initial commit

CTF/Smol/wordpress.old/wp-content/plugins/jsmol2wp/jsmol2wp.php

@@ -0,0 +1,78 @@
+<?php
+/*
+Plugin Name: jsmol2wp 
+Description: Shorttag Plugin to view embed a jsmol viewer in a wordpress page [jsmol pdb='filename or accession' caption='caption' commands ='']. You can use a local file for the .pdb or pull the file from http://www.rcsb.org/pdb/files/XXXX.pdb. For more info see the help link under the applets.
+Version: 1.07
+Author: JimHu
+Author URI: http://jimhu.org
+License: GPL2
+*/
+
+if ( ! defined( 'JSMOL2WP_PLUGIN_DIR' ) )
+	define( 'JSMOL2WP_PLUGIN_DIR', untrailingslashit( dirname( __FILE__ ) ) );
+
+# include the object code
+include_once(JSMOL2WP_PLUGIN_DIR."/class.jsMol2wp.php");
+
+
+/*
+internationalization. See:
+https://www.sitepoint.com/wordpress-i18n-make-your-plugin-translation-ready/
+*/
+function load_jsmol2wp_textdomain() {
+  load_plugin_textdomain( 'espw-plugin', FALSE, basename( dirname( __FILE__ ) ) . '/languages/' );
+}
+
+add_action( 'plugins_loaded', 'load_jsmol2wp_textdomain' );
+
+//add shortcodes
+function jsmol2wp_shortcode($atts) {
+	extract(shortcode_atts(array(
+	'acc'       => '',
+	'type'      => 'pdb',
+	'pdb'       => '',
+	'isosurface'=> '',
+	'load'		=> '',
+	'fileurl'   => '',
+	'caption'	=> '',
+	'commands'	=> '',
+	'id'      => '', # if you want two copies in the same post with the same acc and caption
+	'wrap'      => '4',
+	'debug'     => 'false'
+	), $atts));
+	#backward compatibility
+	if($acc == '' && $pdb != ''){
+		$acc = $pdb;
+		$type = 'pdb';
+	}
+	$p = new jsMol2wp($acc, $type, $caption, $id, $fileurl, $isosurface);
+	return $p->makeViewer($acc, $type, $load, $caption, $commands, $wrap, $debug);
+}
+
+add_shortcode( 'jsmol', 'jsmol2wp_shortcode');
+
+function jsmol_mime_types($mime_types){
+    //Adjust the $mime_types, which is an associative array where the key is extension and value is mime type.
+    $mime_types['pdb'] = 'chemical/x-pdb';
+    $mime_types['cif'] = 'chemical/x-cif';
+    $mime_types['cml'] = 'chemical/x-cml+xml';
+    $mime_types['jvxl'] = 'chemical/x-jvxl';
+    $mime_types['mol'] = 'chemical/x-mdl-molfile';
+    $mime_types['mol2'] = 'chemical/x-mol2';
+    $mime_types['xyz'] = 'chemical/x-xyz';
+    $mime_types['ccp4'] = 'text/ccp4';
+    return $mime_types;
+}
+add_filter('upload_mimes', 'jsmol_mime_types', 1, 1);
+
+function enqueue_jsmol_scripts() {
+	wp_register_script(
+		'jsmol.min.nojq', 
+		plugins_url()."/jsmol2wp/JSmol.min.nojq.js",
+		array( 'jquery', 'jquery-ui-core','jquery-ui-menu'  ),
+		'14.1.7_2014.06.09'
+	);
+	wp_enqueue_script('jsmol.min.nojq');
+	
+}
+add_action( 'wp_enqueue_scripts', 'enqueue_jsmol_scripts' );