EDIT

<?php

/**

 * @file

 * Install, update and uninstall functions for CDM_DataPortal install profile.

 *

 * This profile performs the same actions as the standard profile, but with

 * some customizations for CDM portals.

 */

/**

 * Implements hook_install().

 *

 * Perform actions to set up the site for this profile.

 *

 * @see system_install()

 */

function CDM_Portal_install() {

 /****************************************

  * First of all configure the default theme

  ****************************************/

  // >>> admin/appearance

  //    set the default theme

  //    This must be done first, otherwise blocks are not

  //    configured correctly for the default theme

  $default_theme = 'bartik';

  if( drupal_get_path('theme', 'zen_dataportal') ){

    $default_theme = 'zen_dataportal';

  }

  variable_set('theme_default', $default_theme);

  // enable default theme

  db_update('system')

  ->fields(array('status' => 1))

  ->condition(

      db_and()

      ->condition('type', 'theme')

      ->condition('name', $default_theme))

      ->execute();

  // Run drupal standard install after the theme has been chosen

  // standard_install() will configure blocks, filters, etc.

  // After the standard_install() the dataportal

  // customization can be applied

  require_once DRUPAL_ROOT . '/profiles/standard/standard.install';

  standard_install();

  // >>> admin/appearance/settings

  //    Toggle display of various page details

  //    some of the below keys are specific to the

  //    zen theme

  variable_set('theme_settings', array(

      'toggle_logo' => 1,

      'toggle_name' => 1,

      'toggle_slogan' => 0,

      'toggle_node_user_picture' => 0,

      'toggle_comment_user_picture' => 0,

      'toggle_comment_user_verification' => 0,

      'toggle_favicon' => 1,

      'toggle_main_menu' => 1,

      'toggle_secondary_menu' => 0,

      'default_logo' => 1,

      'logo_path' => NULL,

      'logo_upload' => NULL,

      'default_favicon' => 1,

      'favicon_path' => NULL,

      'favicon_upload' => NULL,

      // >>> admin/appearance/settings/zen_dataportal

      //     Display breadcrumbs only in the admin section

      'zen_breadcrumb' => 'admin',

      'zen_rebuild_registry' => 0,

  ));

 /****************************************

  *  Reconfigure Drupal core modules

  ****************************************/

  // >>> admin/config/media/file-system

  //    Temporary directory

  if (strtoupper(substr(PHP_OS, 0, 3)) === 'WIN') {

    variable_set('file_temporary_path', 'c:\\windows\\temp');

  }

  else {

    variable_set('file_temporary_path', '/tmp');

  }

  // >>> admin/config/content/formats

  //    Do not use the line-break filter for the full_html input format.

  $full_html_format = array(

    'format' => 'full_html',

    'name' => 'Full HTML',

    'weight' => 1,

    'filters' => array(

      // URL filter.

      'filter_url' => array(

        'weight' => 0,

        'status' => 1,

      ),

      // HTML corrector filter.

      'filter_htmlcorrector' => array(

        'weight' => 10,

        'status' => 1,

      ),

    ),

  );

  $full_html_format = (object) $full_html_format;

  filter_format_save($full_html_format);

  // variable_set('filter_html_1', 1);

  // variable_set('menu_primary_menu', 2);

  // variable_set('menu_secondary_menu', 2);

  variable_set('node_options_forum', array (0 => 'status'));

  variable_set('node_options_page', array (0 => 'status'));

  // variable_set('site_footer', '');

  // >>> admin/config/system/site-information

  //

  variable_set('site_frontpage', 'node/1');

  variable_set('site_mail', '');

  // variable_set('site_mission', '');

  variable_set('site_name', 'CDM Dataportal');

  variable_set('site_slogan', '');

  variable_set('cdm_dataportal_geoservice_display_width', '600');

  // >>> admin/config/development/logging

  //    Error messages to display: Errors and warnings

  variable_set('error_level', '1');

  // >>> admin/structure/types/manage/*

  //    Display author and date information: [off]

  variable_set('node_submitted_page', 0);

  variable_set('node_submitted_article', 0);

  variable_set('node_submitted_cdm_media', 0);

  variable_set('node_submitted_cdm_name', 0);

  variable_set('node_submitted_cdm_taxon', 0);

  variable_set('node_submitted_cdm_reference', 0);

  // turn comments off for all content types (disabling the comment module would lead to an error)

  variable_set('comment_page', 0);

  variable_set('comment_article', 0);

  variable_set('comment_cdm_media', 0);

  variable_set('comment_cdm_name', 0);

  variable_set('comment_cdm_taxon', 0);

  variable_set('comment_cdm_reference', 0);

  /****************************************

   * CDM DataPortal - specific

   *

   *  TODO consider moving these into

   *       the module

   ****************************************/

  variable_set('cdm_webservice_cache', 0);

  /****************************************

   * User management

   ****************************************/

  // USER_REGISTER_ADMINISTRATORS_ONLY = 0

  // USER_REGISTER_VISITORS = 1

  // USER_REGISTER_VISITORS_ADMINISTRATIVE_APPROVAL = 2

  variable_set('user_register', USER_REGISTER_ADMINISTRATORS_ONLY);

  // Create a role for CDM administrator.

  $admin_role = new stdClass();

  $admin_role->name = 'CDM admin';

  $admin_role->weight = 3;

  user_role_save($admin_role);

  // Make sure these permissions are present, e.g. that the modules defining these permissions are installed.

  // This because user_role_grant_permissions() will create the permission in the role_permission table if it does not

  // exist, and for that it needs to find a module that defines the permission (there is a module column in this table).

  $permissions = array(

    'access administration menu',

    'access administration pages',

    'access content',

    'access cdm content',

    'access content overview',

    'access site in maintenance mode',

    'administer blocks',

    'administer cdm_dataportal',

    'administer content types',

    'administer menu',

    'administer nodes',

    'administer site configuration',

    'administer themes',

    'administer users',

    'bypass node access',

    'create article content',

    'create page content',

    'create url aliases',

    'delete any article content',

    'delete any page content',

    'delete own article content',

    'delete own page content',

    'delete revisions',

    'edit any article content',

    'edit any page content',

    'edit own article content',

    'edit own page content',

    'flush caches',

    'revert revisions',

    'use text format full_html',

    'view own unpublished content',

    'view revisions',

    'view the administration theme'

    // Devel and IMCE modules are not yet required modules in this profile.

    // 'access devel information',

    // 'access imce',

    // 'administer imce',

  );

  user_role_grant_permissions($admin_role->rid, $permissions);

  // Assign user 1 the "CDM admin" role.

  db_insert('users_roles')

    ->fields(array('uid' => 1, 'rid' => $admin_role->rid))

    ->execute();

  // additional permission for the anonymous user	authenticated user roles

  $additional_default_permissions = array(

    'access cdm content'

  );

  user_role_grant_permissions(1, $additional_default_permissions); // anonymous user

  user_role_grant_permissions(2, $additional_default_permissions); // authenticated user

  /****************************************

   *  Blocks

   ****************************************/

  // >>> admin/structure/block

  //    Disable the blocks that were enabled for the dashboard in the standard install.

  //    In the CDM dataportals we use the admin_menu module instead of taskbar and dashboard.

  $query = db_update('block')->fields(array('status' => '0'))

  ->condition('region', 'dashboard_main', '=')

  ->execute();

  $query = db_update('block')->fields(array('status' => '0'))

  ->condition('region', 'dashboard_sidebar', '=')

  ->execute();

  // disable "Search form"  block for all themes

  $query = db_update('block')->fields(array('status' => '0'))

  ->condition(

      db_and()

      ->condition('module', 'search', '=')

      ->condition('delta', 'form', '=')

  )

  ->execute();

  // disable the "Powered by Drupal" block for all themes

  $query = db_update('block')->fields(array('status' => '0'))

  ->condition(

      db_and()

      ->condition('module', 'system', '=')

      ->condition('delta', 'powered-by', '=')

  )

  ->execute();

  $new_blocks = array();

;

  // enable "CDM Search Taxa" block for all themes

  $block_search_taxa = cdm_dataportal_block_info()["2"];

  $block_search_taxa= array_merge($block_search_taxa, array(

    'module' => 'cdm_dataportal',

    'delta' => '2',

    'theme' => $default_theme,

    'status' => 1,

    'weight' => -11,

    'region' => 'sidebar_first',

    'pages' => '',

  ));

  $new_blocks[] = array(

      'block' => $block_search_taxa

  );

  $block_back_to_search_results = cdm_dataportal_block_info()["back_to_search_results"];

  $block_back_to_search_results= array_merge($block_back_to_search_results, array(

    'module' => 'cdm_dataportal',

    'delta' => 'back_to_search_results',

    'theme' => $default_theme,

    'status' => 1,

    'weight' => 10,

    'region' => 'navigation'

  ));

  $new_blocks[] = array(

    'block' => $block_back_to_search_results

  );

  // CDM web service debug block

  $block_cdm_ws_debug = cdm_api_block_info()['cdm_ws_debug'];

  $block_cdm_ws_debug= array_merge($block_cdm_ws_debug, array(

    'module' => 'cdm_api',

    'delta' => 'cdm_ws_debug',

    'theme' => $default_theme,

    'status' => 1,

    'weight' => -50,

    'region' => 'sidebar_first',

    'pages' => '',

  ));

  $new_blocks[] = array(

      'block' => $block_cdm_ws_debug,

      'block_role' => array(

          'module' => 'cdm_api',

          'delta' => 'cdm_ws_debug',

          'rid' => $admin_role->rid

      )

  );

  // TODO consider using block_flush_caches() to initially populate the block table with blocks from contributed

  //      modules, and only update the blocks afterwards with block_save()?

  $block_insert = db_insert('block')->fields(array('module', 'delta', 'theme', 'status', 'weight', 'region', 'pages', 'cache'));

  $block_role_insert = db_insert('block_role')->fields(array('module', 'delta', 'rid'));

  foreach ($new_blocks as $block) {

    $block_insert->values($block['block']);

    if(isset($block['block_role'])){

      $block_role_insert->values($block['block_role']);

    }

  }

  $block_insert->execute();

  $block_role_insert->execute();

 /****************************************

  *  Create the front page

  ****************************************/

  $node = new stdClass();

  $node->uid = 1;

  $node->type = 'page';

  // Sets some defaults.

  node_object_prepare($node);

  $node->status = 1;

  $node->language = LANGUAGE_NONE;

  // Promoted to front page.

  $node->promote = 0;

  // Comments on.

  //   $node->comment = 1;

  $node->title = 'CDM DataPortal';

  // Format to use = full html.

  $node->body[$node->language][0]['format'] = 'full_html';

  $node->body[$node->language][0]['value'] = sprintf(

    '<h3>Welcome to your CDM DataPortal. </h3>

    This data portal makes full use of the Common Data Model (CDM),

    a central component of the Internet Platform for Cybertaxonomy being

    developed by EDIT workpackage 5. All taxon pages are created as dynamic

    web pages from the underlying database.

    In order to finish the setup of your DataPortal please visit the %s.

    The CDM Dataportal provides several Drupal Blocks (<i>taxon search</i>,

    <i>classification browser</i>, <i>external links</i>,

    <i>print this page</i>) which you may want to activate in the

    %s.',

    l('CDM Dataportal settings','admin/config/cdm_dataportal/settings'),

    l('Blocks Settings', 'admin/structure/block')

  );

  node_save($node);

 }