3bbf927510
Move declare(strict_types=1) after file-level docblock in all 12 class files to satisfy WordPress Coding Standards docblock placement rule. Fix multi-line function call formatting in class-psa-admin.php. Align array double arrows and equals signs. Fix escaped backticks in AIGeneratorTest heredoc that broke markdown fence stripping tests. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
344 lines
11 KiB
PHP
Executable File
344 lines
11 KiB
PHP
Executable File
<?php
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/**
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* Registers the Peptide custom post type, taxonomy, and meta fields.
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*
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* What: Registers the 'peptide' CPT, 'peptide_category' taxonomy, meta boxes, and save handlers.
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* Who calls it: Main plugin file via psa_init() and psa_admin_init() hooks.
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* Dependencies: WordPress CPT API, taxonomy API, meta box API.
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*
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* @package PeptideSearchAI
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* @see includes/class-psa-ai-generator.php — auto-assigns category term after generation
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* @see includes/class-psa-directory.php — reads taxonomy for directory filtering
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*/
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declare( strict_types=1 );
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if ( ! defined( 'ABSPATH' ) ) {
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exit;
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}
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class PSA_Post_Type {
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/**
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* Default peptide category terms pre-populated on activation.
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* Key = slug, value = display name.
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*/
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const DEFAULT_CATEGORIES = array(
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'tissue-repair' => 'Tissue Repair',
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'lipid-metabolism' => 'Lipid Metabolism',
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'aging-research' => 'Aging Research',
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'dermatological' => 'Dermatological',
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'metabolic' => 'Metabolic',
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'growth-hormone' => 'Growth Hormone',
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'immunology' => 'Immunology',
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'endocrine' => 'Endocrine',
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);
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/** Core meta field keys used throughout the plugin. */
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const META_FIELDS = array(
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'psa_sequence' => 'Amino Acid Sequence',
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'psa_molecular_weight' => 'Molecular Weight',
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'psa_molecular_formula' => 'Molecular Formula',
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'psa_aliases' => 'Aliases / Synonyms',
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'psa_mechanism' => 'Mechanism of Action',
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'psa_research_apps' => 'Research Applications',
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'psa_safety_profile' => 'Safety & Side Effects',
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'psa_dosage_info' => 'Dosage Information',
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'psa_references' => 'References & Citations',
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'psa_source' => 'Data Source',
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'psa_pubchem_cid' => 'PubChem CID',
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);
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/**
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* Extended meta fields added in v4.3.0 for the directory feature.
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* Separated from META_FIELDS so existing code continues to work unchanged.
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*/
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const EXTENDED_META_FIELDS = array(
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'psa_half_life' => 'Half-Life',
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'psa_stability' => 'Stability',
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'psa_solubility' => 'Solubility / Reconstitution',
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'psa_vial_size_mg' => 'Common Vial Size (mg)',
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'psa_storage_lyophilized' => 'Storage (Lyophilized)',
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'psa_storage_reconstituted' => 'Storage (Reconstituted)',
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'psa_typical_dose_mcg' => 'Typical Research Dose',
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'psa_cycle_parameters' => 'Cycle / Protocol Parameters',
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'psa_amino_acid_count' => 'Amino Acid Count',
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);
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/**
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* Register admin-only hooks (meta boxes, save, admin columns).
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*/
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public static function init_admin(): void {
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add_action( 'add_meta_boxes', array( __CLASS__, 'add_meta_boxes' ) );
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add_action( 'save_post_peptide', array( __CLASS__, 'save_meta' ) );
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add_filter( 'manage_peptide_posts_columns', array( __CLASS__, 'add_admin_columns' ) );
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add_action( 'manage_peptide_posts_custom_column', array( __CLASS__, 'render_admin_column' ), 10, 2 );
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}
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/**
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* Register the peptide CPT.
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*/
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public static function register_peptide_post_type(): void {
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if ( post_type_exists( 'peptide' ) ) {
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return;
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}
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$labels = array(
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'name' => 'Peptides',
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'singular_name' => 'Peptide',
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'menu_name' => 'Peptides',
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'add_new' => 'Add Peptide',
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'add_new_item' => 'Add New Peptide',
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'edit_item' => 'Edit Peptide',
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'new_item' => 'New Peptide',
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'view_item' => 'View Peptide',
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'search_items' => 'Search Peptides',
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'not_found' => 'No peptides found',
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'not_found_in_trash' => 'No peptides found in Trash',
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);
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register_post_type(
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'peptide',
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array(
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'labels' => $labels,
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'public' => true,
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'has_archive' => true,
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'rewrite' => array( 'slug' => 'peptides' ),
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'supports' => array( 'title', 'editor', 'thumbnail', 'excerpt' ),
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'menu_icon' => 'dashicons-database',
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'show_in_rest' => true,
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'capability_type' => 'post',
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'hierarchical' => false,
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)
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);
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}
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/**
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* Register the peptide_category taxonomy on the peptide CPT.
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* Called from psa_init() after CPT registration.
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*/
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public static function register_taxonomy(): void {
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if ( taxonomy_exists( 'peptide_category' ) ) {
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return;
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}
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$labels = array(
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'name' => __( 'Peptide Categories', 'peptide-search-ai' ),
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'singular_name' => __( 'Peptide Category', 'peptide-search-ai' ),
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'search_items' => __( 'Search Categories', 'peptide-search-ai' ),
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'all_items' => __( 'All Categories', 'peptide-search-ai' ),
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'edit_item' => __( 'Edit Category', 'peptide-search-ai' ),
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'update_item' => __( 'Update Category', 'peptide-search-ai' ),
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'add_new_item' => __( 'Add New Category', 'peptide-search-ai' ),
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'new_item_name' => __( 'New Category Name', 'peptide-search-ai' ),
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'menu_name' => __( 'Categories', 'peptide-search-ai' ),
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);
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register_taxonomy(
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'peptide_category',
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'peptide',
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array(
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'labels' => $labels,
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'hierarchical' => true,
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'public' => true,
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'show_in_rest' => true,
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'show_admin_column' => true,
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'rewrite' => array( 'slug' => 'peptide-category' ),
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)
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);
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}
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/**
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* Pre-populate default category terms on activation.
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* Safe to call multiple times — skips existing terms.
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*/
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public static function populate_default_categories(): void {
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foreach ( self::DEFAULT_CATEGORIES as $slug => $name ) {
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if ( ! term_exists( $slug, 'peptide_category' ) ) {
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wp_insert_term( $name, 'peptide_category', array( 'slug' => $slug ) );
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}
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}
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}
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/**
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* Add meta boxes to the peptide editor.
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*/
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public static function add_meta_boxes(): void {
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add_meta_box(
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'psa_peptide_data',
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'Peptide Scientific Data',
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array( __CLASS__, 'render_meta_box' ),
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'peptide',
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'normal',
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'high'
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);
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add_meta_box(
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'psa_extended_data',
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'Extended Research Data',
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array( __CLASS__, 'render_extended_meta_box' ),
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'peptide',
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'normal',
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'default'
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);
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}
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/**
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* Render the core meta box fields.
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*
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* @param WP_Post $post The current post object.
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* @return void
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*/
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public static function render_meta_box( $post ): void {
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wp_nonce_field( 'psa_save_meta', 'psa_meta_nonce' );
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$textarea_fields = array(
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'psa_sequence',
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'psa_mechanism',
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'psa_research_apps',
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'psa_safety_profile',
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'psa_dosage_info',
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'psa_references',
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);
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echo '<table class="form-table">';
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foreach ( self::META_FIELDS as $key => $label ) {
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$value = get_post_meta( $post->ID, $key, true );
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echo '<tr>';
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echo '<th><label for="' . esc_attr( $key ) . '">' . esc_html( $label ) . '</label></th>';
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echo '<td>';
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if ( 'psa_source' === $key ) {
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$options = array(
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'' => '— Select —',
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'ai-generated' => 'AI Generated',
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'pubchem' => 'PubChem Verified',
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'manual' => 'Manual Entry',
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'pending' => 'Pending Generation',
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);
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echo '<select name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '">';
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foreach ( $options as $opt_val => $opt_label ) {
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echo '<option value="' . esc_attr( $opt_val ) . '"' . selected( $value, $opt_val, false ) . '>' . esc_html( $opt_label ) . '</option>';
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}
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echo '</select>';
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} elseif ( in_array( $key, $textarea_fields, true ) ) {
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echo '<textarea name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '" rows="4" class="large-text">' . esc_textarea( $value ) . '</textarea>';
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} else {
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echo '<input type="text" name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '" value="' . esc_attr( $value ) . '" class="regular-text" />';
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}
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echo '</td></tr>';
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}
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echo '</table>';
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}
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/**
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* Render the extended meta box fields (half-life, stability, storage, etc.).
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*
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* @param WP_Post $post The current post object.
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* @return void
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*/
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public static function render_extended_meta_box( $post ): void {
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echo '<table class="form-table">';
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foreach ( self::EXTENDED_META_FIELDS as $key => $label ) {
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$value = get_post_meta( $post->ID, $key, true );
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echo '<tr>';
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echo '<th><label for="' . esc_attr( $key ) . '">' . esc_html( $label ) . '</label></th>';
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echo '<td>';
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if ( 'psa_vial_size_mg' === $key ) {
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echo '<input type="number" step="0.01" name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '" value="' . esc_attr( $value ) . '" class="small-text" /> mg';
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} elseif ( 'psa_amino_acid_count' === $key ) {
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echo '<input type="number" step="1" name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '" value="' . esc_attr( $value ) . '" class="small-text" />';
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} else {
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echo '<input type="text" name="' . esc_attr( $key ) . '" id="' . esc_attr( $key ) . '" value="' . esc_attr( $value ) . '" class="regular-text" />';
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}
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echo '</td></tr>';
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}
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echo '</table>';
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}
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/**
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* Save meta field values (core + extended).
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*
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* @param int $post_id The post ID.
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*/
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public static function save_meta( int $post_id ): void {
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// phpcs:ignore WordPress.Security.ValidatedSanitizedInput
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if ( ! isset( $_POST['psa_meta_nonce'] ) ||
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! wp_verify_nonce( wp_unslash( $_POST['psa_meta_nonce'] ), 'psa_save_meta' ) ) {
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return;
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}
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if ( defined( 'DOING_AUTOSAVE' ) && DOING_AUTOSAVE ) {
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return;
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}
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if ( ! current_user_can( 'edit_post', $post_id ) ) {
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return;
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}
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$numeric_fields = array( 'psa_vial_size_mg', 'psa_amino_acid_count' );
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$all_fields = array_merge( self::META_FIELDS, self::EXTENDED_META_FIELDS );
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foreach ( $all_fields as $key => $label ) {
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if ( isset( $_POST[ $key ] ) ) {
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$raw = wp_unslash( $_POST[ $key ] );
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if ( in_array( $key, $numeric_fields, true ) ) {
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// Numeric fields: store as non-negative number or empty string.
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$value = ( '' === trim( $raw ) ) ? '' : (string) max( 0, floatval( $raw ) );
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} else {
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$value = sanitize_textarea_field( $raw );
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}
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update_post_meta( $post_id, $key, $value );
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}
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}
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}
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/**
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* Add custom columns to the peptide admin list.
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*
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* @param array $columns Existing columns.
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* @return array Modified columns.
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*/
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public static function add_admin_columns( array $columns ): array {
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$new = array();
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foreach ( $columns as $key => $label ) {
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$new[ $key ] = $label;
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// Insert source column after title.
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if ( 'title' === $key ) {
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$new['psa_source'] = __( 'Source', 'peptide-search-ai' );
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}
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}
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return $new;
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}
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/**
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* Render custom column content in the admin post list.
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*
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* @param string $column Column key.
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* @param int $post_id Post ID.
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*/
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public static function render_admin_column( string $column, int $post_id ): void {
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if ( 'psa_source' === $column ) {
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$source = get_post_meta( $post_id, 'psa_source', true );
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$labels = array(
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'ai-generated' => 'AI',
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'pubchem' => 'PubChem',
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'manual' => 'Manual',
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'pending' => 'Pending',
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'failed' => 'Failed',
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);
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echo esc_html( $labels[ $source ] ?? '—' );
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}
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}
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/**
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* Get all meta field keys (core + extended) as a flat array.
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*
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* @return array<string> Meta keys.
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*/
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public static function get_all_meta_keys(): array {
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return array_merge(
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array_keys( self::META_FIELDS ),
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array_keys( self::EXTENDED_META_FIELDS )
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);
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}
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}
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