| 1 |
9cc1a3e2
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Andreas Kohlbecker
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<?php
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| 2 |
e06884e4
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Andreas Kohlbecker
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// $Id$
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| 3 |
9cc1a3e2
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Andreas Kohlbecker
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| 4 |
05fe0ad6
|
Andreas Kohlbecker
|
/*
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| 5 |
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* @file
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| 6 |
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* cdm_dataportal
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| 7 |
67a4a4c6
|
Andreas Kohlbecker
|
*
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| 8 |
05fe0ad6
|
Andreas Kohlbecker
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* Copyright (C) 2007 EDIT
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| 9 |
67a4a4c6
|
Andreas Kohlbecker
|
* European Distributed Institute of Taxonomy
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| 10 |
05fe0ad6
|
Andreas Kohlbecker
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* http://www.e-taxonomy.eu
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| 11 |
94112bee
|
n.hoffmann
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*
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| 12 |
05fe0ad6
|
Andreas Kohlbecker
|
*/
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47a8c0dd
|
Andreas Kohlbecker
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require_once('cdm_dataportal.theme.php');
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9cc1a3e2
|
Andreas Kohlbecker
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30c5a6bd
|
Andreas Kohlbecker
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define(CDM_DATAPORTAL_SEARCH_ITEMS_ON_PAGE, 25);
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67a4a4c6
|
Andreas Kohlbecker
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/* ====================== hook implementations ====================== */
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| 19 |
9cc1a3e2
|
Andreas Kohlbecker
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| 20 |
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/**
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| 21 |
bf910101
|
Andreas Kohlbecker
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* Implementation of hook_help()
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| 22 |
67a4a4c6
|
Andreas Kohlbecker
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*
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| 23 |
9cc1a3e2
|
Andreas Kohlbecker
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* Display help and module information
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* @param section which section of the site we're displaying help
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* @return help text for section
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*/
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function cdm_dataportal_help($section='') {
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67a4a4c6
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Andreas Kohlbecker
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$out = '';
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switch ($section) {
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case "admin/modules#description":
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$out = t("The dataportal publishes CDM data hosted in a CommunityStore on the web.");
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break;
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}
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return $out;
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| 36 |
9cc1a3e2
|
Andreas Kohlbecker
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}
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/**
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| 40 |
bf910101
|
Andreas Kohlbecker
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* Implementation of hook_perm()
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| 41 |
67a4a4c6
|
Andreas Kohlbecker
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*
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9cc1a3e2
|
Andreas Kohlbecker
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* Valid permissions for this module
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* @return array An array of valid permissions for the portfolio module
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*/
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function cdm_dataportal_perm() {
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| 46 |
67a4a4c6
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Andreas Kohlbecker
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return array(
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9cc1a3e2
|
Andreas Kohlbecker
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'administer cdm_dataportal',
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'cdm_dataportal view notes',
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67a4a4c6
|
Andreas Kohlbecker
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//TODO which else permission are required? -> check the WP6 requirements document
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);
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9cc1a3e2
|
Andreas Kohlbecker
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}
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/**
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| 55 |
bf910101
|
Andreas Kohlbecker
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* Implementation of hook_menu()
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| 56 |
9cc1a3e2
|
Andreas Kohlbecker
|
*/
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function cdm_dataportal_menu($may_cache) {
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| 58 |
f5851190
|
n.hoffmann
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$items = array();
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9cc1a3e2
|
Andreas Kohlbecker
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if ($may_cache) {
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| 61 |
67a4a4c6
|
Andreas Kohlbecker
|
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9cc1a3e2
|
Andreas Kohlbecker
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$items[] = array(
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'path' => 'admin/settings/cdm_dataportal',
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'title' => t('CDM Dataportal'),
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'description' => t('Setting for the CDM Dataportal'),
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'access' => user_access('administer cdm_dataportal'),
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'callback' => 'drupal_get_form',
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'callback arguments' => 'cdm_dataportal_settings',
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a22e3f38
|
Andreas Kohlbecker
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);
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812a9c04
|
Andreas Kohlbecker
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/*$items[] = array(
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a22e3f38
|
Andreas Kohlbecker
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'path' => 'admin/settings/cdm_dataportal/ws',
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'title' => t('Web Service'),
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'description' => t('Setting for the CDM Dataportal'),
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'access' => user_access('administer cdm_dataportal'),
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'callback' => 'drupal_get_form',
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'callback arguments' => 'cdm_dataportal_settings',
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'weight' => 1,
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'type' => MENU_DEFAULT_LOCAL_TASK,
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812a9c04
|
Andreas Kohlbecker
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);*/
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a22e3f38
|
Andreas Kohlbecker
|
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9cc1a3e2
|
Andreas Kohlbecker
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$items[] = array(
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'path' => 'cdm_dataportal/names',
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'callback' => 'cdm_dataportal_view_names',
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'access' => true,
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| 86 |
94112bee
|
n.hoffmann
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'type' => MENU_CALLBACK,
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| 87 |
67a4a4c6
|
Andreas Kohlbecker
|
);
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// optional callback arguments: page
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4726aac7
|
Andreas Kohlbecker
|
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67a4a4c6
|
Andreas Kohlbecker
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$items[] = array(
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4726aac7
|
Andreas Kohlbecker
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'path' => 'cdm_dataportal/taxon',
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'callback' => 'cdm_dataportal_view_taxon',
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'access' => true,
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'type' => MENU_CALLBACK,
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// expected callback arguments: name_uuid
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);
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$items[] = array(
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'path' => 'cdm_dataportal/reference',
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'callback' => 'cdm_dataportal_view_reference',
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'access' => true,
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'type' => MENU_CALLBACK,
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| 103 |
67a4a4c6
|
Andreas Kohlbecker
|
// expected callback arguments: name_uuid
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);
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| 105 |
ee99abea
|
Andreas Kohlbecker
|
|
| 106 |
46a52efe
|
Andreas Kohlbecker
|
$items[] = array(
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'path' => 'cdm_dataportal/reference/list',
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'callback' => 'cdm_dataportal_view_reference_list',
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'access' => true,
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'type' => MENU_CALLBACK,
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// expected callback arguments: name_uuid
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| 112 |
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);
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| 113 |
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| 114 |
2cd9a3d6
|
Andreas Kohlbecker
|
$items[] = array(
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| 115 |
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'path' => 'cdm_dataportal/media',
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| 116 |
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'callback' => 'cdm_dataportal_view_media',
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'access' => true,
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'type' => MENU_CALLBACK,
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| 119 |
b09e63fd
|
Andreas Kohlbecker
|
// expected callback arguments: media_uuid, mediarepresentation_uuid, part_uuid or part#
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| 120 |
2cd9a3d6
|
Andreas Kohlbecker
|
);
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| 121 |
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| 122 |
2447830d
|
Andreas Kohlbecker
|
$items[] = array(
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| 123 |
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'path' => 'cdm_dataportal/search',
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| 124 |
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'callback' => 'cdm_dataportal_view_search_advanced',
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| 125 |
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'access' => true,
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| 126 |
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'type' => MENU_CALLBACK,
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| 127 |
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);
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| 128 |
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| 129 |
ee99abea
|
Andreas Kohlbecker
|
$items[] = array(
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| 130 |
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'path' => 'cdm_dataportal/search/taxon',
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| 131 |
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'callback' => 'cdm_dataportal_view_search_taxon',
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| 132 |
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'access' => true,
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| 133 |
94112bee
|
n.hoffmann
|
'type' => MENU_CALLBACK,
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| 134 |
f5851190
|
n.hoffmann
|
);
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| 135 |
ee99abea
|
Andreas Kohlbecker
|
|
| 136 |
67a4a4c6
|
Andreas Kohlbecker
|
$items[] = array(
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| 137 |
05fe0ad6
|
Andreas Kohlbecker
|
'path' => 'cdm/xml2json',
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| 138 |
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'callback' => 'cdm_view_xml2json',
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| 139 |
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'access' => true,
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| 140 |
94112bee
|
n.hoffmann
|
'type' => MENU_CALLBACK,
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| 141 |
67a4a4c6
|
Andreas Kohlbecker
|
);
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| 142 |
f5851190
|
n.hoffmann
|
|
| 143 |
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| 144 |
4726aac7
|
Andreas Kohlbecker
|
} else {
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| 145 |
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// may not cache
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| 146 |
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// --- local tasks for Taxon
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| 147 |
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if(variable_get('cdm_dataportal_taxonpage_tabs', 1)) {
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| 148 |
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| 149 |
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$items[] = array(
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| 150 |
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'path' => 'cdm_dataportal/taxon/'.arg(2),
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| 151 |
0d127818
|
Andreas Kohlbecker
|
'title' => theme('cdm_taxonpage_tab', 'General'),
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| 152 |
4726aac7
|
Andreas Kohlbecker
|
'callback' => 'cdm_dataportal_view_taxon',
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| 153 |
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'access' => true,
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| 154 |
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'type' => MENU_CALLBACK,
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| 155 |
3cf0dec2
|
Andreas Kohlbecker
|
'weight' => 1,
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| 156 |
24b09d7c
|
Andreas Kohlbecker
|
'callback arguments' => array(arg(2), "description")
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| 157 |
4726aac7
|
Andreas Kohlbecker
|
// expected callback arguments: name_uuid
|
| 158 |
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);
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| 159 |
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| 160 |
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$items[] = array(
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| 161 |
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'path' => 'cdm_dataportal/taxon/'.arg(2).'/description',
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| 162 |
0d127818
|
Andreas Kohlbecker
|
'title' => theme('cdm_taxonpage_tab', 'General'),
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| 163 |
4726aac7
|
Andreas Kohlbecker
|
'callback' => 'cdm_dataportal_view_taxon',
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| 164 |
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'access' => true,
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| 165 |
|
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'type' => MENU_DEFAULT_LOCAL_TASK,
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| 166 |
3cf0dec2
|
Andreas Kohlbecker
|
'weight' => 2,
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| 167 |
4726aac7
|
Andreas Kohlbecker
|
'callback arguments' => array(arg(2), "description")
|
| 168 |
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// expected callback arguments: name_uuid
|
| 169 |
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);
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| 170 |
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| 171 |
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$items[] = array(
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| 172 |
3cf0dec2
|
Andreas Kohlbecker
|
'path' => 'cdm_dataportal/taxon/'.arg(2).'/synonymy',
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| 173 |
0d127818
|
Andreas Kohlbecker
|
'title' => theme('cdm_taxonpage_tab', 'Synonymy'),
|
| 174 |
4726aac7
|
Andreas Kohlbecker
|
'callback' => 'cdm_dataportal_view_taxon',
|
| 175 |
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'access' => true,
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| 176 |
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'type' => MENU_LOCAL_TASK,
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| 177 |
3cf0dec2
|
Andreas Kohlbecker
|
'weight' => 3,
|
| 178 |
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'callback arguments' => array(arg(2), "synonymy")
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| 179 |
4726aac7
|
Andreas Kohlbecker
|
// expected callback arguments: name_uuid
|
| 180 |
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);
|
| 181 |
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| 182 |
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$items[] = array(
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| 183 |
3cf0dec2
|
Andreas Kohlbecker
|
'path' => 'cdm_dataportal/taxon/'.arg(2).'/images',
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| 184 |
0d127818
|
Andreas Kohlbecker
|
'title' => theme('cdm_taxonpage_tab', 'Images'),
|
| 185 |
4726aac7
|
Andreas Kohlbecker
|
'callback' => 'cdm_dataportal_view_taxon',
|
| 186 |
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'access' => true,
|
| 187 |
|
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'type' => MENU_LOCAL_TASK,
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| 188 |
3cf0dec2
|
Andreas Kohlbecker
|
'weight' => 4,
|
| 189 |
|
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'callback arguments' => array(arg(2), "images")
|
| 190 |
4726aac7
|
Andreas Kohlbecker
|
// expected callback arguments: name_uuid
|
| 191 |
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);
|
| 192 |
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}
|
| 193 |
f5851190
|
n.hoffmann
|
}
|
| 194 |
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| 195 |
2189699f
|
Andreas Kohlbecker
|
drupal_add_css(drupal_get_path('module', 'cdm_dataportal').'/cdm_dataportal.css');
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| 196 |
6611904c
|
Andreas Kohlbecker
|
//drupal_add_css(drupal_get_path('module', 'cdm_dataportal').'/cdm_dataportal_print.css', 'print');
|
| 197 |
|
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drupal_add_css(drupal_get_path('module', 'cdm_dataportal').'/cdm_dataportal_screen.css', 'screen');
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| 198 |
f5851190
|
n.hoffmann
|
|
| 199 |
9cc1a3e2
|
Andreas Kohlbecker
|
return $items;
|
| 200 |
c0ac3382
|
Andreas Kohlbecker
|
|
| 201 |
9cc1a3e2
|
Andreas Kohlbecker
|
}
|
| 202 |
|
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|
| 203 |
d946105e
|
Andreas Kohlbecker
|
/**
|
| 204 |
|
|
* Implementation of hook_block()
|
| 205 |
67a4a4c6
|
Andreas Kohlbecker
|
*
|
| 206 |
d946105e
|
Andreas Kohlbecker
|
* Provides the following blocks:
|
| 207 |
|
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* 0: list of links useful during development
|
| 208 |
|
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*
|
| 209 |
|
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* @param String $op
|
| 210 |
|
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* @param int $delta
|
| 211 |
|
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*/
|
| 212 |
|
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function cdm_dataportal_block($op='list', $delta=0) {
|
| 213 |
|
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// listing of blocks, such as on the admin/block page
|
| 214 |
|
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if ($op == "list") {
|
| 215 |
|
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$block[0]["info"] = t("CDM DataPortal DevLinks");
|
| 216 |
67a4a4c6
|
Andreas Kohlbecker
|
$block[1]["info"] = t("CDM DataPortal Credits");
|
| 217 |
ee99abea
|
Andreas Kohlbecker
|
$block[2]["info"] = t("CDM Search Taxa");
|
| 218 |
f5b3d74e
|
Andreas Kohlbecker
|
$block[3]["info"] = t("CDM Filters");
|
| 219 |
d946105e
|
Andreas Kohlbecker
|
return $block;
|
| 220 |
|
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}
|
| 221 |
|
|
else if ($op == 'view') {
|
| 222 |
|
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switch($delta){
|
| 223 |
67a4a4c6
|
Andreas Kohlbecker
|
case 1:
|
| 224 |
|
|
$block['subject'] = t('Credits');
|
| 225 |
c0ac3382
|
Andreas Kohlbecker
|
$block['content'] = theme('cdm_credits');
|
| 226 |
|
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return $block;
|
| 227 |
ee99abea
|
Andreas Kohlbecker
|
case 2:
|
| 228 |
|
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$block['subject'] = t('Search Taxa');
|
| 229 |
|
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$block['content'] = drupal_get_form('cdm_dataportal_search_taxon_form');
|
| 230 |
8934f97c
|
Andreas Kohlbecker
|
$block['content'] .= '<div>'.l('Advanced Search', '/cdm_dataportal/search').'</div>';
|
| 231 |
ee99abea
|
Andreas Kohlbecker
|
return $block;
|
| 232 |
d946105e
|
Andreas Kohlbecker
|
}
|
| 233 |
|
|
}
|
| 234 |
|
|
}
|
| 235 |
|
|
|
| 236 |
9cc1a3e2
|
Andreas Kohlbecker
|
|
| 237 |
47a8c0dd
|
Andreas Kohlbecker
|
/**
|
| 238 |
|
|
* Implementation of hook_validate()
|
| 239 |
|
|
*
|
| 240 |
|
|
* @param $element
|
| 241 |
|
|
*/
|
| 242 |
afbbba9e
|
Andreas Kohlbecker
|
function cdm_dataportal_settings_validate($form_id, $form_values){
|
| 243 |
812a9c04
|
Andreas Kohlbecker
|
|
| 244 |
afbbba9e
|
Andreas Kohlbecker
|
if (!str_endsWith($form_values['cdm_webservice_url'], '/')) {
|
| 245 |
67a4a4c6
|
Andreas Kohlbecker
|
form_set_error('cdm_webservice_url', t("The URL to the CDM Web Service must end with a slash: '/'."));
|
| 246 |
|
|
}
|
| 247 |
812a9c04
|
Andreas Kohlbecker
|
|
| 248 |
|
|
$cdm_webservice_url_changed = variable_get('cdm_webservice_url', '') != $form_values['cdm_webservice_url'];
|
| 249 |
|
|
|
| 250 |
24b09d7c
|
Andreas Kohlbecker
|
$cdm_secUuid_default_changed = variable_get('cdm_secUuid_default', '') != $form_values['cdm_secUuid_default'];
|
| 251 |
|
|
|
| 252 |
|
|
if ($cdm_webservice_url_changed || $cdm_secUuid_default_changed) {
|
| 253 |
|
|
|
| 254 |
|
|
_cdm_dataportal_set_currentSecUuid($form_values['cdm_secUuid_default']);
|
| 255 |
812a9c04
|
Andreas Kohlbecker
|
// reset all cdm related data stored in the session
|
| 256 |
6e1ec3a4
|
Andreas Kohlbecker
|
// cdm_dataportal_session_clear($form_values['cdm_webservice_url']); // cdm_webservice_url is not further stored here
|
| 257 |
fa68c2c5
|
Andreas Kohlbecker
|
// clear the cdm webservice cache
|
| 258 |
|
|
cache_clear_all(NULL, 'cache_cdm_ws');
|
| 259 |
6e1ec3a4
|
Andreas Kohlbecker
|
// better clear secref_cache since i can not be sure if the cache has not be used during this response
|
| 260 |
|
|
cdm_api_secref_cache_clear();
|
| 261 |
812a9c04
|
Andreas Kohlbecker
|
}
|
| 262 |
5d53a642
|
Andreas Kohlbecker
|
if($form_values['cdm_webservice_cache'] != variable_get('cdm_webservice_cache', 1)){
|
| 263 |
|
|
cache_clear_all(NULL, 'cache_cdm_ws');
|
| 264 |
6e1ec3a4
|
Andreas Kohlbecker
|
// better clear secref_cache since i can not be sure if the cache has not be used during this response
|
| 265 |
|
|
cdm_api_secref_cache_clear();
|
| 266 |
5d53a642
|
Andreas Kohlbecker
|
}
|
| 267 |
812a9c04
|
Andreas Kohlbecker
|
|
| 268 |
47a8c0dd
|
Andreas Kohlbecker
|
}
|
| 269 |
|
|
|
| 270 |
94112bee
|
n.hoffmann
|
/*
|
| 271 |
a27e2588
|
Andreas Kohlbecker
|
function cdm_dataportal_session_clear($cdm_ws_uri_update = false){
|
| 272 |
|
|
$_SESSION['cdm'] = null;
|
| 273 |
|
|
if(is_string($cdm_ws_uri_update)){
|
| 274 |
|
|
$_SESSION['cdm'] = array('ws_uri'=>$cdm_ws_uri_update);
|
| 275 |
|
|
}
|
| 276 |
|
|
}
|
| 277 |
|
|
|
| 278 |
|
|
function cdm_dataportal_session_validate(){
|
| 279 |
|
|
|
| 280 |
|
|
if(!isset($_SESSION['cdm']['ws_uri'])){
|
| 281 |
|
|
$_SESSION['cdm'] = array('ws_uri'=>variable_get('cdm_webservice_url', false));
|
| 282 |
|
|
} else if($_SESSION['cdm']['ws_uri'] != variable_get('cdm_webservice_url', false)){
|
| 283 |
|
|
cdm_dataportal_session_clear(variable_get('cdm_webservice_url', false));
|
| 284 |
|
|
}
|
| 285 |
|
|
}
|
| 286 |
44e02685
|
Andreas Kohlbecker
|
*/
|
| 287 |
812a9c04
|
Andreas Kohlbecker
|
|
| 288 |
2447830d
|
Andreas Kohlbecker
|
function cdm_dataportal_search_taxon_form($advancedForm = false){
|
| 289 |
|
|
|
| 290 |
|
|
$preset_query = (isset($_SESSION['cdm']['search']['query']) ? $_SESSION['cdm']['search']['query'] : '');
|
| 291 |
fa650011
|
Andreas Kohlbecker
|
$preset_doTaxa = (isset($_SESSION['cdm']['search']['doTaxa']) ? 1 : 0);
|
| 292 |
abd0ab13
|
Andreas Kohlbecker
|
$preset_doSynonyms = (isset($_SESSION['cdm']['search']['doSynonyms']) ? 1 : 0);
|
| 293 |
|
|
$preset_doTaxaByCommonNames = (isset($_SESSION['cdm']['search']['doTaxaByCommonNames']) ? 1 : 0);
|
| 294 |
8934f97c
|
Andreas Kohlbecker
|
$tdwg_level_select = (isset($_SESSION['cdm']['search']['tdwg_level_select']) ? $_SESSION['cdm']['search']['tdwg_level_select'] : 2);
|
| 295 |
fa650011
|
Andreas Kohlbecker
|
$selected_areas = (isset($_SESSION['cdm']['search']['area']) ? $_SESSION['cdm']['search']['area'] : false);
|
| 296 |
ee99abea
|
Andreas Kohlbecker
|
|
| 297 |
6611904c
|
Andreas Kohlbecker
|
$url = 'cdm_dataportal/search/taxon';
|
| 298 |
|
|
$form['#method'] = 'get';
|
| 299 |
|
|
$form['#process'] = array('cdm_dataportal_search_process' => array());
|
| 300 |
|
|
$form['#action'] = url($url, NULL, NULL, true);
|
| 301 |
|
|
|
| 302 |
24b09d7c
|
Andreas Kohlbecker
|
$form['query'] = array(
|
| 303 |
2447830d
|
Andreas Kohlbecker
|
'#delta' => 0,
|
| 304 |
ee99abea
|
Andreas Kohlbecker
|
'#type' => 'textfield',
|
| 305 |
|
|
'#size' => 20,
|
| 306 |
304cdf42
|
Andreas Kohlbecker
|
'#attributes' => array('title' => t('Enter the name or part of a name you wish to search for. The asterisk character * can always be used as wildcard')),
|
| 307 |
2447830d
|
Andreas Kohlbecker
|
'#value' => $preset_query,
|
| 308 |
6611904c
|
Andreas Kohlbecker
|
);
|
| 309 |
|
|
|
| 310 |
2447830d
|
Andreas Kohlbecker
|
$form['search'] = array(
|
| 311 |
|
|
'#delta' => 1,
|
| 312 |
|
|
'#tree' => true,
|
| 313 |
|
|
//'#type' => $advancedForm ? 'fieldset': 'hidden',
|
| 314 |
|
|
'#title' => t('Options')
|
| 315 |
|
|
);
|
| 316 |
8934f97c
|
Andreas Kohlbecker
|
|
| 317 |
9ee2882b
|
Andreas Kohlbecker
|
$form['search']['tree'] = array(
|
| 318 |
8934f97c
|
Andreas Kohlbecker
|
'#delta' => -1,
|
| 319 |
|
|
'#type' => 'hidden',
|
| 320 |
9ee2882b
|
Andreas Kohlbecker
|
'#value' => variable_get('cdm_taxonomictree_uuid', false)
|
| 321 |
8934f97c
|
Andreas Kohlbecker
|
);
|
| 322 |
2447830d
|
Andreas Kohlbecker
|
|
| 323 |
6611904c
|
Andreas Kohlbecker
|
|
| 324 |
|
|
// clean URL get forms breaks if we don't give it a 'q'.
|
| 325 |
|
|
if (!(bool)variable_get('clean_url', '0')) {
|
| 326 |
2447830d
|
Andreas Kohlbecker
|
$form['search']['q'] = array(
|
| 327 |
|
|
'#delta' => -1,
|
| 328 |
6611904c
|
Andreas Kohlbecker
|
'#type' => 'hidden',
|
| 329 |
|
|
'#value' => $url,
|
| 330 |
|
|
'#name' => 'q',
|
| 331 |
|
|
);
|
| 332 |
|
|
}
|
| 333 |
2447830d
|
Andreas Kohlbecker
|
|
| 334 |
|
|
$form['search']['pageSize'] = array(
|
| 335 |
|
|
'#delta' => -1,
|
| 336 |
|
|
'#type' => 'hidden',
|
| 337 |
|
|
'#value' => variable_get('cdm_dataportal_search_items_on_page', 25)
|
| 338 |
|
|
);
|
| 339 |
|
|
|
| 340 |
|
|
if($advancedForm){
|
| 341 |
8934f97c
|
Andreas Kohlbecker
|
// general search parameters
|
| 342 |
|
|
$form['search']['doTaxa'] = array(
|
| 343 |
2447830d
|
Andreas Kohlbecker
|
'#delta' => 2,
|
| 344 |
|
|
'#type' => 'checkbox',
|
| 345 |
|
|
'#title' => t('Search for accepted taxa'),
|
| 346 |
|
|
'#value' => $preset_doTaxa
|
| 347 |
8934f97c
|
Andreas Kohlbecker
|
);
|
| 348 |
|
|
$form['search']['doSynonyms'] = array(
|
| 349 |
2447830d
|
Andreas Kohlbecker
|
'#delta' => 3,
|
| 350 |
|
|
'#type' => 'checkbox',
|
| 351 |
|
|
'#title' => t('Search for synonyms'),
|
| 352 |
|
|
'#value' => $preset_doSynonyms
|
| 353 |
8934f97c
|
Andreas Kohlbecker
|
);
|
| 354 |
|
|
$form['search']['doTaxaByCommonNames'] = array(
|
| 355 |
2447830d
|
Andreas Kohlbecker
|
'#delta' => 4,
|
| 356 |
|
|
'#type' => 'checkbox',
|
| 357 |
|
|
'#title' => t('Search for common names'),
|
| 358 |
|
|
'#value' => $preset_doTaxaByCommonNames
|
| 359 |
8934f97c
|
Andreas Kohlbecker
|
);
|
| 360 |
|
|
|
| 361 |
|
|
// Geographic Range
|
| 362 |
|
|
$form['search']['geographic_range'] = array(
|
| 363 |
|
|
'#type' => 'fieldset',
|
| 364 |
|
|
'#delta' => 5,
|
| 365 |
|
|
'#tree' => true,
|
| 366 |
|
|
'#title' => t('Geographic range'),
|
| 367 |
|
|
);
|
| 368 |
|
|
|
| 369 |
|
|
$form['search']['geographic_range']['tdwg_level_select'] = array(
|
| 370 |
|
|
'#type' => 'radios',
|
| 371 |
|
|
'#title' => t('Select a TDWG distribution level and code:'),
|
| 372 |
|
|
'#default_value' => $tdwg_level_select,
|
| 373 |
|
|
'#options' => array(
|
| 374 |
|
|
t('TDWG level-1, i.e. a continent'),
|
| 375 |
|
|
t('TDWG level-2'),
|
| 376 |
|
|
t('TDWG level-3, i.e. a country'),
|
| 377 |
|
|
t('TDWG level-4')
|
| 378 |
|
|
)
|
| 379 |
|
|
);
|
| 380 |
|
|
$tdwg[1] = cdm_ws_get(CDM_WS_TDWG_LEVEL, '1');
|
| 381 |
|
|
$tdwg[2] = cdm_ws_get(CDM_WS_TDWG_LEVEL, '2');
|
| 382 |
|
|
$tdwg[3] = cdm_ws_get(CDM_WS_TDWG_LEVEL, '3');
|
| 383 |
|
|
$tdwg[4] = cdm_ws_get(CDM_WS_TDWG_LEVEL, '4');
|
| 384 |
|
|
|
| 385 |
|
|
$tdwg_js = '';
|
| 386 |
|
|
foreach($tdwg as $key=>$tdwg_level){
|
| 387 |
|
|
$tdwgOptions = array();
|
| 388 |
|
|
$tdwgOptionsSelected = array();
|
| 389 |
|
|
foreach($tdwg_level as $area){
|
| 390 |
|
|
$representation = $area->representations[0];
|
| 391 |
|
|
$tdwgOptions[$representation->abbreviatedLabel] = $area->representation_L10n;
|
| 392 |
fa650011
|
Andreas Kohlbecker
|
if(is_array($selected_areas) && in_array($representation->abbreviatedLabel, $selected_areas)){
|
| 393 |
|
|
$tdwgOptionsSelected[] = $representation->abbreviatedLabel; //$area->uuid;
|
| 394 |
8934f97c
|
Andreas Kohlbecker
|
}
|
| 395 |
|
|
}
|
| 396 |
abd0ab13
|
Andreas Kohlbecker
|
asort($tdwgOptions);
|
| 397 |
8934f97c
|
Andreas Kohlbecker
|
$form['search']['geographic_range']['tdwg_level_'.$key] = array(
|
| 398 |
|
|
'#type' => 'select',
|
| 399 |
|
|
'#title' => t('TDWG level').' '.$key,
|
| 400 |
|
|
'#default_value' => $tdwgOptionsSelected,
|
| 401 |
|
|
'#multiple' => TRUE,
|
| 402 |
|
|
'#options' => $tdwgOptions
|
| 403 |
|
|
);
|
| 404 |
abd0ab13
|
Andreas Kohlbecker
|
$tdwg_js .= "$('#edit-search-geographic-range-tdwg-level-$key').parent()".($tdwg_level_select + 1 == $key ? '.show()' : '.hide()'). ";\n";
|
| 405 |
8934f97c
|
Andreas Kohlbecker
|
}
|
| 406 |
|
|
|
| 407 |
|
|
drupal_add_js(
|
| 408 |
|
|
"$(document).ready(function(){
|
| 409 |
|
|
|
| 410 |
|
|
$(\"input[@name='search[geographic_range][tdwg_level_select]']\").change(
|
| 411 |
|
|
function(event){
|
| 412 |
|
|
var selectId = $(\"input[@name='search[geographic_range][tdwg_level_select]']:checked\").val();
|
| 413 |
|
|
var i;
|
| 414 |
|
|
for(i = 0; i < 4; i++){
|
| 415 |
|
|
if(selectId == i){
|
| 416 |
|
|
$('#edit-search-geographic-range-tdwg-level-' + (i + 1) ).parent().fadeIn('slow');
|
| 417 |
|
|
$('#edit-search-geographic-range-tdwg-level-' + (i + 1)).children().removeAttr('selected');
|
| 418 |
|
|
} else {
|
| 419 |
|
|
$('#edit-search-geographic-range-tdwg-level-' + (i + 1)).parent().fadeOut('slow');
|
| 420 |
|
|
$('#edit-search-geographic-range-tdwg-level-' + (i + 1)).children().removeAttr('selected');
|
| 421 |
|
|
}
|
| 422 |
|
|
}
|
| 423 |
|
|
}
|
| 424 |
|
|
);
|
| 425 |
|
|
|
| 426 |
|
|
$tdwg_js
|
| 427 |
|
|
});",
|
| 428 |
|
|
'inline');
|
| 429 |
|
|
|
| 430 |
2447830d
|
Andreas Kohlbecker
|
} else {
|
| 431 |
|
|
$form['search']['doTaxa'] = array(
|
| 432 |
|
|
'#delta' => -2,
|
| 433 |
|
|
'#type' => 'hidden',
|
| 434 |
|
|
'#value' => 1
|
| 435 |
|
|
);
|
| 436 |
|
|
$form['search']['doSynonyms'] = array(
|
| 437 |
|
|
'#delta' => -3,
|
| 438 |
|
|
'#type' => 'hidden',
|
| 439 |
|
|
'#value' => 1
|
| 440 |
|
|
);
|
| 441 |
|
|
$form['search']['doTaxaByCommonNames'] = array(
|
| 442 |
|
|
'#delta' => -4,
|
| 443 |
|
|
'#type' => 'hidden',
|
| 444 |
|
|
'#value' => 1
|
| 445 |
|
|
);
|
| 446 |
|
|
}
|
| 447 |
|
|
|
| 448 |
|
|
$form['submit'] = array(
|
| 449 |
|
|
'#delta' => 9,
|
| 450 |
|
|
'#type' => 'submit',
|
| 451 |
|
|
'#name' => '',
|
| 452 |
|
|
'#value' => t('Search')
|
| 453 |
|
|
);
|
| 454 |
|
|
|
| 455 |
ee99abea
|
Andreas Kohlbecker
|
return $form;
|
| 456 |
|
|
}
|
| 457 |
|
|
|
| 458 |
2447830d
|
Andreas Kohlbecker
|
function cdm_dataportal_search_taxon_form_advanced(){
|
| 459 |
|
|
return cdm_dataportal_search_taxon_form(true);
|
| 460 |
|
|
}
|
| 461 |
|
|
|
| 462 |
24b09d7c
|
Andreas Kohlbecker
|
/**
|
| 463 |
|
|
* Implementation #process method call, see form_builder()
|
| 464 |
|
|
* <p>
|
| 465 |
|
|
* Removes Drupal internal form elements from query
|
| 466 |
|
|
* @param $form
|
| 467 |
|
|
* @return unknown_type
|
| 468 |
|
|
*/
|
| 469 |
6611904c
|
Andreas Kohlbecker
|
function cdm_dataportal_search_process($form) {
|
| 470 |
|
|
unset($form['form_id']);
|
| 471 |
|
|
unset($form['form_token']);
|
| 472 |
|
|
return $form;
|
| 473 |
|
|
}
|
| 474 |
|
|
|
| 475 |
|
|
/**
|
| 476 |
|
|
* Filters $_REQUEST by a list of valid request parameters and also sets defaults if required.
|
| 477 |
|
|
* returns the processed request parameters submitted by the search form.
|
| 478 |
|
|
*/
|
| 479 |
24b09d7c
|
Andreas Kohlbecker
|
function cdm_dataportal_search_form_request(){
|
| 480 |
daba333b
|
Andreas Kohlbecker
|
|
| 481 |
fa650011
|
Andreas Kohlbecker
|
|
| 482 |
|
|
$form_params = array();
|
| 483 |
|
|
array_deep_copy($_REQUEST['search'], $form_params);
|
| 484 |
|
|
$form_params['query'] = trim($_REQUEST['query']);
|
| 485 |
|
|
|
| 486 |
8934f97c
|
Andreas Kohlbecker
|
// split of geographic range
|
| 487 |
|
|
if(isset($_REQUEST['search']['geographic_range'])){
|
| 488 |
|
|
$geographicRange = $_REQUEST['search']['geographic_range'];
|
| 489 |
fa650011
|
Andreas Kohlbecker
|
// remove
|
| 490 |
|
|
unset($form_params['geographic_range']);
|
| 491 |
8934f97c
|
Andreas Kohlbecker
|
}
|
| 492 |
24b09d7c
|
Andreas Kohlbecker
|
|
| 493 |
8934f97c
|
Andreas Kohlbecker
|
// add geographic range
|
| 494 |
|
|
if($geographicRange){
|
| 495 |
|
|
$form_params['tdwg_level_select'] = $geographicRange['tdwg_level_select'];
|
| 496 |
|
|
for($i = 1; $i < 5; $i++){
|
| 497 |
|
|
if(isset($geographicRange['tdwg_level_'.$i])){
|
| 498 |
|
|
$form_params['area'] = $geographicRange['tdwg_level_'.$i];
|
| 499 |
|
|
}
|
| 500 |
|
|
}
|
| 501 |
|
|
}
|
| 502 |
|
|
|
| 503 |
|
|
// store in session
|
| 504 |
81df545f
|
Andreas Kohlbecker
|
$_SESSION['cdm']['search'] = $form_params;
|
| 505 |
24b09d7c
|
Andreas Kohlbecker
|
|
| 506 |
6611904c
|
Andreas Kohlbecker
|
return $form_params;
|
| 507 |
|
|
}
|
| 508 |
|
|
|
| 509 |
|
|
|
| 510 |
81df545f
|
Andreas Kohlbecker
|
/* UNREACHABLE since action of form directly links to view
|
| 511 |
ee99abea
|
Andreas Kohlbecker
|
function cdm_dataportal_search_taxon_form_submit($form_id, $form_values) {
|
| 512 |
|
|
|
| 513 |
|
|
$_SESSION['cdm']['search'] = $form_values;
|
| 514 |
94112bee
|
n.hoffmann
|
//return '/cdm_dataportal/search/taxon/'.$form_values['queryString'].'/'.($form_values['vernacular']?'1':'0').'/'.$form_values['language'];
|
| 515 |
|
|
return '/cdm_dataportal/search/taxon/'.$form_values['queryString'].'/'.($form_values['onlyAccepted']?'1':'0');
|
| 516 |
cacc1bbf
|
Andreas Kohlbecker
|
//$paramstr = compose_url_prameterstr($form_values);
|
| 517 |
|
|
//return url('/cdm_dataportal/search/taxon/', $paramstr);
|
| 518 |
ee99abea
|
Andreas Kohlbecker
|
}
|
| 519 |
6611904c
|
Andreas Kohlbecker
|
*/
|
| 520 |
9cc1a3e2
|
Andreas Kohlbecker
|
/* ====================== menu callback functions ====================== */
|
| 521 |
|
|
|
| 522 |
|
|
/**
|
| 523 |
|
|
* Generate main administration form.
|
| 524 |
|
|
*
|
| 525 |
|
|
* @return
|
| 526 |
|
|
* An array containing form items to place on the module settings page.
|
| 527 |
|
|
*/
|
| 528 |
|
|
function cdm_dataportal_settings(){
|
| 529 |
|
|
|
| 530 |
2e748209
|
Andreas Kohlbecker
|
$form = cdm_api_settings_form();
|
| 531 |
80047c07
|
Andreas Kohlbecker
|
|
| 532 |
2e748209
|
Andreas Kohlbecker
|
//TODO: settings are still incomplete, compare with trunk/dataportal/inc/config_default.php.inc
|
| 533 |
6ee322a7
|
Andreas Kohlbecker
|
$form['cdm_dataportal'] = array(
|
| 534 |
|
|
'#type' => 'fieldset',
|
| 535 |
|
|
'#title' => t('CDM DataPortal'),
|
| 536 |
|
|
'#collapsible' => FALSE,
|
| 537 |
|
|
'#collapsed' => TRUE,
|
| 538 |
|
|
);
|
| 539 |
30c5a6bd
|
Andreas Kohlbecker
|
|
| 540 |
2447830d
|
Andreas Kohlbecker
|
// $form['cdm_dataportal']['secuuid_widget'] = array(
|
| 541 |
|
|
// '#type' => 'select_secuuid', // => will be themed by theme_select_secuuid(...)
|
| 542 |
|
|
// '#title' => t('Default Concept References'),
|
| 543 |
|
|
// '#description' => t('The default \'sensu\' reference to start the CDM DataPortal with. Per user choices are possible and may override this value.'),
|
| 544 |
|
|
// '#varname' => 'cdm_secUuid_default',
|
| 545 |
|
|
// '#multiple' => false
|
| 546 |
|
|
// );
|
| 547 |
|
|
|
| 548 |
|
|
$taxonTrees = cdm_ws_get(CDM_WS_TAXONOMY);
|
| 549 |
|
|
foreach($taxonTrees as $tree){
|
| 550 |
|
|
$taxonomicTreeOptions[$tree->uuid] = $tree->titleCache;
|
| 551 |
|
|
}
|
| 552 |
|
|
$form['cdm_dataportal']['cdm_taxonomictree_uuid'] = array(
|
| 553 |
|
|
'#type' => 'select',
|
| 554 |
|
|
'#title' => t('Available taxonomic views'),
|
| 555 |
|
|
'#default_value' => variable_get('cdm_taxonomictree_uuid', false),
|
| 556 |
|
|
'#options' => $taxonomicTreeOptions,
|
| 557 |
|
|
'#description' => t('Select a taxonomic view for this webservice.')
|
| 558 |
|
|
);
|
| 559 |
94112bee
|
n.hoffmann
|
|
| 560 |
9d98a3c0
|
n.hoffmann
|
|
| 561 |
|
|
//------------------ FEATURE TREE --------------------//
|
| 562 |
|
|
|
| 563 |
|
|
$form['cdm_dataportal']['feature_tree'] = array(
|
| 564 |
|
|
'#type' => 'fieldset',
|
| 565 |
|
|
'#title' => t('Feature Tree'),
|
| 566 |
|
|
'#collapsible' => TRUE,
|
| 567 |
|
|
'#collapsed' => TRUE,
|
| 568 |
|
|
);
|
| 569 |
|
|
|
| 570 |
24b09d7c
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['feature_tree']['cdm_dataportal_featuretree_uuid'] = array(
|
| 571 |
94112bee
|
n.hoffmann
|
'#type' => 'select',
|
| 572 |
d93dad11
|
n.hoffmann
|
'#title' => t('Available FeatureTrees'),
|
| 573 |
24b09d7c
|
Andreas Kohlbecker
|
'#default_value' => variable_get('cdm_dataportal_featuretree_uuid', false),
|
| 574 |
|
|
'#options' => _get_feature_trees(),
|
| 575 |
|
|
'#description' => t('Select a FeatureTree for this webservice.'
|
| 576 |
|
|
//.' If there is no applicable FeatureTree you can create a new one using the <a href="">FeatureTreeManager</a>'
|
| 577 |
|
|
)
|
| 578 |
94112bee
|
n.hoffmann
|
);
|
| 579 |
39ceedd6
|
n.hoffmann
|
|
| 580 |
d93dad11
|
n.hoffmann
|
//------------------ LAYOUT --------------------//
|
| 581 |
|
|
|
| 582 |
39ceedd6
|
n.hoffmann
|
$form['cdm_dataportal']['layout'] = array(
|
| 583 |
|
|
'#type' => 'fieldset',
|
| 584 |
|
|
'#title' => t('Layout'),
|
| 585 |
9d98a3c0
|
n.hoffmann
|
'#collapsible' => TRUE,
|
| 586 |
39ceedd6
|
n.hoffmann
|
'#collapsed' => TRUE,
|
| 587 |
ff6a8ea7
|
Andreas Kohlbecker
|
);
|
| 588 |
|
|
|
| 589 |
70fb5e15
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['layout']['cdm_taxonname_type'] = array(
|
| 590 |
ff6a8ea7
|
Andreas Kohlbecker
|
'#type' => 'select',
|
| 591 |
|
|
'#title' => t('Taxon name type'),
|
| 592 |
|
|
'#default_value' => variable_get('cdm_taxonname_type', 'BotanicalName'),
|
| 593 |
|
|
'#options' => array( 'BotanicalName'=>t('BotanicalName'), 'ZoologicalName'=>t('ZoologicalName')),
|
| 594 |
|
|
'#description' => t('')
|
| 595 |
39ceedd6
|
n.hoffmann
|
);
|
| 596 |
|
|
|
| 597 |
|
|
$form['cdm_dataportal']['layout']['cdm_dataportal_nomref_in_title'] = array(
|
| 598 |
|
|
'#type' => 'checkbox',
|
| 599 |
72568f3e
|
Andreas Kohlbecker
|
'#title' => t('Hide full nomenclatural reference in title'),
|
| 600 |
39ceedd6
|
n.hoffmann
|
'#default_value' => variable_get('cdm_dataportal_nomref_in_title', 1),
|
| 601 |
72568f3e
|
Andreas Kohlbecker
|
'#description' => t('Uncheck this, if you want the title of a taxon page consisting of name and author plus publication year only.
|
| 602 |
39ceedd6
|
n.hoffmann
|
If not checked, the first homotypic taxon is a repetition of the accepted taxon with
|
| 603 |
|
|
the full nomenclatural reference.')
|
| 604 |
|
|
);
|
| 605 |
d93dad11
|
n.hoffmann
|
|
| 606 |
|
|
$form['cdm_dataportal']['layout']['cdm_dataportal_display_name_relations'] = array(
|
| 607 |
|
|
'#type' => 'checkbox',
|
| 608 |
|
|
'#title' => t('Show name relations of accepted taxa on taxon page'),
|
| 609 |
|
|
'#default_value' => variable_get('cdm_dataportal_display_name_relations', 1),
|
| 610 |
|
|
'#description' => t('')
|
| 611 |
4726aac7
|
Andreas Kohlbecker
|
);
|
| 612 |
|
|
|
| 613 |
24b09d7c
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['layout']['cdm_dataportal_name_relations_skiptype_basionym'] = array(
|
| 614 |
|
|
'#type' => 'checkbox',
|
| 615 |
|
|
'#title' => t('Exclude the basionym relationship type from the taxon page'),
|
| 616 |
|
|
'#default_value' => variable_get('cdm_dataportal_name_relations_skiptype_basionym', 1),
|
| 617 |
|
|
'#description' => t('')
|
| 618 |
|
|
);
|
| 619 |
|
|
|
| 620 |
4726aac7
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['layout']['cdm_dataportal_taxonpage_tabs'] = array(
|
| 621 |
|
|
'#type' => 'checkbox',
|
| 622 |
1c01d44e
|
Andreas Kohlbecker
|
'#title' => t('Tabbed taxon page'),
|
| 623 |
4726aac7
|
Andreas Kohlbecker
|
'#default_value' => variable_get('cdm_dataportal_taxonpage_tabs', 1),
|
| 624 |
24b09d7c
|
Andreas Kohlbecker
|
'#description' => t('Split the taxon page into individual tabs for description, images, synonymy')
|
| 625 |
d93dad11
|
n.hoffmann
|
);
|
| 626 |
|
|
|
| 627 |
|
|
$form['cdm_dataportal']['layout']['cdm_dataportal_search_items_on_page'] = array(
|
| 628 |
|
|
'#type' => 'textfield',
|
| 629 |
|
|
'#title' => t('Search Page Size'),
|
| 630 |
30c5a6bd
|
Andreas Kohlbecker
|
'#default_value' => variable_get('cdm_dataportal_search_items_on_page', CDM_DATAPORTAL_SEARCH_ITEMS_ON_PAGE),
|
| 631 |
24b09d7c
|
Andreas Kohlbecker
|
'#description' => t('Number of Names to display per page in search results.')
|
| 632 |
|
|
);
|
| 633 |
|
|
|
| 634 |
|
|
$form['cdm_dataportal']['layout']['cdm_dataportal_descriptions_separated'] = array(
|
| 635 |
|
|
'#type' => 'checkbox',
|
| 636 |
|
|
'#title' => t('Separate Desriptions'),
|
| 637 |
|
|
'#default_value' => variable_get('cdm_dataportal_descriptions_separated', 0),
|
| 638 |
|
|
'#description' => t('By default corresponding elements of different descriptions are joined together'
|
| 639 |
|
|
.' into a common section per feature (i.e. type of description).'
|
| 640 |
|
|
.' Check this box to allow displaying all descriptions separately.')
|
| 641 |
9fcd1980
|
Andreas Kohlbecker
|
);
|
| 642 |
|
|
|
| 643 |
70fb5e15
|
Andreas Kohlbecker
|
$options = cdm_rankVocabulary_as_option();
|
| 644 |
|
|
array_unshift($options, '-- DISABLED --');
|
| 645 |
|
|
$form['cdm_dataportal']['layout']['image_hide_rank'] = array(
|
| 646 |
|
|
'#type' => 'select',
|
| 647 |
|
|
'#title' => t('Hide Images for Taxa above'),
|
| 648 |
|
|
'#default_value' => variable_get('image_hide_rank', '0'),
|
| 649 |
|
|
'#options' => $options,
|
| 650 |
|
|
'#description' => t(''),
|
| 651 |
|
|
);
|
| 652 |
|
|
|
| 653 |
|
|
// --- find taxa ---- //
|
| 654 |
784a4314
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['layout']['findtaxa'] = array(
|
| 655 |
|
|
'#type' => 'fieldset',
|
| 656 |
|
|
'#title' => t('Search Taxa'),
|
| 657 |
|
|
'#collapsible' => TRUE,
|
| 658 |
|
|
'#collapsed' => TRUE,
|
| 659 |
|
|
);
|
| 660 |
|
|
|
| 661 |
9834a411
|
Andreas Kohlbecker
|
//variable_get('', 1);
|
| 662 |
|
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_show_taxon_thumbnails'] = array(
|
| 663 |
784a4314
|
Andreas Kohlbecker
|
'#type' => 'checkbox',
|
| 664 |
9834a411
|
Andreas Kohlbecker
|
'#title' => t('Show media thumbnails for accepted taxa'),
|
| 665 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_show_taxon_thumbnails', 1),
|
| 666 |
784a4314
|
Andreas Kohlbecker
|
'#description' => t('')
|
| 667 |
|
|
);
|
| 668 |
|
|
|
| 669 |
9834a411
|
Andreas Kohlbecker
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_show_synonym_thumbnails'] = array(
|
| 670 |
784a4314
|
Andreas Kohlbecker
|
'#type' => 'checkbox',
|
| 671 |
9834a411
|
Andreas Kohlbecker
|
'#title' => t('Show media thumbnails for syonyms'),
|
| 672 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_show_synonym_thumbnails', 0),
|
| 673 |
|
|
'#description' => t('')
|
| 674 |
|
|
);
|
| 675 |
|
|
|
| 676 |
|
|
// $showCaption = variable_get('cdm_dataportal_findtaxa_show_thumbnail_captions', 0);
|
| 677 |
|
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_show_thumbnail_captions'] = array(
|
| 678 |
|
|
'#type' => 'checkbox',
|
| 679 |
|
|
'#title' => t('Show captions under thumbnails'),
|
| 680 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_show_thumbnail_captions', 1),
|
| 681 |
784a4314
|
Andreas Kohlbecker
|
'#description' => t('')
|
| 682 |
|
|
);
|
| 683 |
|
|
|
| 684 |
|
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_media_maxextend'] = array(
|
| 685 |
|
|
'#type' => 'textfield',
|
| 686 |
|
|
'#title' => t('Maximum extend of Images'),
|
| 687 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_media_maxextend', 120),
|
| 688 |
|
|
'#description' => t('')
|
| 689 |
|
|
);
|
| 690 |
|
|
|
| 691 |
|
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_media_cols'] = array(
|
| 692 |
|
|
'#type' => 'textfield',
|
| 693 |
|
|
'#title' => t('Number of columns'),
|
| 694 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_media_cols', 3),
|
| 695 |
|
|
'#description' => t('')
|
| 696 |
|
|
);
|
| 697 |
|
|
|
| 698 |
|
|
$form['cdm_dataportal']['layout']['findtaxa']['cdm_dataportal_findtaxa_media_maxRows'] = array(
|
| 699 |
|
|
'#type' => 'textfield',
|
| 700 |
|
|
'#title' => t('Maximum number of rows'),
|
| 701 |
|
|
'#default_value' => variable_get('cdm_dataportal_findtaxa_media_maxRows', 1),
|
| 702 |
|
|
'#description' => t('')
|
| 703 |
|
|
);
|
| 704 |
|
|
|
| 705 |
|
|
|
| 706 |
9fcd1980
|
Andreas Kohlbecker
|
|
| 707 |
e4f58fa1
|
n.hoffmann
|
//---------------- GEOSERVICE ----------------//
|
| 708 |
|
|
|
| 709 |
|
|
$form['cdm_dataportal']['geoservice'] = array(
|
| 710 |
|
|
'#type' => 'fieldset',
|
| 711 |
|
|
'#title' => t('Geoservice'),
|
| 712 |
9d98a3c0
|
n.hoffmann
|
'#collapsible' => TRUE,
|
| 713 |
e4f58fa1
|
n.hoffmann
|
'#collapsed' => TRUE,
|
| 714 |
784a4314
|
Andreas Kohlbecker
|
);
|
| 715 |
|
|
|
| 716 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_map_openlayers'] = array(
|
| 717 |
|
|
'#type' => 'checkbox',
|
| 718 |
|
|
'#title' => t('OpenLayers Viewer'),
|
| 719 |
|
|
'#default_value' => variable_get('cdm_dataportal_map_openlayers', 1),
|
| 720 |
|
|
'#description' => t('Display the maps in an interactive viewer which allows zooming and panning.')
|
| 721 |
e4f58fa1
|
n.hoffmann
|
);
|
| 722 |
|
|
|
| 723 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_geoservice_access_point'] = array(
|
| 724 |
|
|
'#type' => 'textfield',
|
| 725 |
|
|
'#title' => t('Geoservice Access Point'),
|
| 726 |
|
|
'#default_value' => variable_get('cdm_dataportal_geoservice_access_point', ''),
|
| 727 |
|
|
'#description' => t('Base URL of the geoservice to be used by this portal')
|
| 728 |
|
|
);
|
| 729 |
|
|
|
| 730 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_geoservice_display_width'] = array(
|
| 731 |
|
|
'#type' => 'textfield',
|
| 732 |
|
|
'#title' => t('Geoservice Display Width'),
|
| 733 |
|
|
'#default_value' => variable_get('cdm_dataportal_geoservice_display_width', 390),
|
| 734 |
|
|
'#description' => t('Width of the image generated by geoservice')
|
| 735 |
|
|
);
|
| 736 |
|
|
|
| 737 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_geoservice_bounding_box'] = array(
|
| 738 |
|
|
'#type' => 'textfield',
|
| 739 |
9d47d187
|
Andreas Kohlbecker
|
'#title' => t('Fixed Geoservice Bounding Box'),
|
| 740 |
e4f58fa1
|
n.hoffmann
|
'#default_value' => variable_get('cdm_dataportal_geoservice_bounding_box', '-180,-90,180,90'),
|
| 741 |
9d47d187
|
Andreas Kohlbecker
|
'#description' => t('Define urrounding of area to be displayed in maps. Use "-180,-90,180,90" for the whole world. Leave <strong>empty</strong> to let the map <strong>automatically zoom</strong> to the distribution area.')
|
| 742 |
9fcd1980
|
Andreas Kohlbecker
|
);
|
| 743 |
|
|
|
| 744 |
|
|
//cdm_dataportal_geoservice_labels_on
|
| 745 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_geoservice_labels_on'] = array(
|
| 746 |
|
|
'#type' => 'checkbox',
|
| 747 |
|
|
'#title' => t('Display Country Labels'),
|
| 748 |
|
|
'#default_value' => variable_get('cdm_dataportal_geoservice_labels_on', FALSE),
|
| 749 |
|
|
'#description' => t('Check this if you like country names to be displayed in the maps. ')
|
| 750 |
2447830d
|
Andreas Kohlbecker
|
);
|
| 751 |
|
|
|
| 752 |
|
|
//cdm_dataportal_geoservice_legend_on
|
| 753 |
|
|
$form['cdm_dataportal']['geoservice']['cdm_dataportal_geoservice_legend_on'] = array(
|
| 754 |
|
|
'#type' => 'checkbox',
|
| 755 |
|
|
'#title' => t('Display a map legend'),
|
| 756 |
|
|
'#default_value' => variable_get('cdm_dataportal_geoservice_legend_on', TRUE),
|
| 757 |
|
|
'#description' => t('Check this if you like a legend to be displayed with the maps. ')
|
| 758 |
e4f58fa1
|
n.hoffmann
|
);
|
| 759 |
a22e3f38
|
Andreas Kohlbecker
|
|
| 760 |
e38d39d6
|
Andreas Kohlbecker
|
return system_settings_form($form);
|
| 761 |
|
|
}
|
| 762 |
|
|
|
| 763 |
|
|
/**
|
| 764 |
|
|
* Implementation of hook_elements().
|
| 765 |
|
|
*/
|
| 766 |
|
|
function cdm_dataportal_elements() {
|
| 767 |
|
|
$type['select_secuuid'] = array(
|
| 768 |
94112bee
|
n.hoffmann
|
'#input' => TRUE,
|
| 769 |
e38d39d6
|
Andreas Kohlbecker
|
'#process' => array('cdm_dataportal_select_secuuid_expand' => array()),
|
| 770 |
|
|
//'#validate' => array('cdm_dataportal_select_secuuid_validate' => array()),
|
| 771 |
|
|
//'#default_value' => array(),
|
| 772 |
e18349d4
|
Andreas Kohlbecker
|
);
|
| 773 |
e38d39d6
|
Andreas Kohlbecker
|
return $type;
|
| 774 |
|
|
}
|
| 775 |
|
|
|
| 776 |
|
|
/*
|
| 777 |
94112bee
|
n.hoffmann
|
*
|
| 778 |
e38d39d6
|
Andreas Kohlbecker
|
*/
|
| 779 |
|
|
function cdm_dataportal_select_secuuid_expand($element){
|
| 780 |
e18349d4
|
Andreas Kohlbecker
|
|
| 781 |
e38d39d6
|
Andreas Kohlbecker
|
$element['#tree'] = FALSE;
|
| 782 |
|
|
|
| 783 |
|
|
// any value submitted?
|
| 784 |
|
|
if(isset($element['#post'][$element['#varname']])){
|
| 785 |
|
|
$selected_values = $element['#post'][$element['#varname']];
|
| 786 |
|
|
} else {
|
| 787 |
|
|
// use those store in drupal
|
| 788 |
|
|
$selected_values = variable_get( $element['#varname'], array());
|
| 789 |
|
|
}
|
| 790 |
|
|
if(!is_array($selected_values)){
|
| 791 |
|
|
$selected_values = array($selected_values);
|
| 792 |
|
|
}
|
| 793 |
|
|
$options = array();
|
| 794 |
|
|
foreach($selected_values as $secUuid){
|
| 795 |
44e02685
|
Andreas Kohlbecker
|
$options[$secUuid] = cdm_taxontree_secRefTitle_for($secUuid);
|
| 796 |
e38d39d6
|
Andreas Kohlbecker
|
}
|
| 797 |
e18349d4
|
Andreas Kohlbecker
|
|
| 798 |
e38d39d6
|
Andreas Kohlbecker
|
$element[$element['#varname']] = array(
|
| 799 |
|
|
'#type' => 'select',
|
| 800 |
|
|
'#options' => $options,
|
| 801 |
|
|
'#default_value' => array_values($options),
|
| 802 |
|
|
'#size' => $element['#multiple'] ? 12 : 2,
|
| 803 |
|
|
'#multiple' => $element['#multiple'],
|
| 804 |
|
|
);
|
| 805 |
|
|
return $element;
|
| 806 |
|
|
}
|
| 807 |
|
|
|
| 808 |
|
|
|
| 809 |
|
|
|
| 810 |
9cc1a3e2
|
Andreas Kohlbecker
|
/**
|
| 811 |
|
|
* Displays a list of the known taxonomic names. Long lists are split up into multiple pages
|
| 812 |
|
|
*
|
| 813 |
55e5b62d
|
Andreas Kohlbecker
|
* TODO: parameters are still preliminar
|
| 814 |
9cc1a3e2
|
Andreas Kohlbecker
|
* @param String $page page number to diplay defaults to page 1
|
| 815 |
|
|
* @param boolean $hide_unaccepted whether to hide nams which are not accepted by the current view
|
| 816 |
|
|
*/
|
| 817 |
afbbba9e
|
Andreas Kohlbecker
|
function cdm_dataportal_view_names($beginsWith = 'A', $page = 1, $onlyAccepted = false ){
|
| 818 |
67a4a4c6
|
Andreas Kohlbecker
|
|
| 819 |
ee99abea
|
Andreas Kohlbecker
|
$request_params = array(
|
| 820 |
94112bee
|
n.hoffmann
|
'q' => $beginsWith,
|
| 821 |
ee99abea
|
Andreas Kohlbecker
|
//'sec' = '',
|
| 822 |
|
|
//'higherTaxa' => getFiters(),
|
| 823 |
|
|
// 'matchAnywhere' => false, // default is false
|
| 824 |
94112bee
|
n.hoffmann
|
'page' => $page,
|
| 825 |
|
|
'onlyAccepted' => $onlyAccepted,
|
| 826 |
ee99abea
|
Andreas Kohlbecker
|
'pagesize' => 20 /*$_SESSION['cdm']['namelist_pagesize'] */);
|
| 827 |
|
|
|
| 828 |
30c5a6bd
|
Andreas Kohlbecker
|
$taxonPager = cdm_ws_find(CDM_WS_FIND_TAXA, $request_params);
|
| 829 |
67a4a4c6
|
Andreas Kohlbecker
|
/*
|
| 830 |
|
|
* FIXME the filter for accepted names will be a form element, thus this widget
|
| 831 |
|
|
* should be generated via form api preferably as block
|
| 832 |
|
|
*/
|
| 833 |
|
|
//$out = theme('cdm_dataportal_widget_filter_accepted', $onlyAccepted);
|
| 834 |
|
|
//$out .= theme('cdm_dataportal_widget_names_list', $names, $page);
|
| 835 |
30c5a6bd
|
Andreas Kohlbecker
|
$out .= theme('cdm_listof_taxa', $taxonPager);
|
| 836 |
67a4a4c6
|
Andreas Kohlbecker
|
return $out;
|
| 837 |
9cc1a3e2
|
Andreas Kohlbecker
|
}
|
| 838 |
|
|
|
| 839 |
4726aac7
|
Andreas Kohlbecker
|
function cdm_dataportal_view_reference($uuid, $arg2 = null){
|
| 840 |
30c5a6bd
|
Andreas Kohlbecker
|
$reference = cdm_ws_get(CDM_WS_REFERENCE, $uuid);
|
| 841 |
|
|
return theme('cdm_reference_page', $reference);
|
| 842 |
4726aac7
|
Andreas Kohlbecker
|
}
|
| 843 |
|
|
|
| 844 |
46a52efe
|
Andreas Kohlbecker
|
function cdm_dataportal_view_reference_list($pageNumber){
|
| 845 |
30c5a6bd
|
Andreas Kohlbecker
|
$referencePager = cdm_ws_page(CDM_WS_REFERENCE, variable_get('cdm_dataportal_search_items_on_page', CDM_DATAPORTAL_SEARCH_ITEMS_ON_PAGE), $pageNumber);
|
| 846 |
46a52efe
|
Andreas Kohlbecker
|
return theme('cdm_reference_pager', $referencePager, 'cdm_dataportal/reference/list/');
|
| 847 |
|
|
}
|
| 848 |
|
|
|
| 849 |
b09e63fd
|
Andreas Kohlbecker
|
function cdm_dataportal_view_media($mediaUuid, $mediarepresentation_uuid = false, $part = 0){
|
| 850 |
2cd9a3d6
|
Andreas Kohlbecker
|
$media = cdm_ws_get(CDM_WS_MEDIA, $mediaUuid);
|
| 851 |
b09e63fd
|
Andreas Kohlbecker
|
return theme('cdm_media_page', $media, $mediarepresentation_uuid, $part);
|
| 852 |
2cd9a3d6
|
Andreas Kohlbecker
|
}
|
| 853 |
|
|
|
| 854 |
9cc1a3e2
|
Andreas Kohlbecker
|
/**
|
| 855 |
|
|
* The taxon page gives detailed information on a taxon, it shows:
|
| 856 |
|
|
* - Taxon name
|
| 857 |
67a4a4c6
|
Andreas Kohlbecker
|
* - Full list of synonyms homotypic synonyms on top, followed by the
|
| 858 |
|
|
* heterotypic and finally followed by misapplied names.
|
| 859 |
afbbba9e
|
Andreas Kohlbecker
|
* The list is ordered historically.
|
| 860 |
67a4a4c6
|
Andreas Kohlbecker
|
* - All facts associated with the very taxon concept and taxon name.
|
| 861 |
9cc1a3e2
|
Andreas Kohlbecker
|
*
|
| 862 |
67a4a4c6
|
Andreas Kohlbecker
|
* @param String $uuid the UUID of the taxon
|
| 863 |
9cc1a3e2
|
Andreas Kohlbecker
|
*/
|
| 864 |
24b09d7c
|
Andreas Kohlbecker
|
function cdm_dataportal_view_taxon($uuid, $chapter = null){
|
| 865 |
53a13220
|
Andreas Kohlbecker
|
|
| 866 |
|
|
// display the page for the taxon defined by $uuid
|
| 867 |
30c5a6bd
|
Andreas Kohlbecker
|
$taxon = cdm_ws_get(CDM_WS_TAXON, $uuid);
|
| 868 |
|
|
if(!$taxon){
|
| 869 |
a27e2588
|
Andreas Kohlbecker
|
drupal_set_title(t('Taxon does not exist'));
|
| 870 |
94112bee
|
n.hoffmann
|
return false;
|
| 871 |
a27e2588
|
Andreas Kohlbecker
|
}
|
| 872 |
30c5a6bd
|
Andreas Kohlbecker
|
_cdm_dataportal_set_currentSecUuid($taxon->sec->uuid);
|
| 873 |
72568f3e
|
Andreas Kohlbecker
|
|
| 874 |
24b09d7c
|
Andreas Kohlbecker
|
drupal_set_title(theme('cdm_taxon_page_title', $taxon));
|
| 875 |
30c5a6bd
|
Andreas Kohlbecker
|
$out = theme('cdm_taxon_page_general', $taxon, $chapter);
|
| 876 |
72568f3e
|
Andreas Kohlbecker
|
|
| 877 |
53a13220
|
Andreas Kohlbecker
|
return $out;
|
| 878 |
4726aac7
|
Andreas Kohlbecker
|
/*}*/
|
| 879 |
53a13220
|
Andreas Kohlbecker
|
}
|
| 880 |
67a4a4c6
|
Andreas Kohlbecker
|
|
| 881 |
2447830d
|
Andreas Kohlbecker
|
function cdm_dataportal_view_search_advanced(){
|
| 882 |
|
|
|
| 883 |
|
|
drupal_set_title(t('Advanced Search'));
|
| 884 |
|
|
|
| 885 |
|
|
$searchForm = cdm_dataportal_search_taxon_form(true);
|
| 886 |
|
|
|
| 887 |
|
|
return drupal_get_form('cdm_dataportal_search_taxon_form_advanced');
|
| 888 |
|
|
|
| 889 |
|
|
}
|
| 890 |
|
|
|
| 891 |
ee99abea
|
Andreas Kohlbecker
|
/**
|
| 892 |
94112bee
|
n.hoffmann
|
*
|
| 893 |
ee99abea
|
Andreas Kohlbecker
|
* future extensions to meet palmweb mockup requirements:
|
| 894 |
|
|
* - habitat
|
| 895 |
|
|
* - uses
|
| 896 |
|
|
* - conservation status
|
| 897 |
|
|
* - locality / tdwg region
|
| 898 |
|
|
*/
|
| 899 |
24b09d7c
|
Andreas Kohlbecker
|
function cdm_dataportal_view_search_taxon(){
|
| 900 |
|
|
|
| 901 |
64c1bd2d
|
n.hoffmann
|
$_SESSION['cdm']['last_search'] = $_SERVER['REQUEST_URI'];
|
| 902 |
daba333b
|
Andreas Kohlbecker
|
|
| 903 |
6611904c
|
Andreas Kohlbecker
|
$request_params = cdm_dataportal_search_form_request();
|
| 904 |
8934f97c
|
Andreas Kohlbecker
|
$taxonPager = cdm_ws_get(CDM_WS_FIND_TAXA, null, queryString($request_params));
|
| 905 |
24b09d7c
|
Andreas Kohlbecker
|
|
| 906 |
daba333b
|
Andreas Kohlbecker
|
$search_params = $_REQUEST;
|
| 907 |
|
|
unset($search_params['q']);
|
| 908 |
|
|
return theme('cdm_search_results', $taxonPager, 'cdm_dataportal/search/taxon', $search_params);
|
| 909 |
ee99abea
|
Andreas Kohlbecker
|
}
|
| 910 |
|
|
|
| 911 |
05fe0ad6
|
Andreas Kohlbecker
|
function cdm_view_xml2json(){
|
| 912 |
|
|
$file = arg(2);
|
| 913 |
|
|
$datastr = get_content(variable_get('cdm_webservice_url', '').$file);
|
| 914 |
|
|
return xml2json::transformXmlStringToJson($datastr);
|
| 915 |
fa97cd20
|
Andreas Kohlbecker
|
}
|
| 916 |
|
|
|
| 917 |
47a8c0dd
|
Andreas Kohlbecker
|
/* ====================== other functions ====================== */
|
| 918 |
|
|
|
| 919 |
ec0c70d2
|
Andreas Kohlbecker
|
/**
|
| 920 |
|
|
* Enter description here...
|
| 921 |
|
|
*
|
| 922 |
|
|
* @param String $uuid the UUID of the taxon
|
| 923 |
|
|
* @return the URL
|
| 924 |
|
|
*/
|
| 925 |
24b09d7c
|
Andreas Kohlbecker
|
function path_to_taxon($uuid){
|
| 926 |
|
|
if(!$uuid) return false;
|
| 927 |
ec0c70d2
|
Andreas Kohlbecker
|
return 'cdm_dataportal/taxon/'.$uuid;
|
| 928 |
ad497c90
|
Andreas Kohlbecker
|
}
|
| 929 |
|
|
|
| 930 |
24b09d7c
|
Andreas Kohlbecker
|
function path_to_reference($uuid){
|
| 931 |
|
|
if(!$uuid) return false;
|
| 932 |
|
|
return 'cdm_dataportal/reference/'.$uuid;
|
| 933 |
|
|
}
|
| 934 |
|
|
|
| 935 |
b09e63fd
|
Andreas Kohlbecker
|
function path_to_media($uuid, $representaion_uuid = false, $partId = false){
|
| 936 |
2cd9a3d6
|
Andreas Kohlbecker
|
if(!$uuid) return false;
|
| 937 |
b09e63fd
|
Andreas Kohlbecker
|
$out = 'cdm_dataportal/media/'.$uuid;
|
| 938 |
|
|
if($representaion_uuid){
|
| 939 |
|
|
$out .= '/'.$representaion_uuid;
|
| 940 |
|
|
if($partId !== false){
|
| 941 |
|
|
$out .= '/'.$partId;
|
| 942 |
|
|
}
|
| 943 |
|
|
}
|
| 944 |
|
|
return $out;
|
| 945 |
2cd9a3d6
|
Andreas Kohlbecker
|
}
|
| 946 |
|
|
|
| 947 |
70fb5e15
|
Andreas Kohlbecker
|
/**
|
| 948 |
|
|
* Compares thisRank with thatRank.
|
| 949 |
|
|
* Returns a negative integer, zero, or a positive integer
|
| 950 |
|
|
* as the of thisRank is higher than, equal to, or lower than thatRank.
|
| 951 |
|
|
* e.g:
|
| 952 |
|
|
* <ul>
|
| 953 |
|
|
* <li>rank_compare({species_uuid}, {genus_uuid}) = -1</li>
|
| 954 |
|
|
* <li>rank_compare({genus_uuid}, {genus_uuid}) = 0</li>
|
| 955 |
|
|
* <li>rank_compare({genus_uuid}, {tribus_uuid}) = 1</li>
|
| 956 |
|
|
* </ul>
|
| 957 |
|
|
* <p>
|
| 958 |
|
|
* This compare logic of the underlying webservice is the
|
| 959 |
|
|
* <b>inverse logic</b> of the the one implemented in
|
| 960 |
|
|
* java.lang.Comparable#compareTo(java.lang.Object)
|
| 961 |
|
|
* @param $thisRankUuid
|
| 962 |
|
|
* @param $thatRankUuid
|
| 963 |
|
|
* @return a negative integer, zero, or a positive integer
|
| 964 |
|
|
* as the thisRank is lower than, equal to, or higher than thatRank
|
| 965 |
|
|
*/
|
| 966 |
|
|
function rank_compare($thisRankUuid, $thatRankUuid){
|
| 967 |
|
|
$result = cdm_ws_get(CDM_WS_TERM_COMPARE, array($thisRankUuid, $thatRankUuid));
|
| 968 |
|
|
return $result->Integer;
|
| 969 |
|
|
}
|
| 970 |
|
|
|
| 971 |
24b09d7c
|
Andreas Kohlbecker
|
function uri_to_synonym($synonymUuid, $acceptedUuid, $pagePart = null){
|
| 972 |
|
|
$acceptedPath = path_to_taxon($acceptedUuid);
|
| 973 |
|
|
return url($acceptedPath.($pagePart ? '/'.$pagePart : ''), 'highlite='.$synonymUuid.'&acceptedFor='.$synonymUuid);
|
| 974 |
|
|
}
|
| 975 |
|
|
|
| 976 |
ec0c70d2
|
Andreas Kohlbecker
|
/**
|
| 977 |
|
|
* Creates a short taxonname by using the taggename field of NameSTO or NameTO instances.
|
| 978 |
|
|
* If the taggename if empty the fullname will be returned.
|
| 979 |
|
|
*
|
| 980 |
30c5a6bd
|
Andreas Kohlbecker
|
* @param unknown_type $Name or TreeNode
|
| 981 |
67a4a4c6
|
Andreas Kohlbecker
|
* @return string
|
| 982 |
ec0c70d2
|
Andreas Kohlbecker
|
*/
|
| 983 |
30c5a6bd
|
Andreas Kohlbecker
|
function cdm_dataportal_shortname_of($name){
|
| 984 |
67a4a4c6
|
Andreas Kohlbecker
|
|
| 985 |
30c5a6bd
|
Andreas Kohlbecker
|
$nameStr = '';
|
| 986 |
fa68c2c5
|
Andreas Kohlbecker
|
// get all tagged text tokens of the scientific name
|
| 987 |
30c5a6bd
|
Andreas Kohlbecker
|
foreach($name->taggedTitle as $tagtxt){
|
| 988 |
fa68c2c5
|
Andreas Kohlbecker
|
if($tagtxt->type == 'name' || $tagtxt->type == 'rank'){
|
| 989 |
30c5a6bd
|
Andreas Kohlbecker
|
$nameStr .= ($nameStr ? ' ' : '').$tagtxt->text;
|
| 990 |
fa68c2c5
|
Andreas Kohlbecker
|
}
|
| 991 |
|
|
}
|
| 992 |
30c5a6bd
|
Andreas Kohlbecker
|
$nameStr = trim($nameStr);
|
| 993 |
|
|
if($nameStr){
|
| 994 |
bd4696a1
|
n.hoffmann
|
// do not return short names for these
|
| 995 |
30c5a6bd
|
Andreas Kohlbecker
|
if($nameStr == 'Incertae sedis' || $nameStr == 'Nomina excludenda'){
|
| 996 |
|
|
return $nameStr;
|
| 997 |
bd4696a1
|
n.hoffmann
|
}
|
| 998 |
30c5a6bd
|
Andreas Kohlbecker
|
if($pos = stripos($nameStr, ' ')){
|
| 999 |
|
|
return substr($nameStr, 0, 1).'. '.substr($nameStr, $pos);
|
| 1000 |
ec0c70d2
|
Andreas Kohlbecker
|
} else {
|
| 1001 |
30c5a6bd
|
Andreas Kohlbecker
|
return $nameStr;
|
| 1002 |
ec0c70d2
|
Andreas Kohlbecker
|
}
|
| 1003 |
|
|
} else {
|
| 1004 |
30c5a6bd
|
Andreas Kohlbecker
|
return $name->titleCache;
|
| 1005 |
ec0c70d2
|
Andreas Kohlbecker
|
}
|
| 1006 |
|
|
}
|
| 1007 |
47a8c0dd
|
Andreas Kohlbecker
|
|
| 1008 |
af7422cb
|
n.hoffmann
|
/**
|
| 1009 |
|
|
* TODO Add Comments. I don't get what
|
| 1010 |
|
|
*
|
| 1011 |
44e02685
|
Andreas Kohlbecker
|
* @param UUID $secUuid
|
| 1012 |
67a4a4c6
|
Andreas Kohlbecker
|
*/
|
| 1013 |
27c1d8ec
|
Andreas Kohlbecker
|
function _cdm_dataportal_set_currentSecUuid($secUuid){
|
| 1014 |
5ab248ac
|
Andreas Kohlbecker
|
|
| 1015 |
0d127818
|
Andreas Kohlbecker
|
// do not save in session but in database
|
| 1016 |
af7422cb
|
n.hoffmann
|
|
| 1017 |
|
|
if(is_array($secUuid)){
|
| 1018 |
|
|
$secUuid = $secUuid[0];
|
| 1019 |
|
|
}
|
| 1020 |
|
|
if(!$secUuid){
|
| 1021 |
|
|
variable_set('cdm_currentSecRef', null);
|
| 1022 |
|
|
} else {
|
| 1023 |
30c5a6bd
|
Andreas Kohlbecker
|
$secRef = cdm_ws_get(CDM_WS_REFERENCE, $secUuid);
|
| 1024 |
24b09d7c
|
Andreas Kohlbecker
|
if(isset($secRef)){
|
| 1025 |
|
|
variable_set('cdm_currentSecRef', (array)($secRef));
|
| 1026 |
af7422cb
|
n.hoffmann
|
}
|
| 1027 |
|
|
}
|
| 1028 |
|
|
|
| 1029 |
27c1d8ec
|
Andreas Kohlbecker
|
}
|
| 1030 |
|
|
|
| 1031 |
af7422cb
|
n.hoffmann
|
/**
|
| 1032 |
|
|
* TODO
|
| 1033 |
|
|
* This will not work with multiple instances of the dataportal running
|
| 1034 |
|
|
* under the same host as there is only one session for all instances.
|
| 1035 |
|
|
* In case you switch instances with the same client, you will definitely
|
| 1036 |
|
|
* run into trouble.
|
| 1037 |
|
|
* Also this is not handling multiple secs.
|
| 1038 |
|
|
*
|
| 1039 |
|
|
*
|
| 1040 |
24b09d7c
|
Andreas Kohlbecker
|
* returns the current secRef array.
|
| 1041 |
27c1d8ec
|
Andreas Kohlbecker
|
* If the according session variable is not jet set the default
|
| 1042 |
812a9c04
|
Andreas Kohlbecker
|
* as configured in the setting is used otherwise null.
|
| 1043 |
94112bee
|
n.hoffmann
|
*
|
| 1044 |
f5b3d74e
|
Andreas Kohlbecker
|
* currentSecRef['uuid']
|
| 1045 |
|
|
* currentSecRef[....
|
| 1046 |
27c1d8ec
|
Andreas Kohlbecker
|
*
|
| 1047 |
|
|
* @return array
|
| 1048 |
|
|
*/
|
| 1049 |
1dbc28d9
|
Andreas Kohlbecker
|
function _cdm_dataportal_currentSecRef_array(){
|
| 1050 |
24b09d7c
|
Andreas Kohlbecker
|
|
| 1051 |
3cf0dec2
|
Andreas Kohlbecker
|
// do not look in session but in database
|
| 1052 |
24b09d7c
|
Andreas Kohlbecker
|
if( variable_get('cdm_currentSecRef', null) == null){
|
| 1053 |
af7422cb
|
n.hoffmann
|
$secUuid = variable_get('cdm_secUuid_default', null);
|
| 1054 |
|
|
_cdm_dataportal_set_currentSecUuid($secUuid);
|
| 1055 |
|
|
}
|
| 1056 |
|
|
return variable_get('cdm_currentSecRef', null);
|
| 1057 |
|
|
|
| 1058 |
67a4a4c6
|
Andreas Kohlbecker
|
}
|
| 1059 |
d93dad11
|
n.hoffmann
|
|
| 1060 |
|
|
/**
|
| 1061 |
9ee2882b
|
Andreas Kohlbecker
|
* Check if a taxon is accepted by the current taxonomic tree
|
| 1062 |
d93dad11
|
n.hoffmann
|
*
|
| 1063 |
9ee2882b
|
Andreas Kohlbecker
|
* @param Taxon $taxon
|
| 1064 |
|
|
* @return true if $taxon is accepted, false otherwise
|
| 1065 |
d93dad11
|
n.hoffmann
|
*/
|
| 1066 |
9ee2882b
|
Andreas Kohlbecker
|
|
| 1067 |
30c5a6bd
|
Andreas Kohlbecker
|
function _cdm_dataportal_acceptedByCurrentView($taxon){
|
| 1068 |
81df545f
|
Andreas Kohlbecker
|
|
| 1069 |
9ee2882b
|
Andreas Kohlbecker
|
//$current_secref = _cdm_dataportal_currentSecRef_array();
|
| 1070 |
|
|
$defaultTreeUuid = variable_get('cdm_taxonomictree_uuid', false);
|
| 1071 |
|
|
if($taxon->class == "Taxon" && isset($taxon->taxonNodes)){
|
| 1072 |
|
|
foreach($taxon->taxonNodes as $node){
|
| 1073 |
|
|
if($node->taxonomicTree == $defaultTreeUuid) {
|
| 1074 |
|
|
return true;
|
| 1075 |
|
|
}
|
| 1076 |
|
|
}
|
| 1077 |
|
|
}
|
| 1078 |
|
|
return false;
|
| 1079 |
81df545f
|
Andreas Kohlbecker
|
}
|
| 1080 |
44e02685
|
Andreas Kohlbecker
|
|
| 1081 |
daba333b
|
Andreas Kohlbecker
|
/**@Deprecated
|
| 1082 |
|
|
*
|
| 1083 |
|
|
*/
|
| 1084 |
|
|
function compose_url_prameterstr($parameters = array(), $parentPropertyName = false){
|
| 1085 |
cacc1bbf
|
Andreas Kohlbecker
|
$pstr = '';
|
| 1086 |
|
|
foreach($parameters as $key=>$value){
|
| 1087 |
daba333b
|
Andreas Kohlbecker
|
if(is_array($value)){
|
| 1088 |
|
|
|
| 1089 |
|
|
} else {
|
| 1090 |
|
|
$pstr .= ($pstr ? '&' :'').$key.'='.urlencode($value);
|
| 1091 |
|
|
}
|
| 1092 |
cacc1bbf
|
Andreas Kohlbecker
|
}
|
| 1093 |
|
|
return $pstr;
|
| 1094 |
d93dad11
|
n.hoffmann
|
}
|
| 1095 |
|
|
|
| 1096 |
|
|
function _get_feature_trees(){
|
| 1097 |
|
|
$feature_trees = array();
|
| 1098 |
|
|
|
| 1099 |
|
|
// set tree that contains all features
|
| 1100 |
|
|
$feature_trees['0'] = 'No FeatureTree';
|
| 1101 |
|
|
|
| 1102 |
30c5a6bd
|
Andreas Kohlbecker
|
// get features from database
|
| 1103 |
24b09d7c
|
Andreas Kohlbecker
|
$persisted_trees = cdm_ws_get(CDM_WS_FEATURETREES);
|
| 1104 |
d93dad11
|
n.hoffmann
|
if(is_array($persisted_trees)){
|
| 1105 |
|
|
foreach($persisted_trees as $featureTree){
|
| 1106 |
|
|
|
| 1107 |
|
|
$featureLabels = array();
|
| 1108 |
24b09d7c
|
Andreas Kohlbecker
|
foreach ($featureTree->root->children as $featureNode){
|
| 1109 |
30c5a6bd
|
Andreas Kohlbecker
|
$featureLabels[] = $featureNode->feature->representation_L10n;
|
| 1110 |
d93dad11
|
n.hoffmann
|
}
|
| 1111 |
|
|
|
| 1112 |
|
|
$feature_trees[$featureTree->uuid] = implode(", ", $featureLabels);
|
| 1113 |
|
|
|
| 1114 |
|
|
}
|
| 1115 |
|
|
}
|
| 1116 |
|
|
return $feature_trees;
|
| 1117 |
cacc1bbf
|
Andreas Kohlbecker
|
}
|
| 1118 |
6f4dd14a
|
Andreas Kohlbecker
|
|
| 1119 |
24b09d7c
|
Andreas Kohlbecker
|
|
| 1120 |
|
|
function get_nameRenderTemplate($renderPath, $nameLink = NULL, $refenceLink = NULL){
|
| 1121 |
|
|
//TODO implement admin user interface to replace swicth statement
|
| 1122 |
|
|
// preliminar solution: using themes
|
| 1123 |
|
|
|
| 1124 |
|
|
$template = theme('get_nameRenderTemplate', $renderPath);
|
| 1125 |
|
|
|
| 1126 |
|
|
if(!is_array($template)){
|
| 1127 |
|
|
switch($renderPath){
|
| 1128 |
|
|
case 'list_of_taxa':
|
| 1129 |
|
|
case 'acceptedFor':
|
| 1130 |
|
|
case 'taxon_page_synonymy':
|
| 1131 |
|
|
case 'typedesignations':
|
| 1132 |
|
|
case 'taxon_page_title':
|
| 1133 |
|
|
case 'na': $template = array(
|
| 1134 |
8a60c8fc
|
Andreas Kohlbecker
|
'namePart' => array('#uri'=>true),
|
| 1135 |
24b09d7c
|
Andreas Kohlbecker
|
//'authorshipPart' => true,
|
| 1136 |
|
|
);
|
| 1137 |
|
|
break;
|
| 1138 |
|
|
case 'nar': $template = array(
|
| 1139 |
8a60c8fc
|
Andreas Kohlbecker
|
'namePart' => array('#uri'=>true),
|
| 1140 |
24b09d7c
|
Andreas Kohlbecker
|
//'authorshipPart' => true,
|
| 1141 |
8a60c8fc
|
Andreas Kohlbecker
|
'referencePart' => array('#uri'=>true),
|
| 1142 |
24b09d7c
|
Andreas Kohlbecker
|
'microreferencePart' => true,
|
| 1143 |
|
|
);
|
| 1144 |
|
|
break;
|
| 1145 |
|
|
default: $template = array(
|
| 1146 |
8a60c8fc
|
Andreas Kohlbecker
|
'namePart' => array('#uri'=>true),
|
| 1147 |
24b09d7c
|
Andreas Kohlbecker
|
'authorshipPart' => true,
|
| 1148 |
8a60c8fc
|
Andreas Kohlbecker
|
'referencePart' => array('#uri'=>true),
|
| 1149 |
24b09d7c
|
Andreas Kohlbecker
|
'microreferencePart' => true,
|
| 1150 |
|
|
'statusPart' => true,
|
| 1151 |
|
|
'descriptionPart' => true
|
| 1152 |
|
|
);
|
| 1153 |
|
|
}
|
| 1154 |
|
|
}
|
| 1155 |
70fb5e15
|
Andreas Kohlbecker
|
|
| 1156 |
|
|
if($nameLink && isset($template['nameAuthorPart']['#uri'])){
|
| 1157 |
|
|
$template['nameAuthorPart']['#uri'] = $nameLink;
|
| 1158 |
|
|
} else{
|
| 1159 |
|
|
unset($template['nameAuthorPart']['#uri']);
|
| 1160 |
|
|
}
|
| 1161 |
|
|
|
| 1162 |
8a60c8fc
|
Andreas Kohlbecker
|
if($nameLink && isset($template['namePart']['#uri'])){
|
| 1163 |
|
|
$template['namePart']['#uri'] = $nameLink;
|
| 1164 |
|
|
} else{
|
| 1165 |
|
|
unset($template['namePart']['#uri']);
|
| 1166 |
24b09d7c
|
Andreas Kohlbecker
|
}
|
| 1167 |
70fb5e15
|
Andreas Kohlbecker
|
|
| 1168 |
8a60c8fc
|
Andreas Kohlbecker
|
if($refenceLink && isset($template['referencePart']['#uri'])){
|
| 1169 |
|
|
$template['referencePart']['#uri'] = $refenceLink;
|
| 1170 |
|
|
}else{
|
| 1171 |
|
|
unset($template['referencePart']['#uri']);
|
| 1172 |
24b09d7c
|
Andreas Kohlbecker
|
}
|
| 1173 |
70fb5e15
|
Andreas Kohlbecker
|
|
| 1174 |
24b09d7c
|
Andreas Kohlbecker
|
return $template;
|
| 1175 |
|
|
}
|
| 1176 |
|
|
|
| 1177 |
|
|
function get_partDefinition($taxonNameType){
|
| 1178 |
|
|
//TODO implement admin user interface to allow specify the partdefinitions for any type
|
| 1179 |
|
|
// preliminar solution: using themes
|
| 1180 |
|
|
|
| 1181 |
|
|
$partdef = theme('get_partDefinition', $taxonNameType);
|
| 1182 |
|
|
|
| 1183 |
|
|
if(!is_array($partdef)){
|
| 1184 |
|
|
switch($taxonNameType){
|
| 1185 |
|
|
case 'ZoologicalName': $partdef = array(
|
| 1186 |
|
|
'namePart' => array(
|
| 1187 |
|
|
'name' => true,
|
| 1188 |
|
|
),
|
| 1189 |
|
|
'referencePart' => array(
|
| 1190 |
|
|
'authorTeam' => true
|
| 1191 |
|
|
),
|
| 1192 |
|
|
'microreferencePart' => array(
|
| 1193 |
|
|
'microreference' => true,
|
| 1194 |
|
|
),
|
| 1195 |
|
|
'statusPart' => array(
|
| 1196 |
|
|
'status' => true,
|
| 1197 |
|
|
),
|
| 1198 |
|
|
'descriptionPart' => array(
|
| 1199 |
|
|
'description' => true,
|
| 1200 |
|
|
),
|
| 1201 |
|
|
);
|
| 1202 |
|
|
break;
|
| 1203 |
|
|
case 'BotanicalName': $partdef = array(
|
| 1204 |
|
|
'namePart' => array(
|
| 1205 |
|
|
'name' => true
|
| 1206 |
|
|
),
|
| 1207 |
|
|
'authorTeamPart' => array(
|
| 1208 |
|
|
'authorTeam' => true,
|
| 1209 |
|
|
),
|
| 1210 |
|
|
'referencePart' => array(
|
| 1211 |
|
|
'reference' => true
|
| 1212 |
|
|
),
|
| 1213 |
|
|
'microreferencePart' => array(
|
| 1214 |
|
|
'microreference' => true,
|
| 1215 |
|
|
),
|
| 1216 |
|
|
'statusPart' => array(
|
| 1217 |
|
|
'status' => true,
|
| 1218 |
|
|
),
|
| 1219 |
|
|
'descriptionPart' => array(
|
| 1220 |
|
|
'description' => true,
|
| 1221 |
|
|
),
|
| 1222 |
|
|
);
|
| 1223 |
|
|
break;
|
| 1224 |
|
|
default: $partdef = array(
|
| 1225 |
|
|
'namePart' => array(
|
| 1226 |
|
|
'name' => true,
|
| 1227 |
|
|
),
|
| 1228 |
|
|
'authorTeamPart' => array(
|
| 1229 |
|
|
'authorTeam' => true,
|
| 1230 |
|
|
),
|
| 1231 |
|
|
'referencePart' => array(
|
| 1232 |
|
|
'reference' => true
|
| 1233 |
|
|
),
|
| 1234 |
|
|
'microreferencePart' => array(
|
| 1235 |
|
|
'microreference' => true,
|
| 1236 |
|
|
),
|
| 1237 |
|
|
'statusPart' => array(
|
| 1238 |
|
|
'status' => true,
|
| 1239 |
|
|
),
|
| 1240 |
|
|
'descriptionPart' => array(
|
| 1241 |
|
|
'description' => true,
|
| 1242 |
|
|
),
|
| 1243 |
|
|
);
|
| 1244 |
|
|
}
|
| 1245 |
|
|
}
|
| 1246 |
|
|
return $partdef;
|
| 1247 |
|
|
}
|