remove conflicts.

tests/tripal_jbrowse/jbrowseInstanceNodeTest.php

@@ -1,144 +0,0 @@
-<?php
-namespace Tests\tripal_jbrowse;
-
-use StatonLab\TripalTestSuite\DBTransaction;
-use StatonLab\TripalTestSuite\TripalTestCase;
-use Faker\Factory;
-
-/**
- * Tests the JBrowse Instance Node Type.
- */
-class jbrowseInstanceNodeTest extends TripalTestCase {
-  // Uncomment to auto start and rollback db transactions per test method.
-  use DBTransaction;
-
-  /**
-   * JBrowse Instance Node Type exists.
-   *
-   * Check that the JBrowse Instance node type exists. It should be created
-   * when the module is installed by the Drupal Node API.
-   */
-  public function testJbrowseInstanceNodeTypeExists() {
-
-    if (!module_exists('tripal_jbrowse')) {
-      $this->markTestSkipped('No need to test if not enabled.');
-    }
-
-    // Get a list of all types available.
-    $types = node_type_get_types();
-
-    // The JBrowse Instance node type must be in the list.
-    $this->assertArrayHasKey('jbrowse_instance', $types, '"JBrowse Instance" node type is not registered with Drupal.');
-
-    // Check that the expected fields exist and are attached to the JBrowse instance node type.
-    // First retrieve all fields for this node type.
-    $fields = field_info_instances('node', 'jbrowse_instance');
-    // Now check that those important to us, exist.
-    $this->assertArrayHasKey('field_jburl', $fields,
-      'The "Existing JBrowse URL" field is not attached to the JBrowse Instance node type.');
-    $this->assertArrayHasKey('field_datadir', $fields,
-      'The "Data Directory" field is not attached to the JBrowse Instance node type.');
-    $this->assertArrayHasKey('field_jbloc', $fields,
-      'The "Start Location" field is not attached to the JBrowse Instance node type.');
-    $this->assertArrayHasKey('field_jbtracks', $fields,
-      'The "Tracks to Display" field is not attached to the JBrowse Instance node type.');
-  }
-
-  /**
-   * Test Creating a JBrowse Instance Node.
-   *
-   * Note: We can't test this by submitting the form via PUT because it requires
-   *  permission to access /node/add/jbrowse_instance; however, we don't yet have a
-   *  way to do this with TripalTestSuite. Furthermore, testing HTTP Requests
-   *  would not give us access to the data added via the test due to database
-   *  transactions.
-   */
-  public function testJBrowseInstanceNodeCreate() {
-    module_load_include('inc', 'node', 'node.pages');
-
-    if (!module_exists('tripal_jbrowse')) {
-      $this->markTestSkipped('No need to test if not enabled.');
-    }
-
-    // Log in the god user.
-    global $user;
-    $user = user_load(1);
-    $node = array('type' => 'jbrowse_instance');
-
-    // Fill in the form.
-    $faker = Factory::create();
-    $form_state = array('values' => array());
-    $form_state['values']['title'] = $faker->words(3, true);
-    $form_state['values']['field_jburl']['und'][0]['url'] = 'https://jbrowse.org/code/JBrowse-1.15.4/';
-    $form_state['values']['field_datadir']['und'][0] = 'sample_data/json/volvox';
-    $form_state['values']['field_jbloc']['und'][0] = 'ctgA:1..11000';
-    $form_state['values']['field_jbtracks']['und'][0] = 'DNA,Genes,volvox-sorted-vcf,volvox_microarray_bw_density,volvox_bb';
-    $form_state['values']['op'] = t('Save');
-
-    // Execute the node creation form.
-    drupal_form_submit('jbrowse_instance_node_form', $form_state, (object) $node);
-
-    // Retrieve any errors.
-    $errors = form_get_errors();
-
-    // Assert that there must not be any.
-    $this->assertEmpty($errors, 'Form submission returned the following errors:'.print_r($errors,TRUE));
-
-    // Check that there is a test jbrowse instance.
-    $result = db_query('SELECT * FROM {node} WHERE title=:name',
-      array(':name' => $form_state['values']['title']));
-    $this->assertEquals(1, $result->rowCount(), 'Unable to select the JBrowse Instance using the name.');
-
-    // log out the god user.
-    $user = drupal_anonymous_user();
-  }
-
-  /**
-   * Update an existing Blast Database Node.
-   */
-  public function testJBrowseInstanceNodeUpdate() {
-    module_load_include('inc', 'node', 'node.pages');
-
-    if (!module_exists('tripal_jbrowse')) {
-      $this->markTestSkipped('No need to test if not enabled.');
-    }
-    
-    // Log in the god user.
-    global $user;
-    $user = user_load(1);
-
-    // Create the node in the first place.
-    $seeder = \Tests\DatabaseSeeders\JBrowseInstanceNodeSeeder::seed();
-    $node = $seeder->getNode();
-
-    // Now use the form to edit it :-)
-    // Specifically, we will change the name, url and data directory.
-    $faker = Factory::create();
-    $form_state = array('values' => array());
-    $form_state['values']['title'] = $faker->words(5, true);
-    $form_state['values']['field_jburl']['und'][0]['url'] = 'https://jbrowse.org/code/JBrowse-1.15.4/';
-    $form_state['values']['field_datadir']['und'][0] = 'sample_data/json/modencode';
-    $form_state['values']['op'] = t('Save');
-
-    // Execute the node creation form.
-    drupal_form_submit('jbrowse_instance_node_form', $form_state, $node);
-
-    // Retrieve any errors.
-    $errors = form_get_errors();
-    // Assert that there must not be any.
-    $this->assertEmpty($errors, 'Form submission returned the following errors:'.print_r($errors,TRUE));
-
-    // Check that there is a test jbrowse instance.
-    $result = db_query('SELECT * FROM {node} WHERE title=:name',
-      array(':name' => $form_state['values']['title']));
-    $this->assertEquals(1, $result->rowCount(), 'Unable to select the JBrowse Instance using the name.');
-
-    // log out the god user.
-    $user = drupal_anonymous_user();
-  }
-
-  /**
-   * Test deleting a node.
-   * NOTE: We cannot test this via drupal_form_submit() since it requires a confirmation.
-   */
-}