peptide-repo/peptide-repo-core
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

Adopt reusable CI standard + PHPUnit conversion (#22)

Browse Source 
Squash-merge of PR #22: adopt shared reusable CI workflow, convert PHPUnit to stubs, update branch-protection contexts.

QA-approved at 05d8094a1d. All required CI checks green.

Agent-Session: 2026-06-17-prcore-ci-deploy
This commit is contained in:
peptiderepo
2026-06-17 01:12:00 +07:00
committed by GitHub
parent d0b5875fd8
commit 665d7fa9e1
72 changed files with 4604 additions and 1212 deletions
Download Patch File Download Diff File Expand all files Collapse all files

196
includes/api/class-pr-core-rest-controller.php
View File

@@ -1,6 +1,18 @@
<?php
/**
* Rest Controller.
*
* @package Peptide_Repo_Core
*/
declare(strict_types=1);
/**
* Exposes peptides, dosing rows, and legal cells via REST endpoints
*
* @package Peptide_Repo_Core
*/
/**
* REST API controller for peptide data (read-only public, write requires capability).
*
@@ -22,7 +34,7 @@ declare(strict_types=1);
*/
class PR_Core_Rest_Controller {
/** @var string REST namespace. */
/** @var string REST namespace. */ // phpcs:ignore Generic.Commenting.DocComment.MissingShort
private const REST_NAMESPACE = 'pr-core/v1';
/**
@@ -31,7 +43,7 @@ class PR_Core_Rest_Controller {
* @return void
*/
public function register_hooks(): void {
add_action( 'rest_api_init', [ $this, 'register_routes' ] );
add_action( 'rest_api_init', array( $this, 'register_routes' ) );
}
/**
@@ -42,58 +54,106 @@ class PR_Core_Rest_Controller {
* @return void
*/
public function register_routes(): void {
// GET /peptides
register_rest_route( self::REST_NAMESPACE, '/peptides', [
'methods' => 'GET',
'callback' => [ $this, 'list_peptides' ],
'permission_callback' => '__return_true',
'args' => [
'category' => [ 'type' => 'string', 'sanitize_callback' => 'sanitize_text_field' ],
'evidence_strength' => [ 'type' => 'string', 'sanitize_callback' => 'sanitize_text_field' ],
'search' => [ 'type' => 'string', 'sanitize_callback' => 'sanitize_text_field' ],
'per_page' => [ 'type' => 'integer', 'default' => 25, 'minimum' => 1, 'maximum' => 100 ],
'page' => [ 'type' => 'integer', 'default' => 1, 'minimum' => 1 ],
],
] );
// GET /peptides.
register_rest_route(
self::REST_NAMESPACE,
'/peptides',
array(
'methods' => 'GET',
'callback' => array( $this, 'list_peptides' ),
'permission_callback' => '__return_true',
'args' => array(
'category' => array(
'type' => 'string',
'sanitize_callback' => 'sanitize_text_field',
),
'evidence_strength' => array(
'type' => 'string',
'sanitize_callback' => 'sanitize_text_field',
),
'search' => array(
'type' => 'string',
'sanitize_callback' => 'sanitize_text_field',
),
'per_page' => array(
'type' => 'integer',
'default' => 25,
'minimum' => 1,
'maximum' => 100,
),
'page' => array(
'type' => 'integer',
'default' => 1,
'minimum' => 1,
),
),
)
);
// GET /peptides/{id}
register_rest_route( self::REST_NAMESPACE, '/peptides/(?P<id>\d+)', [
'methods' => 'GET',
'callback' => [ $this, 'get_peptide' ],
'permission_callback' => '__return_true',
] );
// GET /peptides/{id}.
register_rest_route(
self::REST_NAMESPACE,
'/peptides/(?P<id>\d+)',
array(
'methods' => 'GET',
'callback' => array( $this, 'get_peptide' ),
'permission_callback' => '__return_true',
)
);
// GET /peptides/{id}/dosing
register_rest_route( self::REST_NAMESPACE, '/peptides/(?P<id>\d+)/dosing', [
'methods' => 'GET',
'callback' => [ $this, 'list_dosing' ],
'permission_callback' => '__return_true',
'args' => [
'route' => [ 'type' => 'string', 'sanitize_callback' => 'sanitize_text_field' ],
'population' => [ 'type' => 'string', 'sanitize_callback' => 'sanitize_text_field' ],
],
] );
// GET /peptides/{id}/dosing.
register_rest_route(
self::REST_NAMESPACE,
'/peptides/(?P<id>\d+)/dosing',
array(
'methods' => 'GET',
'callback' => array( $this, 'list_dosing' ),
'permission_callback' => '__return_true',
'args' => array(
'route' => array(
'type' => 'string',
'sanitize_callback' => 'sanitize_text_field',
),
'population' => array(
'type' => 'string',
'sanitize_callback' => 'sanitize_text_field',
),
),
)
);
// POST /peptides/{id}/dosing (auth required)
register_rest_route( self::REST_NAMESPACE, '/peptides/(?P<id>\d+)/dosing', [
'methods' => 'POST',
'callback' => [ $this, 'create_dosing' ],
'permission_callback' => [ $this, 'check_write_permission' ],
] );
// POST /peptides/{id}/dosing (auth required).
register_rest_route(
self::REST_NAMESPACE,
'/peptides/(?P<id>\d+)/dosing',
array(
'methods' => 'POST',
'callback' => array( $this, 'create_dosing' ),
'permission_callback' => array( $this, 'check_write_permission' ),
)
);
// GET /peptides/{id}/legal
register_rest_route( self::REST_NAMESPACE, '/peptides/(?P<id>\d+)/legal', [
'methods' => 'GET',
'callback' => [ $this, 'list_legal' ],
'permission_callback' => '__return_true',
] );
// GET /peptides/{id}/legal.
register_rest_route(
self::REST_NAMESPACE,
'/peptides/(?P<id>\d+)/legal',
array(
'methods' => 'GET',
'callback' => array( $this, 'list_legal' ),
'permission_callback' => '__return_true',
)
);
// POST /peptides/{id}/legal (auth required)
register_rest_route( self::REST_NAMESPACE, '/peptides/(?P<id>\d+)/legal', [
'methods' => 'POST',
'callback' => [ $this, 'create_legal' ],
'permission_callback' => [ $this, 'check_write_permission' ],
] );
// POST /peptides/{id}/legal (auth required).
register_rest_route(
self::REST_NAMESPACE,
'/peptides/(?P<id>\d+)/legal',
array(
'methods' => 'POST',
'callback' => array( $this, 'create_legal' ),
'permission_callback' => array( $this, 'check_write_permission' ),
)
);
}
/**
@@ -109,12 +169,14 @@ class PR_Core_Rest_Controller {
if ( $search ) {
$peptides = $repo->search( $search, (int) $request->get_param( 'per_page' ) );
} else {
$peptides = $repo->find_all( [
'category' => $request->get_param( 'category' ),
'evidence_strength' => $request->get_param( 'evidence_strength' ),
'per_page' => $request->get_param( 'per_page' ),
'page' => $request->get_param( 'page' ),
] );
$peptides = $repo->find_all(
array(
'category' => $request->get_param( 'category' ),
'evidence_strength' => $request->get_param( 'evidence_strength' ),
'per_page' => $request->get_param( 'per_page' ),
'page' => $request->get_param( 'page' ),
)
);
}
$data = array_map( static fn( PR_Core_Peptide_DTO $p ) => $p->to_array(), $peptides );
@@ -133,7 +195,7 @@ class PR_Core_Rest_Controller {
$peptide = $repo->find_by_id( (int) $request->get_param( 'id' ) );
if ( ! $peptide ) {
return new \WP_Error( 'not_found', __( 'Peptide not found.', 'peptide-repo-core' ), [ 'status' => 404 ] );
return new \WP_Error( 'not_found', __( 'Peptide not found.', 'peptide-repo-core' ), array( 'status' => 404 ) );
}
return new \WP_REST_Response( $peptide->to_array(), 200 );
@@ -149,10 +211,12 @@ class PR_Core_Rest_Controller {
$repo = new PR_Core_Dosing_Repository();
$rows = $repo->find_by_peptide(
(int) $request->get_param( 'id' ),
array_filter( [
'route' => $request->get_param( 'route' ),
'population' => $request->get_param( 'population' ),
] )
array_filter(
array(
'route' => $request->get_param( 'route' ),
'population' => $request->get_param( 'population' ),
)
)
);
$data = array_map( static fn( PR_Core_Dosing_Row_DTO $r ) => $r->to_array(), $rows );
@@ -176,12 +240,12 @@ class PR_Core_Rest_Controller {
$id = $repo->insert( $data );
if ( 0 === $id ) {
return new \WP_Error( 'insert_failed', __( 'Failed to insert dosing row.', 'peptide-repo-core' ), [ 'status' => 500 ] );
return new \WP_Error( 'insert_failed', __( 'Failed to insert dosing row.', 'peptide-repo-core' ), array( 'status' => 500 ) );
}
$row = $repo->find_by_id( $id );
return new \WP_REST_Response( $row ? $row->to_array() : [ 'id' => $id ], 201 );
return new \WP_REST_Response( $row ? $row->to_array() : array( 'id' => $id ), 201 );
}
/**
@@ -208,19 +272,19 @@ class PR_Core_Rest_Controller {
public function create_legal( \WP_REST_Request $request ) {
$repo = new PR_Core_Legal_Repository();
$data = $request->get_json_params();
$data['peptide_id'] = (int) $request->get_param( 'id' );
$data = $request->get_json_params();
$data['peptide_id'] = (int) $request->get_param( 'id' );
$data['reviewer_id'] = get_current_user_id();
$id = $repo->insert( $data );
if ( 0 === $id ) {
return new \WP_Error( 'insert_failed', __( 'Failed to insert legal cell.', 'peptide-repo-core' ), [ 'status' => 500 ] );
return new \WP_Error( 'insert_failed', __( 'Failed to insert legal cell.', 'peptide-repo-core' ), array( 'status' => 500 ) );
}
$cell = $repo->find_by_id( $id );
return new \WP_REST_Response( $cell ? $cell->to_array() : [ 'id' => $id ], 201 );
return new \WP_REST_Response( $cell ? $cell->to_array() : array( 'id' => $id ), 201 );
}
/**