11-28T09:25:31Z"
},
{
"tag": "v1.5.5",
"kind": "patch",
"published_at": "2024-11-21T12:52:02Z"
},
{
"tag": "v1.5.4",
"kind": "patch",
"published_at": "2024-11-21T11:20:30Z"
},
{
"tag": "v1.5.3",
"kind": "patch",
"published_at": "2024-11-14T10:44:08Z"
},
{
"tag": "v1.5.2",
"kind": "patch",
"published_at": "2024-11-13T16:20:41Z"
},
{
"tag": "v1.5.1",
"kind": "patch",
"published_at": "2024-11-13T13:26:39Z"
},
{
"tag": "v1.2.4",
"kind": "patch",
"published_at": "2023-08-22T12:21:07Z"
},
{
"tag": "v1.2.3",
"kind": "patch",
"published_at": "2022-09-22T12:19:00Z"
},
{
"tag": "1.2.2",
"kind": "patch",
"published_at": "2022-02-23T14:15:53Z"
},
{
"tag": "1.2.1",
"kind": "patch",
"published_at": "2021-01-14T20:07:51Z"
},
{
"tag": "1.2.0",
"kind": "minor",
"published_at": "2021-01-12T14:49:29Z"
},
{
"tag": "1.1.3",
"kind": "patch",
"published_at": "2020-06-09T09:31:50Z"
},
{
"tag": "1.1.2",
"kind": "patch",
"published_at": "2020-06-03T15:30:31Z"
},
{
"tag": "1.1.1",
"kind": "patch",
"published_at": "2020-05-27T13:41:21Z"
},
{
"tag": "1.1.0-rc2",
"kind": "prerelease",
"published_at": "2020-04-15T14:10:01Z"
},
{
"tag": "1.1.0-rc",
"kind": "prerelease",
"published_at": "2020-03-30T10:52:50Z"
},
{
"tag": "v1.0.0",
"kind": "major",
"published_at": "2018-06-09T14:04:48Z"
}
],
"recent_commits": [
{
"oid": "5b2be2f6e06eab35ff01b0acee3f89b1547cb88c",
"body": "* Optimise guppyplex, ~10x speedup\n\n* Add memory optimisations\n\n* split large single FASTQs for parallelisation purposes\n\n* Make comments pithier\n\n* Version bump",
"is_bot": false,
"headline": "Optimise guppyplex, ~10x speedup (#196)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-07-16T14:20:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a27191473dd4d6167641401e61f3a56a1d5c008d",
"body": null,
"is_bot": false,
"headline": "Output new coverage reports from align_trim 1.2.0 (#194)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-06-29T11:26:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fa6ee3a32e8ed76e9f57466ac2315c233aa64970",
"body": "* Mask preconsensus hotfix\n\n* Fix VCF test mock",
"is_bot": false,
"headline": "Mask preconsensus hotfix (#193)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-06-15T15:21:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4577639dc2ac357748c80830d5c87fb3724587a9",
"body": "* Add v6.0.0 hac support and support new FQ header format\n\n* Add RG:Z to error message\n\n* Update docs and fix type incompatible union type in type hint",
"is_bot": false,
"headline": "Add v6.0.0 hac support and support new FQ header format (#191)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-06-10T11:06:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2f175cd3ebd9734254b8e951aefbf301c6012485",
"body": "* Make guppyplex ignore hidden files\n\n* Fix docker build action\n\n* Expose variant filtering thresholds and add discard logic for very low AF vars\n\n* Discard RefCall variants\n\n* Update commands doc to make variant filtering logic more clear\n\n* Add guppyplex tests\n\n* Modify variant parameter text, increase minimum clair3 version",
"is_bot": false,
"headline": "1.10.1 dev (#189)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-04-28T14:26:04Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8008b4c97c2193a82308ff6f0be507b1d9306e36",
"body": "* add new tests/clair3 models\n\n* get models pre unittests\n\n* fix get models in action\n\n* explicitly check for .pt files when checking for model existence\n\n* add more pytorch unit tests\n\n* Improve docs / make guppyplex multiprocessed\n\n* Add handling of spaced paths and a unit test for same\n\n* str(p) \n[…]\n on release\n\n* remove cyvcf2 dependency and reduce image size\n\n* Don't download all models every time\n\n* Update vcf_merge to sort CI fail\n\n* remove variant off by one error\n\n* Update clair3 models doc",
"is_bot": false,
"headline": "Pre 1.10.0 PR (#187)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-04-10T08:57:33Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "8cdf5cec2598bdd105117a38adc28735104c7e94",
"body": "* Optimise make_depth_mask for large bacterial genomes (e.g. TB)\n\nSwitch from pileup-centric to fetch-centric depth collection:\n- Use bamFile.fetch() so each read is processed once; get_tag(\"RG\") drops\n from O(ref_len × coverage) calls to O(num_reads)\n- Replace Python list depth arrays with numpy i\n[…]\n\n* Use direct BAM iteration instead of fetch() to avoid index requirement\n\n* Fall back to sequential BAM scan when no index is present\n\n* Add unit tests for collect_depths using synthetic BAM fixtures",
"is_bot": false,
"headline": "Optimise make depth mask (#185)",
"author_name": "Chris",
"author_login": "ChrisgKent",
"committed_at": "2026-04-08T12:05:29Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "8f5710cbe13f977b0afc413340e22cd7ee092c0b",
"body": null,
"is_bot": false,
"headline": "Restrict clair3 version to <2.0.0",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-03-19T09:44:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "fe4f3bd98e0fd1ca14f3bf7f22709771a62116fe",
"body": "* Add specific exit code handling logic\n\n* add system exit handling, move no length test to dengue\n\n* specify SC2 scheme length\n\n* move to subprocess instead of os system\n\n* version bump\n\n* improve memory error message\n\n* Improve syskill message\n\n* handle stderr invalid bytes better\n\n* only use the \n[…]\n\n\n* fix tests\n\n* use namespace for error handling test\n\n* print stderr for test debugging\n\n* don't run pytest with `-s`\n\n* captured stderr to stdout\n\n* use r941_prom_hac_g360+g422 clair3 model in test",
"is_bot": false,
"headline": "Error handling improvements (#181)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2026-02-24T16:17:12Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "2fb8abf66633a2a7e5a656b7bff516bb1a87fa36",
"body": null,
"is_bot": false,
"headline": "Properly determine whether deletions are inframe (1.8.5)",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-10-17T12:05:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3bfc3f42b926a91e7988b7eecdda409033b78835",
"body": null,
"is_bot": false,
"headline": "1.8.3 Push",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-09-11T09:31:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f6b919801c3575856b4d3a8fee0a538ba3dc5919",
"body": null,
"is_bot": false,
"headline": "1.8.3 push",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-09-11T06:29:33Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e268d5c0f82102ef66d920381abf34c6f2c38642",
"body": "* haploid sensitive\n\n* Add higher variant qual threshold for frameshifts\n\n* Add allele frequency filter\n\n* Update AF filter\n\n* Require higher frameshift variant qual\n\n* remove minor allele test variant\n\n* add clair3 --enable_variant_calling_at_sequence_head_and_tail arg\n\n* delete per pool primertrimmed BAMs",
"is_bot": false,
"headline": "1.8.2 PR (#177)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-09-10T12:11:38Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d904d64f2904f5d3226f55c0d3499b15f7cd9b8b",
"body": null,
"is_bot": false,
"headline": "Fix readme typo",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-09-03T13:43:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8914624f7286874157aa35e5d475dd4988c47c6b",
"body": null,
"is_bot": false,
"headline": "Update fieldbioinformatics SOP link",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-09-03T13:41:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "17af2be18a5c7e0723c6e52c0b1b2c97ddf731e2",
"body": "* Fix clair3 command\n\n* bump align_trim dependency version",
"is_bot": false,
"headline": "1.8.1 (#175)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-08-29T11:23:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0d1c901a1abaedad2650801787024abc6c3df72d",
"body": null,
"is_bot": false,
"headline": "Bump version from 1.7.5 to 1.8.0",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-08-26T14:14:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "390dedd10fc5e6add2ac94e88c2ce0ce182d2555",
"body": "* pivot to align_trim standalone\n\n* Reformat ituri scheme bed\n\n* Fix scheme bed formatting\n\n* Refactor bed file parsing to use primalbedtools\n\n* remove redundant scheme parsing unit test\n\n* Fix scheme parsing in minion workflow\n\n* Remove pandas dependency is mask.py\n\n* fix 3col bed parser",
"is_bot": false,
"headline": "1.8.0-dev (#173)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-08-26T11:52:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "697c51c2eafc3352cd13da8490030b6e1cf0d8a6",
"body": "* 1.7.4 push\n\n* Unify verbose progress messages, always include read_id\n\n* Fix segment nonetype bug\n\n* Fix leftover %\n\n* Improve clair3 model handling\n\n* Update valid command test\n\n* Switch over to pyproject.toml",
"is_bot": false,
"headline": "1.7.5 dev (#172)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-07-17T11:22:19Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "cf9992ef4e5ad37230a4d1437b12daf71bccb5dc",
"body": "* 1.7.4 push\n\n* Unify verbose progress messages, always include read_id\n\n* Fix segment nonetype bug\n\n* Fix leftover %",
"is_bot": false,
"headline": "1.7.4 PR (#170)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-07-15T14:30:21Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f4afa531107b019b170e6f90d29a4850d0975d20",
"body": "* Change to fasta header logic\n\n* Fix re-head logic, add primer mismatch testcase\n\n* Don't add caller to fasta header\n\n* fix allow mismatches test\n\n* provide model in allow mismatches test\n\n* Remove redundant clair3 calls",
"is_bot": false,
"headline": "1.7.3 PR (#169)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-06-12T13:14:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "82961422c1737ac2d15756bb3ac774254eb024d9",
"body": "* Change to fasta header logic\n\n* Fix re-head logic, add primer mismatch testcase\n\n* Don't add caller to fasta header\n\n* fix allow mismatches test\n\n* provide model in allow mismatches test",
"is_bot": false,
"headline": "1.7.2 PR (#168)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-06-11T12:35:57Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c7a78d1d5ac10016818f1fc0f3dd3f839d27e46c",
"body": null,
"is_bot": false,
"headline": "1.7.1 push",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-06-06T16:05:49Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4130c471f29d5af5754e0ed32d75dfc01d86409e",
"body": null,
"is_bot": false,
"headline": "Push segmented virus fixes (#166)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-06-06T14:38:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "103f94b0e703c9deb29ecb8e512e8812e516646c",
"body": null,
"is_bot": false,
"headline": "1.6.5 push",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-06-06T12:52:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5dee360d90bcbb74afe2f3130432a0b6e1cce13b",
"body": "* Support dorado v5.2.0 clair3 models\n\n* Account for model tarballs with mismatching top level dirs",
"is_bot": false,
"headline": "1.6.4 PR (#165)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-05-22T08:51:17Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "96f3057824d7806780ce0f00d1f22e83062cc586",
"body": null,
"is_bot": false,
"headline": "Add paired support to align_trim.py (#163)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-05-08T14:20:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "87980b83c0b3aa59051f209ffd8579778dee3f92",
"body": null,
"is_bot": false,
"headline": "Update docs",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-03-31T10:14:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2685f4babfc8024f79f1eb84a32aca7842429502",
"body": null,
"is_bot": false,
"headline": "add .readthedocs.yaml",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2025-03-31T09:18:08Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "1e8912f9104e8e615449a456428bcd6fa64af6e8",
"body": "* Add linearise ref option\n\n* linearise fasta in validator\n\n* triple quotes around awk\n\n* escape newlines\n\n* add space after awk\n\n* Fix the awk\n\n* remove the awkward awk solution\n\n* 1.6.2 version bump",
"is_bot": false,
"headline": "1.6.2 PR [closes #160] (#161)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-03-09T07:48:18Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0bfb1c6cdfabbea884e8ad735f6e291326520039",
"body": null,
"is_bot": false,
"headline": "Reduce stale issues thresholds",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-02-12T12:12:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ab353f845d13e0ef2904b58f30ce8b3476dde02e",
"body": null,
"is_bot": false,
"headline": "Temporarily fix high --normalisation issue until maptide refactor (#157)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-23T12:29:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a60ede07695bf8d309a55ca0f69099cc7de39870",
"body": null,
"is_bot": false,
"headline": "Ignore enhancements when closing stale issues",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-08T11:39:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f76e50e63435333dd9500bb52dd2bec682884654",
"body": null,
"is_bot": false,
"headline": "Add improvement stale issue exemption",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-08T11:38:35Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a9f0566f22e6e42899d7df72d9d3f95261f7f1ce",
"body": null,
"is_bot": false,
"headline": "Remove redundant 1.4.0-dev from readme",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-07T10:14:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "93ce510b2f7361984ecd0a70ab624fb968571765",
"body": null,
"is_bot": false,
"headline": "1.6.0 Version Bump",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-06T16:41:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "94cc65daf89419340da35215b1f689245e155471",
"body": "* First test for multiref\r\n\r\n* Multiref changes\r\n\r\n* Fix align trim unit test\r\n\r\n* fix rehead fasta",
"is_bot": false,
"headline": "Add support for segmented genomes / amplicon panels (#146)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-06T16:41:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e86da8a28c70e8d6ef8ed7023c4f8c7868664315",
"body": null,
"is_bot": false,
"headline": "1.5.8 version bump",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2025-01-06T15:22:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "17c3a493bfa141cce32ac05a0490f0dc649274da",
"body": null,
"is_bot": false,
"headline": "Link to MPXV protocol instead of SC2",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2024-12-18T10:12:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "591a3b686f6e0293f5a14318f34cf45db04c6c8f",
"body": null,
"is_bot": false,
"headline": "Add seqtk dependency",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-12-10T14:38:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c00e5f3e19e18412802b9accc6d7c05381a8ba52",
"body": null,
"is_bot": false,
"headline": "Add clair3 pin",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-12-04T11:19:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "bc940d82eb756856cf21a7e10c1e7448e695a0fc",
"body": null,
"is_bot": false,
"headline": "1.5.7 Version Bump",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-12-04T11:17:45Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6054b5f7ef638f9d9a08e070a30e79e66a64bdb8",
"body": "… only artic-inrb-mpox) (#147)\n\n* First commit\r\n\r\n* make model dir if it doesn't exist\r\n\r\n* scheme length isn't an int",
"is_bot": false,
"headline": "Add reference selection functionality for multiref schemes (currently…",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2024-12-04T11:15:12Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "6cc5f5da064d66458485066c8577e4d38cf36899",
"body": "* Pre 1.5.6 push\r\n\r\n* Fix align_trim unit test\r\n\r\n* Remove verbose as a global arg\r\n\r\n* Fix minion validator test\r\n\r\n* Fix minion_validator again\r\n\r\n* Remove unused import",
"is_bot": false,
"headline": "1.5.6 PR (fixes #144) (#145)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2024-11-28T09:24:54Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a3e1df71a4e2b44b2b6440217646173d4ba867db",
"body": null,
"is_bot": false,
"headline": "remove vestigial pyfaidx pin",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-21T15:10:41Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e2e18e45a10d0680f1add064fdf87242a3433a93",
"body": null,
"is_bot": false,
"headline": "1.5.5 version bump",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-21T12:51:43Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "453a72db334fdad2642c322639adb0b0436641b1",
"body": null,
"is_bot": false,
"headline": "Mafft PR push (#143)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2024-11-21T12:51:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "06eb11c90ec61b19a2984d7784c0753ff0c7f4ae",
"body": null,
"is_bot": false,
"headline": "Version bump",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-21T11:19:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a0733e2bbaa05875bddf3265738e7c892aefb4c2",
"body": null,
"is_bot": false,
"headline": "Remove explicit platform tag from docker build",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-21T11:14:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "25cb3380bda5c23d31a1c8c2381b2a3e4e2415c7",
"body": null,
"is_bot": false,
"headline": "1.5.3 bump, fix --version",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-14T10:43:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "544fa2fa3b3765b0b8e841956d870dadb6c2222f",
"body": null,
"is_bot": false,
"headline": "Fix setup.cfg",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T16:19:48Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f8e69ca64fa3d6ec3f1177d2aec1d9e6646bb7e9",
"body": null,
"is_bot": false,
"headline": "Changes to shrink dockerfile / version bump",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T16:13:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c913b7d8c1cf8843e3d43ecd476239cdc86fb1bf",
"body": null,
"is_bot": false,
"headline": "Re-add conda to readme",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T16:10:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8257a1f7331b91af18e6c7bc0af38177681fc525",
"body": null,
"is_bot": false,
"headline": "Update entrypoints",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T15:44:51Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "70886a18255e688654d1c30191ece23a5ce94ad0",
"body": null,
"is_bot": false,
"headline": "Update setup.cfg python requirement",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T15:26:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b9f485e8e88cfd98cc0d5ff53850ef15eb1a727d",
"body": null,
"is_bot": false,
"headline": "Fix docker build action",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T13:25:29Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e26292b979886b17957e705f5def5758710f638d",
"body": null,
"is_bot": false,
"headline": "Add docker image badge",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T13:10:55Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "35b8d64955b26536f2781de3813c355bc70ecabc",
"body": null,
"is_bot": false,
"headline": "Switch travis badge to gh actions",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T12:55:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a98b00cd2f6306806a618416cff0344934c99413",
"body": null,
"is_bot": false,
"headline": "Fix tests readme entry",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T12:51:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7bef2e2dc19c3fab4acf18ec9f10b9ce5300fb41",
"body": null,
"is_bot": false,
"headline": "Remove branch checkout from install readme",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2024-11-13T12:51:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f73ffd0e046fa55348eaf81bc9ade75d652d7395",
"body": "* 1.4.0 pre-release version (#135)\r\n\r\n* Deprecate old tools and black format\r\n\r\n* Support fragmented data\r\n\r\n* use new trim primer arg in minion\r\n\r\n* reverse the (revolting) primer position logic\r\n\r\n* Fix find primer logic\r\n\r\n* Improve the cursed report writer logic\r\n\r\n* explicitly named function ar\n[…]\non bump\r\n\r\n* properly put low quality variants in mask\r\n\r\n* 1.5.1 version bump\r\n\r\n* Update vcf filtering and clair3 command\r\n\r\n---------\r\n\r\nCo-authored-by: Rachel Colquhoun <rachel.colquhoun@ed.ac.uk>",
"is_bot": false,
"headline": "Version 1.5.1 Release (#137)",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2024-11-13T12:36:47Z",
"body_truncated": true,
"is_coding_agent": false
},
{
"oid": "314f52bcdd22faf827b7471086e97c196cc38c8f",
"body": null,
"is_bot": false,
"headline": "1.2.4 version bump",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2023-08-22T12:20:05Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c47f4f1cd7180ccf8cd2de88da28e2b2cddd4e50",
"body": null,
"is_bot": false,
"headline": "Update medaka version",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2023-08-22T12:19:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ae337bf3519ebe691603690467d279c2c61ef4cb",
"body": "Update vcftagprimersites.py",
"is_bot": false,
"headline": "Merge pull request #123 from mattloose/patch-1",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2023-08-22T10:17:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "b44cdb5483cda88bf189150b03ab9a07c6d858a8",
"body": "Will actually provide the intended error if LEFT/RIGHT is not found in the bed file rather than current behaviour.",
"is_bot": false,
"headline": "Update vcftagprimersites.py",
"author_name": "mattloose",
"author_login": "mattloose",
"committed_at": "2022-11-29T16:24:22Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8eb6a0c619030b137f8c97545aa1b763b94446db",
"body": "Add note about flexible channel priority",
"is_bot": false,
"headline": "Update README.md",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2022-11-09T14:22:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "feff44a7936d85be899c356fc79506771eca9e9e",
"body": null,
"is_bot": false,
"headline": "Fix minor typo",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2022-09-22T12:38:02Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "763427a6090bd987052ac7abbd7bd2b01ec8d6a8",
"body": null,
"is_bot": false,
"headline": "Update version.py",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2022-09-22T12:11:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "52493c138ad2a617041231edee2225d8ad4c1847",
"body": null,
"is_bot": false,
"headline": "update environment yml to fix pyvcf bug",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2022-09-22T12:01:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "98241267d65eb76a98d11f3e41b6aeb71da68253",
"body": null,
"is_bot": false,
"headline": "Update README.md",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2022-07-25T12:24:01Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "416bcc610f3ef9f2835577933ef52310d1d11d1c",
"body": null,
"is_bot": false,
"headline": "Belated version bump",
"author_name": "Sam W",
"author_login": "BioWilko",
"committed_at": "2022-06-29T10:37:46Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a30c6e596449134556aafbcaceca8f51408c98d1",
"body": "v1.2.2",
"is_bot": false,
"headline": "Merge pull request #104 from BioWilko/1.2.2-dev",
"author_name": "nickloman",
"author_login": "nickloman",
"committed_at": "2022-02-23T12:33:40Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "dc0a2876790d5f0987f662c986e3e71d03f184f1",
"body": null,
"is_bot": false,
"headline": "properly raise network exception error",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2022-02-11T15:48:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "a25f81bc5e6a3b65b9b2af23508e158697fa4ed7",
"body": null,
"is_bot": false,
"headline": "ensure that latest_scheme is not arbitrarily named",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2022-02-11T15:32:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "4f558d6a1de94dde004b94981b697f2908b487f4",
"body": null,
"is_bot": false,
"headline": "Addressed SN comments",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2022-02-11T15:24:31Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f6a66abce991bdf5dfadd5c429520978dda41d9f",
"body": null,
"is_bot": false,
"headline": "re-implemented scheme downloader in python",
"author_name": "Biowilko",
"author_login": "BioWilko",
"committed_at": "2022-02-11T11:11:13Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "23a8460f5b881c5b2712c0381e0ec4dc84d38359",
"body": "patch 1.2.0 > 1.2.1",
"is_bot": false,
"headline": "Merge pull request #68 from artic-network/1.3.0-dev",
"author_name": "nickloman",
"author_login": "nickloman",
"committed_at": "2021-01-14T20:02:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "90cc68c624d0f592f82bc16d3fbf0fc03356f731",
"body": null,
"is_bot": false,
"headline": "patching version",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-14T16:45:15Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "2fbca84f949124a09f9d6cf7bd0e24c374eacb4f",
"body": null,
"is_bot": false,
"headline": "updating docs",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-14T16:44:32Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "3c5be02bf047f85a8b75cbd02a07a5ef4df62284",
"body": null,
"is_bot": false,
"headline": "replacing artic multiqc fork with the vanilla one in the dep list",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-14T16:44:20Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "c71804db9c2bd9e4a369b6dec34d09f0636f5253",
"body": null,
"is_bot": false,
"headline": "fixing strict issue where vcf is not indexed",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-14T16:43:49Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "206cb43b93ae7cdd54b01e87c51fa3ec16e2573f",
"body": "…sed to then feed multiqc",
"is_bot": false,
"headline": "adding code to produce stats from align_trim and vcf_check reports, u…",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-14T16:43:28Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d5a0cb89ec46ecc9b738a3674f5575e74e5a9966",
"body": "Final changes for 1.2.0",
"is_bot": false,
"headline": "Merge pull request #67 from artic-network/symposiumRelease",
"author_name": "Will Rowe",
"author_login": null,
"committed_at": "2021-01-12T14:40:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f5cbba9427fed2f6040d19358df490e8b48478e6",
"body": null,
"is_bot": false,
"headline": "make --medaka-model a required flag if --medaka set",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-12T13:52:07Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "5661e761d17de1a4e0dd365ca4901a827c75e8ea",
"body": null,
"is_bot": false,
"headline": "updating doc to explicitly state minion_model needs to be set correctly",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-12T13:25:52Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "0208d5e0aac8f37617d486570f1319f2e6f26dee",
"body": null,
"is_bot": false,
"headline": "version bump",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-12T13:15:39Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "7d2c0222d92ed835cf3998c8c4d64946679d49cc",
"body": null,
"is_bot": false,
"headline": "deprecating plot_amplicon_depth script in favour of multiqc report",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-12T13:15:09Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ea69e3aef1cffca154ad3deb70cc0d2424bde300",
"body": null,
"is_bot": false,
"headline": "adding multiqc artic fork to env",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2021-01-12T13:02:36Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "9111543f629d5b87f90544601b73de18aace6390",
"body": "Optional longshot, optional overlap screening and optional primer scheme download/checking",
"is_bot": false,
"headline": "Merge pull request #60 from will-rowe/medaka-annotate",
"author_name": "nickloman",
"author_login": "nickloman",
"committed_at": "2020-12-16T12:56:27Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "ef856f7c813b7a69b4660cdd122cf6273d71b1ef",
"body": null,
"is_bot": false,
"headline": "removing glob from pytest as it fails with new filechecking",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-12-15T11:17:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "092a237b256a674e123d4415c6ebfbb3d500413d",
"body": null,
"is_bot": false,
"headline": "changing default scheme location to current directory",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-12-15T10:21:53Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "f9ed10404920db133791d0741a2bb62f8d9894f1",
"body": null,
"is_bot": false,
"headline": "checking input read-file exists at the start of the pipeline",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-12-15T10:21:30Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "d677d66fcfd4b15ca911114125695c3395e83beb",
"body": null,
"is_bot": false,
"headline": "bumping artic-tools to v0.2.6",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-12-02T12:31:58Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "8ac4e2c7260269aeb1c718611ed8a1ee71ae9185",
"body": null,
"is_bot": false,
"headline": "medaka not available for osx, doh - rolling back to 1.0.3",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-11-27T12:11:00Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "55c576ca1ce047bac5be4f2b94b2cc39392d9405",
"body": "updating scheme downloader to store them in expected locations",
"is_bot": false,
"headline": "updating artic-tools commands to exclude primer sites in overlap calcs",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-11-27T11:17:59Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "87a5b197bc7fdd53cfffb507b6b46d713def046e",
"body": null,
"is_bot": false,
"headline": "bumping artic-tools version and medaka version",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-11-27T11:16:37Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e0ccee553ee684a61e1593166487e2d44bf6abfb",
"body": null,
"is_bot": false,
"headline": "Update README.md",
"author_name": "Will Rowe",
"author_login": null,
"committed_at": "2020-09-30T08:22:23Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e486adba61e7ed3c6da6b29d5536dcd59f9265e5",
"body": null,
"is_bot": false,
"headline": "bumping artic-tools version",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-09-09T08:20:03Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "039d26c1b4d62547b9bed64cd866f199d17f1ac6",
"body": null,
"is_bot": false,
"headline": "adding align_trim figure",
"author_name": "Will Rowe",
"author_login": null,
"committed_at": "2020-09-08T13:44:11Z",
"body_truncated": false,
"is_coding_agent": false
},
{
"oid": "e093732849c95ede41c9daf657f0cac3aa71122e",
"body": null,
"is_bot": false,
"headline": "enabling opt flag setting per sample/workflow in validator",
"author_name": "Will Rowe",
"author_login": "will-rowe",
"committed_at": "2020-09-08T13:07:46Z",
"body_truncated": false,
"is_coding_agent": false
}
],
"releases_count": 45,
"commits_last_year": 18,
"latest_release_at": "2026-07-16T14:20:41Z",
"latest_release_tag": "v1.11.1",
"releases_from_tags": false,
"days_since_last_push": 19,
"active_weeks_last_year": 12,
"days_since_latest_release": 19,
"mean_days_between_releases": 34.2
},
"artifacts": {
"collected": true,
"structure": [
"tree.dockerfile"
],
"declarations": [
{
"name": "artic",
"path": "artic/deprecated/setup.py",
"tokens": [
"pypi.console_scripts"
],
"ecosystem": "pypi"
},
{
"name": "artic",
"path": "pyproject.toml",
"tokens": [
"pypi.console_scripts"
],
"ecosystem": "pypi"
}
]
},
"community": {
"has_readme": false,
"has_license": false,
"readme_badges": {
"hosts": [
"github.com",
"readthedocs.org",
"shields.io"
],
"total": 4,
"header": 4,
"collected": true,
"has_inspect_badge": false
},
"has_description": false,
"has_contributing": false,
"health_percentage": null,
"has_issue_template": false,
"has_code_of_conduct": false,
"has_pull_request_template": false
},
"ecosystem": {
"packages": []
},
"popularity": {
"forks": 71,
"stars": 135,
"watchers": 13,
"fork_history": {
"days": [
{
"date": "2019-03-11",
"count": 1
},
{
"date": "2019-04-29",
"count": 1
},
{
"date": "2020-03-09",
"count": 1
},
{
"date": "2020-03-23",
"count": 1
},
{
"date": "2020-03-24",
"count": 1
},
{
"date": "2020-04-05",
"count": 1
},
{
"date": "2020-04-13",
"count": 1
},
{
"date": "2020-04-17",
"count": 1
},
{
"date": "2020-05-08",
"count": 1
},
{
"date": "2020-05-19",
"count": 1
},
{
"date": "2020-05-26",
"count": 1
},
{
"date": "2020-07-02",
"count": 1
},
{
"date": "2020-07-28",
"count": 1
},
{
"date": "2020-07-29",
"count": 1
},
{
"date": "2020-08-05",
"count": 1
},
{
"date": "2020-09-10",
"count": 1
},
{
"date": "2020-10-15",
"count": 1
},
{
"date": "2021-01-12",
"count": 1
},
{
"date": "2021-02-19",
"count": 2
},
{
"date": "2021-04-06",
"count": 1
},
{
"date": "2021-05-13",
"count": 1
},
{
"date": "2021-05-31",
"count": 1
},
{
"date": "2021-06-05",
"count": 1
},
{
"date": "2021-06-10",
"count": 1
},
{
"date": "2021-07-06",
"count": 1
},
{
"date": "2021-07-15",
"count": 1
},
{
"date": "2021-08-03",
"count": 1
},
{
"date": "2021-10-11",
"count": 1
},
{
"date": "2021-10-18",
"count": 1
},
{
"date": "2021-12-03",
"count": 1
},
{
"date": "2021-12-14",
"count": 1
},
{
"date": "2022-01-03",
"count": 1
},
{
"date": "2022-01-14",
"count": 1
},
{
"date": "2022-01-20",
"count": 1
},
{
"date": "2022-01-21",
"count": 1
},
{
"date": "2022-02-11",
"count": 1
},
{
"date": "2022-02-16",
"count": 1
},
{
"date": "2022-02-24",
"count": 1
},
{
"date": "2022-03-04",
"count": 1
},
{
"date": "2022-03-14",
"count": 1
},
{
"date": "2022-03-18",
"count": 1
},
{
"date": "2022-03-21",
"count": 1
},
{
"date": "2022-05-05",
"count": 1
},
{
"date": "2022-05-10",
"count": 1
},
{
"date": "2022-06-14",
"count": 1
},
{
"date": "2022-06-20",
"count": 1
},
{
"date": "2022-06-23",
"count": 1
},
{
"date": "2022-06-29",
"count": 1
},
{
"date": "2022-08-09",
"count": 1
},
{
"date": "2022-08-17",
"count": 1
},
{
"date": "2022-08-26",
"count": 1
},
{
"date": "2022-10-24",
"count": 1
},
{
"date": "2022-11-22",
"count": 1
},
{
"date": "2022-11-26",
"count": 1
},
{
"date": "2022-11-29",
"count": 1
},
{
"date": "2022-12-20",
"count": 1
},
{
"date": "2022-12-27",
"count": 1
},
{
"date": "2023-03-17",
"count": 1
},
{
"date": "2023-04-28",
"count": 1
},
{
"date": "2023-07-21",
"count": 1
},
{
"date": "2023-08-08",
"count": 1
},
{
"date": "2023-09-25",
"count": 1
},
{
"date": "2024-04-23",
"count": 1
},
{
"date": "2024-07-10",
"count": 1
},
{
"date": "2025-03-10",
"count": 1
},
{
"date": "2025-04-03",
"count": 1
},
{
"date": "2025-06-22",
"count": 1
},
{
"date": "2025-07-01",
"count": 1
},
{
"date": "2025-10-13",
"count": 1
},
{
"date": "2026-02-15",
"count": 1
}
],
"complete": true,
"collected": 71,
"total_forks": 71
},
"star_history": null,
"open_issues_and_prs": 3
},
"ai_readiness": {
"has_nix": false,
"example_dirs": [],
"has_llms_txt": false,
"has_dockerfile": true,
"has_mcp_signal": false,
"bootstrap_files": [],
"api_schema_files": [],
"has_devcontainer": false,
"typecheck_configs": [],
"toolchain_manifests": [],
"largest_source_bytes": 37619,
"source_files_sampled": 83,
"oversized_source_files": 0,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"dependencies": {
"manifests": [
"pyproject.toml"
],
"advisories": {
"error": null,
"scope": null,
"source": null,
"findings": [],
"collected": false,
"malicious": [],
"truncated": false,
"by_severity": {},
"advisory_count": 0,
"affected_count": 0,
"assessed_count": 0,
"malicious_count": 0,
"assessed_package": null,
"unassessed_count": 0,
"direct_affected_count": 0
},
"ecosystems": [
"pypi"
],
"dependencies": [],
"all_dependencies": {
"error": "GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository",
"source": null,
"packages": [],
"collected": false,
"truncated": false,
"total_count": null,
"direct_count": null,
"indirect_count": null
}
},
"maintainership": {
"issues": {
"open_prs": 0,
"merged_prs": 69,
"open_issues": 3,
"closed_ratio": 0.971,
"closed_issues": 102,
"closed_unmerged_prs": 22
},
"bus_factor": 2,
"bot_contributors": 0,
"top_contributors": [
{
"type": "User",
"login": "nickloman",
"commits": 242,
"avatar_url": "https://avatars.githubusercontent.com/u/116577?v=4"
},
{
"type": "User",
"login": "will-rowe",
"commits": 177,
"avatar_url": "https://avatars.githubusercontent.com/u/5321233?v=4"
},
{
"type": "User",
"login": "BioWilko",
"commits": 73,
"avatar_url": "https://avatars.githubusercontent.com/u/29129175?v=4"
},
{
"type": "User",
"login": "rpoplawski0",
"commits": 30,
"avatar_url": "https://avatars.githubusercontent.com/u/19431274?v=4"
},
{
"type": "User",
"login": "sagrudd",
"commits": 14,
"avatar_url": "https://avatars.githubusercontent.com/u/3848500?v=4"
},
{
"type": "User",
"login": "rambaut",
"commits": 11,
"avatar_url": "https://avatars.githubusercontent.com/u/686405?v=4"
},
{
"type": "User",
"login": "trvrb",
"commits": 9,
"avatar_url": "https://avatars.githubusercontent.com/u/1176109?v=4"
},
{
"type": "User",
"login": "gkarthik",
"commits": 9,
"avatar_url": "https://avatars.githubusercontent.com/u/798263?v=4"
},
{
"type": "User",
"login": "jts",
"commits": 4,
"avatar_url": "https://avatars.githubusercontent.com/u/389535?v=4"
},
{
"type": "User",
"login": "ChrisgKent",
"commits": 1,
"avatar_url": "https://avatars.githubusercontent.com/u/68433726?v=4"
}
],
"contributors_sampled": 11,
"top_contributor_share": 0.424
},
"quality_signals": {
"has_ci": true,
"has_tests": true,
"ci_workflows": [
"docker-build-push.yml",
"stale-issues.yml",
"unittests.yml"
],
"has_docs_dir": true,
"linter_configs": [],
"has_editorconfig": false,
"has_linter_config": false,
"has_precommit_config": false
},
"security_signals": {
"lockfiles": [],
"scorecard": {
"checks": [
{
"name": "Binary-Artifacts",
"score": 10,
"reason": "no binaries found in the repo",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
},
{
"name": "Branch-Protection",
"score": 0,
"reason": "branch protection not enabled on development/release branches",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
},
{
"name": "CI-Tests",
"score": 6,
"reason": "13 out of 19 merged PRs checked by a CI test -- score normalized to 6",
"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": 1,
"reason": "Found 3/30 approved changesets -- score normalized to 1",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
},
{
"name": "Contributors",
"score": 10,
"reason": "project has 26 contributing companies or organizations",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#contributors"
},
{
"name": "Dangerous-Workflow",
"score": 10,
"reason": "no dangerous workflow patterns detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dangerous-workflow"
},
{
"name": "Dependency-Update-Tool",
"score": 0,
"reason": "no update tool detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#dependency-update-tool"
},
{
"name": "Fuzzing",
"score": 0,
"reason": "project is not fuzzed",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#fuzzing"
},
{
"name": "License",
"score": 10,
"reason": "license file detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#license"
},
{
"name": "Maintained",
"score": 6,
"reason": "4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#maintained"
},
{
"name": "Packaging",
"score": 10,
"reason": "packaging workflow detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#packaging"
},
{
"name": "Pinned-Dependencies",
"score": 0,
"reason": "dependency not pinned by hash detected -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#pinned-dependencies"
},
{
"name": "SAST",
"score": 0,
"reason": "SAST tool is not run on all commits -- score normalized to 0",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#sast"
},
{
"name": "Security-Policy",
"score": 0,
"reason": "security policy file not detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#security-policy"
},
{
"name": "Signed-Releases",
"score": null,
"reason": "no releases found",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#signed-releases"
},
{
"name": "Token-Permissions",
"score": 0,
"reason": "detected GitHub workflow tokens with excessive permissions",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#token-permissions"
},
{
"name": "Vulnerabilities",
"score": 10,
"reason": "0 existing vulnerabilities detected",
"documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
}
],
"commit": "5b2be2f6e06eab35ff01b0acee3f89b1547cb88c",
"ran_at": "2026-08-05T08:23:13Z",
"aggregate_score": 4.3,
"scorecard_version": "v5.5.0"
},
"has_codeql_workflow": false,
"has_security_policy": false,
"has_dependabot_config": false
},
"contribution_flow": {
"collected": true,
"recent_prs": {
"merged_7d": 0,
"decided_7d": 0,
"merged_30d": 1,
"authors_30d": 1,
"decided_30d": 1,
"sample_size": 60,
"window_days": 30,
"sample_exhausted": false,
"authors_probed_30d": 1,
"newcomer_merged_30d": 0,
"bot_prs_excluded_30d": 0,
"newcomer_authors_30d": 0,
"newcomer_decided_30d": 0
},
"ci_last_run_at": "2026-08-05T04:36:21Z",
"oldest_open_prs": [],
"last_merged_pr_at": "2026-07-16T14:20:08Z",
"ci_last_conclusion": "SUCCESS",
"oldest_open_issues": [
{
"number": 152,
"created_at": "2025-01-08T11:41:30Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 153,
"created_at": "2025-01-08T11:46:15Z",
"last_comment_at": null,
"last_comment_author": null
},
{
"number": 197,
"created_at": "2026-07-29T05:44:36Z",
"last_comment_at": "2026-07-29T12:38:10Z",
"last_comment_author": "BioWilko"
}
]
}
},
"config": {
"disabled_metrics": [],
"disabled_categories": [],
"disabled_components": {}
},
"source": {
"url": "https://github.com/artic-network/fieldbioinformatics",
"host": "github.com",
"name": "fieldbioinformatics",
"owner": "artic-network"
},
"metrics": {
"overall": {
"key": "overall",
"band": "moderate",
"name": "Overall health",
"note": "The weighted overall 57 is calibrated to 60 on the published index scale (record calibration 2026-08-02).",
"notes": [
{
"code": "overall_calibration",
"params": {
"raw": 57,
"calibrated": 60,
"calibration": "2026-08-02"
}
}
],
"value": 60,
"inputs": {
"security": 43,
"vitality": 73,
"community": 42,
"governance": 68,
"calibration": "2026-08-02",
"engineering": 56,
"ai_readiness": 30,
"weighted_overall_raw": 57
},
"components": []
},
"categories": [
{
"key": "vitality",
"band": "good",
"name": "Vitality",
"value": 73,
"weight": 0.21,
"metrics": [
{
"key": "development_activity",
"band": "moderate",
"name": "Development activity",
"note": null,
"notes": [],
"value": 55,
"inputs": {
"commits_last_year": 18,
"human_commit_share": 1,
"days_since_last_push": 19,
"active_weeks_last_year": 12
},
"components": [
{
"key": "push_recency",
"name": "Push recency",
"detail": "last push 19 days ago",
"points": 28.8,
"status": "partial",
"details": [
{
"code": "push_recency",
"params": {
"days": 19
}
}
],
"max_points": 36
},
{
"key": "commit_cadence",
"name": "Commit cadence",
"detail": "12/52 weeks with commits",
"points": 8.3,
"status": "partial",
"details": [
{
"code": "commit_cadence_weeks",
"params": {
"weeks": 12
}
}
],
"max_points": 36
},
{
"key": "commit_volume",
"name": "Commit volume",
"detail": "18 commits in the last year",
"points": 11.5,
"status": "partial",
"details": [
{
"code": "commits_last_year",
"params": {
"count": 18
}
}
],
"max_points": 18
},
{
"key": "openssf_scorecard_maintained",
"name": "OpenSSF Scorecard: Maintained",
"detail": "4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6",
"points": 6,
"status": "partial",
"details": [],
"max_points": 10
}
]
},
{
"key": "release_discipline",
"band": "exceptional",
"name": "Release discipline",
"note": "Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"openssf_scorecard_signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 100,
"inputs": {
"releases_count": 45,
"latest_release_tag": "v1.11.1",
"releases_from_tags": false,
"days_since_latest_release": 19,
"mean_days_between_releases": 34.2
},
"components": [
{
"key": "ships_releases",
"name": "Ships releases",
"detail": "45 releases published",
"points": 27,
"status": "met",
"details": [
{
"code": "releases_published",
"params": {
"count": 45
}
}
],
"max_points": 27
},
{
"key": "release_recency",
"name": "Release recency",
"detail": "latest release 19 days ago",
"points": 36,
"status": "met",
"details": [
{
"code": "release_recency",
"params": {
"days": 19
}
}
],
"max_points": 36
},
{
"key": "release_cadence",
"name": "Release cadence",
"detail": "a release every ~34.2 days",
"points": 27,
"status": "met",
"details": [
{
"code": "release_cadence",
"params": {
"gap": 34.2
}
}
],
"max_points": 27
},
{
"key": "openssf_scorecard_signed_releases",
"name": "OpenSSF Scorecard: Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 10
}
]
},
{
"key": "abandonment",
"band": "exceptional",
"name": "Abandonment",
"note": null,
"notes": [],
"value": 100,
"inputs": {
"cap": null,
"state": "maintained",
"guards": [],
"signals": [],
"red_flag": false,
"multiplier_pct": 100,
"declared_reason": null,
"unverified_reason": null,
"unanswered_open_prs": null,
"unanswered_open_issues": null,
"days_since_last_merged_pr": null,
"days_since_last_human_commit": 19,
"days_since_last_human_commit_is_floor": false
},
"components": [
{
"key": "project_is_still_maintained",
"name": "Project is still maintained",
"detail": "last human commit 19 days ago",
"points": 100,
"status": "met",
"details": [
{
"code": "abandonment_maintained",
"params": {
"days": 19
}
}
],
"max_points": 100
}
]
}
],
"description": "Is the project alive — is code being written and are releases shipping?"
},
{
"key": "community",
"band": "weak",
"name": "Community & Adoption",
"value": 42,
"weight": 0.17,
"metrics": [
{
"key": "popularity",
"band": "moderate",
"name": "Popularity & adoption",
"note": null,
"notes": [],
"value": 56,
"inputs": {
"forks": 71,
"stars": 135,
"watchers": 13,
"growth_state": "unverified",
"growth_factor_pct": 100,
"growth_unverified_reason": "no_history"
},
"components": [
{
"key": "stars",
"name": "Stars",
"detail": "135 stars",
"points": 34.5,
"status": "partial",
"details": [
{
"code": "stars",
"params": {
"count": 135
}
}
],
"max_points": 60
},
{
"key": "forks",
"name": "Forks",
"detail": "71 forks",
"points": 15.4,
"status": "partial",
"details": [
{
"code": "forks",
"params": {
"count": 71
}
}
],
"max_points": 25
},
{
"key": "watchers",
"name": "Watchers",
"detail": "13 watchers",
"points": 6,
"status": "partial",
"details": [
{
"code": "watchers",
"params": {
"count": 13
}
}
],
"max_points": 15
}
]
},
{
"key": "community_health",
"band": "at_risk",
"name": "Community health",
"note": null,
"notes": [],
"value": 25,
"inputs": {
"has_readme": false,
"has_license": false,
"readme_badges": 4,
"has_contributing": false,
"has_issue_template": false,
"has_code_of_conduct": false,
"readme_badge_services": [
"github.com",
"readthedocs.org",
"shields.io"
],
"has_pull_request_template": false
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 22.5
},
{
"key": "license",
"name": "License",
"detail": "recognized license (MIT)",
"points": 22.5,
"status": "met",
"details": [
{
"code": "license_standard",
"params": {}
},
{
"code": "license_spdx",
"params": {
"spdx": "MIT"
}
}
],
"max_points": 22.5
},
{
"key": "contributing_guide",
"name": "CONTRIBUTING guide",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 18
},
{
"key": "code_of_conduct",
"name": "Code of conduct",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 13.5
},
{
"key": "issue_template",
"name": "Issue template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.2
},
{
"key": "pr_template",
"name": "PR template",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 6.3
}
]
}
],
"description": "Does the project have users, downloads, attention, and a welcoming setup for contributors?"
},
{
"key": "governance",
"band": "good",
"name": "Sustainability & Governance",
"value": 68,
"weight": 0.23,
"metrics": [
{
"key": "maintainer_resilience",
"band": "moderate",
"name": "Maintainer resilience (bus factor)",
"note": null,
"notes": [],
"value": 62,
"inputs": {
"bus_factor": 2,
"contributors_sampled": 11,
"top_contributor_share": 0.424
},
"components": [
{
"key": "bus_factor",
"name": "Bus factor",
"detail": "2 contributor(s) cover half of all commits",
"points": 25.2,
"status": "partial",
"details": [
{
"code": "bus_factor",
"params": {
"count": 2
}
}
],
"max_points": 54
},
{
"key": "commit_distribution",
"name": "Commit distribution",
"detail": "top contributor authored 42% of commits",
"points": 13,
"status": "partial",
"details": [
{
"code": "top_contributor_share",
"params": {
"share": 42
}
}
],
"max_points": 22.5
},
{
"key": "contributor_breadth",
"name": "Contributor breadth",
"detail": "11 contributors",
"points": 13.5,
"status": "met",
"details": [
{
"code": "contributors_sampled",
"params": {
"count": 11
}
}
],
"max_points": 13.5
},
{
"key": "openssf_scorecard_contributors",
"name": "OpenSSF Scorecard: Contributors",
"detail": "project has 26 contributing companies or organizations",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
},
{
"key": "responsiveness",
"band": "good",
"name": "Issue & PR responsiveness",
"note": "Excluded from scoring (no data or not applicable): Newcomer PR acceptance. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"newcomer_pr_acceptance"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 75,
"inputs": {
"merged_prs": 69,
"open_issues": 3,
"closed_issues": 102,
"prs_merged_7d": 0,
"prs_decided_7d": 0,
"prs_merged_30d": 1,
"prs_decided_30d": 1,
"issue_closed_ratio": 0.971,
"closed_unmerged_prs": 22,
"first_time_authors_30d": 0,
"first_time_prs_merged_30d": 0,
"first_time_prs_decided_30d": 0
},
"components": [
{
"key": "issue_resolution",
"name": "Issue resolution",
"detail": "97% of issues closed",
"points": 40.8,
"status": "partial",
"details": [
{
"code": "issues_closed_share",
"params": {
"share": 97
}
}
],
"max_points": 42
},
{
"key": "pr_acceptance",
"name": "PR acceptance",
"detail": "69/91 decided PRs merged",
"points": 22.7,
"status": "partial",
"details": [
{
"code": "decided_prs_merged",
"params": {
"merged": 69,
"decided": 91
}
}
],
"max_points": 30
},
{
"key": "newcomer_pr_acceptance",
"name": "Newcomer PR acceptance",
"detail": "no first-time contributor's PR decided in 30d",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_newcomer_prs",
"params": {
"days": 30
}
}
],
"max_points": 13
},
{
"key": "openssf_scorecard_code_review",
"name": "OpenSSF Scorecard: Code-Review",
"detail": "Found 3/30 approved changesets -- score normalized to 1",
"points": 1.5,
"status": "partial",
"details": [],
"max_points": 15
}
]
},
{
"key": "stewardship",
"band": "good",
"name": "Ownership & stewardship",
"note": null,
"notes": [],
"value": 69,
"inputs": {
"followers": 81,
"owner_type": "Organization",
"is_verified": null,
"owner_login": "artic-network",
"public_repos": 56,
"account_age_days": 3312
},
"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": "81 followers of artic-network",
"points": 13.8,
"status": "partial",
"details": [
{
"code": "owner_followers",
"params": {
"count": 81,
"login": "artic-network"
}
}
],
"max_points": 25
},
{
"key": "track_record",
"name": "Track record",
"detail": "56 public repos, account ~9 yr old",
"points": 24.8,
"status": "partial",
"details": [
{
"code": "public_repos",
"params": {
"count": 56
}
},
{
"code": "account_age_years",
"params": {
"years": 9
}
}
],
"max_points": 25
}
]
}
],
"description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
},
{
"key": "engineering",
"band": "moderate",
"name": "Engineering Quality",
"value": 56,
"weight": 0.19,
"metrics": [
{
"key": "engineering_practices",
"band": "moderate",
"name": "Engineering practices",
"note": null,
"notes": [],
"value": 60,
"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": "3 workflow(s)",
"points": 24,
"status": "met",
"details": [
{
"code": "ci_workflows",
"params": {
"count": 3
}
}
],
"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": "13 out of 19 merged PRs checked by a CI test -- score normalized to 6",
"points": 12,
"status": "partial",
"details": [],
"max_points": 20
}
]
},
{
"key": "documentation",
"band": "moderate",
"name": "Documentation",
"note": null,
"notes": [],
"value": 50,
"inputs": {
"topics": [],
"has_wiki": true,
"homepage": "https://artic.network/",
"has_readme": false,
"has_docs_dir": true,
"has_description": false
},
"components": [
{
"key": "readme",
"name": "README",
"detail": null,
"points": 0,
"status": "missed",
"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://artic.network/",
"points": 15,
"status": "met",
"details": [],
"max_points": 15
},
{
"key": "repository_description",
"name": "Repository description",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
},
{
"key": "topics",
"name": "Topics",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
},
{
"key": "wiki",
"name": "Wiki",
"detail": null,
"points": 10,
"status": "met",
"details": [],
"max_points": 10
}
]
}
],
"description": "Are baseline engineering and documentation practices in place?"
},
{
"key": "security",
"band": "weak",
"name": "Security",
"value": 43,
"weight": 0.16,
"metrics": [
{
"key": "security_posture",
"band": "weak",
"name": "Security posture",
"note": "Excluded from scoring (no data or not applicable): Signed-Releases. Remaining weights renormalized.",
"notes": [
{
"code": "excluded_no_data",
"params": {
"components": [
"signed_releases"
]
}
},
{
"code": "weights_renormalized",
"params": {}
}
],
"value": 43,
"inputs": {
"source": "openssf_scorecard",
"checks_evaluated": 17,
"scorecard_version": "v5.5.0",
"checks_inconclusive": 1,
"scorecard_aggregate": 4.3
},
"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": "branch protection not enabled on development/release branches",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "ci_tests",
"name": "CI-Tests",
"detail": "13 out of 19 merged PRs checked by a CI test -- score normalized to 6",
"points": 1.5,
"status": "partial",
"details": [],
"max_points": 2.5
},
{
"key": "cii_best_practices",
"name": "CII-Best-Practices",
"detail": "no effort to earn an OpenSSF best practices badge detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 2.5
},
{
"key": "code_review",
"name": "Code-Review",
"detail": "Found 3/30 approved changesets -- score normalized to 1",
"points": 0.8,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "contributors",
"name": "Contributors",
"detail": "project has 26 contributing companies or organizations",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "dangerous_workflow",
"name": "Dangerous-Workflow",
"detail": "no dangerous workflow patterns detected",
"points": 10,
"status": "met",
"details": [],
"max_points": 10
},
{
"key": "dependency_update_tool",
"name": "Dependency-Update-Tool",
"detail": "no update tool detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "fuzzing",
"name": "Fuzzing",
"detail": "project is not fuzzed",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "license",
"name": "License",
"detail": "license file detected",
"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
"name": "Maintained",
"detail": "4 commit(s) and 4 issue activity found in the last 90 days -- score normalized to 6",
"points": 4.5,
"status": "partial",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
"name": "Packaging",
"detail": "packaging workflow detected",
"points": 5,
"status": "met",
"details": [],
"max_points": 5
},
{
"key": "pinned_dependencies",
"name": "Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "sast",
"name": "SAST",
"detail": "SAST tool is not run on all commits -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
"name": "Security-Policy",
"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
"detail": "no releases found",
"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "token_permissions",
"name": "Token-Permissions",
"detail": "detected GitHub workflow tokens with excessive permissions",
"points": 0,
"status": "missed",
"details": [],
"max_points": 7.5
},
{
"key": "vulnerabilities",
"name": "Vulnerabilities",
"detail": "0 existing vulnerabilities detected",
"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "exceptional",
"name": "High-Risk Jurisdiction Exposure",
"note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
"notes": [
{
"code": "jurisdiction_evidence_limits",
"params": {}
}
],
"value": 100,
"inputs": {
"meaning": "self-published location evidence; not nationality or citizenship",
"red_flag": false,
"exposures": [],
"policy_countries": [
"Russia",
"Iran",
"North Korea"
],
"commit_weight_rule": {
"min_commits": 50,
"min_commit_share": 0.1
},
"review_only_matches": 0,
"below_threshold_exposures": [],
"assessed_self_published_locations": 13
},
"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": 30,
"weight": 0.04,
"metrics": [
{
"key": "ai_agent_context",
"band": "critical",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 16,
"inputs": {
"has_llms_txt": false,
"legible_history_share": 0.31,
"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": "31 of 100 human commits state their intent (structured subject or explanatory body)",
"points": 16.5,
"status": "partial",
"details": [
{
"code": "legible_history",
"params": {
"legible": 31,
"sampled": 100
}
}
],
"max_points": 40
}
]
},
{
"key": "ai_verify_loop",
"band": "at_risk",
"name": "Verify loop (build / test / typecheck)",
"note": null,
"notes": [],
"value": 32,
"inputs": {
"has_nix": false,
"has_tests": true,
"lockfiles": [],
"has_dockerfile": true,
"typed_language": false,
"bootstrap_files": [],
"has_devcontainer": false,
"has_linter_config": false,
"typecheck_configs": [],
"agent_commit_share": 0,
"toolchain_manifests": [],
"dependency_bot_commit_share": 0
},
"components": [
{
"key": "one_command_bootstrap",
"name": "One-command bootstrap",
"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 18
},
{
"key": "automated_tests",
"name": "Automated tests",
"detail": null,
"points": 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": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 11
},
{
"key": "reproducible_environment",
"name": "Reproducible environment",
"detail": "Dockerfile",
"points": 10,
"status": "met",
"details": [
{
"code": "file_list",
"params": {
"files": "Dockerfile"
}
}
],
"max_points": 10
},
{
"key": "demonstrated_agent_practice",
"name": "Demonstrated agent practice",
"detail": "no agent-authored commits among the last 100",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_authored_commits",
"params": {
"sampled": 100
}
}
],
"max_points": 10
},
{
"key": "automated_maintenance",
"name": "Automated maintenance",
"detail": "no automated dependency updates observed",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_dependency_automation",
"params": {}
}
],
"max_points": 8
},
{
"key": "openssf_scorecard_pinned_dependencies",
"name": "OpenSSF Scorecard: Pinned-Dependencies",
"detail": "dependency not pinned by hash detected -- score normalized to 0",
"points": 0,
"status": "missed",
"details": [],
"max_points": 10
}
]
},
{
"key": "ai_code_legibility",
"band": "moderate",
"name": "Code legibility for models",
"note": null,
"notes": [],
"value": 55,
"inputs": {
"primary_language": "Python",
"largest_source_bytes": 37619,
"source_files_sampled": 83,
"oversized_source_files": 0
},
"components": [
{
"key": "type_checkable_code",
"name": "Type-checkable code",
"detail": "Python without a type-check config",
"points": 0,
"status": "missed",
"details": [
{
"code": "no_typecheck_config_language",
"params": {
"language": "Python"
}
}
],
"max_points": 45
},
{
"key": "manageable_file_sizes",
"name": "Manageable file sizes",
"detail": "0/83 source files over 60KB",
"points": 55,
"status": "met",
"details": [
{
"code": "oversized_source_files",
"params": {
"kb": 60,
"sampled": 83,
"oversized": 0
}
}
],
"max_points": 55
}
]
}
],
"description": "How well is the repo equipped to be developed and maintained with AI coding agents? Carries a deliberately small weight: agent tooling is a real maintenance signal, but its absence must never gate the top of the scale (calibration saturates at raw 91, so 100/100 remains reachable with AI Readiness at zero)."
}
],
"classification": {
"top": [
"application"
],
"labels": [
"cli"
],
"scores": {
"cli": 10
},
"primary": "cli",
"evidence": [
{
"tier": "declared",
"label": "cli",
"source": "pypi.console_scripts",
"weight": 10
}
],
"artifacts": [
{
"path": "artic/deprecated/setup.py",
"labels": [
"cli"
],
"ecosystem": "pypi"
},
{
"path": "pyproject.toml",
"labels": [
"cli"
],
"ecosystem": "pypi"
}
],
"confidence": "high",
"host_extension": false,
"runs_as_process": true,
"consumed_by_code": false
},
"metrics_version": "2.5.0"
},
"warnings": [
"Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token",
"Community profile unavailable",
"Could not fetch pypi package 'artic' from its registry",
"GitHub dependency-graph SBOM unavailable (404); the dependency graph may be disabled for this repository"
],
"report_type": "repository",
"generated_at": "2026-08-05T08:23:31.095163Z",
"schema_version": "0.31.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/a/artic-network/fieldbioinformatics.svg",
"full_name": "artic-network/fieldbioinformatics",
"license_state": "standard",
"license_spdx": "MIT"
}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 v2.5.0, schema v0.31.0 — full methodology · metrics wiki.
How one result sits in the wider record: aggregate statistics.