function read_comments($dir, $check)
{
global $root_dir, $show_cmt, $cmt_count, $total_count, $subfile_count, $deleted_files, $domain, $script_query, $template, $icon_size;
$files = array();
// Read directory contents, put filenames in array, count files
foreach (glob($dir . '/*.xml', GLOB_NOSORT) as $file) {
$files[basename($file, '.xml')] = $file;
$subfile_count[$file] = '0';
$total_count++;
if (!preg_match('/-/', basename($file, '.xml'))) {
$cmt_count++;
}
}
// Sort files ascending alphabetically
uksort($files, 'strnatcasecmp');
foreach ($files as $file) {
$cmt_tree = '';
foreach (explode('-', basename($file, '.xml')) as $reply) {
for ($i = 1; $i <= $reply; $i++) {
if (!in_array($dir . '/' . $cmt_tree . ((!empty($cmt_tree) ? '-' : '') . $i) . '.xml', $files)) {
if (!in_array($dir . '/' . $cmt_tree . ((!empty($cmt_tree) ? '-' : '') . $i) . '.xml', $deleted_files)) {
deletion_notice($dir . '/' . $cmt_tree . ((!empty($cmt_tree) ? '-' : '') . $i) . '.xml', $show_cmt, $check);
// Display notice
$deleted_files[] = $dir . '/' . $cmt_tree . ((!empty($cmt_tree) ? '-' : '') . $i) . '.xml';
}
}
}
$cmt_tree .= (!empty($cmt_tree) ? '-' : '') . $reply;
}
// Check whether to generate output
if (!empty($check) and $check == 'yes' or $check == 'true') {
$show_cmt = parse_comments($file, $show_cmt, 'yes');
}
// Count comment
if (preg_match('/-/', basename($file, '.xml'))) {
$thread_parts = explode('-', basename($file));
$thread = $dir . '/' . basename($file, '-' . end($thread_parts)) . '.xml';
$subfile_count["{$thread}"] = isset($subfile_count["{$thread}"]) ? $subfile_count["{$thread}"] + 1 : 1;
}
$subfile_count["{$file}"]++;
// Count comment
}
}
">
<i class="icon-plus"></i> <b><?php
echo $variant['name'];
?>
</b><?php
echo new_variant_notice($variant['is_new']);
?>
</a>
</div>
<div id="variant-changes-<?php
echo $variant['id'];
?>
" class="accordion-body collapse">
<div class="accordion-inner">
<?php
echo deletion_notice($variant['id']);
?>
<!-- Table of changes (only display if changes exist) -->
<table class="variant-changes-table table table-striped table-bordered table-condensed <?php
echo hidden(empty($variant['changes']));
?>
">
<thead>
<tr>
<th>Field</th>
<th>Current value</th>
<th>Unreleased value</th>
</tr>
</thead>
<tbody data-provides="rowlink">
<?php
<?php
echo deletion_notice($variation->id);
echo undesired_comments_notice($variation->id);
echo unreleased_changes_notice($variation->id);
?>
<div id="edit-header-wrapper">
<div id="alter-fields">
<a id="expand-all" class="rounded rowlink" href="#"><i class="icon-plus icon-white"></i> Expand all tabs</a>
<?php
echo unlock_all_fields_button();
?>
</div>
<div id="edit-variant-header">
<h2><?php
echo $variation->hgvs_protein_change;
?>
</h2>
<h4><?php
echo $variation->gene;
?>
</h4>
<h4><?php
echo $variation->hgvs_nucleotide_change;
?>
</h4>
</div>
</div>
<?php
$attributes = array('class' => 'form-edit-variation rounded', 'onkeypress' => 'return event.keyCode != 13');
echo form_open('variations/edit/' . $id, $attributes);
