Публічний реєстр
Звіт про здоров'я програмного забезпеченнясхема 0.26.0 · метрики 1.13.0 · 2026-07-22 04:32 UTC

YosefLab / scib-metrics

Accelerated, Python-only, single-cell integration benchmarking metrics

PythonBSD-3-Clause★ 96 зірок⑂ 22 форкиз жовт. 2022 р.Переглянути на GitHub ↗

YosefLab/scib-metrics має індекс здоров’я 73 зі 100, що відповідає смузі «Добрий». Найвищий показник — Engineering Quality (92/100), найнижчий — AI Readiness (47/100). Останнє оновлення — сьогодні. Більшість нещодавньої роботи виконує один учасник.

73
загалом / 100
Добрий

Індекс здоров'я програмного забезпечення

Метрики згруповано у зважені категорії на шкалі 1–100. Загальна оцінка починається як їхнє середнє; коли публічні дані активують Політику юрисдикцій високого ризику, рейтинг коригується й отримує верхню межу 49 («Під ризиком»). Готовність до ШІ не входить до індексу.

73
Відмінний85-100Зразковий; відповідає практично всім перевіреним критеріям
Добрий70-84Здоровий; незначні прогалини
Помірний50-69Прийнятний, але з помітними прогалинами; рекомендовано перевірку
У зоні ризику30-49Суттєві слабкі місця; впровадження потребує обережності
Критичний1-29Серйозні проблеми (покинутий, єдиний мейнтейнер, без базової гігієни)
ЖиттєздатністьСпільнота тавпровадженняСталість таврядуванняІнженернаякістьБезпекаГотовність доШІ

Профіль оцінок

Кожна вісь — окрема категорія. Форма важить більше, ніж середнє: здоровий об'єкт заповнює всю фігуру, тоді як профіль із піками та провалами означає, що сила в одному вимірі маскує ризик в іншому.

Власність

Yosef LabОрганізація
138 підписників73 публічні репозиторіїз серп. 2015 р.

За цим репозиторієм стоїть організація — спільна, підзвітна опіка, здатна пережити будь-якого окремого мейнтейнера.

Пакетні екосистеми

РеєстрПакетВерсіяЗавантажень / місВерсіїОстання публікація
PyPIscib-metrics0.5.10-288 днів тому

Метрики за категоріями

Життєздатність

Чи живий проєкт — чи пишеться код і чи виходять релізи?

90Відмінний · 22% загального індексу
Як обчислюється оцінка
36/36Свіжість push — останній push 0 дн. тому
26.3/36Ритм комітів — 38/52 тижнів із комітами
15.6/18Обсяг комітів — 54 комітів за останній рік
10/10OpenSSF Scorecard: Maintained — 15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10
Використані вхідні дані
commits_last_year54
human_commit_share0,31
days_since_last_push0
active_weeks_last_year38
Як обчислюється оцінка
27/27Випускає релізи — опубліковано 29 релізів
36/36Свіжість релізів — останній реліз 8 дн. тому
19.8/27Ритм релізів — реліз кожні ~96,7 дн.
0/10OpenSSF Scorecard: Signed-Releases — немає даних
Використані вхідні дані
releases_count29
latest_release_tagv0.5.10
releases_from_tagsні
days_since_latest_release8
mean_days_between_releases96,7
Виключено з оцінювання (немає даних або не застосовно): OpenSSF Scorecard: Signed-Releases. Залишкові ваги перенормовано.

Спільнота та впровадження

Чи має проєкт користувачів, завантаження, увагу та влаштовані умови для контриб’юторів?

58Помірний · 18% загального індексу
Як обчислюється оцінка
32.1/60Зірки — 96 зірок
11/25Форки — 22 форків
3.9/15Спостерігачі — 6 спостерігачів
Використані вхідні дані
forks22
stars96
watchers6
growth_stateunverified
growth_factor_pct100
growth_unverified_reasonbelow_threshold
Як обчислюється оцінка
22.5/22.5README
22.5/22.5Ліцензія — визнана ліцензія (BSD-3-Clause)
18/18Настанови CONTRIBUTING
0/13.5Кодекс поведінки
0/7.2Шаблон issue
0/6.3Шаблон PR
Використані вхідні дані
has_readmeтак
has_licenseтак
has_contributingтак
has_issue_templateні
has_code_of_conductні
has_pull_request_templateні

Сталість та врядування

Чи переживе проєкт своїх людей — бас-фактор, реактивність, хто за ним стоїть і як супроводжуються пакети?

68Помірний · 24% загального індексу
Як обчислюється оцінка
9/54Бас-фактор — на 1 контриб’ютор(ів) припадає половина всіх комітів
7.2/22.5Розподіл комітів — головний контриб’ютор — автор 68% комітів
12.2/13.5Широта контриб’юторів — 9 контриб’юторів
10/10OpenSSF Scorecard: Contributors — project has 5 contributing companies or organizations
Використані вхідні дані
bus_factor1
contributors_sampled9
top_contributor_share0,679
Як обчислюється оцінка
40.8/46.8Вирішення issue — закрито 87% issue
35.5/38.3Прийняття PR — злито 203/219 вирішених PR
0/15OpenSSF Scorecard: Code-Review — Found 0/9 approved changesets -- score normalized to 0
Використані вхідні дані
merged_prs203
open_issues7
closed_issues48
issue_closed_ratio0,873
closed_unmerged_prs16
Як обчислюється оцінка
30/30Підтримка власника — у власності організації
0/20Верифікований домен
15.4/25Охоплення власника — 138 підписників у YosefLab
25/25Послужний список — 73 публічних репозиторіїв, вік облікового запису ~10 р.
Використані вхідні дані
followers138
owner_typeOrganization
is_verified
owner_loginYosefLab
public_repos73
account_age_days3 991

Супровід пакетів

100Відмінний
Як обчислюється оцінка
25/25Опубліковано й доступно — 1 пакет(ів) у pypi
35/35Свіжість публікацій — остання публікація 8 дн. тому
20/20Історія версій — 28 опублікованих версій
20/20Не застарілий — активний, не deprecated і не yanked
Використані вхідні дані
packagesscib-metrics
ecosystemspypi
any_deprecatedні
min_days_since_publish8

Інженерна якість

Чи наявні базові інженерні практики та документація?

92Відмінний · 20% загального індексу
Як обчислюється оцінка
24/24Процеси CI — 8 процес(ів) CI
24/24Наявні тести
16/16Конфігурація лінтера
9.6/9.6Pre-commit-хуки
6.4/6.4.editorconfig
20/20OpenSSF Scorecard: CI-Tests — 24 out of 24 merged PRs checked by a CI test -- score normalized to 10
Використані вхідні дані
has_ciтак
has_testsтак
has_editorconfigтак
has_linter_configтак
has_precommit_configтак
Як обчислюється оцінка
30/30README
25/25Каталог документації
15/15Сайт документації / домашня сторінка — https://scib-metrics.readthedocs.io/
10/10Опис репозиторію
0/10Теми
0/10Wiki
Використані вхідні дані
topics
has_wikiні
homepagehttps://scib-metrics.readthedocs.io/
has_readmeтак
has_docs_dirтак
has_descriptionтак

Безпека

Чи міцні видимі практики безпеки й ланцюга постачання, без непослабленої пов’язаності з юрисдикціями високого ризику?

50Помірний · 16% загального індексу

Стан безпеки

50Помірний
Як обчислюється оцінка
7.5/7.5Binary-Artifacts — no binaries found in the repo
3.8/7.5Branch-Protection — branch protection is not maximal on development and all release branches
2.5/2.5CI-Tests — 24 out of 24 merged PRs checked by a CI test -- score normalized to 10
0/2.5CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected
0/7.5Code-Review — Found 0/9 approved changesets -- score normalized to 0
2.5/2.5Contributors — project has 5 contributing companies or organizations
10/10Dangerous-Workflow — no dangerous workflow patterns detected
0/7.5Dependency-Update-Tool — no update tool detected
0/5Fuzzing — project is not fuzzed
2.5/2.5Ліцензія — license file detected
7.5/7.5Maintained — 15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10
5/5Packaging — packaging workflow detected
0/5Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
0/5SAST — SAST tool is not run on all commits -- score normalized to 0
0/5Security-Policy — security policy file not detected
0/7.5Signed-Releases — немає даних
0/7.5Token-Permissions — detected GitHub workflow tokens with excessive permissions
7.5/7.5Vulnerabilities — 0 existing vulnerabilities detected
Використані вхідні дані
sourceopenssf_scorecard
checks_evaluated17
scorecard_versionv5.5.0
checks_inconclusive1
scorecard_aggregate5
Виключено з оцінювання (немає даних або не застосовно): signed_releases. Залишкові ваги перенормовано.

Готовність до ШІ

Наскільки репозиторій оснащений для розробки та супроводу за участі ШІ-агентів? Незалежний, експериментальний бейдж — вага 0.0, тож він подається окремо і не впливає на загальний індекс здоров'я.

47У зоні ризику · 0% загального індексу
Як обчислюється оцінка
0/45Інструкції для агентів — немає CLAUDE.md / AGENTS.md / правил редактора
0/15Машиночитана документація (llms.txt)
39.6/40Читабельна історія комітів — намір зазначено у 23 з 31 людських комітів (структурований заголовок або пояснювальний текст)
Використані вхідні дані
has_llms_txtні
legible_history_share0,742
agent_instruction_files
agent_instruction_max_bytes
Як обчислюється оцінка
18/18Розгортання однією командою — docs/Makefile
22/22Автоматизовані тести
11/11Конфігурація лінтера / форматера
0/11Статична перевірка типів
0/10Відтворюване середовище
0/10Підтверджена практика роботи з агентами — серед останніх 100 комітів немає створених агентом
0/8Автоматизоване супроводження — автоматичних оновлень залежностей не виявлено
0/10OpenSSF Scorecard: Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
Використані вхідні дані
has_nixні
has_testsтак
lockfiles
has_dockerfileні
typed_languageні
bootstrap_filesdocs/Makefile
has_devcontainerні
has_linter_configтак
typecheck_configs
agent_commit_share0
toolchain_manifests
dependency_bot_commit_share0
Як обчислюється оцінка
0/45Типізований код — Python без конфігурації перевірки типів
55/55Керовані розміри файлів — 0/40 файлів вихідного коду понад 60 КБ
Використані вхідні дані
primary_languagePython
largest_source_bytes16 779
source_files_sampled40
oversized_source_files0
Як обчислюється оцінка
0/40Схема API (OpenAPI/GraphQL/proto)
0/20Сервер MCP
40/40Придатні до запуску приклади — notebooks
Використані вхідні дані
example_dirsnotebooks
has_mcp_signalні
api_schema_files

Ключові факти

96зірок GitHub
9контриб'юторів
54комітів за останні 12 місяців
0днів від останнього пушу
29релізів
1бас-фактор
7відкритих issue
PyPIпакетних екосистем

Попередження щодо збору даних

  • deps.dev does not index pypi:scib-metrics@0.5.10; advisories assessed against the repository dependency graph instead
  • No resolved dependencies carried a version and a supported ecosystem

Докладніше

Історія зірок і форків 96 ★ / 22 ⇿
96Зірки
22Форки
25Релізи

Коли додано кожну зірку й форк — зібрано з GitHub і згруповано за днями. Кумулятивне зростання розміщено просто над денними додаваннями, з яких воно складається, тож їх видно одне проти одного: рівномірне органічне накопичення виглядає зовсім інакше, ніж різкий короткочасний сплеск. Там, де цю різницю можна виміряти, її подано як автентичність росту.

020406080100962232022-102024-092026-07
Мажорні 0Мінорні 5Патчі 20

Кожна точка охоплює 4 днів.

OpenSSF Scorecard 5.0 / 10
5.0сукупно

Незалежна, не прив'язана до інструментів оцінка безпеки від відкритого проєкту OpenSSF Scorecard. Кожна перевірка винагороджує практику безпеки, а не інструмент конкретного постачальника. Перевірки, які Scorecard не зміг визначити, позначено н/д і виключено з оцінки безпеки (вони ніколи не зараховуються як нуль).Scorecard v5.5.0 · 2026-07-22 04:32 UTC

10Binary-Artifactsno binaries found in the repo
5Branch-Protectionbranch protection is not maximal on development and all release branches
10CI-Tests24 out of 24 merged PRs checked by a CI test -- score normalized to 10
0CII-Best-Practicesno effort to earn an OpenSSF best practices badge detected
0Code-ReviewFound 0/9 approved changesets -- score normalized to 0
10Contributorsproject has 5 contributing companies or organizations
10Dangerous-Workflowno dangerous workflow patterns detected
0Dependency-Update-Toolno update tool detected
0Fuzzingproject is not fuzzed
10Licenselicense file detected
10Maintained15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10
10Packagingpackaging workflow detected
0Pinned-Dependenciesdependency not pinned by hash detected -- score normalized to 0
0SASTSAST tool is not run on all commits -- score normalized to 0
0Security-Policysecurity policy file not detected
н/дSigned-Releasesno releases found
0Token-Permissionsdetected GitHub workflow tokens with excessive permissions
10Vulnerabilities0 existing vulnerabilities detected
Прямі залежності 16
РеєстрПакетОбмеження версіїМаніфест
PyPIanndatapyproject.toml
PyPIchexpyproject.toml
PyPIjaxpyproject.toml
PyPIjaxlibpyproject.toml
PyPInumpypyproject.toml
PyPIpandaspyproject.toml
PyPIscipypyproject.toml
PyPIscikit-learnpyproject.toml
PyPIscanpy>=1.9pyproject.toml
PyPIrichpyproject.toml
PyPIpynndescentpyproject.toml
PyPIigraph>0.9.0pyproject.toml
PyPImatplotlibpyproject.toml
PyPIplottablepyproject.toml
PyPItqdmpyproject.toml
PyPIumap-learn>=0.5.0pyproject.toml
Усі залежності 11

Повний розв'язаний набір залежностей із графа залежностей GitHub: 3 прямих і 8 непрямих (транзитивних) пакетів. Транзитивне замикання є повним, коли в репозиторії закомічено lockfile.

РеєстрПакетВерсіяЗв'язок
PyPIigraphпряма
PyPIscanpyпряма
PyPIumap-learnпряма
PyPInumbaнепряма
PyPIpybtex-docutilsнепряма
PyPIscanpydocнепряма
PyPIscibнепряма
PyPIsphinxнепряма
PyPIsphinx-book-themeнепряма
PyPIsphinxcontrib-bibtexнепряма
PyPItwineнепряма
Сповіщення про залежності не оцінено

Звірка сповіщень не відбулася для цього звіту: No resolved dependencies carried a version and a supported ecosystem

Звіт у форматі JSON машиночитний
{
  "data": {
    "repo": {
      "topics": [],
      "is_fork": false,
      "size_kb": 1437,
      "has_wiki": false,
      "homepage": "https://scib-metrics.readthedocs.io/",
      "languages": {
        "Python": 121140
      },
      "pushed_at": "2026-07-21T06:42:34Z",
      "created_at": "2022-10-03T01:53:06Z",
      "owner_type": "Organization",
      "updated_at": "2026-07-21T07:25:38Z",
      "description": "Accelerated, Python-only, single-cell integration benchmarking metrics",
      "is_archived": false,
      "is_disabled": false,
      "license_spdx": "BSD-3-Clause",
      "default_branch": "main",
      "license_spdx_raw": "BSD-3-Clause",
      "primary_language": "Python",
      "significant_languages": [
        "Python"
      ]
    },
    "owner": {
      "blog": "https://www.weizmann.ac.il/immunology/yosef/",
      "name": "Yosef Lab",
      "type": "Organization",
      "login": "YosefLab",
      "company": null,
      "location": "Israel",
      "followers": 138,
      "avatar_url": "https://avatars.githubusercontent.com/u/13837262?v=4",
      "created_at": "2015-08-17T17:07:24Z",
      "is_verified": null,
      "public_repos": 73,
      "account_age_days": 3991
    },
    "license": {
      "state": "standard",
      "spdx_id": "BSD-3-Clause",
      "raw_spdx": "BSD-3-Clause",
      "file_present": true,
      "scorecard_found": true,
      "profile_has_license": true
    },
    "activity": {
      "releases": [
        {
          "tag": "v0.5.10",
          "kind": "patch",
          "published_at": "2026-07-13T07:05:47Z"
        },
        {
          "tag": "v0.5.9",
          "kind": "patch",
          "published_at": "2026-02-26T08:11:41Z"
        },
        {
          "tag": "v0.5.8",
          "kind": "patch",
          "published_at": "2026-02-06T09:57:47Z"
        },
        {
          "tag": "v0.5.7",
          "kind": "patch",
          "published_at": "2025-09-14T07:22:28Z"
        },
        {
          "tag": "v0.5.6",
          "kind": "patch",
          "published_at": "2025-07-08T12:30:38Z"
        },
        {
          "tag": "v0.5.5",
          "kind": "patch",
          "published_at": "2025-06-03T11:04:57Z"
        },
        {
          "tag": "v0.5.4",
          "kind": "patch",
          "published_at": "2025-04-23T06:16:28Z"
        },
        {
          "tag": "v0.5.3",
          "kind": "patch",
          "published_at": "2025-02-17T10:04:09Z"
        },
        {
          "tag": "v0.5.2",
          "kind": "patch",
          "published_at": "2025-02-12T22:19:04Z"
        },
        {
          "tag": "v0.5.1",
          "kind": "patch",
          "published_at": "2024-02-23T22:18:26Z"
        },
        {
          "tag": "v0.5.0",
          "kind": "minor",
          "published_at": "2024-01-04T18:38:46Z"
        },
        {
          "tag": "0.4.1",
          "kind": "patch",
          "published_at": "2023-10-08T20:40:57Z"
        },
        {
          "tag": "0.4.0",
          "kind": "minor",
          "published_at": "2023-09-18T22:46:24Z"
        },
        {
          "tag": "0.3.3",
          "kind": "patch",
          "published_at": "2023-03-29T19:04:51Z"
        },
        {
          "tag": "0.3.2",
          "kind": "patch",
          "published_at": "2023-03-13T17:27:13Z"
        },
        {
          "tag": "0.3.1",
          "kind": "patch",
          "published_at": "2023-02-16T18:06:54Z"
        },
        {
          "tag": "0.3.0",
          "kind": "minor",
          "published_at": "2023-02-16T17:08:49Z"
        },
        {
          "tag": "0.2.0",
          "kind": "minor",
          "published_at": "2023-02-03T17:52:06Z"
        },
        {
          "tag": "0.1.1",
          "kind": "patch",
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        {
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        {
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            "name": "Dangerous-Workflow",
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            "reason": "no dangerous workflow patterns detected",
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                "max_points": 38.25
              },
              {
                "key": "openssf_scorecard_code_review",
                "name": "OpenSSF Scorecard: Code-Review",
                "detail": "Found 0/9 approved changesets -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 15
              }
            ]
          },
          {
            "key": "stewardship",
            "band": "good",
            "name": "Ownership & stewardship",
            "note": null,
            "notes": [],
            "value": 70,
            "inputs": {
              "followers": 138,
              "owner_type": "Organization",
              "is_verified": null,
              "owner_login": "YosefLab",
              "public_repos": 73,
              "account_age_days": 3991
            },
            "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": "138 followers of YosefLab",
                "points": 15.4,
                "status": "partial",
                "details": [
                  {
                    "code": "owner_followers",
                    "params": {
                      "count": 138,
                      "login": "YosefLab"
                    }
                  }
                ],
                "max_points": 25
              },
              {
                "key": "track_record",
                "name": "Track record",
                "detail": "73 public repos, account ~10 yr old",
                "points": 25,
                "status": "met",
                "details": [
                  {
                    "code": "public_repos",
                    "params": {
                      "count": 73
                    }
                  },
                  {
                    "code": "account_age_years",
                    "params": {
                      "years": 10
                    }
                  }
                ],
                "max_points": 25
              }
            ]
          },
          {
            "key": "package_maintenance",
            "band": "excellent",
            "name": "Package maintenance",
            "note": null,
            "notes": [],
            "value": 100,
            "inputs": {
              "packages": [
                "scib-metrics"
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              "ecosystems": "pypi",
              "any_deprecated": false,
              "min_days_since_publish": 8
            },
            "components": [
              {
                "key": "published_resolvable",
                "name": "Published & resolvable",
                "detail": "1 package(s) on pypi",
                "points": 25,
                "status": "met",
                "details": [
                  {
                    "code": "packages_published",
                    "params": {
                      "count": 1,
                      "ecosystems": "pypi"
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                ],
                "max_points": 25
              },
              {
                "key": "publish_recency",
                "name": "Publish recency",
                "detail": "latest publish 8 days ago",
                "points": 35,
                "status": "met",
                "details": [
                  {
                    "code": "publish_recency",
                    "params": {
                      "days": 8
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                "max_points": 35
              },
              {
                "key": "version_history",
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                "detail": "28 published versions",
                "points": 20,
                "status": "met",
                "details": [
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                    "params": {
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                "max_points": 20
              },
              {
                "key": "not_deprecated",
                "name": "Not deprecated",
                "detail": "active, not deprecated or yanked",
                "points": 20,
                "status": "met",
                "details": [
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                    "code": "package_not_deprecated",
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                "max_points": 20
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        ],
        "description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
      },
      {
        "key": "engineering",
        "band": "excellent",
        "name": "Engineering Quality",
        "value": 92,
        "weight": 0.2,
        "metrics": [
          {
            "key": "engineering_practices",
            "band": "excellent",
            "name": "Engineering practices",
            "note": null,
            "notes": [],
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            "inputs": {
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              "has_editorconfig": true,
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                "key": "ci_workflows",
                "name": "CI workflows",
                "detail": "8 workflow(s)",
                "points": 24,
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                "details": [
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                    "code": "ci_workflows",
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                      "count": 8
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                "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": 16,
                "status": "met",
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              {
                "key": "pre_commit_hooks",
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                "detail": null,
                "points": 9.6,
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                "key": "editorconfig",
                "name": ".editorconfig",
                "detail": null,
                "points": 6.4,
                "status": "met",
                "details": [],
                "max_points": 6.4
              },
              {
                "key": "openssf_scorecard_ci_tests",
                "name": "OpenSSF Scorecard: CI-Tests",
                "detail": "24 out of 24 merged PRs checked by a CI test -- score normalized to 10",
                "points": 20,
                "status": "met",
                "details": [],
                "max_points": 20
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          {
            "key": "documentation",
            "band": "good",
            "name": "Documentation",
            "note": null,
            "notes": [],
            "value": 80,
            "inputs": {
              "topics": [],
              "has_wiki": false,
              "homepage": "https://scib-metrics.readthedocs.io/",
              "has_readme": true,
              "has_docs_dir": true,
              "has_description": true
            },
            "components": [
              {
                "key": "readme",
                "name": "README",
                "detail": null,
                "points": 30,
                "status": "met",
                "details": [],
                "max_points": 30
              },
              {
                "key": "documentation_directory",
                "name": "Documentation directory",
                "detail": null,
                "points": 25,
                "status": "met",
                "details": [],
                "max_points": 25
              },
              {
                "key": "documentation_homepage_site",
                "name": "Documentation / homepage site",
                "detail": "https://scib-metrics.readthedocs.io/",
                "points": 15,
                "status": "met",
                "details": [],
                "max_points": 15
              },
              {
                "key": "repository_description",
                "name": "Repository description",
                "detail": null,
                "points": 10,
                "status": "met",
                "details": [],
                "max_points": 10
              },
              {
                "key": "topics",
                "name": "Topics",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
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              },
              {
                "key": "wiki",
                "name": "Wiki",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 10
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            ]
          }
        ],
        "description": "Are baseline engineering and documentation practices in place?"
      },
      {
        "key": "security",
        "band": "moderate",
        "name": "Security",
        "value": 50,
        "weight": 0.16,
        "metrics": [
          {
            "key": "security_posture",
            "band": "moderate",
            "name": "Security posture",
            "note": "Excluded from scoring (no data or not applicable): Signed-Releases. Remaining weights renormalized.",
            "notes": [
              {
                "code": "excluded_no_data",
                "params": {
                  "components": [
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              {
                "code": "weights_renormalized",
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              "checks_evaluated": 17,
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            "components": [
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                "key": "binary_artifacts",
                "name": "Binary-Artifacts",
                "detail": "no binaries found in the repo",
                "points": 7.5,
                "status": "met",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "branch_protection",
                "name": "Branch-Protection",
                "detail": "branch protection is not maximal on development and all release branches",
                "points": 3.8,
                "status": "partial",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "ci_tests",
                "name": "CI-Tests",
                "detail": "24 out of 24 merged PRs checked by a CI test -- score normalized to 10",
                "points": 2.5,
                "status": "met",
                "details": [],
                "max_points": 2.5
              },
              {
                "key": "cii_best_practices",
                "name": "CII-Best-Practices",
                "detail": "no effort to earn an OpenSSF best practices badge detected",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 2.5
              },
              {
                "key": "code_review",
                "name": "Code-Review",
                "detail": "Found 0/9 approved changesets -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "contributors",
                "name": "Contributors",
                "detail": "project has 5 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": "15 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 10",
                "points": 7.5,
                "status": "met",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "packaging",
                "name": "Packaging",
                "detail": "packaging workflow 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": "excellent",
            "name": "High-Risk Jurisdiction Exposure",
            "note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
            "notes": [
              {
                "code": "jurisdiction_evidence_limits",
                "params": {}
              }
            ],
            "value": 100,
            "inputs": {
              "meaning": "self-published location evidence; not nationality or citizenship",
              "red_flag": false,
              "exposures": [],
              "policy_countries": [
                "Russia",
                "Iran",
                "North Korea"
              ],
              "review_only_matches": 0,
              "assessed_self_published_locations": 15
            },
            "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": 47,
        "weight": 0,
        "metrics": [
          {
            "key": "ai_agent_context",
            "band": "at_risk",
            "name": "Agent context & guidance",
            "note": null,
            "notes": [],
            "value": 40,
            "inputs": {
              "has_llms_txt": false,
              "legible_history_share": 0.742,
              "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": {}
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                "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": "23 of 31 human commits state their intent (structured subject or explanatory body)",
                "points": 39.6,
                "status": "partial",
                "details": [
                  {
                    "code": "legible_history",
                    "params": {
                      "legible": 23,
                      "sampled": 31
                    }
                  }
                ],
                "max_points": 40
              }
            ]
          },
          {
            "key": "ai_verify_loop",
            "band": "moderate",
            "name": "Verify loop (build / test / typecheck)",
            "note": null,
            "notes": [],
            "value": 51,
            "inputs": {
              "has_nix": false,
              "has_tests": true,
              "lockfiles": [],
              "has_dockerfile": false,
              "typed_language": false,
              "bootstrap_files": [
                "docs/Makefile"
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              "has_devcontainer": false,
              "has_linter_config": true,
              "typecheck_configs": [],
              "agent_commit_share": 0,
              "toolchain_manifests": [],
              "dependency_bot_commit_share": 0
            },
            "components": [
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                "key": "one_command_bootstrap",
                "name": "One-command bootstrap",
                "detail": "docs/Makefile",
                "points": 18,
                "status": "met",
                "details": [
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                    "code": "file_list",
                    "params": {
                      "files": "docs/Makefile"
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                  }
                ],
                "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": 11,
                "status": "met",
                "details": [],
                "max_points": 11
              },
              {
                "key": "static_type_checking",
                "name": "Static type checking",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 11
              },
              {
                "key": "reproducible_environment",
                "name": "Reproducible environment",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 10
              },
              {
                "key": "demonstrated_agent_practice",
                "name": "Demonstrated agent practice",
                "detail": "no agent-authored commits among the last 100",
                "points": 0,
                "status": "missed",
                "details": [
                  {
                    "code": "no_agent_authored_commits",
                    "params": {
                      "sampled": 100
                    }
                  }
                ],
                "max_points": 10
              },
              {
                "key": "automated_maintenance",
                "name": "Automated maintenance",
                "detail": "no automated dependency updates observed",
                "points": 0,
                "status": "missed",
                "details": [
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                    "code": "no_dependency_automation",
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                ],
                "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": 16779,
              "source_files_sampled": 40,
              "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": "0/40 source files over 60KB",
                "points": 55,
                "status": "met",
                "details": [
                  {
                    "code": "oversized_source_files",
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                      "sampled": 40,
                      "oversized": 0
                    }
                  }
                ],
                "max_points": 55
              }
            ]
          },
          {
            "key": "ai_interfaces",
            "band": "at_risk",
            "name": "Machine-readable interfaces",
            "note": null,
            "notes": [],
            "value": 40,
            "inputs": {
              "example_dirs": [
                "notebooks"
              ],
              "has_mcp_signal": false,
              "api_schema_files": []
            },
            "components": [
              {
                "key": "api_schema_openapi_graphql_proto",
                "name": "API schema (OpenAPI/GraphQL/proto)",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 40
              },
              {
                "key": "mcp_server",
                "name": "MCP server",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 20
              },
              {
                "key": "runnable_examples",
                "name": "Runnable examples",
                "detail": "notebooks",
                "points": 40,
                "status": "met",
                "details": [
                  {
                    "code": "file_list",
                    "params": {
                      "files": "notebooks"
                    }
                  }
                ],
                "max_points": 40
              }
            ]
          }
        ],
        "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": [
    "deps.dev does not index pypi:scib-metrics@0.5.10; advisories assessed against the repository dependency graph instead",
    "No resolved dependencies carried a version and a supported ecosystem"
  ],
  "report_type": "repository",
  "generated_at": "2026-07-22T04:32:28.724905Z",
  "schema_version": "0.26.0",
  "badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/y/YosefLab/scib-metrics.svg",
  "full_name": "YosefLab/scib-metrics",
  "license_state": "standard",
  "license_spdx": "BSD-3-Clause"
}

Оцінки — це сигнали, а не гарантії. Вони відображають публічно видимі практики на GitHub — це не аудит коду й не гарантія безпеки.

Відсутні дані виключаються, а ваги перенормовуються — нуль за відсутність ніколи не ставиться. Методологія версіонована й відкрита: метрики v1.13.0, схема v0.26.0 — повна методологія · вікі метрик.

Як окремий результат виглядає на тлі всього реєстру: сукупна статистикаPyPI.