tripal/legacy/tripal_stock/theme/templates/tripal_stock_collections.tpl.php

<?php
$stock = $variables['node']->stock;

// expand the stock object to include the stockcollections associated with this stock
$options = ['return_array' => 1];
$stock = chado_expand_var($stock, 'table', 'stockcollection_stock', $options);
$collections = $stock->stockcollection_stock;

if (count($collections) > 0) { ?>
    <div class="tripal_stock-data-block-desc tripal-data-block-desc">This stock
        is found in the following collections.
    </div> <?php

  // the $headers array is an array of fields to use as the colum headers. 
  // additional documentation can be found here 
  // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
  // This table for the analysis has a vertical header (down the first column)
  // so we do not provide headers here, but specify them in the $rows array below.
  $headers = ['Collection Name', 'Type', 'Contact'];

  // the $rows array contains an array of rows where each row is an array
  // of values for each column of the table in that row.  Additional documentation
  // can be found here:
  // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7 
  $rows = [];

  foreach ($collections as $collection_stock) {
    // get the stock collection details
    $collection = $collection_stock->stockcollection_id;
    $contact = $collection->contact_id;

    $cname = $collection->name;
    if (property_exists($collection, 'nid')) {
      $cname = l($collection->name, "node/" . $collection->nid, ['attributes' => ['target' => '_blank']]);
    }

    $rows[] = [
      $cname,
      ucwords(preg_replace('/_/', ' ', $collection->type_id->name)),
      $contact->name,
    ];
  }

  // the $table array contains the headers and rows array as well as other
  // options for controlling the display of the table.  Additional
  // documentation can be found here:
  // https://api.drupal.org/api/drupal/includes%21theme.inc/function/theme_table/7
  $table = [
    'header' => $headers,
    'rows' => $rows,
    'attributes' => [
      'id' => 'tripal_stock-table-synonyms',
      'class' => 'tripal-data-table',
    ],
    'sticky' => FALSE,
    'caption' => '',
    'colgroups' => [],
    'empty' => '',
  ];

  // once we have our table array structure defined, we call Drupal's theme_table()
  // function to generate the table.
  print theme_table($table);
}