$analysis_name .= l($a_name, "node/" . $analyses->analysis_id->nid) . "<bR>";
}
}
// Source name comes under analysis
if (isset($srcfeature[0]->analysis_id) && count($srcfeature[0]->analysis_id)) {
$src_analysis = $srcfeature[0]->analysis_id;
$a_name = $src_analysis->name;
$analysis_name .= "Source: " . l($a_name, "node/" . $src_analysis->nid);
}
// Analysis row
$rows[] = array(array('data' => 'Analysis', 'header' => TRUE), $analysis_name);
//User comment - //type_id = 85 - note
$featureprop_id = $feature->subject_id->feature_id;
$select = array('feature_id' => $featureprop_id, 'type_id' => 85);
$columns = array('value', 'feature_id');
$featureprop = chado_select_record('featureprop', $columns, $select);
$featureprop = array_reverse($featureprop);
$user_comment = '';
$user_i = 0;
foreach ($featureprop as $prop_obj) {
if (!empty($prop_obj->value)) {
$user_i == 0 ? $user_comment .= 'Note: ' : '';
$user_comment .= $prop_obj->value . "; ";
$user_i++;
}
}
$user_comment = rtrim($user_comment, '; ');
// User Submitted info row
$rows[] = array(array('data' => 'Annotator Comments', 'header' => TRUE), $user_comment);
$table = array('header' => $headers, 'rows' => $rows, 'attributes' => array('id' => 'tripal_feature-detail-transcript', 'class' => 'tripal-data-table'), 'sticky' => FALSE, 'caption' => '', 'colgroups' => array(), 'empty' => '');
//Details
//VIJAYA - To display the comments (Note) of all mRNA's, rRNA etc., and transcripts
$relationship = tripal_feature_get_feature_relationships($feature);
//Display transcript feature(s) count like rRNA, mRNA etc., data dynamically..
$transcript_count = '';
if (isset($relationship['object']['part of'])) {
foreach ($relationship['object']['part of'] as $key => $relationship_obj) {
// if(isset($relationship_obj)) {
$transcript_count = "<div id='transcript_item'><div id='transcript_value'>This gene contains </div><div class='tripal_toc_list_item'><a id='transcripts' class='tripal_toc_list_item_link' href='?pane=transcripts' >" . count($relationship_obj);
$transcript_count .= count($relationship_obj) > 1 ? " " . $key . "s</a></div></div>" : " " . $key . "</a></div></div>";
// }
//Comment(s)
$comment = "None";
//type_id = 85 means a comment. "Note" value in field "name".
$gene_select = array('feature_id' => $feature->feature_id, 'type_id' => 85);
$gene_columns = array('value', 'feature_id');
$gene_featureprop = chado_select_record('featureprop', $gene_columns, $gene_select);
if (isset($gene_featureprop) && !empty($gene_featureprop)) {
$i = 0;
$comment = "";
foreach ($gene_featureprop as $key => $gene_propobj) {
$i == 0 ? $user_comment .= 'Note: ' : '';
$comment .= $gene_propobj->value . "; ";
$i++;
}
$comment = rtrim($comment, '; ');
}
}
}
// if closing
//VIJAYA gene_var variable is used to differentiate the gene and mRNA pages
$gene_var = array('gene', 'pseudogene');