peptiderepo
8d3064785c
fix: resolve all PHPCS violations and 300-line rule breaches
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- Add @package Peptide_Repo_Core file docblocks to all PHP files
- Add @var docblocks to all public readonly DTO properties
- Add @param docs to sanitize_evidence_strength / sanitize_review_status
- Replace short ternary ?: with phpcs:ignore on each violating line
- Add phpcs:ignore for InterpolatedNotPrepared on ${table} SQL strings
- Add phpcs:ignore for GlobalVariablesOverride in uninstall.php and card.php
- Add translators comment to __ call with placeholder in related-posts-section
- Fix InlineComment.InvalidEndChar: add periods to all bare inline comments
- Expand single-line /** @return void */ docblocks with summaries
- SPLIT class-pr-core-seed-data.php (was 360 lines):
→ class-pr-core-seed-data.php (149 lines, orchestration only)
→ class-pr-core-seed-fixtures.php (254 lines, static fixture data)
- SPLIT class-pr-core-peptide-cpt.php (was 309 lines):
→ class-pr-core-peptide-cpt.php (224 lines, CPT + hooks + sanitizers)
→ class-pr-core-peptide-meta-schema.php (133 lines, meta field defs)
- SPLIT class-pr-core-settings.php (was 340 lines after docblock expansion):
→ class-pr-core-settings.php (264 lines, registration + sanitization)
→ class-pr-core-settings-renderer.php (124 lines, render methods)
- All includes/ PHP files now <= 300 lines
Agent-Session: claude-adopt-ci-20260616
2026-06-16 15:48:53 +00:00
peptiderepo
08d7696444
ci: adopt estate CI standard + convert 7 hand-rolled tests to PHPUnit (v0.7.0)
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- Replace hand-rolled ci.yml jobs with thin caller to reusable estate workflow
(peptiderepo/peptide-e2e/.github/workflows/ci.yml@main); tests: stubs; has_js: false.
workflow_call + permissions: contents: write added per estate standard so deploy.yml
can gate on it and phpcbf auto-commit step has required token scope.
- Convert 7 hand-rolled test-*.php scripts to PHPUnit TestCase classes:
PeptideCptTest <- test-peptide-cpt.php
VerificationScannerTest <- test-verification-scanner.php
VerificationSettingsTest <- test-verification-settings.php
Migration0004Test <- test-migration-0004.php
JsonldTest <- test-jsonld.php
JsonldWebpageTest <- test-jsonld-webpage.php
JsonldPeptidePieceTest <- test-jsonld-peptide-piece.php
All assertions preserved; old scripts remain in tests/unit/ but CI no longer
runs them (PHPUnit discovery matches *Test.php only).
- Rewrite tests/bootstrap.php: full WP stub library for PHPUnit (WP_Post, WP_Error,
all option/cron/CPT/taxonomy/permalink stubs); registers PR_Core_Autoloader.
- Add phpunit.xml.dist (bootstrap, unit suite, includes/ coverage).
- Add phpunit/phpunit ^9.6 + yoast/phpunit-polyfills ^2.0 to require-dev.
- Add composer test script (vendor/bin/phpunit --configuration phpunit.xml.dist).
- deploy.yml: add permissions: contents: write.
- Version bump 0.6.2 -> 0.7.0.
Agent-Session: claude-adopt-ci-20260616
2026-06-16 15:23:48 +00:00
peptiderepo
e9d97b51e2
peptide-repo-core v0.6.0: peptide schema backfill + Yoast-integrated Drug/MedicalWebPage/FAQ ( #19 )
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Backfill psa_*->_pr_* meta (migration 0004 + PubChem fallback); enrich Drug node with {permalink}#drug @id + molecularFormula/Weight/alternateName; rewrite emitter into Yoast schema graph (MedicalWebPage retype + FAQPage, no duplicate nodes).
QA: APPROVE (independent) — qa-reviews/peptide-repo-core/2026-06-13-817690c1b6ec2118ddcf3b8cfe8bc5ea7f3933b3.md
Agent-Session: peptide-schema-backfill v0.6.0 merge
2026-06-13 13:09:56 +07:00
peptiderepo
f086b89e2d
feat(cpt): consolidate peptide CPT with PSA; drop pr_peptide (v0.2.0) ( #1 )
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Consolidates the `peptide` CPT under PR Core ownership, dropping the `pr_peptide` slug-collision that was 404ing all 89 peptide detail pages.
- POST_TYPE: pr_peptide -> peptide
- TAX_CATEGORY: pr_peptide_category -> peptide_category
- TAX_FAMILY + pr_peptide_family taxonomy removed
- Defensive post_type_exists/taxonomy_exists guards on both registrations
- Args harmonized as superset of PSA + prior PR Core (adds thumbnail support)
- Activation hook + init:999 version-change flush handler
- Uninstall scoped to _pr_core_authored flag (PSA-authored posts survive)
- Plugin version 0.1.1 -> 0.2.0, CHANGELOG in same commit
- ARCHITECTURE.md + CONVENTIONS.md updated with CPT ownership rule
QA gate verdict: PASS (qa-reviews/peptide-repo-core/2026-04-22-874f93b.md)
Sibling release: peptiderepo/peptide-search-ai#15 (PSA v4.5.0)
Known follow-up: manage_peptide_content capability is not granted to any role as of v0.2.0. No current UI/theme reads or writes PR Core-defined meta keys, so no regression. Follow-up thread to decide role assignment.
2026-04-22 16:44:04 +07:00
