Public recordModerate
Software health reportschema 0.27.0 · metrics 1.13.0 · 2026-07-28 23:42 UTC
edgardomortiz / Captus
Assembly of Phylogenomic Datasets from High-Throughput Sequencing data
edgardomortiz/Captus holds a health index of 51 out of 100, placing it in the Moderate band. It scores highest on Vitality (86/100) and lowest on AI Readiness (11/100). It was last updated 14 days ago. A single contributor accounts for most of its recent work.
51
overall / 100Software 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.
51
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)
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
Edgardo M. OrtizPersonal account
84 followers18 public repossince Oct 2013Florida Museum of Natural History
This repository is owned by a personal account. A single-owner project carries more continuity risk than an organization-backed one.
Metrics by category
Vitality
Is the project alive — is code being written and are releases shipping?
86
Development activity
76Good
How it's scored
| 28.8/36 | Push recency — last push 14 days ago |
| 19.4/36 | Commit cadence — 28/52 weeks with commits |
| 18/18 | Commit volume — 158 commits in the last year |
| 10/10 | OpenSSF Scorecard: Maintained — 30 commit(s) and 7 issue activity found in the last 90 days -- score normalized to 10 |
Inputs used
| commits_last_year | 158 |
| human_commit_share | 1 |
| days_since_last_push | 14 |
| active_weeks_last_year | 28 |
Release discipline
100Excellent
How it's scored
| 27/27 | Ships releases — 51 releases published |
| 36/36 | Release recency — latest release 14 days ago |
| 27/27 | Release cadence — a release every ~35 days |
| 0/10 | OpenSSF Scorecard: Signed-Releases — no data |
Inputs used
| releases_count | 51 |
| latest_release_tag | v1.6.6 |
| releases_from_tags | no |
| days_since_latest_release | 14 |
| mean_days_between_releases | 35 |
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?
43
Popularity & adoption
37At risk
How it's scored
| 26.5/60 | Stars — 44 stars |
| 7/25 | Forks — 8 forks |
| 3.9/15 | Watchers — 6 watchers |
Inputs used
| forks | 8 |
| stars | 44 |
| watchers | 6 |
| growth_state | unverified |
| growth_factor_pct | 100 |
| growth_unverified_reason | no_history |
Community health
50Moderate
How it's scored
| 22.5/22.5 | README |
| 22.5/22.5 | License — recognized license (GPL-3.0) |
| 0/18 | CONTRIBUTING guide |
| 0/13.5 | Code of conduct |
| 0/7.2 | Issue template |
| 0/6.3 | PR template |
Inputs used
| has_readme | yes |
| has_license | yes |
| has_contributing | no |
| has_issue_template | no |
| has_code_of_conduct | no |
| has_pull_request_template | no |
Sustainability & Governance
Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?
42
Maintainer resilience (bus factor)
22Critical
How it's scored
| 9/54 | Bus factor — 1 contributor(s) cover half of all commits |
| 2.4/22.5 | Commit distribution — top contributor authored 89% of commits |
| 4.1/13.5 | Contributor breadth — 3 contributors |
| 6/10 | OpenSSF Scorecard: Contributors — project has 2 contributing companies or organizations -- score normalized to 6 |
Inputs used
| bus_factor | 1 |
| contributors_sampled | 3 |
| top_contributor_share | 0.894 |
Issue & PR responsiveness
53Moderate
How it's scored
| 14.9/46.8 | Issue resolution — 32% of issues closed |
| 38.2/38.3 | PR acceptance — 1/1 decided PRs merged |
| 0/15 | OpenSSF Scorecard: Code-Review — Found 0/30 approved changesets -- score normalized to 0 |
Inputs used
| merged_prs | 1 |
| open_issues | 30 |
| closed_issues | 14 |
| issue_closed_ratio | 0.318 |
| closed_unmerged_prs | 0 |
Ownership & stewardship
56Moderate
How it's scored
| 10/30 | Ownership backing — personal (user) account |
| 0/20 | Verified domain — not applicable to user accounts |
| 13.9/25 | Owner reach — 84 followers of edgardomortiz |
| 21.3/25 | Track record — 18 public repos, account ~12 yr old |
Inputs used
| followers | 84 |
| owner_type | User |
| is_verified | — |
| owner_login | edgardomortiz |
| public_repos | 18 |
| account_age_days | 4,660 |
Excluded from scoring (no data or not applicable): Verified domain. Remaining weights renormalized.
Engineering Quality
Are baseline engineering and documentation practices in place?
41
Engineering practices
1Critical
How it's scored
| 0/24 | CI workflows |
| 0/24 | Tests present |
| 0/16 | Linter config |
| 0/9.6 | Pre-commit hooks |
| 0/6.4 | .editorconfig |
| 0/20 | OpenSSF Scorecard: CI-Tests — no data |
Inputs used
| has_ci | no |
| has_tests | no |
| has_editorconfig | no |
| has_linter_config | no |
| has_precommit_config | no |
Excluded from scoring (no data or not applicable): OpenSSF Scorecard: CI-Tests. Remaining weights renormalized.
Documentation
100Excellent
How it's scored
| 30/30 | README |
| 25/25 | Documentation directory |
| 15/15 | Documentation / homepage site — https://edgardomortiz.github.io/captus.docs/ |
| 10/10 | Repository description |
| 10/10 | Topics — 16 topics |
| 10/10 | Wiki |
Inputs used
| topics | ngs, phylogenomics, alignment, genome-skimming, high-throughput-sequencing, hybridization-capture, next-generation-sequencing, phylogenetics, rna-seq, whole-genome-sequencing, phylotranscriptomics, orthologs, paralogs, target-capture, bioinformatics, busco |
| has_wiki | yes |
| homepage | https://edgardomortiz.github.io/captus.docs/ |
| has_readme | yes |
| has_docs_dir | yes |
| has_description | yes |
Security
Are visible security and supply-chain practices strong, without unresolved high-risk jurisdiction exposure?
37
Security posture
37At risk
How it's scored
| 6/7.5 | Binary-Artifacts — binaries present in source code |
| 0/7.5 | Branch-Protection — branch protection not enabled on development/release branches |
| 0/2.5 | CI-Tests — no data |
| 0/2.5 | CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected |
| 0/7.5 | Code-Review — Found 0/30 approved changesets -- score normalized to 0 |
| 1.5/2.5 | Contributors — project has 2 contributing companies or organizations -- score normalized to 6 |
| 0/10 | Dangerous-Workflow — no data |
| 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 |
| 7.5/7.5 | Maintained — 30 commit(s) and 7 issue activity found in the last 90 days -- score normalized to 10 |
| 0/5 | Packaging — no data |
| 0/5 | Pinned-Dependencies — no data |
| 0/5 | SAST — no SAST tool detected |
| 0/5 | Security-Policy — security policy file not detected |
| 0/7.5 | Signed-Releases — no data |
| 0/7.5 | Token-Permissions — no data |
| 7.5/7.5 | Vulnerabilities — 0 existing vulnerabilities detected |
Inputs used
| source | openssf_scorecard |
| checks_evaluated | 12 |
| scorecard_version | v5.5.0 |
| checks_inconclusive | 6 |
| scorecard_aggregate | 3.7 |
Excluded from scoring (no data or not applicable): ci_tests, dangerous_workflow, packaging, pinned_dependencies, signed_releases, token_permissions. Remaining weights renormalized.
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.
11
Agent context & guidance
11Critical
How it's scored
| 0/45 | Agent instructions — no CLAUDE.md / AGENTS.md / editor rules |
| 0/15 | Machine-readable docs (llms.txt) |
| 11.2/40 | Legible commit history — 21 of 100 human commits state their intent (structured subject or explanatory body) |
Inputs used
| has_llms_txt | no |
| legible_history_share | 0.21 |
| agent_instruction_files | — |
| agent_instruction_max_bytes | — |
How it's scored
| 0/18 | One-command bootstrap |
| 0/22 | Automated tests |
| 0/11 | Lint / format config |
| 0/11 | Static type checking |
| 0/10 | Reproducible environment |
| 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 — no data |
Inputs used
| has_nix | no |
| has_tests | no |
| lockfiles | — |
| has_dockerfile | no |
| 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 |
Excluded from scoring (no data or not applicable): OpenSSF Scorecard: Pinned-Dependencies. Remaining weights renormalized.
Code legibility for models
40At risk
How it's scored
| 0/45 | Type-checkable code — Python without a type-check config |
| 39.8/55 | Manageable file sizes — 8/29 source files over 60KB |
Inputs used
| primary_language | Python |
| largest_source_bytes | 179,292 |
| source_files_sampled | 29 |
| oversized_source_files | 8 |
Key facts
44GitHub stars
3contributors
158commits, last 12 months
14days since last push
51releases
1bus factor
30open issues
PyPIpackage ecosystems
Data collection warnings
- Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token
- Could not fetch pypi package 'captus' from its registry
More detail
Star and fork history 0 ★ / 8 ⇿
0Stars
8Forks
50Releases
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 1Minor 6Patch 43
Each point covers 5 days.
OpenSSF Scorecard 3.7 / 10
3.7aggregate
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).
| 8 | Binary-Artifacts | binaries present in source code |
| 0 | Branch-Protection | branch protection not enabled on development/release branches |
| n/a | CI-Tests | no pull request found |
| 0 | CII-Best-Practices | no effort to earn an OpenSSF best practices badge detected |
| 0 | Code-Review | Found 0/30 approved changesets -- score normalized to 0 |
| 6 | Contributors | project has 2 contributing companies or organizations -- score normalized to 6 |
| n/a | Dangerous-Workflow | no workflows found |
| 0 | Dependency-Update-Tool | no update tool detected |
| 0 | Fuzzing | project is not fuzzed |
| 10 | License | license file detected |
| 10 | Maintained | 30 commit(s) and 7 issue activity found in the last 90 days -- score normalized to 10 |
| n/a | Packaging | packaging workflow not detected |
| n/a | Pinned-Dependencies | no dependencies found |
| 0 | SAST | no SAST tool detected |
| 0 | Security-Policy | security policy file not detected |
| n/a | Signed-Releases | no releases found |
| n/a | Token-Permissions | No tokens found |
| 10 | Vulnerabilities | 0 existing vulnerabilities detected |
All dependencies 0
Full resolved dependency set from the GitHub dependency graph: 0 direct and 0 indirect (transitive) packages. The transitive closure is complete when the repository commits a lockfile.
| Registry | Package | Version | Relation |
|---|
Dependency advisories not assessed
Advisory matching could not run for this report: No resolved dependencies to assess
Raw JSON report machine-readable
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"note": null,
"notes": [],
"value": 100,
"inputs": {
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"phylogenomics",
"alignment",
"genome-skimming",
"high-throughput-sequencing",
"hybridization-capture",
"next-generation-sequencing",
"phylogenetics",
"rna-seq",
"whole-genome-sequencing",
"phylotranscriptomics",
"orthologs",
"paralogs",
"target-capture",
"bioinformatics",
"busco"
],
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"homepage": "https://edgardomortiz.github.io/captus.docs/",
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"has_docs_dir": true,
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},
"components": [
{
"key": "readme",
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"points": 30,
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"details": [],
"max_points": 30
},
{
"key": "documentation_directory",
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"details": [],
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},
{
"key": "documentation_homepage_site",
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{
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"details": [],
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},
{
"key": "topics",
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}
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{
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}
]
}
],
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},
{
"key": "security",
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"name": "Security",
"value": 37,
"weight": 0.16,
"metrics": [
{
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"notes": [
{
"code": "excluded_no_data",
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"inputs": {
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"scorecard_version": "v5.5.0",
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"scorecard_aggregate": 3.7
},
"components": [
{
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"points": 6,
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},
{
"key": "branch_protection",
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"points": 0,
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},
{
"key": "ci_tests",
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],
"max_points": 2.5
},
{
"key": "cii_best_practices",
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"points": 0,
"status": "missed",
"details": [],
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},
{
"key": "code_review",
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"points": 0,
"status": "missed",
"details": [],
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},
{
"key": "contributors",
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"points": 1.5,
"status": "partial",
"details": [],
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},
{
"key": "dangerous_workflow",
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"points": 0,
"status": "excluded",
"details": [
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"code": "no_data",
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}
],
"max_points": 10
},
{
"key": "dependency_update_tool",
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"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",
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"points": 2.5,
"status": "met",
"details": [],
"max_points": 2.5
},
{
"key": "maintained",
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"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
},
{
"key": "packaging",
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"points": 0,
"status": "excluded",
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{
"code": "no_data",
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],
"max_points": 5
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{
"key": "pinned_dependencies",
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"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 5
},
{
"key": "sast",
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"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "security_policy",
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"detail": "security policy file not detected",
"points": 0,
"status": "missed",
"details": [],
"max_points": 5
},
{
"key": "signed_releases",
"name": "Signed-Releases",
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"points": 0,
"status": "excluded",
"details": [
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"code": "no_data",
"params": {}
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"max_points": 7.5
},
{
"key": "token_permissions",
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"points": 0,
"status": "excluded",
"details": [
{
"code": "no_data",
"params": {}
}
],
"max_points": 7.5
},
{
"key": "vulnerabilities",
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"points": 7.5,
"status": "met",
"details": [],
"max_points": 7.5
}
]
},
{
"key": "high_risk_jurisdiction_exposure",
"band": "excellent",
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"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": {
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"red_flag": false,
"exposures": [],
"policy_countries": [
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"Iran",
"North Korea"
],
"review_only_matches": 0,
"assessed_self_published_locations": 3
},
"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
}
]
}
],
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},
{
"key": "ai_readiness",
"band": "critical",
"name": "AI Readiness",
"value": 11,
"weight": 0,
"metrics": [
{
"key": "ai_agent_context",
"band": "critical",
"name": "Agent context & guidance",
"note": null,
"notes": [],
"value": 11,
"inputs": {
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"legible_history_share": 0.21,
"agent_instruction_files": [],
"agent_instruction_max_bytes": null
},
"components": [
{
"key": "agent_instructions",
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"points": 0,
"status": "missed",
"details": [
{
"code": "no_agent_instructions",
"params": {}
}
],
"max_points": 45
},
{
"key": "machine_readable_docs_llms_txt",
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"detail": null,
"points": 0,
"status": "missed",
"details": [],
"max_points": 15
},
{
"key": "legible_commit_history",
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"points": 11.2,
"status": "partial",
"details": [
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"code": "legible_history",
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}
],
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}
]
},
{
"key": "ai_verify_loop",
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"code": "excluded_no_data",
"params": {
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{
"code": "weights_renormalized",
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}
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"lockfiles": [],
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"bootstrap_files": [],
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"toolchain_manifests": [],
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},
"components": [
{
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"points": 0,
"status": "missed",
"details": [],
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},
{
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"detail": null,
"points": 0,
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},
{
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"points": 0,
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"details": [],
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},
{
"key": "static_type_checking",
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"points": 0,
"status": "missed",
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{
"key": "reproducible_environment",
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"points": 0,
"status": "missed",
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},
{
"key": "demonstrated_agent_practice",
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"points": 0,
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{
"key": "automated_maintenance",
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{
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},
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"notes": [],
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"source_files_sampled": 29,
"oversized_source_files": 8
},
"components": [
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"points": 0,
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],
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},
{
"key": "manageable_file_sizes",
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"points": 39.8,
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}
],
"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",
"Could not fetch pypi package 'captus' from its registry"
],
"report_type": "repository",
"generated_at": "2026-07-28T23:42:33.522561Z",
"schema_version": "0.27.0",
"badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/e/edgardomortiz/Captus.svg",
"full_name": "edgardomortiz/Captus",
"license_state": "standard",
"license_spdx": "GPL-3.0"
}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 v0.27.0 — full methodology · metrics wiki.
How one result sits in the wider record: aggregate statistics.