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@@ -1,132 +0,0 @@
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-<?php
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-namespace Tests\tripal_jbrowse;
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-
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-use StatonLab\TripalTestSuite\DBTransaction;
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-use StatonLab\TripalTestSuite\TripalTestCase;
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-use Faker\Factory;
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-
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-/**
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- * Tests the JBrowse Instance Node Type.
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- */
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-class jbrowseInstanceNodeTest extends TripalTestCase {
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- // Uncomment to auto start and rollback db transactions per test method.
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- use DBTransaction;
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-
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- /**
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- * JBrowse Instance Node Type exists.
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- *
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- * Check that the JBrowse Instance node type exists. It should be created
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- * when the module is installed by the Drupal Node API.
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- */
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- public function testJbrowseInstanceNodeTypeExists() {
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-
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- // Get a list of all types available.
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- $types = node_type_get_types();
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-
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- // The JBrowse Instance node type must be in the list.
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- $this->assertArrayHasKey('jbrowse_instance', $types, '"JBrowse Instance" node type is not registered with Drupal.');
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-
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- // Check that the expected fields exist and are attached to the JBrowse instance node type.
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- // First retrieve all fields for this node type.
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- $fields = field_info_instances('node', 'jbrowse_instance');
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- // Now check that those important to us, exist.
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- $this->assertArrayHasKey('field_jburl', $fields,
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- 'The "Existing JBrowse URL" field is not attached to the JBrowse Instance node type.');
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- $this->assertArrayHasKey('field_datadir', $fields,
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- 'The "Data Directory" field is not attached to the JBrowse Instance node type.');
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- $this->assertArrayHasKey('field_jbloc', $fields,
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- 'The "Start Location" field is not attached to the JBrowse Instance node type.');
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- $this->assertArrayHasKey('field_jbtracks', $fields,
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- 'The "Tracks to Display" field is not attached to the JBrowse Instance node type.');
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- }
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-
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- /**
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- * Test Creating a JBrowse Instance Node.
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- *
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- * Note: We can't test this by submitting the form via PUT because it requires
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- * permission to access /node/add/jbrowse_instance; however, we don't yet have a
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- * way to do this with TripalTestSuite. Furthermore, testing HTTP Requests
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- * would not give us access to the data added via the test due to database
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- * transactions.
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- */
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- public function testJBrowseInstanceNodeCreate() {
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- module_load_include('inc', 'node', 'node.pages');
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-
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- // Log in the god user.
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- global $user;
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- $user = user_load(1);
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- $node = array('type' => 'jbrowse_instance');
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-
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- // Fill in the form.
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- $faker = Factory::create();
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- $form_state = array('values' => array());
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- $form_state['values']['title'] = $faker->words(3, true);
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- $form_state['values']['field_jburl']['und'][0]['url'] = 'https://jbrowse.org/code/JBrowse-1.15.4/';
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- $form_state['values']['field_datadir']['und'][0] = 'sample_data/json/volvox';
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- $form_state['values']['field_jbloc']['und'][0] = 'ctgA:1..11000';
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- $form_state['values']['field_jbtracks']['und'][0] = 'DNA,Genes,volvox-sorted-vcf,volvox_microarray_bw_density,volvox_bb';
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- $form_state['values']['op'] = t('Save');
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-
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- // Execute the node creation form.
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- drupal_form_submit('jbrowse_instance_node_form', $form_state, (object) $node);
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-
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- // Retrieve any errors.
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- $errors = form_get_errors();
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-
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- // Assert that there must not be any.
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- $this->assertEmpty($errors, 'Form submission returned the following errors:'.print_r($errors,TRUE));
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-
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- // Check that there is a test jbrowse instance.
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- $result = db_query('SELECT * FROM {node} WHERE title=:name',
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- array(':name' => $form_state['values']['title']));
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- $this->assertEquals(1, $result->rowCount(), 'Unable to select the JBrowse Instance using the name.');
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-
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- // log out the god user.
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- $user = drupal_anonymous_user();
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- }
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-
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- /**
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- * Update an existing Blast Database Node.
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- */
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- public function testJBrowseInstanceNodeUpdate() {
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- module_load_include('inc', 'node', 'node.pages');
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-
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- // Log in the god user.
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- global $user;
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- $user = user_load(1);
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-
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- // Create the node in the first place.
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- $seeder = \Tests\DatabaseSeeders\JBrowseInstanceNodeSeeder::seed();
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- $node = $seeder->getNode();
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-
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- // Now use the form to edit it :-)
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- // Specifically, we will change the name, url and data directory.
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- $faker = Factory::create();
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- $form_state = array('values' => array());
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- $form_state['values']['title'] = $faker->words(5, true);
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- $form_state['values']['field_jburl']['und'][0]['url'] = 'https://jbrowse.org/code/JBrowse-1.15.4/';
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- $form_state['values']['field_datadir']['und'][0] = 'sample_data/json/modencode';
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- $form_state['values']['op'] = t('Save');
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-
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- // Execute the node creation form.
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- drupal_form_submit('jbrowse_instance_node_form', $form_state, $node);
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-
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- // Retrieve any errors.
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- $errors = form_get_errors();
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- // Assert that there must not be any.
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- $this->assertEmpty($errors, 'Form submission returned the following errors:'.print_r($errors,TRUE));
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-
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- // Check that there is a test jbrowse instance.
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- $result = db_query('SELECT * FROM {node} WHERE title=:name',
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- array(':name' => $form_state['values']['title']));
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- $this->assertEquals(1, $result->rowCount(), 'Unable to select the JBrowse Instance using the name.');
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-
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- // log out the god user.
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- $user = drupal_anonymous_user();
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- }
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-
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- /**
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- * Test deleting a node.
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- * NOTE: We cannot test this via drupal_form_submit() since it requires a confirmation.
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- */
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-}
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Lacey Sanderson