Публічний реєстр
Звіт про здоров'я програмного забезпеченнясхема 0.26.0 · метрики 1.13.0 · 2026-07-22 15:27 UTC

evolbioinfo / goalign

Goalign : a set of command line tools and an API to manipulate multiple sequence alignments.

Go · ShellGPL-2.0★ 90 зірок⑂ 8 форківз серп. 2016 р.Переглянути на GitHub ↗

evolbioinfo/goalign має індекс здоров’я 59 зі 100, що відповідає смузі «Помірний». Найвищий показник — Engineering Quality (76/100), найнижчий — Security (35/100). Останнє оновлення було 7 днів тому. Більшість нещодавньої роботи виконує один учасник.

59
загалом / 100
Помірний

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.

59
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

Evolutionary BioinformaticsОрганізація
50 підписників30 публічних репозиторіївз лют. 2017 р.

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

Пакетні екосистеми

РеєстрПакетВерсіяЗавантажень / місВерсіїОстання публікація
Gogithub.com/evolbioinfo/goalignv0.4.1-4112 днів тому

Метрики за категоріями

Життєздатність

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

68Помірний · 22% загального індексу
Як обчислюється оцінка
36/36Свіжість push — останній push 7 дн. тому
9.7/36Ритм комітів — 14/52 тижнів із комітами
14/18Обсяг комітів — 35 комітів за останній рік
2/10OpenSSF Scorecard: Maintained — 3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2
Використані вхідні дані
commits_last_year35
human_commit_share1
days_since_last_push7
active_weeks_last_year14
Як обчислюється оцінка
27/27Випускає релізи — опубліковано 49 релізів
36/36Свіжість релізів — останній реліз 7 дн. тому
12.6/27Ритм релізів — реліз кожні ~211,5 дн.
0/10OpenSSF Scorecard: Signed-Releases — Project has not signed or included provenance with any releases.
Використані вхідні дані
releases_count49
latest_release_tagv0.4.1
releases_from_tagsні
days_since_latest_release7
mean_days_between_releases211,5

Спільнота та впровадження

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

47У зоні ризику · 18% загального індексу
Як обчислюється оцінка
31.6/60Зірки — 90 зірок
7/25Форки — 8 форків
5.6/15Спостерігачі — 11 спостерігачів
Використані вхідні дані
forks8
stars90
watchers11
growth_stateunverified
growth_factor_pct100
growth_unverified_reasonno_history
Як обчислюється оцінка
22.5/22.5README
22.5/22.5Ліцензія — визнана ліцензія (GPL-2.0)
0/18Настанови CONTRIBUTING
0/13.5Кодекс поведінки
0/7.2Шаблон issue
0/6.3Шаблон PR
Використані вхідні дані
has_readmeтак
has_licenseтак
has_contributingні
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?

62Помірний · 24% загального індексу
Як обчислюється оцінка
9/54Бас-фактор — на 1 контриб’ютор(ів) припадає половина всіх комітів
0.1/22.5Розподіл комітів — головний контриб’ютор — автор 100% комітів
2.7/13.5Широта контриб’юторів — 2 контриб’юторів
3/10OpenSSF Scorecard: Contributors — project has 1 contributing companies or organizations -- score normalized to 3
Використані вхідні дані
bus_factor1
contributors_sampled2
top_contributor_share0,996
Як обчислюється оцінка
46.8/46.8Вирішення issue — закрито 100% issue
38.2/38.3Прийняття PR — злито 2/2 вирішених PR
0/15OpenSSF Scorecard: Code-Review — Found 0/30 approved changesets -- score normalized to 0
Використані вхідні дані
merged_prs2
open_issues0
closed_issues18
issue_closed_ratio1
closed_unmerged_prs0
Як обчислюється оцінка
30/30Підтримка власника — у власності організації
0/20Верифікований домен
12.3/25Охоплення власника — 50 підписників у evolbioinfo
22.9/25Послужний список — 30 публічних репозиторіїв, вік облікового запису ~9 р.
Використані вхідні дані
followers50
owner_typeOrganization
is_verified
owner_loginevolbioinfo
public_repos30
account_age_days3 437

Супровід пакетів

100Відмінний
Як обчислюється оцінка
25/25Опубліковано й доступно — 1 пакет(ів) у go
35/35Свіжість публікацій — остання публікація 12 дн. тому
20/20Історія версій — 41 опублікованих версій
20/20Не застарілий — активний, не deprecated і не yanked
Використані вхідні дані
packagesgithub.com/evolbioinfo/goalign
ecosystemsgo
any_deprecatedні
min_days_since_publish12

Інженерна якість

Чи наявні базові інженерні практики та документація?

76Добрий · 20% загального індексу
Як обчислюється оцінка
24/24Процеси CI — 1 процес(ів) CI
24/24Наявні тести
0/16Конфігурація лінтера
0/9.6Pre-commit-хуки
0/6.4.editorconfig
0/20OpenSSF Scorecard: CI-Tests — немає даних
Використані вхідні дані
has_ciтак
has_testsтак
has_editorconfigні
has_linter_configні
has_precommit_configні
Виключено з оцінювання (немає даних або не застосовно): OpenSSF Scorecard: CI-Tests. Залишкові ваги перенормовано.

Документація

100Відмінний
Як обчислюється оцінка
30/30README
25/25Каталог документації
15/15Сайт документації / домашня сторінка — https://research.pasteur.fr/en/software/goalign-gotree/
10/10Опис репозиторію
10/10Теми — 6 тем
10/10Wiki
Використані вхідні дані
topicsphylogeny, alignment, phylip, fasta, phylip-alignment, nexus
has_wikiтак
homepagehttps://research.pasteur.fr/en/software/goalign-gotree/
has_readmeтак
has_docs_dirтак
has_descriptionтак

Безпека

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

35У зоні ризику · 16% загального індексу

Стан безпеки

25Критичний
Як обчислюється оцінка
7.5/7.5Binary-Artifacts — no binaries found in the repo
0/7.5Branch-Protection — немає даних
0/2.5CI-Tests — немає даних
0/2.5CII-Best-Practices — no effort to earn an OpenSSF best practices badge detected
0/7.5Code-Review — Found 0/30 approved changesets -- score normalized to 0
0.8/2.5Contributors — project has 1 contributing companies or organizations -- score normalized to 3
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
1.5/7.5Maintained — 3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2
0/5Packaging — немає даних
0/5Pinned-Dependencies — dependency not pinned by hash detected -- score normalized to 0
0/5SAST — no SAST tool detected
0/5Security-Policy — security policy file not detected
0/7.5Signed-Releases — Project has not signed or included provenance with any releases.
0/7.5Token-Permissions — detected GitHub workflow tokens with excessive permissions
0/7.5Vulnerabilities — 11 existing vulnerabilities detected
Використані вхідні дані
sourceopenssf_scorecard
checks_evaluated15
scorecard_versionv5.5.0
checks_inconclusive3
scorecard_aggregate2,5
Виключено з оцінювання (немає даних або не застосовно): branch_protection, ci_tests, packaging. Залишкові ваги перенормовано.
Як обчислюється оцінка
20.2/35Прямі залежності без відомих сповіщень — уражено 1: github.com/ulikunitz/xz v0.5.10 (moderate 5.3)
0/25Непрямі залежності без відомих сповіщень — транзитивний набір не відокремлюється від залежностей розробки й тестування в цьому обсязі
35.3/40Немає задавнених сповіщень — 1 пакет(ів) зі сповіщеннями без реакції понад 90 дн.; найдавніше опубліковано 327 дн. тому
Використані вхідні дані
sourceosv
advisories14
affected_packages4
assessed_packages34
unassessed_packages0
affected_by_severityhigh 1, moderate 1, unknown 2
direct_affected_packages1
Виключено з оцінювання (немає даних або не застосовно): Непрямі залежності без відомих сповіщень. Залишкові ваги перенормовано. Звірено 34 резолвлених залежностей із OSV. Цей репозиторій не публікує пакета, який резолвить індекс, тож натомість оцінено граф залежностей репозиторію. Цей граф змішує закріплені версії для розробки й тестування зі справді постачаними залежностями, тож оцінюються лише задекларовані runtime-залежності; транзитивні знахідки подаються як контекст і в оцінку не входять. Досяжність не аналізується.

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.

48У зоні ризику · 0% загального індексу
Як обчислюється оцінка
0/45Інструкції для агентів — немає CLAUDE.md / AGENTS.md / правил редактора
0/15Машиночитана документація (llms.txt)
4.3/40Читабельна історія комітів — намір зазначено у 8 з 100 людських комітів (структурований заголовок або пояснювальний текст)
Використані вхідні дані
has_llms_txtні
legible_history_share0,08
agent_instruction_files
agent_instruction_max_bytes
Як обчислюється оцінка
18/18Розгортання однією командою — Makefile
22/22Автоматизовані тести
0/11Конфігурація лінтера / форматера
11/11Статична перевірка типів — Go (статично типізована)
10/10Відтворюване середовище — lockfile
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
lockfilesgo.sum
has_dockerfileні
typed_languageтак
bootstrap_filesMakefile
has_devcontainerні
has_linter_configні
typecheck_configs
agent_commit_share0
toolchain_manifestsgo.mod
dependency_bot_commit_share0
Як обчислюється оцінка
45/45Типізований код — Go (статично типізована)
54/55Керовані розміри файлів — 3/172 файлів вихідного коду понад 60 КБ
Використані вхідні дані
primary_languageGo
largest_source_bytes122 666
source_files_sampled172
oversized_source_files3

Ключові факти

90зірок GitHub
2контриб'юторів
35комітів за останні 12 місяців
7днів від останнього пушу
49релізів
1бас-фактор
0відкритих issue
Goпакетних екосистем

Попередження щодо збору даних

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

Докладніше

Історія зірок і форків 0 ★ / 8 ⇿
0Зірки
8Форки
11Релізи

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.

02468812020-042021-092023-01
Мажорні 0Мінорні 0Патчі 3

Кожна точка охоплює 3 днів.

OpenSSF Scorecard 2.5 / 10
2.5сукупно

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 15:27 UTC

10Binary-Artifactsno binaries found in the repo
н/дBranch-Protectioninternal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md
н/дCI-Testsno pull request found
0CII-Best-Practicesno effort to earn an OpenSSF best practices badge detected
0Code-ReviewFound 0/30 approved changesets -- score normalized to 0
3Contributorsproject has 1 contributing companies or organizations -- score normalized to 3
10Dangerous-Workflowno dangerous workflow patterns detected
0Dependency-Update-Toolno update tool detected
0Fuzzingproject is not fuzzed
10Licenselicense file detected
2Maintained3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2
н/дPackagingpackaging workflow not detected
0Pinned-Dependenciesdependency not pinned by hash detected -- score normalized to 0
0SASTno SAST tool detected
0Security-Policysecurity policy file not detected
0Signed-ReleasesProject has not signed or included provenance with any releases.
0Token-Permissionsdetected GitHub workflow tokens with excessive permissions
0Vulnerabilities11 existing vulnerabilities detected
Прямі залежності 6
РеєстрПакетОбмеження версіїМаніфест
Gogithub.com/armon/go-radixv1.0.0go.mod
Gogithub.com/fredericlemoine/cobrashellv0.0.0-20180921081141-49c72f93426cgo.mod
Gogithub.com/spf13/cobrav1.5.0go.mod
Gogithub.com/ulikunitz/xzv0.5.10go.mod
Gogonum.org/v1/gonumv0.16.0go.mod
Gogonum.org/v1/plotv0.16.0go.mod
Усі залежності 34

Повний розв'язаний набір залежностей із графа залежностей GitHub: 6 прямих і 28 непрямих (транзитивних) пакетів. Транзитивне замикання є повним, коли в репозиторії закомічено lockfile.

РеєстрПакетВерсіяЗв'язок
Gogithub.com/armon/go-radixv1.0.0пряма
Gogithub.com/fredericlemoine/cobrashellv0.0.0-20180921081141-49c72f93426cпряма
Gogithub.com/spf13/cobrav1.5.0пряма
Gogithub.com/ulikunitz/xzv0.5.10пряма
Gogonum.org/v1/gonumv0.16.0пряма
Gogonum.org/v1/plotv0.16.0пряма
Gocodeberg.org/go-fonts/liberationv0.5.0непряма
Gocodeberg.org/go-latex/latexv0.1.0непряма
Gocodeberg.org/go-pdf/fpdfv0.10.0непряма
Gogit.sr.ht/~sbinet/ggv0.6.0непряма
Gogithub.com/abiosoft/ishellv2.0.0+incompatibleнепряма
Gogithub.com/abiosoft/readlinev0.0.0-20180607040430-155bce2042dbнепряма
Gogithub.com/ajstarks/svgov0.0.0-20211024235047-1546f124cd8bнепряма
Gogithub.com/campoy/embedmdv1.0.0непряма
Gogithub.com/cpuguy83/go-md2man/v2v2.0.2непряма
Gogithub.com/fatih/colorv1.7.0непряма
Gogithub.com/flynn-archive/go-shlexv0.0.0-20150515145356-3f9db97f8568непряма
Gogithub.com/fogleman/ggv1.3.0непряма
Gogithub.com/go-fonts/liberationv0.1.1непряма
Gogithub.com/go-latex/latexv0.0.0-20210118124228-b3d85cf34e07непряма
Gogithub.com/golang/freetypev0.0.0-20170609003504-e2365dfdc4a0непряма
Gogithub.com/inconshreveable/mousetrapv1.0.1непряма
Gogithub.com/mattn/go-colorablev0.0.9непряма
Gogithub.com/mattn/go-isattyv0.0.3непряма
Gogithub.com/phpdave11/gofpdfv1.4.2непряма
Gogithub.com/pmezard/go-difflibv1.0.0непряма
Gogithub.com/russross/blackfriday/v2v2.1.0непряма
Gogithub.com/shurcool/sanitized_anchor_namev1.0.0непряма
Gogithub.com/spf13/pflagv1.0.5непряма
Gogolang.org/x/expv0.0.0-20200224162631-6cc2880d07d6непряма
Gogolang.org/x/imagev0.25.0непряма
Gogolang.org/x/sysv0.30.0непряма
Gogolang.org/x/textv0.23.0непряма
Gogopkg.in/yaml.v2v2.4.0непряма
Сповіщення про залежності 4

Цей репозиторій не публікує пакета, який розпізнає індекс, тож оцінено його власний граф залежностей — 34 пакетів, серед яких є й піниї розробки та тестування, що ніколи не постачаються: 4 мають відомі сповіщення, з них 1 прямі.

ПакетВерсіяЗв'язокКритичністьСповіщеньВиправлено в
golang.org/x/imagev0.25.0непрямависока100.43.0
github.com/ulikunitz/xzv0.5.10прямапомірна20.5.15
golang.org/x/sysv0.30.0непряманевідома10.44.0
golang.org/x/textv0.23.0непряманевідома10.39.0

Сповіщення означає, що версія, записана в графі залежностей, потрапляє в уражений діапазон. Досяжність не аналізується, а граф містить піниї розробки й тестування — знахідка може стосуватися інструментів, а не поставленого коду.

Звіт у форматі JSON машиночитний
{
  "data": {
    "repo": {
      "topics": [
        "phylogeny",
        "alignment",
        "phylip",
        "fasta",
        "phylip-alignment",
        "nexus"
      ],
      "is_fork": false,
      "size_kb": 2817,
      "has_wiki": true,
      "homepage": "https://research.pasteur.fr/en/software/goalign-gotree/",
      "languages": {
        "Go": 907243,
        "Shell": 143133,
        "Makefile": 1846
      },
      "pushed_at": "2026-07-15T14:46:26Z",
      "created_at": "2016-08-24T13:16:06Z",
      "owner_type": "Organization",
      "updated_at": "2026-07-15T15:41:34Z",
      "description": "Goalign : a set of command line tools and an API to manipulate multiple sequence alignments.",
      "is_archived": false,
      "is_disabled": false,
      "license_spdx": "GPL-2.0",
      "default_branch": "master",
      "license_spdx_raw": "GPL-2.0",
      "primary_language": "Go",
      "significant_languages": [
        "Go",
        "Shell"
      ]
    },
    "owner": {
      "blog": null,
      "name": "Evolutionary Bioinformatics",
      "type": "Organization",
      "login": "evolbioinfo",
      "company": null,
      "location": "Paris, France",
      "followers": 50,
      "avatar_url": "https://avatars.githubusercontent.com/u/25950370?v=4",
      "created_at": "2017-02-22T08:56:58Z",
      "is_verified": null,
      "public_repos": 30,
      "account_age_days": 3437
    },
    "license": {
      "state": "standard",
      "spdx_id": "GPL-2.0",
      "raw_spdx": "GPL-2.0",
      "file_present": true,
      "scorecard_found": true,
      "profile_has_license": true
    },
    "activity": {
      "releases": [
        {
          "tag": "v0.4.1",
          "kind": "patch",
          "published_at": "2026-07-15T15:10:34Z"
        },
        {
          "tag": "v0.4.0",
          "kind": "minor",
          "published_at": "2025-12-15T13:58:12Z"
        },
        {
          "tag": "v0.3.9",
          "kind": "patch",
          "published_at": "2025-07-22T09:33:03Z"
        },
        {
          "tag": "v0.3.8",
          "kind": "patch",
          "published_at": "2025-06-01T16:42:22Z"
        },
        {
          "tag": "v0.3.7",
          "kind": "patch",
          "published_at": "2023-11-14T13:40:22Z"
        },
        {
          "tag": "v0.3.6",
          "kind": "patch",
          "published_at": "2022-12-09T10:57:02Z"
        },
        {
          "tag": "v0.3.6a",
          "kind": "other",
          "published_at": "2022-06-29T09:15:23Z"
        },
        {
          "tag": "v0.3.5",
          "kind": "patch",
          "published_at": "2021-09-07T08:44:14Z"
        },
        {
          "tag": "v0.3.4",
          "kind": "patch",
          "published_at": "2021-05-11T12:44:52Z"
        },
        {
          "tag": "v0.3.4a",
          "kind": "other",
          "published_at": "2021-04-29T13:06:45Z"
        },
        {
          "tag": "v0.3.3f",
          "kind": "other",
          "published_at": "2021-01-15T14:21:00Z"
        },
        {
          "tag": "v0.3.3e",
          "kind": "other",
          "published_at": "2021-01-06T21:37:08Z"
        },
        {
          "tag": "v0.3.3d",
          "kind": "other",
          "published_at": "2021-01-05T10:27:16Z"
        },
        {
          "tag": "v0.3.3c",
          "kind": "other",
          "published_at": "2020-06-02T09:11:04Z"
        },
        {
          "tag": "v0.3.3b",
          "kind": "other",
          "published_at": "2020-04-30T08:12:31Z"
        },
        {
          "tag": "v0.3.3a",
          "kind": "other",
          "published_at": "2020-04-27T10:48:03Z"
        },
        {
          "tag": "v0.3.2",
          "kind": "patch",
          "published_at": "2020-02-25T13:38:42Z"
        },
        {
          "tag": "v0.3.1",
          "kind": "patch",
          "published_at": "2019-09-30T14:26:53Z"
        },
        {
          "tag": "v0.3.1-alpha2",
          "kind": "prerelease",
          "published_at": "2019-05-06T09:49:06Z"
        },
        {
          "tag": "v0.3.1-alpha",
          "kind": "prerelease",
          "published_at": "2019-04-01T13:33:54Z"
        },
        {
          "tag": "v0.3.0",
          "kind": "minor",
          "published_at": "2019-03-12T13:25:37Z"
        },
        {
          "tag": "v0.3.0-alpha5",
          "kind": "prerelease",
          "published_at": "2018-12-21T14:34:07Z"
        },
        {
          "tag": "v0.3.0-alpha",
          "kind": "prerelease",
          "published_at": "2018-10-11T09:22:25Z"
        },
        {
          "tag": "v0.2.9",
          "kind": "patch",
          "published_at": "2018-07-04T13:57:27Z"
        },
        {
          "tag": "v0.2.8",
          "kind": "patch",
          "published_at": "2018-05-14T10:46:30Z"
        },
        {
          "tag": "v0.2.7",
          "kind": "patch",
          "published_at": "2018-04-17T11:28:39Z"
        },
        {
          "tag": "v0.2.7a",
          "kind": "other",
          "published_at": "2018-03-13T14:11:57Z"
        },
        {
          "tag": "v0.2.6",
          "kind": "patch",
          "published_at": "2018-02-06T16:22:19Z"
        },
        {
          "tag": "v0.2.6b",
          "kind": "other",
          "published_at": "2018-01-11T15:15:06Z"
        },
        {
          "tag": "v0.2.5",
          "kind": "patch",
          "published_at": "2018-01-09T12:48:22Z"
        },
        {
          "tag": "v0.2.4",
          "kind": "patch",
          "published_at": "2018-01-08T16:34:26Z"
        },
        {
          "tag": "v0.2.4a",
          "kind": "other",
          "published_at": "2017-11-15T13:43:49Z"
        },
        {
          "tag": "v0.2.3",
          "kind": "patch",
          "published_at": "2017-11-06T10:36:24Z"
        },
        {
          "tag": "v0.2.3b",
          "kind": "other",
          "published_at": "2017-09-26T15:54:39Z"
        },
        {
          "tag": "v0.2.3a",
          "kind": "other",
          "published_at": "2017-07-06T13:27:57Z"
        },
        {
          "tag": "v0.2.2",
          "kind": "patch",
          "published_at": "2017-07-03T11:55:08Z"
        },
        {
          "tag": "v0.2.1",
          "kind": "patch",
          "published_at": "2017-06-20T09:26:41Z"
        },
        {
          "tag": "v0.2.0",
          "kind": "minor",
          "published_at": "2017-06-09T13:13:19Z"
        },
        {
          "tag": "v0.1.10",
          "kind": "patch",
          "published_at": "2017-04-14T10:02:26Z"
        },
        {
          "tag": "v0.1.9",
          "kind": "patch",
          "published_at": "2017-04-07T09:28:46Z"
        },
        {
          "tag": "v0.1.9-a",
          "kind": "prerelease",
          "published_at": "2017-04-04T15:12:07Z"
        },
        {
          "tag": "v0.1.8",
          "kind": "patch",
          "published_at": "2017-03-27T10:02:11Z"
        },
        {
          "tag": "v0.1.7",
          "kind": "patch",
          "published_at": "2017-03-15T11:35:14Z"
        },
        {
          "tag": "v0.1.6",
          "kind": "patch",
          "published_at": "2017-03-01T08:33:59Z"
        },
        {
          "tag": "v0.1.5",
          "kind": "patch",
          "published_at": "2017-02-22T09:49:05Z"
        },
        {
          "tag": "v0.1.4",
          "kind": "patch",
          "published_at": "2017-02-13T11:31:37Z"
        },
        {
          "tag": "v0.1.3",
          "kind": "patch",
          "published_at": "2017-01-30T16:17:14Z"
        },
        {
          "tag": "v0.1.2",
          "kind": "patch",
          "published_at": "2016-11-22T09:34:25Z"
        },
        {
          "tag": "v0.1.1",
          "kind": "patch",
          "published_at": "2016-10-14T12:47:15Z"
        }
      ],
      "recent_commits": [
        {
          "oid": "22f17ac1fbab5aea137de44ebf49969a8ace3c3a",
          "body": null,
          "is_bot": false,
          "headline": "Updated convertgff doc",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-07-10T09:56:53Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "da7af4cf60b98ed707d0ba1124804bbcf8768507",
          "body": null,
          "is_bot": false,
          "headline": "Added documentation for command goalign convertgff",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-07-08T18:04:40Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "6688adbc24429e3815b3e6a9e6579f7326a06129",
          "body": null,
          "is_bot": false,
          "headline": "Added command goalign convertgff",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-07-08T18:01:38Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "88c90b28fd545c195b27f37c01422b8a630541f6",
          "body": "…uts DNA, or LG as the first value #20",
          "is_bot": false,
          "headline": "Corrected partition output in goalign concat --partition (it now outp…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-03-27T13:44:44Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0a46be2be1c1e4c6cf31fa7a91c80465a5a14a8a",
          "body": null,
          "is_bot": false,
          "headline": "Updatde test file for goalign concat --out-partition #20",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-03-16T10:44:24Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "7c7444929f928d62d6f3ca6fd3deeaf7e2b4fc7e",
          "body": null,
          "is_bot": false,
          "headline": "Added option --out-partition to goalign concat #20",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-03-16T10:40:51Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "644c0453f53924fe235c121938e89247659b74a7",
          "body": null,
          "is_bot": false,
          "headline": "Added option --log to goalign mutate gaps",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-02-19T12:44:50Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f21b6cf2e69b684edb29f90b375f6610c164ad34",
          "body": null,
          "is_bot": false,
          "headline": "added --log option to recomb command",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-02-12T08:50:02Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "95623b2d9b0bb43d5560fce492dac8b87117e158",
          "body": "…d (with the file...)",
          "is_bot": false,
          "headline": "Added -l 0 to goalign subseq to extract subsequence from -s to the en…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-01-15T12:55:44Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "cd404d7591972ed33378c764736a49f9865e9757",
          "body": null,
          "is_bot": false,
          "headline": "Added -l 0 to goalign subseq to extract subsequence from -s to the end",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-01-13T12:40:37Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "4b1120561bc8837d4870407aa41cb9c524a3bf64",
          "body": "…roach",
          "is_bot": false,
          "headline": "Upudated random number generator with seed: using the recommended app…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-01-09T16:38:27Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "217177685899be793a543c91a0dc29099fa178da",
          "body": null,
          "is_bot": false,
          "headline": "Added option --char 'LOWER|GAPS|N' to command goalign clean sites #19",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2026-01-08T10:42:39Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "3b32f6731f2e8ae2ffa049e612f6c426f9b4d72c",
          "body": null,
          "is_bot": false,
          "headline": "Updated doc #18",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-19T16:05:10Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "89b24260e782ab2ea06280866da473e779bab6fe",
          "body": "…emove-gaps #18",
          "is_bot": false,
          "headline": "Added option to remove gap only sites after subet: goalign subset --r…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-19T15:56:23Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "eb96cc85e88bb48e28a4df1dd7f2dd0ab90215c7",
          "body": null,
          "is_bot": false,
          "headline": "Updated doc got goalign stats mutations list --codon",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-15T14:04:19Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "04458f061a16e002a74894e38a0483a60da4730f",
          "body": null,
          "is_bot": false,
          "headline": "Temporary setting to revert to old random seed handling",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-11T20:18:40Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "50ce9cfcb21abd4afeb8fbfc15549850eebf13d7",
          "body": null,
          "is_bot": false,
          "headline": "Updated to go 1.24.11",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-11T14:57:56Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "c014c0c81acf4297686bc68bbb2f4b5eb01a3869",
          "body": null,
          "is_bot": false,
          "headline": "Added doc for simplot",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-11T10:57:52Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f1393aa8050d82a9e739c682d74af57421f495ad",
          "body": null,
          "is_bot": false,
          "headline": "Updated README",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-11T10:03:14Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "75129b02bb4605ed474d99c87b8c759257d62f62",
          "body": null,
          "is_bot": false,
          "headline": "UPdated conda badge",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-11T09:56:54Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "a085175275759f9d09b52b2adb5804052f02a159",
          "body": null,
          "is_bot": false,
          "headline": "Updated color palette",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-09T14:38:04Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0abef27e7e4dd883cb6cc07e8cf62a25712732df",
          "body": null,
          "is_bot": false,
          "headline": "Removed logs in simplot image",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-06T21:54:03Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "24204c7adeb13169a810ca9cde188593d921fd0b",
          "body": null,
          "is_bot": false,
          "headline": "Corrected check for group name separator in simplot command",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-06T21:40:00Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "a8b149b52b985dc4c699b2fa3a9e8b76b9f5353b",
          "body": null,
          "is_bot": false,
          "headline": "Updated simplot by groups extracted from sequence name",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-05T20:24:33Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "1173ca51d000b96afe242fa3521dd4d13fbd6acb",
          "body": null,
          "is_bot": false,
          "headline": "go 1.24.11",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-05T19:06:52Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "c161bbc4c57fe7129bca2683c2d0e066e7631204",
          "body": null,
          "is_bot": false,
          "headline": "Updated simplot graphics",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-05T19:05:01Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "b6cf30efa49c016020617dd21af83c614dd5e115",
          "body": null,
          "is_bot": false,
          "headline": "Added image generation for simplot",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-05T15:20:47Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "b5fe96f84bce0e6a0ca5cdc6a93fbeb5349eb93c",
          "body": null,
          "is_bot": false,
          "headline": "Added simplot distances",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-12-05T13:59:23Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "d0f3e379f560ef4f03bb685b5c8a96232a9c401a",
          "body": null,
          "is_bot": false,
          "headline": "Catch error with goalign subseq",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-23T15:49:12Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "a3a0522403ba0f14e0aff3217101946e1d766581",
          "body": "…pecify ali length - length from the end",
          "is_bot": false,
          "headline": "Added option for specifying negative lengths in goalign subseq : to s…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-23T15:44:42Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "d30c6e70ef52382650f82e53eb6c8f567b6c37d6",
          "body": null,
          "is_bot": false,
          "headline": "Corrected N/X pb in RemoveCharacterSites for goalign clean sites",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-20T14:04:50Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "c961992976ae477a4bbee3c7e36f12f0239b6305",
          "body": "…ef sequence",
          "is_bot": false,
          "headline": "goalign stats mutations list --codon : Added ref '-' when 3 gaps in r…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-13T15:37:01Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "99ec0638594db014b43f5bfe78381a34cbdc539d",
          "body": null,
          "is_bot": false,
          "headline": "Updated logo",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-09T08:07:18Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "d79470bd320daa09031b9fb84cc7adb4440a6f30",
          "body": null,
          "is_bot": false,
          "headline": "Corrected codon comparison in goalign stat mutation list --codon",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-02T13:57:19Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "37eb44c47e92619a7693e77b2218757921f8a977",
          "body": null,
          "is_bot": false,
          "headline": "Added option --codon to goalign stats mutation list",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-10-02T13:45:55Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "3d2b2b0ff3e785707c8a931e96bafc5f5eb39a1c",
          "body": null,
          "is_bot": false,
          "headline": "Added goalign reformat stockholm command #15",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-07-18T12:03:24Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "209557e6767c987ec31132eca9148f37c99e8ed5",
          "body": null,
          "is_bot": false,
          "headline": "Updated README",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-30T13:40:37Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0d5872b0a001f1e438e170be46f173f534b6f5a5",
          "body": null,
          "is_bot": false,
          "headline": "Added command goalign mutate ambig",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-29T16:15:33Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "a168ab4b0f038c25d618931b9b3fecfb9c90d68d",
          "body": null,
          "is_bot": false,
          "headline": "Added option --unaligned to goalign clean seqs",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-28T13:59:18Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "13cb3aa1f022adeecb9ce14a81a02318b20015fb",
          "body": null,
          "is_bot": false,
          "headline": "Added Test for replace stops",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-16T20:49:12Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "958b4f9749f77296dded6b6f153049a7f51c2101",
          "body": null,
          "is_bot": false,
          "headline": "Added test for goalign replace stops",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-16T20:43:54Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "5733077f94b27f8c9c14af0b655fc7c7b3b093c6",
          "body": null,
          "is_bot": false,
          "headline": "Added command `goalign replace stops`",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-16T20:37:03Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "5ed865a6642eea3ee4e302bff165fca7de230d76",
          "body": "…> ok with warning about stop codon",
          "is_bot": false,
          "headline": "Updated goalign codonalign: if multiple of 3 nucleotides remainings =…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-06-11T16:17:10Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f4a9aaba0c41e1fd188cc906f6514e8d849d8f72",
          "body": "…rning about stop codon",
          "is_bot": false,
          "headline": "Updated goalign codonalign: if 3 nucleotides remainings => ok with wa…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-05-28T12:41:07Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "44beac3dd81994b66c822fa19e7a4febb3399de0",
          "body": null,
          "is_bot": false,
          "headline": "Added gap=- in nexus output format line #16",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-05-09T09:10:41Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "dfefef7caf94b88ab3fc1d50a4c6a5d225e09473",
          "body": null,
          "is_bot": false,
          "headline": "Update clustal parser error messages",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2025-05-07T13:19:44Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "e80c26d6ec1cefbd4520f778a5378c47f422c7ee",
          "body": "…ts with other commands #15",
          "is_bot": false,
          "headline": "Changed option for stockholm format, now -k. The previous had conflic…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-09-17T21:31:57Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "05d8e3804ff55ae0979620423a9a3b90d5644c31",
          "body": null,
          "is_bot": false,
          "headline": "Added support of Stockholm format #15",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-09-17T21:27:20Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "27d61758af0d4ccc187294258baa08e494b7223f",
          "body": null,
          "is_bot": false,
          "headline": "Added --n-as-gap for command goalign dedup",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-08-20T14:12:09Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0537492733e1496bb90025f97477c60b716aaabe",
          "body": null,
          "is_bot": false,
          "headline": "added file to build",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-06-07T15:16:40Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "909245616e136283b4fda0aed353b1568cd887db",
          "body": null,
          "is_bot": false,
          "headline": "Corrected docs for commands goalign toupper and goalign tolower",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-05-22T16:31:39Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "264f3b8c0824b5c88b5f498701da61788ad20d2e",
          "body": null,
          "is_bot": false,
          "headline": "Added commands goalign toupper and goalign tolower",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-05-22T16:28:44Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f5c7c76de941251cca6b79e1f9d239a86b1d3cd5",
          "body": "…input file",
          "is_bot": false,
          "headline": "Added an option to reverse complement only some sequences in a given …",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-04-03T12:51:29Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f75f0b3734d9fc0dc8dc07ccaf55d86ff5d16d8e",
          "body": null,
          "is_bot": false,
          "headline": "Corrected nt index",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-03-24T22:24:38Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "b034b00f93df7fdda313e7e2bd3d6b6af3104e47",
          "body": null,
          "is_bot": false,
          "headline": "updated dirichlet generation",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-02-21T15:08:55Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "4d1858729f6e7c594f536ead76611088644d6ea7",
          "body": null,
          "is_bot": false,
          "headline": "updated dirichlet generation",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-02-21T15:08:03Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0a0146836c97d67a22055f4a05d6d6ccece696f2",
          "body": null,
          "is_bot": false,
          "headline": "updated dirichlet generation",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-02-21T15:07:36Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "9fb24d662c6c89a84f5f4ab7253053d2eef4a0ea",
          "body": null,
          "is_bot": false,
          "headline": "Updated README",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-01-23T13:36:41Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "8be44a0cc618ad790a42138dd9dd4bd9e4d125c5",
          "body": null,
          "is_bot": false,
          "headline": "Updated go to 1.21.6",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2024-01-18T15:29:34Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "c13a469379cdea012eef1eb9ac9fcdf7f947f0aa",
          "body": null,
          "is_bot": false,
          "headline": "Added option swap to goalign shuffle recomb",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-12-20T12:47:39Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "3eda57669ed6bd88c184693ff92f6699af20dba6",
          "body": null,
          "is_bot": false,
          "headline": "Added option --pos to goalign shuffle swap",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-12-19T22:17:35Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "bdfb55a7e568e3f41e6e87918846dcfa1433319c",
          "body": null,
          "is_bot": false,
          "headline": "Added option --pos to goalign shuffle swap",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-12-19T22:14:20Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "13b116b03a25052e42172a7f84d36feaa4c5a632",
          "body": null,
          "is_bot": false,
          "headline": "Added option --alphabet to all goalign commands #14",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-14T10:22:00Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "3d96af9eaf60599ee05cd3ffcae1b6622351724c",
          "body": null,
          "is_bot": false,
          "headline": "Updated doc for goalign concat -l",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-06T13:58:10Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "5284c056db988b3fa6e63c9d26d70114ffe786a1",
          "body": "…tes of all input alignments in the concatenated alignment",
          "is_bot": false,
          "headline": "Added option -l to goalign concat to keep information of the coordina…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-06T13:54:55Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "ea985a7e9203c3579b3151a1e89f8b6f96afdeb3",
          "body": null,
          "is_bot": false,
          "headline": "Added citation to mtrev matrix",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-03T09:34:13Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "538b9f93381e42dce73b25ba5d11e8b7c824d6db",
          "body": null,
          "is_bot": false,
          "headline": "Updated LG",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-01T21:21:07Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "ece65af969b9d382d3683c57a21748ff4fe229cb",
          "body": null,
          "is_bot": false,
          "headline": "Added AB Matrix: Antibody model",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-11-01T20:58:12Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "103ea5b7d23599714b32dc4bfcf785f811354b8f",
          "body": null,
          "is_bot": false,
          "headline": "Corrected test.sh",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-10-14T12:16:03Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "7221d2ee703457b82f0c5061a498235aade186bb",
          "body": null,
          "is_bot": false,
          "headline": "Corrected comment in posfile",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-10-14T12:13:24Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "ce2930fca5e42f985c90dc2bef6c6f67f644800a",
          "body": null,
          "is_bot": false,
          "headline": "Authorize comments in posfile of command goalign replace",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-10-14T10:21:50Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "e4402603f14b5e10c54cd1ec38d6dce0710487c0",
          "body": null,
          "is_bot": false,
          "headline": "Updated docs for replace",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-10-14T09:56:53Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "18217b2290bd932b4534d757d72bb97ac4a312d8",
          "body": "…acters at specific positions of specific sequences in an input alignment",
          "is_bot": false,
          "headline": "Added --posfile to command goalign replace : to replace specific char…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-10-14T09:52:41Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "8adbb889aa850798d19ef968f0bd33db130709d1",
          "body": "…slate)",
          "is_bot": false,
          "headline": "Added --ref-seq to goalign translate and goalign extract (with --tran…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-09-12T16:11:59Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "fcecb09f9d43d0686ea1a2e916df9c2f7ad65e02",
          "body": null,
          "is_bot": false,
          "headline": "Added function GetSequenceIdByName",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-09-06T11:30:11Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "650e9c17522878bc1c74087bb617a15ed540aa57",
          "body": null,
          "is_bot": false,
          "headline": "Corrected complement map",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-09-05T15:15:26Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "324a6116d602be63fe7cd8f995db7f63eb1b28ed",
          "body": null,
          "is_bot": false,
          "headline": "goalign extract can now extract - strand sequences",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-09-05T15:08:02Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "f1cd6314b6ded35a61a08e7e4c9a9693762ec586",
          "body": null,
          "is_bot": false,
          "headline": "Updated golang.org/x/sys",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-05-31T14:58:17Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "3cfac2a652b17da2888267febc111386617cc03c",
          "body": "…--char #5",
          "is_bot": false,
          "headline": "added option goalign clean sites --reverse, and multi characters for …",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-04-17T09:31:59Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "84b0f6c0858116bcedadac7c4a6386d96e28b01e",
          "body": null,
          "is_bot": false,
          "headline": "Updated test",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-25T16:59:50Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "9ac148653d1914ad31e1399490366a59773c7821",
          "body": "…nd seq have both only gaps",
          "is_bot": false,
          "headline": "goalign stats mutations list --aa does not report mutation when ref a…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-25T16:59:29Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "9c558e8a6c6f5be164faabfb21b6f5de39ed295a",
          "body": null,
          "is_bot": false,
          "headline": "Added comment /doc",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-25T16:46:28Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "fdb94f4898a25daeb6da3898fd014260082c41cb",
          "body": null,
          "is_bot": false,
          "headline": "Added --aa option to goalign stats mutations list",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-25T16:36:22Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "edccf2aac3062f14dd121a2b40c47c460a61f7bc",
          "body": null,
          "is_bot": false,
          "headline": "Removed temp test file",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-12T10:46:55Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "c8a5dcdc916a932a4a34d7e8ee3ee7cea3ebdef6",
          "body": null,
          "is_bot": false,
          "headline": "Merge Makefile",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-12T10:03:26Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "24ab3b5ee2078c81a8f929d3b7b32ceb26f42384",
          "body": null,
          "is_bot": false,
          "headline": "Modified bin names in deploy",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-12T09:59:16Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0957126b28cf194ed25653028d7dfb5518aa61b0",
          "body": null,
          "is_bot": false,
          "headline": "Updated Makefile",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2023-01-02T12:38:44Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "9382b53644f6d6ddb681ab5e73f0f647f26c1e00",
          "body": "…) from an alignment taking coordinates from a gff file",
          "is_bot": false,
          "headline": "Added option --gff to extract : Extracts CDS sequences (with splicing…",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-11-17T10:28:46Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "845e6fa43b88bcbb322057b108f750fd613460aa",
          "body": null,
          "is_bot": false,
          "headline": "Added command goalign mutations list",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-11-08T21:56:13Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "e4c924bdb42d247c012d0f3081acccad1b0656e5",
          "body": null,
          "is_bot": false,
          "headline": "Updated test for goalign mask --pos",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-11-08T15:07:32Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "0ef138bb727df6df6a4e3c40e5294058d61839a0",
          "body": "…an input alignment",
          "is_bot": false,
          "headline": "Added option --pos to goalign mask, to mask a list of positions from …",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-11-08T14:54:30Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "59acb26d2e7ab54afef5536edd993c06b3b37e43",
          "body": null,
          "is_bot": false,
          "headline": "Updated to go 1.19",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-11-08T10:39:37Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "343ea08f7a3d7300f79f1934f924833da6558bb9",
          "body": null,
          "is_bot": false,
          "headline": "Updated cobra/completion README",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-09-22T13:41:43Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "5a351d2d461f612a8a34137ed2ad1461f6bd8509",
          "body": null,
          "is_bot": false,
          "headline": "Updated cobra/completion",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-09-22T13:40:20Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "d944d185e01d106c8ea4ea4341e188906cf16c5a",
          "body": "…positions",
          "is_bot": false,
          "headline": "Added option --positions-rm to golign clean sites, to output removed …",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-07-13T10:29:24Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "e85b6507a1f32aac8b202e5e92d0e2b7fff04bb4",
          "body": null,
          "is_bot": false,
          "headline": "Update README.md",
          "author_name": "fredericlemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-07-08T13:55:08Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "5e50b4a6f9b695158db4f66f527697e802420c64",
          "body": null,
          "is_bot": false,
          "headline": "Update README.md",
          "author_name": "fredericlemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-07-08T13:52:22Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "171fccb9651c6884b62d5a0b31842941d5e68d75",
          "body": null,
          "is_bot": false,
          "headline": "Added option --no-ref to goalign mask",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-06-30T10:57:34Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "29e8e6774e1d2e9f0ae223393c66bbb61407a664",
          "body": null,
          "is_bot": false,
          "headline": "Added option goalign mask --no-gaps",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-06-30T10:00:05Z",
          "body_truncated": false,
          "is_coding_agent": false
        },
        {
          "oid": "15b0c11c48d47f543318be34366b28c8dc30def1",
          "body": null,
          "is_bot": false,
          "headline": "updated go.mod, go.sum",
          "author_name": "Frederic Lemoine",
          "author_login": "fredericlemoine",
          "committed_at": "2022-06-29T09:12:19Z",
          "body_truncated": false,
          "is_coding_agent": false
        }
      ],
      "releases_count": 49,
      "commits_last_year": 35,
      "latest_release_at": "2026-07-15T15:10:34Z",
      "latest_release_tag": "v0.4.1",
      "releases_from_tags": false,
      "days_since_last_push": 7,
      "active_weeks_last_year": 14,
      "days_since_latest_release": 7,
      "mean_days_between_releases": 211.5
    },
    "community": {
      "has_readme": true,
      "has_license": true,
      "has_description": true,
      "has_contributing": false,
      "health_percentage": 37,
      "has_issue_template": false,
      "has_code_of_conduct": false,
      "has_pull_request_template": false
    },
    "ecosystem": {
      "packages": [
        {
          "name": "github.com/evolbioinfo/goalign",
          "exists": true,
          "license": null,
          "keywords": [],
          "ecosystem": "go",
          "matches_repo": true,
          "registry_url": "https://pkg.go.dev/github.com/evolbioinfo/goalign",
          "is_deprecated": false,
          "latest_version": "v0.4.1",
          "repository_url": "https://github.com/evolbioinfo/goalign",
          "versions_count": 41,
          "total_downloads": null,
          "dependents_count": null,
          "deprecation_note": null,
          "maintainers_count": null,
          "monthly_downloads": null,
          "first_published_at": null,
          "latest_published_at": "2026-07-10T09:56:53Z",
          "latest_version_yanked": null,
          "days_since_latest_publish": 12
        }
      ]
    },
    "popularity": {
      "forks": 8,
      "stars": 90,
      "watchers": 11,
      "fork_history": {
        "days": [
          {
            "date": "2020-04-07",
            "count": 1
          },
          {
            "date": "2020-05-14",
            "count": 1
          },
          {
            "date": "2020-11-11",
            "count": 1
          },
          {
            "date": "2021-03-15",
            "count": 1
          },
          {
            "date": "2021-06-28",
            "count": 1
          },
          {
            "date": "2021-08-19",
            "count": 1
          },
          {
            "date": "2022-04-13",
            "count": 1
          },
          {
            "date": "2023-01-31",
            "count": 1
          }
        ],
        "complete": true,
        "collected": 8,
        "total_forks": 8
      },
      "star_history": null,
      "open_issues_and_prs": 0
    },
    "ai_readiness": {
      "has_nix": false,
      "example_dirs": [],
      "has_llms_txt": false,
      "has_dockerfile": false,
      "has_mcp_signal": false,
      "bootstrap_files": [
        "Makefile"
      ],
      "api_schema_files": [],
      "has_devcontainer": false,
      "typecheck_configs": [],
      "toolchain_manifests": [
        "go.mod"
      ],
      "largest_source_bytes": 122666,
      "source_files_sampled": 172,
      "oversized_source_files": 3,
      "agent_instruction_files": [],
      "agent_instruction_max_bytes": null
    },
    "dependencies": {
      "manifests": [
        "go.mod"
      ],
      "advisories": {
        "error": null,
        "scope": "repository_graph",
        "source": "osv",
        "findings": [
          {
            "name": "golang.org/x/image",
            "direct": false,
            "version": "v0.25.0",
            "severity": "high",
            "ecosystem": "go",
            "cvss_score": 7.5,
            "advisory_ids": [
              "GHSA-44p7-9xx4-hf2g",
              "GHSA-q675-qj96-32m9",
              "GO-2026-4815",
              "GO-2026-4961",
              "GO-2026-4962",
              "GO-2026-5031",
              "GO-2026-5032",
              "GO-2026-5061",
              "GO-2026-5062",
              "GO-2026-5066"
            ],
            "fixed_version": "0.43.0",
            "advisory_count": 10,
            "oldest_advisory_days": 118
          },
          {
            "name": "github.com/ulikunitz/xz",
            "direct": true,
            "version": "v0.5.10",
            "severity": "moderate",
            "ecosystem": "go",
            "cvss_score": 5.3,
            "advisory_ids": [
              "GHSA-jc7w-c686-c4v9",
              "GO-2025-3922"
            ],
            "fixed_version": "0.5.15",
            "advisory_count": 2,
            "oldest_advisory_days": 327
          },
          {
            "name": "golang.org/x/sys",
            "direct": false,
            "version": "v0.30.0",
            "severity": "unknown",
            "ecosystem": "go",
            "cvss_score": null,
            "advisory_ids": [
              "GO-2026-5024"
            ],
            "fixed_version": "0.44.0",
            "advisory_count": 1,
            "oldest_advisory_days": 60
          },
          {
            "name": "golang.org/x/text",
            "direct": false,
            "version": "v0.23.0",
            "severity": "unknown",
            "ecosystem": "go",
            "cvss_score": null,
            "advisory_ids": [
              "GO-2026-5970"
            ],
            "fixed_version": "0.39.0",
            "advisory_count": 1,
            "oldest_advisory_days": 7
          }
        ],
        "collected": true,
        "malicious": [],
        "truncated": false,
        "by_severity": {
          "high": 1,
          "unknown": 2,
          "moderate": 1
        },
        "advisory_count": 14,
        "affected_count": 4,
        "assessed_count": 34,
        "malicious_count": 0,
        "assessed_package": null,
        "unassessed_count": 0,
        "direct_affected_count": 1
      },
      "ecosystems": [
        "go"
      ],
      "dependencies": [
        {
          "name": "github.com/armon/go-radix",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v1.0.0"
        },
        {
          "name": "github.com/fredericlemoine/cobrashell",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v0.0.0-20180921081141-49c72f93426c"
        },
        {
          "name": "github.com/spf13/cobra",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v1.5.0"
        },
        {
          "name": "github.com/ulikunitz/xz",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v0.5.10"
        },
        {
          "name": "gonum.org/v1/gonum",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v0.16.0"
        },
        {
          "name": "gonum.org/v1/plot",
          "manifest": "go.mod",
          "ecosystem": "go",
          "version_constraint": "v0.16.0"
        }
      ],
      "all_dependencies": {
        "error": null,
        "source": "github-sbom",
        "packages": [
          {
            "name": "github.com/armon/go-radix",
            "direct": true,
            "version": "v1.0.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/fredericlemoine/cobrashell",
            "direct": true,
            "version": "v0.0.0-20180921081141-49c72f93426c",
            "ecosystem": "go"
          },
          {
            "name": "github.com/spf13/cobra",
            "direct": true,
            "version": "v1.5.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/ulikunitz/xz",
            "direct": true,
            "version": "v0.5.10",
            "ecosystem": "go"
          },
          {
            "name": "gonum.org/v1/gonum",
            "direct": true,
            "version": "v0.16.0",
            "ecosystem": "go"
          },
          {
            "name": "gonum.org/v1/plot",
            "direct": true,
            "version": "v0.16.0",
            "ecosystem": "go"
          },
          {
            "name": "codeberg.org/go-fonts/liberation",
            "direct": false,
            "version": "v0.5.0",
            "ecosystem": "go"
          },
          {
            "name": "codeberg.org/go-latex/latex",
            "direct": false,
            "version": "v0.1.0",
            "ecosystem": "go"
          },
          {
            "name": "codeberg.org/go-pdf/fpdf",
            "direct": false,
            "version": "v0.10.0",
            "ecosystem": "go"
          },
          {
            "name": "git.sr.ht/~sbinet/gg",
            "direct": false,
            "version": "v0.6.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/abiosoft/ishell",
            "direct": false,
            "version": "v2.0.0+incompatible",
            "ecosystem": "go"
          },
          {
            "name": "github.com/abiosoft/readline",
            "direct": false,
            "version": "v0.0.0-20180607040430-155bce2042db",
            "ecosystem": "go"
          },
          {
            "name": "github.com/ajstarks/svgo",
            "direct": false,
            "version": "v0.0.0-20211024235047-1546f124cd8b",
            "ecosystem": "go"
          },
          {
            "name": "github.com/campoy/embedmd",
            "direct": false,
            "version": "v1.0.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/cpuguy83/go-md2man/v2",
            "direct": false,
            "version": "v2.0.2",
            "ecosystem": "go"
          },
          {
            "name": "github.com/fatih/color",
            "direct": false,
            "version": "v1.7.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/flynn-archive/go-shlex",
            "direct": false,
            "version": "v0.0.0-20150515145356-3f9db97f8568",
            "ecosystem": "go"
          },
          {
            "name": "github.com/fogleman/gg",
            "direct": false,
            "version": "v1.3.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/go-fonts/liberation",
            "direct": false,
            "version": "v0.1.1",
            "ecosystem": "go"
          },
          {
            "name": "github.com/go-latex/latex",
            "direct": false,
            "version": "v0.0.0-20210118124228-b3d85cf34e07",
            "ecosystem": "go"
          },
          {
            "name": "github.com/golang/freetype",
            "direct": false,
            "version": "v0.0.0-20170609003504-e2365dfdc4a0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/inconshreveable/mousetrap",
            "direct": false,
            "version": "v1.0.1",
            "ecosystem": "go"
          },
          {
            "name": "github.com/mattn/go-colorable",
            "direct": false,
            "version": "v0.0.9",
            "ecosystem": "go"
          },
          {
            "name": "github.com/mattn/go-isatty",
            "direct": false,
            "version": "v0.0.3",
            "ecosystem": "go"
          },
          {
            "name": "github.com/phpdave11/gofpdf",
            "direct": false,
            "version": "v1.4.2",
            "ecosystem": "go"
          },
          {
            "name": "github.com/pmezard/go-difflib",
            "direct": false,
            "version": "v1.0.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/russross/blackfriday/v2",
            "direct": false,
            "version": "v2.1.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/shurcool/sanitized_anchor_name",
            "direct": false,
            "version": "v1.0.0",
            "ecosystem": "go"
          },
          {
            "name": "github.com/spf13/pflag",
            "direct": false,
            "version": "v1.0.5",
            "ecosystem": "go"
          },
          {
            "name": "golang.org/x/exp",
            "direct": false,
            "version": "v0.0.0-20200224162631-6cc2880d07d6",
            "ecosystem": "go"
          },
          {
            "name": "golang.org/x/image",
            "direct": false,
            "version": "v0.25.0",
            "ecosystem": "go"
          },
          {
            "name": "golang.org/x/sys",
            "direct": false,
            "version": "v0.30.0",
            "ecosystem": "go"
          },
          {
            "name": "golang.org/x/text",
            "direct": false,
            "version": "v0.23.0",
            "ecosystem": "go"
          },
          {
            "name": "gopkg.in/yaml.v2",
            "direct": false,
            "version": "v2.4.0",
            "ecosystem": "go"
          }
        ],
        "collected": true,
        "truncated": false,
        "total_count": 34,
        "direct_count": 6,
        "indirect_count": 28
      }
    },
    "maintainership": {
      "issues": {
        "open_prs": 0,
        "merged_prs": 2,
        "open_issues": 0,
        "closed_ratio": 1,
        "closed_issues": 18,
        "closed_unmerged_prs": 0
      },
      "bus_factor": 1,
      "bot_contributors": 0,
      "top_contributors": [
        {
          "type": "User",
          "login": "fredericlemoine",
          "commits": 688,
          "avatar_url": "https://avatars.githubusercontent.com/u/16349382?v=4"
        },
        {
          "type": "User",
          "login": "lucblassel",
          "commits": 3,
          "avatar_url": "https://avatars.githubusercontent.com/u/30524113?v=4"
        }
      ],
      "contributors_sampled": 2,
      "top_contributor_share": 0.996
    },
    "quality_signals": {
      "has_ci": true,
      "has_tests": true,
      "ci_workflows": [
        "go.yml"
      ],
      "has_docs_dir": true,
      "linter_configs": [],
      "has_editorconfig": false,
      "has_linter_config": false,
      "has_precommit_config": false
    },
    "security_signals": {
      "lockfiles": [
        "go.sum"
      ],
      "scorecard": {
        "checks": [
          {
            "name": "Binary-Artifacts",
            "score": 10,
            "reason": "no binaries found in the repo",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#binary-artifacts"
          },
          {
            "name": "Branch-Protection",
            "score": null,
            "reason": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#branch-protection"
          },
          {
            "name": "CI-Tests",
            "score": null,
            "reason": "no pull request found",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#ci-tests"
          },
          {
            "name": "CII-Best-Practices",
            "score": 0,
            "reason": "no effort to earn an OpenSSF best practices badge detected",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#cii-best-practices"
          },
          {
            "name": "Code-Review",
            "score": 0,
            "reason": "Found 0/30 approved changesets -- score normalized to 0",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#code-review"
          },
          {
            "name": "Contributors",
            "score": 3,
            "reason": "project has 1 contributing companies or organizations -- score normalized to 3",
            "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": 2,
            "reason": "3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#maintained"
          },
          {
            "name": "Packaging",
            "score": null,
            "reason": "packaging workflow not detected",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#packaging"
          },
          {
            "name": "Pinned-Dependencies",
            "score": 0,
            "reason": "dependency not pinned by hash detected -- score normalized to 0",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#pinned-dependencies"
          },
          {
            "name": "SAST",
            "score": 0,
            "reason": "no SAST tool detected",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#sast"
          },
          {
            "name": "Security-Policy",
            "score": 0,
            "reason": "security policy file not detected",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#security-policy"
          },
          {
            "name": "Signed-Releases",
            "score": 0,
            "reason": "Project has not signed or included provenance with any releases.",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#signed-releases"
          },
          {
            "name": "Token-Permissions",
            "score": 0,
            "reason": "detected GitHub workflow tokens with excessive permissions",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#token-permissions"
          },
          {
            "name": "Vulnerabilities",
            "score": 0,
            "reason": "11 existing vulnerabilities detected",
            "documentation_url": "https://github.com/ossf/scorecard/blob/c395761df6afe1a69e476bc60a013a94bcbc153f/docs/checks.md#vulnerabilities"
          }
        ],
        "commit": "22f17ac1fbab5aea137de44ebf49969a8ace3c3a",
        "ran_at": "2026-07-22T15:27:36Z",
        "aggregate_score": 2.5,
        "scorecard_version": "v5.5.0"
      },
      "has_codeql_workflow": false,
      "has_security_policy": false,
      "has_dependabot_config": false
    },
    "contribution_flow": {
      "collected": true,
      "ci_last_run_at": "2026-07-10T09:57:45Z",
      "oldest_open_prs": [],
      "last_merged_pr_at": "2022-04-13T16:31:00Z",
      "ci_last_conclusion": "SUCCESS",
      "oldest_open_issues": []
    }
  },
  "config": {
    "disabled_metrics": [],
    "disabled_categories": [],
    "disabled_components": {}
  },
  "source": {
    "url": "https://github.com/evolbioinfo/goalign",
    "host": "github.com",
    "name": "goalign",
    "owner": "evolbioinfo"
  },
  "metrics": {
    "overall": {
      "key": "overall",
      "band": "moderate",
      "name": "Overall health",
      "note": null,
      "notes": [],
      "value": 59,
      "inputs": {
        "security": 35,
        "vitality": 68,
        "community": 47,
        "governance": 62,
        "engineering": 76
      },
      "components": []
    },
    "categories": [
      {
        "key": "vitality",
        "band": "moderate",
        "name": "Vitality",
        "value": 68,
        "weight": 0.22,
        "metrics": [
          {
            "key": "development_activity",
            "band": "moderate",
            "name": "Development activity",
            "note": null,
            "notes": [],
            "value": 62,
            "inputs": {
              "commits_last_year": 35,
              "human_commit_share": 1,
              "days_since_last_push": 7,
              "active_weeks_last_year": 14
            },
            "components": [
              {
                "key": "push_recency",
                "name": "Push recency",
                "detail": "last push 7 days ago",
                "points": 36,
                "status": "met",
                "details": [
                  {
                    "code": "push_recency",
                    "params": {
                      "days": 7
                    }
                  }
                ],
                "max_points": 36
              },
              {
                "key": "commit_cadence",
                "name": "Commit cadence",
                "detail": "14/52 weeks with commits",
                "points": 9.7,
                "status": "partial",
                "details": [
                  {
                    "code": "commit_cadence_weeks",
                    "params": {
                      "weeks": 14
                    }
                  }
                ],
                "max_points": 36
              },
              {
                "key": "commit_volume",
                "name": "Commit volume",
                "detail": "35 commits in the last year",
                "points": 14,
                "status": "partial",
                "details": [
                  {
                    "code": "commits_last_year",
                    "params": {
                      "count": 35
                    }
                  }
                ],
                "max_points": 18
              },
              {
                "key": "openssf_scorecard_maintained",
                "name": "OpenSSF Scorecard: Maintained",
                "detail": "3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2",
                "points": 2,
                "status": "partial",
                "details": [],
                "max_points": 10
              }
            ]
          },
          {
            "key": "release_discipline",
            "band": "good",
            "name": "Release discipline",
            "note": null,
            "notes": [],
            "value": 76,
            "inputs": {
              "releases_count": 49,
              "latest_release_tag": "v0.4.1",
              "releases_from_tags": false,
              "days_since_latest_release": 7,
              "mean_days_between_releases": 211.5
            },
            "components": [
              {
                "key": "ships_releases",
                "name": "Ships releases",
                "detail": "49 releases published",
                "points": 27,
                "status": "met",
                "details": [
                  {
                    "code": "releases_published",
                    "params": {
                      "count": 49
                    }
                  }
                ],
                "max_points": 27
              },
              {
                "key": "release_recency",
                "name": "Release recency",
                "detail": "latest release 7 days ago",
                "points": 36,
                "status": "met",
                "details": [
                  {
                    "code": "release_recency",
                    "params": {
                      "days": 7
                    }
                  }
                ],
                "max_points": 36
              },
              {
                "key": "release_cadence",
                "name": "Release cadence",
                "detail": "a release every ~211.5 days",
                "points": 12.6,
                "status": "partial",
                "details": [
                  {
                    "code": "release_cadence",
                    "params": {
                      "gap": 211.5
                    }
                  }
                ],
                "max_points": 27
              },
              {
                "key": "openssf_scorecard_signed_releases",
                "name": "OpenSSF Scorecard: Signed-Releases",
                "detail": "Project has not signed or included provenance with any releases.",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 10
              }
            ]
          },
          {
            "key": "abandonment",
            "band": "excellent",
            "name": "Abandonment",
            "note": null,
            "notes": [],
            "value": 100,
            "inputs": {
              "cap": null,
              "state": "maintained",
              "guards": [],
              "signals": [],
              "red_flag": false,
              "multiplier_pct": 100,
              "declared_reason": null,
              "unverified_reason": null,
              "unanswered_open_prs": null,
              "unanswered_open_issues": null,
              "days_since_last_merged_pr": null,
              "days_since_last_human_commit": 12,
              "days_since_last_human_commit_is_floor": false
            },
            "components": [
              {
                "key": "project_is_still_maintained",
                "name": "Project is still maintained",
                "detail": "last human commit 12 days ago",
                "points": 100,
                "status": "met",
                "details": [
                  {
                    "code": "abandonment_maintained",
                    "params": {
                      "days": 12
                    }
                  }
                ],
                "max_points": 100
              }
            ]
          }
        ],
        "description": "Is the project alive — is code being written and are releases shipping?"
      },
      {
        "key": "community",
        "band": "at_risk",
        "name": "Community & Adoption",
        "value": 47,
        "weight": 0.18,
        "metrics": [
          {
            "key": "popularity",
            "band": "at_risk",
            "name": "Popularity & adoption",
            "note": null,
            "notes": [],
            "value": 44,
            "inputs": {
              "forks": 8,
              "stars": 90,
              "watchers": 11,
              "growth_state": "unverified",
              "growth_factor_pct": 100,
              "growth_unverified_reason": "no_history"
            },
            "components": [
              {
                "key": "stars",
                "name": "Stars",
                "detail": "90 stars",
                "points": 31.6,
                "status": "partial",
                "details": [
                  {
                    "code": "stars",
                    "params": {
                      "count": 90
                    }
                  }
                ],
                "max_points": 60
              },
              {
                "key": "forks",
                "name": "Forks",
                "detail": "8 forks",
                "points": 7,
                "status": "partial",
                "details": [
                  {
                    "code": "forks",
                    "params": {
                      "count": 8
                    }
                  }
                ],
                "max_points": 25
              },
              {
                "key": "watchers",
                "name": "Watchers",
                "detail": "11 watchers",
                "points": 5.6,
                "status": "partial",
                "details": [
                  {
                    "code": "watchers",
                    "params": {
                      "count": 11
                    }
                  }
                ],
                "max_points": 15
              }
            ]
          },
          {
            "key": "community_health",
            "band": "moderate",
            "name": "Community health",
            "note": null,
            "notes": [],
            "value": 50,
            "inputs": {
              "has_readme": true,
              "has_license": true,
              "has_contributing": false,
              "has_issue_template": false,
              "has_code_of_conduct": false,
              "has_pull_request_template": false
            },
            "components": [
              {
                "key": "readme",
                "name": "README",
                "detail": null,
                "points": 22.5,
                "status": "met",
                "details": [],
                "max_points": 22.5
              },
              {
                "key": "license",
                "name": "License",
                "detail": "recognized license (GPL-2.0)",
                "points": 22.5,
                "status": "met",
                "details": [
                  {
                    "code": "license_standard",
                    "params": {}
                  },
                  {
                    "code": "license_spdx",
                    "params": {
                      "spdx": "GPL-2.0"
                    }
                  }
                ],
                "max_points": 22.5
              },
              {
                "key": "contributing_guide",
                "name": "CONTRIBUTING guide",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 18
              },
              {
                "key": "code_of_conduct",
                "name": "Code of conduct",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 13.5
              },
              {
                "key": "issue_template",
                "name": "Issue template",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.2
              },
              {
                "key": "pr_template",
                "name": "PR template",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 6.3
              }
            ]
          }
        ],
        "description": "Does the project have users, downloads, attention, and a welcoming setup for contributors?"
      },
      {
        "key": "governance",
        "band": "moderate",
        "name": "Sustainability & Governance",
        "value": 62,
        "weight": 0.24,
        "metrics": [
          {
            "key": "maintainer_resilience",
            "band": "critical",
            "name": "Maintainer resilience (bus factor)",
            "note": null,
            "notes": [],
            "value": 15,
            "inputs": {
              "bus_factor": 1,
              "contributors_sampled": 2,
              "top_contributor_share": 0.996
            },
            "components": [
              {
                "key": "bus_factor",
                "name": "Bus factor",
                "detail": "1 contributor(s) cover half of all commits",
                "points": 9,
                "status": "partial",
                "details": [
                  {
                    "code": "bus_factor",
                    "params": {
                      "count": 1
                    }
                  }
                ],
                "max_points": 54
              },
              {
                "key": "commit_distribution",
                "name": "Commit distribution",
                "detail": "top contributor authored 100% of commits",
                "points": 0.1,
                "status": "partial",
                "details": [
                  {
                    "code": "top_contributor_share",
                    "params": {
                      "share": 100
                    }
                  }
                ],
                "max_points": 22.5
              },
              {
                "key": "contributor_breadth",
                "name": "Contributor breadth",
                "detail": "2 contributors",
                "points": 2.7,
                "status": "partial",
                "details": [
                  {
                    "code": "contributors_sampled",
                    "params": {
                      "count": 2
                    }
                  }
                ],
                "max_points": 13.5
              },
              {
                "key": "openssf_scorecard_contributors",
                "name": "OpenSSF Scorecard: Contributors",
                "detail": "project has 1 contributing companies or organizations -- score normalized to 3",
                "points": 3,
                "status": "partial",
                "details": [],
                "max_points": 10
              }
            ]
          },
          {
            "key": "responsiveness",
            "band": "excellent",
            "name": "Issue & PR responsiveness",
            "note": null,
            "notes": [],
            "value": 85,
            "inputs": {
              "merged_prs": 2,
              "open_issues": 0,
              "closed_issues": 18,
              "issue_closed_ratio": 1,
              "closed_unmerged_prs": 0
            },
            "components": [
              {
                "key": "issue_resolution",
                "name": "Issue resolution",
                "detail": "100% of issues closed",
                "points": 46.8,
                "status": "met",
                "details": [
                  {
                    "code": "issues_closed_share",
                    "params": {
                      "share": 100
                    }
                  }
                ],
                "max_points": 46.75
              },
              {
                "key": "pr_acceptance",
                "name": "PR acceptance",
                "detail": "2/2 decided PRs merged",
                "points": 38.2,
                "status": "met",
                "details": [
                  {
                    "code": "decided_prs_merged",
                    "params": {
                      "merged": 2,
                      "decided": 2
                    }
                  }
                ],
                "max_points": 38.25
              },
              {
                "key": "openssf_scorecard_code_review",
                "name": "OpenSSF Scorecard: Code-Review",
                "detail": "Found 0/30 approved changesets -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 15
              }
            ]
          },
          {
            "key": "stewardship",
            "band": "moderate",
            "name": "Ownership & stewardship",
            "note": null,
            "notes": [],
            "value": 65,
            "inputs": {
              "followers": 50,
              "owner_type": "Organization",
              "is_verified": null,
              "owner_login": "evolbioinfo",
              "public_repos": 30,
              "account_age_days": 3437
            },
            "components": [
              {
                "key": "ownership_backing",
                "name": "Ownership backing",
                "detail": "organization-owned",
                "points": 30,
                "status": "met",
                "details": [
                  {
                    "code": "owner_organization",
                    "params": {}
                  }
                ],
                "max_points": 30
              },
              {
                "key": "verified_domain",
                "name": "Verified domain",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 20
              },
              {
                "key": "owner_reach",
                "name": "Owner reach",
                "detail": "50 followers of evolbioinfo",
                "points": 12.3,
                "status": "partial",
                "details": [
                  {
                    "code": "owner_followers",
                    "params": {
                      "count": 50,
                      "login": "evolbioinfo"
                    }
                  }
                ],
                "max_points": 25
              },
              {
                "key": "track_record",
                "name": "Track record",
                "detail": "30 public repos, account ~9 yr old",
                "points": 22.9,
                "status": "partial",
                "details": [
                  {
                    "code": "public_repos",
                    "params": {
                      "count": 30
                    }
                  },
                  {
                    "code": "account_age_years",
                    "params": {
                      "years": 9
                    }
                  }
                ],
                "max_points": 25
              }
            ]
          },
          {
            "key": "package_maintenance",
            "band": "excellent",
            "name": "Package maintenance",
            "note": null,
            "notes": [],
            "value": 100,
            "inputs": {
              "packages": [
                "github.com/evolbioinfo/goalign"
              ],
              "ecosystems": "go",
              "any_deprecated": false,
              "min_days_since_publish": 12
            },
            "components": [
              {
                "key": "published_resolvable",
                "name": "Published & resolvable",
                "detail": "1 package(s) on go",
                "points": 25,
                "status": "met",
                "details": [
                  {
                    "code": "packages_published",
                    "params": {
                      "count": 1,
                      "ecosystems": "go"
                    }
                  }
                ],
                "max_points": 25
              },
              {
                "key": "publish_recency",
                "name": "Publish recency",
                "detail": "latest publish 12 days ago",
                "points": 35,
                "status": "met",
                "details": [
                  {
                    "code": "publish_recency",
                    "params": {
                      "days": 12
                    }
                  }
                ],
                "max_points": 35
              },
              {
                "key": "version_history",
                "name": "Version history",
                "detail": "41 published versions",
                "points": 20,
                "status": "met",
                "details": [
                  {
                    "code": "published_versions",
                    "params": {
                      "count": 41
                    }
                  }
                ],
                "max_points": 20
              },
              {
                "key": "not_deprecated",
                "name": "Not deprecated",
                "detail": "active, not deprecated or yanked",
                "points": 20,
                "status": "met",
                "details": [
                  {
                    "code": "package_not_deprecated",
                    "params": {}
                  }
                ],
                "max_points": 20
              }
            ]
          }
        ],
        "description": "Will the project survive its people — bus factor, responsiveness, who backs it, and package upkeep?"
      },
      {
        "key": "engineering",
        "band": "good",
        "name": "Engineering Quality",
        "value": 76,
        "weight": 0.2,
        "metrics": [
          {
            "key": "engineering_practices",
            "band": "moderate",
            "name": "Engineering practices",
            "note": "Excluded from scoring (no data or not applicable): OpenSSF Scorecard: CI-Tests. Remaining weights renormalized.",
            "notes": [
              {
                "code": "excluded_no_data",
                "params": {
                  "components": [
                    "openssf_scorecard_ci_tests"
                  ]
                }
              },
              {
                "code": "weights_renormalized",
                "params": {}
              }
            ],
            "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": "1 workflow(s)",
                "points": 24,
                "status": "met",
                "details": [
                  {
                    "code": "ci_workflows",
                    "params": {
                      "count": 1
                    }
                  }
                ],
                "max_points": 24
              },
              {
                "key": "tests_present",
                "name": "Tests present",
                "detail": null,
                "points": 24,
                "status": "met",
                "details": [],
                "max_points": 24
              },
              {
                "key": "linter_config",
                "name": "Linter config",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 16
              },
              {
                "key": "pre_commit_hooks",
                "name": "Pre-commit hooks",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 9.6
              },
              {
                "key": "editorconfig",
                "name": ".editorconfig",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 6.4
              },
              {
                "key": "openssf_scorecard_ci_tests",
                "name": "OpenSSF Scorecard: CI-Tests",
                "detail": "no pull request found",
                "points": 0,
                "status": "excluded",
                "details": [
                  {
                    "code": "no_data",
                    "params": {}
                  }
                ],
                "max_points": 20
              }
            ]
          },
          {
            "key": "documentation",
            "band": "excellent",
            "name": "Documentation",
            "note": null,
            "notes": [],
            "value": 100,
            "inputs": {
              "topics": [
                "phylogeny",
                "alignment",
                "phylip",
                "fasta",
                "phylip-alignment",
                "nexus"
              ],
              "has_wiki": true,
              "homepage": "https://research.pasteur.fr/en/software/goalign-gotree/",
              "has_readme": true,
              "has_docs_dir": true,
              "has_description": true
            },
            "components": [
              {
                "key": "readme",
                "name": "README",
                "detail": null,
                "points": 30,
                "status": "met",
                "details": [],
                "max_points": 30
              },
              {
                "key": "documentation_directory",
                "name": "Documentation directory",
                "detail": null,
                "points": 25,
                "status": "met",
                "details": [],
                "max_points": 25
              },
              {
                "key": "documentation_homepage_site",
                "name": "Documentation / homepage site",
                "detail": "https://research.pasteur.fr/en/software/goalign-gotree/",
                "points": 15,
                "status": "met",
                "details": [],
                "max_points": 15
              },
              {
                "key": "repository_description",
                "name": "Repository description",
                "detail": null,
                "points": 10,
                "status": "met",
                "details": [],
                "max_points": 10
              },
              {
                "key": "topics",
                "name": "Topics",
                "detail": "6 topics",
                "points": 10,
                "status": "met",
                "details": [
                  {
                    "code": "topics_count",
                    "params": {
                      "count": 6
                    }
                  }
                ],
                "max_points": 10
              },
              {
                "key": "wiki",
                "name": "Wiki",
                "detail": null,
                "points": 10,
                "status": "met",
                "details": [],
                "max_points": 10
              }
            ]
          }
        ],
        "description": "Are baseline engineering and documentation practices in place?"
      },
      {
        "key": "security",
        "band": "at_risk",
        "name": "Security",
        "value": 35,
        "weight": 0.16,
        "metrics": [
          {
            "key": "security_posture",
            "band": "critical",
            "name": "Security posture",
            "note": "Excluded from scoring (no data or not applicable): Branch-Protection, CI-Tests, Packaging. Remaining weights renormalized.",
            "notes": [
              {
                "code": "excluded_no_data",
                "params": {
                  "components": [
                    "branch_protection",
                    "ci_tests",
                    "packaging"
                  ]
                }
              },
              {
                "code": "weights_renormalized",
                "params": {}
              }
            ],
            "value": 25,
            "inputs": {
              "source": "openssf_scorecard",
              "checks_evaluated": 15,
              "scorecard_version": "v5.5.0",
              "checks_inconclusive": 3,
              "scorecard_aggregate": 2.5
            },
            "components": [
              {
                "key": "binary_artifacts",
                "name": "Binary-Artifacts",
                "detail": "no binaries found in the repo",
                "points": 7.5,
                "status": "met",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "branch_protection",
                "name": "Branch-Protection",
                "detail": "internal error: error during branchesHandler.setup: internal error: some github tokens can't read classic branch protection rules: https://github.com/ossf/scorecard-action/blob/main/docs/authentication/fine-grained-auth-token.md",
                "points": 0,
                "status": "excluded",
                "details": [
                  {
                    "code": "no_data",
                    "params": {}
                  }
                ],
                "max_points": 7.5
              },
              {
                "key": "ci_tests",
                "name": "CI-Tests",
                "detail": "no pull request found",
                "points": 0,
                "status": "excluded",
                "details": [
                  {
                    "code": "no_data",
                    "params": {}
                  }
                ],
                "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 0/30 approved changesets -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "contributors",
                "name": "Contributors",
                "detail": "project has 1 contributing companies or organizations -- score normalized to 3",
                "points": 0.8,
                "status": "partial",
                "details": [],
                "max_points": 2.5
              },
              {
                "key": "dangerous_workflow",
                "name": "Dangerous-Workflow",
                "detail": "no dangerous workflow patterns detected",
                "points": 10,
                "status": "met",
                "details": [],
                "max_points": 10
              },
              {
                "key": "dependency_update_tool",
                "name": "Dependency-Update-Tool",
                "detail": "no update tool detected",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "fuzzing",
                "name": "Fuzzing",
                "detail": "project is not fuzzed",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 5
              },
              {
                "key": "license",
                "name": "License",
                "detail": "license file detected",
                "points": 2.5,
                "status": "met",
                "details": [],
                "max_points": 2.5
              },
              {
                "key": "maintained",
                "name": "Maintained",
                "detail": "3 commit(s) and 0 issue activity found in the last 90 days -- score normalized to 2",
                "points": 1.5,
                "status": "partial",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "packaging",
                "name": "Packaging",
                "detail": "packaging workflow not detected",
                "points": 0,
                "status": "excluded",
                "details": [
                  {
                    "code": "no_data",
                    "params": {}
                  }
                ],
                "max_points": 5
              },
              {
                "key": "pinned_dependencies",
                "name": "Pinned-Dependencies",
                "detail": "dependency not pinned by hash detected -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 5
              },
              {
                "key": "sast",
                "name": "SAST",
                "detail": "no SAST tool detected",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 5
              },
              {
                "key": "security_policy",
                "name": "Security-Policy",
                "detail": "security policy file not detected",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 5
              },
              {
                "key": "signed_releases",
                "name": "Signed-Releases",
                "detail": "Project has not signed or included provenance with any releases.",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "token_permissions",
                "name": "Token-Permissions",
                "detail": "detected GitHub workflow tokens with excessive permissions",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              },
              {
                "key": "vulnerabilities",
                "name": "Vulnerabilities",
                "detail": "11 existing vulnerabilities detected",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 7.5
              }
            ]
          },
          {
            "key": "dependency_advisories",
            "band": "good",
            "name": "Dependency advisories",
            "note": "Excluded from scoring (no data or not applicable): Indirect dependencies free of known advisories. Remaining weights renormalized. Matched 34 resolved dependencies against OSV. This repository publishes no package the index resolves, so the repository dependency graph was assessed instead. That graph mixes development and test pins with shipped dependencies, so only the declared runtime dependencies are scored; transitive findings are reported as context and excluded from the score. Reachability is not analyzed.",
            "notes": [
              {
                "code": "excluded_no_data",
                "params": {
                  "components": [
                    "indirect_dependencies_free_of_known_advisories"
                  ]
                }
              },
              {
                "code": "weights_renormalized",
                "params": {}
              },
              {
                "code": "advisories_scope_repository",
                "params": {
                  "assessed": 34
                }
              },
              {
                "code": "advisories_repo_graph_caveat",
                "params": {}
              },
              {
                "code": "advisories_reachability",
                "params": {}
              }
            ],
            "value": 74,
            "inputs": {
              "source": "osv",
              "advisories": 14,
              "affected_packages": 4,
              "assessed_packages": 34,
              "unassessed_packages": 0,
              "affected_by_severity": "high 1, moderate 1, unknown 2",
              "direct_affected_packages": 1
            },
            "components": [
              {
                "key": "direct_dependencies_free_of_known_advisories",
                "name": "Direct dependencies free of known advisories",
                "detail": "1 affected: github.com/ulikunitz/xz v0.5.10 (moderate 5.3)",
                "points": 20.2,
                "status": "partial",
                "details": [
                  {
                    "code": "advisories_affected",
                    "params": {
                      "count": 1,
                      "packages": "github.com/ulikunitz/xz v0.5.10 (moderate 5.3)"
                    }
                  }
                ],
                "max_points": 35
              },
              {
                "key": "indirect_dependencies_free_of_known_advisories",
                "name": "Indirect dependencies free of known advisories",
                "detail": "transitive set not separable from development and test dependencies in this scope",
                "points": 0,
                "status": "excluded",
                "details": [
                  {
                    "code": "advisories_scope_not_separable",
                    "params": {}
                  }
                ],
                "max_points": 25
              },
              {
                "key": "no_advisories_left_outstanding",
                "name": "No advisories left outstanding",
                "detail": "1 advisory-carrying package(s) unaddressed past 90 days; oldest published 327 days ago",
                "points": 35.3,
                "status": "partial",
                "details": [
                  {
                    "code": "advisories_stale",
                    "params": {
                      "days": 90,
                      "count": 1,
                      "oldest": 327
                    }
                  }
                ],
                "max_points": 40
              }
            ]
          },
          {
            "key": "malicious_dependencies",
            "band": "excellent",
            "name": "Malicious dependencies",
            "note": null,
            "notes": [],
            "value": 100,
            "inputs": {
              "source": "osv",
              "meaning": "reported as a malicious package by the OpenSSF corpus; the remedy is removal or moving off the compromised name, never an upgrade of the same artifact. Versions the registry has since pulled are listed but not scored",
              "packages": [],
              "red_flag": false,
              "assessed_packages": 34,
              "malicious_packages": 0,
              "direct_malicious_packages": 0,
              "withdrawn_malicious_packages": 0,
              "installable_malicious_packages": 0
            },
            "components": [
              {
                "key": "no_dependency_reported_as_a_malicious_package",
                "name": "No dependency reported as a malicious package",
                "detail": "no dependency is reported as a malicious package",
                "points": 100,
                "status": "met",
                "details": [
                  {
                    "code": "no_malicious_dependencies",
                    "params": {}
                  }
                ],
                "max_points": 100
              }
            ]
          },
          {
            "key": "high_risk_jurisdiction_exposure",
            "band": "excellent",
            "name": "High-Risk Jurisdiction Exposure",
            "note": "Only high-confidence self-published location evidence affects this multiplier. Ambiguous matches are review-only; country evidence is not proof of nationality, citizenship, legal registration, malicious intent, or sanctions status.",
            "notes": [
              {
                "code": "jurisdiction_evidence_limits",
                "params": {}
              }
            ],
            "value": 100,
            "inputs": {
              "meaning": "self-published location evidence; not nationality or citizenship",
              "red_flag": false,
              "exposures": [],
              "policy_countries": [
                "Russia",
                "Iran",
                "North Korea"
              ],
              "review_only_matches": 0,
              "assessed_self_published_locations": 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
              }
            ]
          }
        ],
        "description": "Are visible security and supply-chain practices strong, with no malicious dependency and no unresolved high-risk jurisdiction exposure?"
      },
      {
        "key": "ai_readiness",
        "band": "at_risk",
        "name": "AI Readiness",
        "value": 48,
        "weight": 0,
        "metrics": [
          {
            "key": "ai_agent_context",
            "band": "critical",
            "name": "Agent context & guidance",
            "note": null,
            "notes": [],
            "value": 4,
            "inputs": {
              "has_llms_txt": false,
              "legible_history_share": 0.08,
              "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": "8 of 100 human commits state their intent (structured subject or explanatory body)",
                "points": 4.3,
                "status": "partial",
                "details": [
                  {
                    "code": "legible_history",
                    "params": {
                      "legible": 8,
                      "sampled": 100
                    }
                  }
                ],
                "max_points": 40
              }
            ]
          },
          {
            "key": "ai_verify_loop",
            "band": "moderate",
            "name": "Verify loop (build / test / typecheck)",
            "note": null,
            "notes": [],
            "value": 61,
            "inputs": {
              "has_nix": false,
              "has_tests": true,
              "lockfiles": [
                "go.sum"
              ],
              "has_dockerfile": false,
              "typed_language": true,
              "bootstrap_files": [
                "Makefile"
              ],
              "has_devcontainer": false,
              "has_linter_config": false,
              "typecheck_configs": [],
              "agent_commit_share": 0,
              "toolchain_manifests": [
                "go.mod"
              ],
              "dependency_bot_commit_share": 0
            },
            "components": [
              {
                "key": "one_command_bootstrap",
                "name": "One-command bootstrap",
                "detail": "Makefile",
                "points": 18,
                "status": "met",
                "details": [
                  {
                    "code": "file_list",
                    "params": {
                      "files": "Makefile"
                    }
                  }
                ],
                "max_points": 18
              },
              {
                "key": "automated_tests",
                "name": "Automated tests",
                "detail": null,
                "points": 22,
                "status": "met",
                "details": [],
                "max_points": 22
              },
              {
                "key": "lint_format_config",
                "name": "Lint / format config",
                "detail": null,
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 11
              },
              {
                "key": "static_type_checking",
                "name": "Static type checking",
                "detail": "Go (statically typed)",
                "points": 11,
                "status": "met",
                "details": [
                  {
                    "code": "statically_typed_language",
                    "params": {
                      "language": "Go"
                    }
                  }
                ],
                "max_points": 11
              },
              {
                "key": "reproducible_environment",
                "name": "Reproducible environment",
                "detail": "lockfile",
                "points": 10,
                "status": "met",
                "details": [
                  {
                    "code": "file_list",
                    "params": {
                      "files": "lockfile"
                    }
                  }
                ],
                "max_points": 10
              },
              {
                "key": "demonstrated_agent_practice",
                "name": "Demonstrated agent practice",
                "detail": "no agent-authored commits among the last 100",
                "points": 0,
                "status": "missed",
                "details": [
                  {
                    "code": "no_agent_authored_commits",
                    "params": {
                      "sampled": 100
                    }
                  }
                ],
                "max_points": 10
              },
              {
                "key": "automated_maintenance",
                "name": "Automated maintenance",
                "detail": "no automated dependency updates observed",
                "points": 0,
                "status": "missed",
                "details": [
                  {
                    "code": "no_dependency_automation",
                    "params": {}
                  }
                ],
                "max_points": 8
              },
              {
                "key": "openssf_scorecard_pinned_dependencies",
                "name": "OpenSSF Scorecard: Pinned-Dependencies",
                "detail": "dependency not pinned by hash detected -- score normalized to 0",
                "points": 0,
                "status": "missed",
                "details": [],
                "max_points": 10
              }
            ]
          },
          {
            "key": "ai_code_legibility",
            "band": "excellent",
            "name": "Code legibility for models",
            "note": null,
            "notes": [],
            "value": 99,
            "inputs": {
              "primary_language": "Go",
              "largest_source_bytes": 122666,
              "source_files_sampled": 172,
              "oversized_source_files": 3
            },
            "components": [
              {
                "key": "type_checkable_code",
                "name": "Type-checkable code",
                "detail": "Go (statically typed)",
                "points": 45,
                "status": "met",
                "details": [
                  {
                    "code": "statically_typed_language",
                    "params": {
                      "language": "Go"
                    }
                  }
                ],
                "max_points": 45
              },
              {
                "key": "manageable_file_sizes",
                "name": "Manageable file sizes",
                "detail": "3/172 source files over 60KB",
                "points": 54,
                "status": "partial",
                "details": [
                  {
                    "code": "oversized_source_files",
                    "params": {
                      "kb": 60,
                      "sampled": 172,
                      "oversized": 3
                    }
                  }
                ],
                "max_points": 55
              }
            ]
          }
        ],
        "description": "How well is the repo equipped to be developed and maintained with AI coding agents? An independent, experimental badge — weight 0.0, so it is surfaced on its own and does not affect the overall health score."
      }
    ],
    "metrics_version": "1.13.0"
  },
  "warnings": [
    "Star history unavailable: GitHub GraphQL error: Resource not accessible by personal access token"
  ],
  "report_type": "repository",
  "generated_at": "2026-07-22T15:27:41.706184Z",
  "schema_version": "0.26.0",
  "badge_url": "https://raw.githubusercontent.com/inspect-software/badges/main/v1/e/evolbioinfo/goalign.svg",
  "full_name": "evolbioinfo/goalign",
  "license_state": "standard",
  "license_spdx": "GPL-2.0"
}

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 статистикаGo.