peptide-repo/peptide-repo-core
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6 Commits

Author SHA1 Message Date
peptiderepo
08d7696444 ci: adopt estate CI standard + convert 7 hand-rolled tests to PHPUnit (v0.7.0) 
- 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
f086b89e2d feat(cpt): consolidate peptide CPT with PSA; drop pr_peptide (v0.2.0) (#1) 
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
peptiderepo
3162dbe975 ci: add workflow_call trigger so deploy.yml can reuse CI 
The deploy workflow references ci.yml as a reusable workflow
via `uses: ./.github/workflows/ci.yml`. Without workflow_call
in the trigger list, GitHub Actions rejects the reference.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-04-17 17:16:38 +07:00
peptiderepo
c9361b0283 fix(ci): restructure CI for PHP 8.1+ and proper PHPCS setup 
- Drop PHP 8.0 from matrix — DTOs use readonly properties (8.1+)
- Add composer.json with PHPCS/WPCS as dev dependencies
- Add phpcs.xml.dist for WordPress coding standard config
- Use dealerdirect/phpcodesniffer-composer-installer for auto path setup
- Separate lint jobs: PHP syntax (8.1/8.2/8.3) + PHPCS + file-size
- Update Requires PHP header to 8.1
- Update ARCHITECTURE.md file tree

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-04-17 07:43:01 +07:00
peptiderepo
106f15e027 fix(ci): pin PHPCS to ^3.13 for WPCS compatibility 
PHPCS 4.0.1 was installed first via sequential composer require,
locking the version before WPCS could constrain it. WPCS 3.x
requires PHPCS ^3.x. Fix: install all packages in one command
with --with-all-dependencies and pin PHPCS to ^3.13.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-04-17 07:40:16 +07:00
peptiderepo
808b2509d8 feat: initial peptide-repo-core plugin (v0.1.0) — canonical schema sprint 
Implements ADR-0002: canonical peptide schema as shared data layer for
the peptiderepo.com ecosystem. All Tier 1 tools (Reconstitution Calculator,
Dosage Reference, Legal Status Tracker, PSA enhancements) build on this.

Includes:
- pr_peptide CPT with REST, taxonomies, 11 meta fields
- 3 custom tables: pr_dosing_rows, pr_legal_cells, pr_ai_candidate_queue
- Sequential migration runner with schema versioning
- 4 typed DTOs and 4 repository classes (full CRUD)
- REST API (pr-core/v1): 6 endpoints (read public, write auth-gated)
- Admin UI: 3 meta boxes, custom columns, AI candidate queue page
- Shared disclaimer component (shortcode + static API)
- JSON-LD Drug schema emission on single peptide pages
- Seed data fixture (3 peptides, 10 dosing rows, 5 legal cells)
- Full teardown in uninstall.php
- CI: PHP lint 8.0-8.2, PHPCS WordPress, 300-line check

All 22 PHP files under 300 lines. Highest: peptide-cpt at 265.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-04-17 07:36:12 +07:00