Files
peptide-repo-core/includes/admin/class-pr-core-candidate-queue-page.php
peptiderepo 53c71dca12 fix: move file docblocks to immediately after <?php (before declare)
PHPCS Squiz.Commenting.FileComment requires the file docblock to be the
FIRST token after the opening <?php tag. Having declare(strict_types=1)
before the docblock means PHPCS sees no file docblock at all.

Fix: in every includes/*.php file, insert a minimal /** @package ... */
docblock immediately after <?php (no blank line = satisfies SpacingAfterOpen)
with a blank line after it (satisfies SpacingAfterComment), then declare()
then the class docblock.

Also fixes peptide-repo-core.php SpacingAfterOpen/SpacingAfterComment
by removing the blank line between <?php and the existing file docblock
and ensuring one blank line after it.

Agent-Session: claude-adopt-ci-20260616
2026-06-16 16:06:11 +00:00

169 lines
5.5 KiB
PHP
Raw Blame History

This file contains ambiguous Unicode characters
This file contains Unicode characters that might be confused with other characters. If you think that this is intentional, you can safely ignore this warning. Use the Escape button to reveal them.
<?php
/**
* @package Peptide_Repo_Core
*/
declare(strict_types=1);
/**
* Renders a review screen for AI-extracted dosing candidates
*
* @package Peptide_Repo_Core
*/
/**
* Admin page for the AI Candidate Queue.
*
* What: Renders a review screen for AI-extracted dosing candidates.
* Who calls it: PR_Core_Admin::add_admin_pages() registers this as a submenu page.
* Dependencies: PR_Core_Candidate_Queue_Repository, PR_Core_Peptide_Repository.
*
* Researchers see pending candidates sorted by confidence, can approve/reject with notes.
*
* @see admin/class-pr-core-admin.php — Menu registration.
* @see repositories/class-pr-core-candidate-queue-repository.php — Data layer.
*/
class PR_Core_Candidate_Queue_Page {
/**
* Render the candidate queue admin page.
*
* Side effects: processes approve/reject actions, outputs HTML.
*
* @return void
*/
public function render(): void {
if ( ! current_user_can( PR_Core_Peptide_CPT::CAPABILITY ) ) {
wp_die( esc_html__( 'You do not have permission to access this page.', 'peptide-repo-core' ) );
}
$this->handle_actions();
$repo = new PR_Core_Candidate_Queue_Repository();
$candidates = $repo->find_by_status( 'pending' );
$pep_repo = new PR_Core_Peptide_Repository();
echo '<div class="wrap">';
echo '<h1>' . esc_html__( 'AI Candidate Queue', 'peptide-repo-core' ) . '</h1>';
echo '<p>' . esc_html__( 'Review AI-extracted dosing data candidates. Approved rows are copied to the dosing table.', 'peptide-repo-core' ) . '</p>';
if ( empty( $candidates ) ) {
echo '<p><strong>' . esc_html__( 'No pending candidates.', 'peptide-repo-core' ) . '</strong></p>';
echo '</div>';
return;
}
echo '<table class="widefat striped">';
echo '<thead><tr>';
echo '<th>' . esc_html__( 'Peptide', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Route', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Dose Range', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Population', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Study', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Confidence', 'peptide-repo-core' ) . '</th>';
echo '<th>' . esc_html__( 'Actions', 'peptide-repo-core' ) . '</th>';
echo '</tr></thead><tbody>';
foreach ( $candidates as $c ) {
$peptide = $pep_repo->find_by_id( $c->peptide_id );
$name = $peptide ? $peptide->title : '#' . $c->peptide_id;
$dose = null !== $c->dose_min ? number_format( $c->dose_min, 2 ) : '?';
if ( null !== $c->dose_max && $c->dose_max !== $c->dose_min ) {
$dose .= ' – ' . number_format( $c->dose_max, 2 );
}
$dose .= ' ' . esc_html( $c->dose_unit );
$study = $c->study_title ? esc_html( mb_substr( $c->study_title, 0, 60 ) ) : '—';
if ( $c->citation_pubmed_id ) {
$study .= sprintf( ' <a href="https://pubmed.ncbi.nlm.nih.gov/%s/" target="_blank">PubMed</a>', esc_attr( $c->citation_pubmed_id ) );
}
$confidence_pct = number_format( $c->extraction_confidence * 100, 0 ) . '%';
$approve_url = wp_nonce_url(
add_query_arg(
array(
'action' => 'pr_core_approve',
'candidate_id' => $c->id,
)
),
'pr_core_queue_action'
);
$reject_url = wp_nonce_url(
add_query_arg(
array(
'action' => 'pr_core_reject',
'candidate_id' => $c->id,
)
),
'pr_core_queue_action'
);
echo '<tr>';
printf( '<td>%s</td>', esc_html( $name ) );
printf( '<td>%s</td>', esc_html( $c->route ) );
printf( '<td>%s</td>', esc_html( $dose ) );
printf( '<td>%s</td>', esc_html( $c->population ) );
printf( '<td>%s</td>', $study ); // phpcs:ignore WordPress.Security.EscapeOutput.OutputNotEscaped -- $study is pre-escaped HTML.
printf( '<td>%s</td>', esc_html( $confidence_pct ) );
printf(
'<td><a href="%s" class="button button-primary button-small">%s</a> <a href="%s" class="button button-small">%s</a></td>',
esc_url( $approve_url ),
esc_html__( 'Approve', 'peptide-repo-core' ),
esc_url( $reject_url ),
esc_html__( 'Reject', 'peptide-repo-core' )
);
echo '</tr>';
}
echo '</tbody></table></div>';
}
/**
* Process approve/reject actions from query parameters.
*
* Side effects: database writes, admin notices.
*
* @return void
*/
private function handle_actions(): void {
$action = sanitize_text_field( wp_unslash( $_GET['action'] ?? '' ) ); // phpcs:ignore WordPress.Security.ValidatedSanitizedInput.InputNotValidated
if ( ! in_array( $action, array( 'pr_core_approve', 'pr_core_reject' ), true ) ) {
return;
}
if ( ! check_admin_referer( 'pr_core_queue_action' ) ) {
return;
}
$candidate_id = absint( wp_unslash( $_GET['candidate_id'] ?? 0 ) );
if ( 0 === $candidate_id ) {
return;
}
$repo = new PR_Core_Candidate_Queue_Repository();
$reviewer_id = get_current_user_id();
if ( 'pr_core_approve' === $action ) {
$dosing_id = $repo->approve( $candidate_id, $reviewer_id );
if ( $dosing_id > 0 ) {
add_action(
'admin_notices',
static function () {
echo '<div class="notice notice-success is-dismissible"><p>' . esc_html__( 'Candidate approved and added to dosing data.', 'peptide-repo-core' ) . '</p></div>';
}
);
}
} else {
$repo->reject( $candidate_id, $reviewer_id );
add_action(
'admin_notices',
static function () {
echo '<div class="notice notice-warning is-dismissible"><p>' . esc_html__( 'Candidate rejected.', 'peptide-repo-core' ) . '</p></div>';
}
);
}
}
}