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@@ -14,52 +14,82 @@ if(property_exists($organism, 'feature_counts')) {
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if ($enabled) {
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if (count($types) > 0){ ?>
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<div class="tripal_organism-data-block-desc tripal-data-block-desc">The following data types are currently present for this organism</div> <?php
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+
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// let admins know they can customize the terms that appear in the list
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- print theme('tripal_admin_message', array('message' => "
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- Administrators, you can customize the types of terms that appear in this report by
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- navigating to the " . l('Tripal feature configuration page', 'admin/tripal/chado/tripal_feature/configuration') . "
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+ print tripal_set_message("
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+ Administrators, you can customize the types of terms that appear in this report by navigating to the " .
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+ l('Tripal feature configuration page', 'admin/tripal/chado/tripal_feature/configuration', array('attributes' => array('target' => '_blank'))) . "
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opening the section \"Feature Summary Report\" and adding the list of
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- terms you want to appear in the list. You can rename terms as well. To disable this report and
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- remove it from the list of resources, navigate to the " .
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- l('Tripal feature configuration page', 'admin/tripal/tripal_feature/configuration') . "
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- and hide the \"Feature Summary\". To refresh the data,re-populate the " .
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- l('organism_feature_count', 'admin/tripal/schema/mviews') . " materialized view.")
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- ); ?>
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- <table id="tripal_organism-table-feature_counts" class="tripal_organism-table tripal-table tripal-table-horz">
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- <tr class="tripal_organism-table-odd-row tripal-table-even-row">
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- <th>Feature Type</th>
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- <th>Count</th>
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- </tr> <?php
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- for ($j = 0; $j < count($types); $j++) {
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- $type = $types[$j];
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- $name = $names[$j];
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- $class = 'tripal_organism-table-odd-row tripal-table-odd-row';
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- if ($i % 2 == 0 ) {
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- $class = 'tripal_organism-table-even-row tripal-table-even-row';
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- }?>
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- <tr class="<?php print $class ?>">
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- <td><span title="<?php print $type->definition ?>"><?php print $name?></span></td>
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- <td><?php print number_format($type->num_features) ?></td>
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- </tr> <?php
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- $i++;
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- } ?>
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- </table>
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+ terms you want to appear in the list. You can rename terms as well. To refresh the data,re-populate the " .
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+ l('organism_feature_count', 'admin/tripal/schema/mviews', array('attributes' => array('target' => '_blank'))) . "
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+ materialized view.",
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+ TRIPAL_INFO,
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+ array('return_html' => 1)
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+ );
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+
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+ // the $headers array is an array of fields to use as the colum headers.
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+ // additional documentation can be found here
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+ // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
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+ $headers = array('Feature Type' ,'Count');
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+
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+ // the $rows array contains an array of rows where each row is an array
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+ // of values for each column of the table in that row. Additional documentation
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+ // can be found here:
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+ // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
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+ $rows = array();
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+
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+ for ($j = 0; $j < count($types); $j++) {
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+ $type = $types[$j];
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+ $name = $names[$j];
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+
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+ $rows[] = array(
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+ "<span title=\"" . $type->definition . "\">$name</span>",
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+ number_format($type->num_features),
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+ );
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+ }
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+ // the $table array contains the headers and rows array as well as other
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+ // options for controlling the display of the table. Additional
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+ // documentation can be found here:
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+ // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
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+ $table = array(
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+ 'header' => $headers,
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+ 'rows' => $rows,
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+ 'attributes' => array(
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+ 'id' => 'tripal_organism-table-features',
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+ ),
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+ 'sticky' => FALSE,
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+ 'caption' => '',
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+ 'colgroups' => array(),
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+ 'empty' => '',
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+ );
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+ // once we have our table array structure defined, we call Drupal's theme_table()
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+ // function to generate the table.
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+ print theme_table($table);
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+
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+ ?>
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+
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<img class="tripal_cv_chart" id="tripal_feature_cv_chart_<?php print $organism->organism_id?>" src="" border="0"><?php
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}
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else {
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if (user_access('access administration pages')) { ?>
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<div class="tripal_organism-data-block-desc tripal-data-block-desc">The following data types are currently present for this organism</div> <?php
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- print theme('tripal_admin_message', array('message' => "
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+ print tripal_set_message("
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Administrators, to view the feature type report:
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<ul>
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- <li>Populate the " . l('organism_feature_count', 'admin/tripal/schema/mviews') ." materialized view</li>
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+ <li>Populate the " .
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+ l('organism_feature_count', 'admin/tripal/schema/mviews', array('attributes' => array('target' => '_blank'))) ."
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+ materialized view</li>
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<li>Refresh this page</li>
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</ul>
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To disable this report and remove it from the list of resources:
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<ul>
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- <li>Navigate to the " . l('Tripal feature configuration page', 'admin/tripal/chado/tripal_feature/configuration') ." and hide the \"Feature Summary\"</li>
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+ <li>Navigate to the " .
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+ l('Tripal feature configuration page', 'admin/tripal/chado/tripal_feature/configuration', array('attributes' => array('target' => '_blank'))) ."
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+ and hide the \"Feature Summary\"</li>
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</ul>
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- </p>")
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+ </p>",
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+ TRIPAL_INFO,
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+ array('return_html' => 1)
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);
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}
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}
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Stephen Ficklin