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tripal_analysis/includes/tripal_analysis-properties.inc

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+<?php
+/**
+ * @file
+ * @todo Add file header description
+ */
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_edit_ALL_properties_page($node) {
+  $output = '';
+
+  // get the list of properties for this analysis
+  $values  = array('analysis_id' => $node->analysis->analysis_id);
+  $options = array('order_by' => array('type_id' => 'ASC', 'rank' => 'ASC'));
+  $properties = tripal_core_generate_chado_var('analysisprop', $values, $options);
+  $properties = tripal_core_expand_chado_vars($properties, 'field', 'analysisprop.value');
+
+  $expand_add = (sizeof($properties)) ? FALSE : TRUE;
+
+  // add the appopriate form sections
+  $output .= drupal_get_form('tripal_analysis_add_ONE_property_form', $node, $expand_add);
+  $output .= drupal_get_form('tripal_analysis_edit_ALL_properties_form', $node, $properties);
+  $output .= drupal_get_form('tripal_analysis_implement_back_to_analysis_button', $node->nid);
+
+  return $output;
+}
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_add_ONE_property_form($form_state, $node, $expand) {
+  $form = array();
+  $analysis_id = $node->analysis->analysis_id;
+
+  $form['add_properties'] = array(
+    '#type' => 'fieldset',
+    '#title' => t('Add Property'),
+    '#collapsible' => TRUE,
+    '#collapsed' => ($expand) ? FALSE : TRUE,
+  );
+
+  $form['prop_nid'] = array(
+    '#type' => 'hidden',
+    '#value' => $node->nid
+  );
+
+  $form['add_properties']['analysis_id'] = array(
+    '#type' => 'value',
+    '#value' => $analysis_id,
+    '#required' => TRUE
+  );
+
+  // right now this defaults to the 'analysis_property' CV
+  // but in the future it should be more flexible
+  $form['cv_name'] = array(
+    '#type' => 'hidden',
+    '#value' => 'analysis_property'
+  );
+
+  // get the list of property types
+  $prop_type_options = array();
+  $columns = array('cvterm_id', 'name');
+  $values = array(
+    'cv_id' => array(
+      'name' => $form['cv_name']['#value'],
+    )
+  );
+  $results = tripal_core_chado_select('cvterm', $columns, $values);
+  foreach ($results as $r) {
+    $prop_type_options[$r->name] = $r->name;
+  }
+
+  $form['add_properties']['property'] = array(
+    '#type' => 'select',
+    '#title' => t('Type of Property'),
+    '#options' => $prop_type_options,
+  );
+
+  $form['add_properties']['prop_value'] = array(
+    '#type' => 'textfield',
+    '#title' => t('Value'),
+  );
+
+  $form['add_properties']['submit-add'] = array(
+    '#type' => 'submit',
+    '#value' => t('Add Property')
+  );
+
+  return $form;
+}
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_add_ONE_property_form_validate($form, &$form_state) {
+
+  // Only Require if Adding Property
+  if ($form_state['clicked_button']['#value'] == t('Add Property') ) {
+
+    // Check that there is a analysis
+    if ( $form_state['values']['analysis_id'] <= 0 ) {
+      form_set_error('analysis_id', 'There is no associated analysis.');
+    }
+
+    // Check that Selected a type
+    if ( !$form_state['values']['property']) {
+      form_set_error('property', 'Please select a type of property.');
+    }
+  }
+}
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_add_ONE_property_form_submit($form, &$form_state) {
+  $analysis_id = $form_state['values']['analysis_id'];
+  $property = $form_state['values']['property'];
+  $value = $form_state['values']['prop_value'];
+  $cv_name = $form_state['values']['cv_name'];
+
+  $succes = tripal_analysis_insert_property($analysis_id, $property, $value, 0, $cv_name);
+  if ($succes) {
+    drupal_set_message(t("Successfully Added Property: %property => %value", array('%property' => $property), array('%value' => $value)));
+  }
+  else {
+    drupal_set_message(t("Failed to Add Property: %property => %value", array('%property' => $property), array('%value' => $value)));
+  }
+}
+
+/**
+ * Implements Hook_form()
+ * Handles adding of Properties for analysiss
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_edit_ALL_properties_form($form_state, $node, $properties) {
+  $form = array();
+  $analysis_id = $node->analysis->analysis_id;
+
+  $form['nid'] = array(
+    '#type' => 'hidden',
+    '#value' => $node->nid
+  );
+
+  $form['add_properties']['analysis_id'] = array(
+    '#type' => 'value',
+    '#value' => $analysis_id,
+    '#required' => TRUE
+  );
+
+  // right now this defaults to the 'analysis_property' CV
+  // but in the future it should be more flexible
+  $form['cv_name'] = array(
+    '#type' => 'hidden',
+    '#value' => 'tripal_analysis'
+  );
+
+  if (sizeof($properties)) {
+
+    // build the select box options for the property name
+    $prop_type_options = array();
+    $columns = array('cvterm_id', 'name');
+    $values = array(
+      'cv_id' => array(
+        'name' => $form['cv_name']['#value']
+      )
+    );
+    $results = tripal_core_chado_select('cvterm', $columns, $values);
+    foreach ($results as $r) {
+      $prop_type_options[$r->name] = $r->name;
+    }
+
+    // iterate through all of the properties and create a set of form elements
+    foreach ($properties as $i => $property) {
+      
+      // only show the tripal_analysis properties all others properties 
+      // should be handled separately by whatever module added them
+      if($property->type_id->cv_id->name == 'tripal_analysis') {
+
+        $form["num-$i"] = array(
+          '#type' => 'fieldset',
+          '#value' => "Property $i"
+        );
+        $form["num-$i"]["id-$i"] = array(
+          '#type' => 'hidden',
+          '#value' => $property->analysisprop_id
+        );
+        $default = array_search($property->type, $prop_type_options);
+        $form["num-$i"]["type-$i"] = array(
+          '#type' => 'select',
+          '#options' => $prop_type_options,
+          '#default_value' => $property->type_id->name
+        );
+        $form["num-$i"]["value-$i"] = array(
+          '#type' => 'textfield',
+          '#default_value' => $property->value
+        );
+        $form["num-$i"]["delete-$i"] = array(
+          '#type' => 'submit',
+          '#value' => t("Delete"),
+          '#name' => "delete-$i",
+        );
+      }
+    } //end of foreach property
+
+    $form['num_properties'] = array(
+      '#type' => 'hidden',
+      '#value' => $i
+    );
+
+    $form["submit-edits"] = array(
+      '#type' => 'submit',
+      '#value' => t('Update All Properties')
+    );
+  }
+
+  return $form;
+}
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_edit_ALL_properties_form_submit($form, &$form_state) {
+
+  $cv_name = $form_state['values']['cv_name'];
+  $analysis_id = $form_state['values']["analysis_id"];
+  $all_good = 1;
+
+  // if the update button was clicked then do the update
+  if ($form_state['clicked_button']['#value'] == t('Update All Properties') ) {
+    // iterate through each of the properties and set each one
+    for ($i=1; $i<=$form_state['values']['num_properties']; $i++) {
+      $analysisprop_id = $form_state['values']["id-$i"];
+      $property = $form_state['values']["type-$i"];
+      $value = $form_state['values']["value-$i"];
+      $success = tripal_analysis_update_property_by_id($analysisprop_id, $property, $value, $cv_name);
+      if (!$success) {
+        drupal_set_message(t("Failed to Update Property: %property => %value", array('%property' => $property), array('%value' => $value)));
+        $all_good = 0;
+      }
+    }
+    if ($all_good) {
+      drupal_set_message(t("Updated all Properties"));
+    }
+    drupal_goto('node/' . $form_state['values']['nid']);
+  }
+  // if the delete button was clicked then remove the property
+  elseif (preg_match('/delete-(\d+)/', $form_state['clicked_button']['#name'], $matches) ) {
+    $i = $matches[1];
+    $analysisprop_id = $form_state['values']["id-$i"];
+    $property = $form_state['values']["type-$i"];
+    $value = $form_state['values']["value-$i"];
+    $success = tripal_analysis_delete_property($analysisprop_id, $property);
+    if ($success) {
+      drupal_set_message(t("Deleted Property"));
+    }
+    else {
+      drupal_set_message(t("Unable to Delete Property"));
+    }
+  }
+  else {
+    drupal_set_message(t("Unrecognized Button Pressed"), 'error');
+  }
+}
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function theme_tripal_analysis_edit_ALL_properties_form($form) {
+  $output = '';
+
+  $output .= '<br /><fieldset>';
+  $output .= '<legend>Edit Already Existing Properties<span class="form-optional" title="This field is optional">(optional)</span></legend>';
+  $output .= '<p>Below is a list of already existing properties for this analysis, one property per line. The type refers to the type of '
+         .'property and the value is the value for that property. </p>';
+  $output .= '<table>';
+  $output .= '<tr><th>#</th><th>Type</th><th>Value</th><th></th></tr>';
+
+  for ($i=0; $i<=$form['num_properties']['#value']; $i++) {
+    if (isset($form["num-$i"])) {
+      $output .= '<tr><td>' . ($i+1) . '</td><td>' . drupal_render($form["num-$i"]["type-$i"]) . '</td><td>' . drupal_render($form["num-$i"]["value-$i"]) . '</td><td>' . drupal_render($form["num-$i"]["delete-$i"]) . '</td></tr>';
+      unset($form["num-$i"]);
+    }
+  }
+
+  $output .= '</table><br />';
+  $output .= drupal_render($form);
+  $output .= '</fieldset>';
+
+  return $output;
+}
+
+/**
+ *
+ *
+ * @ingroup tripal_analysis
+ */
+function tripal_analysis_list_properties_for_node($properties) {
+
+  if (!empty($properties)) {
+    $output = '<table>';
+    $output .= '<tr><th>Type</th><th>Value</th></tr>';
+
+
+    if (!empty($properties) ) {
+      foreach ($properties as $p) {
+        $output .= '<tr><td>' . $p->type . '</td><td>' . $p->value . '</td></tr>';
+      } // end of foreach property
+    }
+
+    $output .= '</table>';
+
+  }
+  else {
+    $output = 'No properties exist for the current analysis';
+  }
+
+  return $output;
+}
+
+