PHP WebDriverBy::linkText方法代码示例

 public function testAddSummaryVariantOnlyDescribedOnGenomicLevel()
 {
     // Wait for redirect
     $this->waitUntil(WebDriverExpectedCondition::titleContains("View genomic variant"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants\\/0000000003$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::id("tab_submit"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*Please reconsider to submit individual data as well, as it makes the data you submit much more valuable![\\s\\S]*$/', $this->getConfirmation()));
     $this->chooseOkOnNextConfirmation();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&reference=Genome$/', $this->driver->getCurrentURL()));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Paternal (confirmed)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="chromosome"]/option[text()="15"]'));
     $option->click();
     $this->enterValue(WebDriverBy::name("VariantOnGenome/DNA"), "g.40702976G>T");
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     // Move mouse to let browser hide tooltip of pubmed link (needed for chrome)
     $this->driver->getMouse()->mouseMove(null, 200, 200);
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "11/10000");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
 }

 public function testPostFinishAddPhenotypeInfoToIVAIndividual()
 {
     $element = $this->driver->findElement(WebDriverBy::id("tab_individuals"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/individuals\\/IVD$/', $this->driver->getCurrentURL()));
     //        $element = $this->driver->findElement(WebDriverBy::cssSelector("#00000002 > td.ordered"));
     $element = $this->driver->findElement(WebDriverBy::xpath("//td[text()='00000002']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/individuals\\/00000002$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::id("viewentryOptionsButton_Individuals"));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("Add phenotype information to individual"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/phenotypes[\\s\\S]create&target=00000002$/', $this->driver->getCurrentURL()));
     $this->enterValue(WebDriverBy::name("Phenotype/Additional"), "Additional phenotype information");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="Phenotype/Inheritance"]/option[text()="Familial"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin (#00001)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create phenotype information entry']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
     // Wait for page redirect.
     $this->waitUntil(WebDriverExpectedCondition::titleContains("View phenotype"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/phenotypes\\/0000000003$/', $this->driver->getCurrentURL()));
 }

 public function testAddVariantLocatedWithinGeneToCMTIndividual()
 {
     // Wait for redirect
     $this->waitUntil(WebDriverExpectedCondition::titleContains("Submission of"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit\\/screening\\/0000000001$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&target=0000000001$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath('//b[contains(., "A variant that is located within a gene")]'));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("GJB1"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&reference=Transcript&geneid=GJB1&target=0000000001$/', $this->driver->getCurrentURL()));
     $this->uncheck(WebDriverBy::name("ignore_00000001"));
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/Exon"), "2");
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/DNA"), "c.34G>T");
     $element = $this->driver->findElement(WebDriverBy::cssSelector("button.mapVariant"));
     $element->click();
     // Wait until RNA description field is filled after AJAX request.
     $firstRNAInputSelector = '(//input[contains(@name, "VariantOnTranscript/RNA")])[1]';
     $this->waitUntil(function ($driver) use($firstRNAInputSelector) {
         $firstRNAInput = $driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
         $firstRNAValue = $firstRNAInput->getAttribute('value');
         return !empty($firstRNAValue);
     });
     // Check RNA description for first transcript.
     $firstRNAInput = $this->driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
     $firstRNAValue = $firstRNAInput->getAttribute('value');
     $this->assertTrue((bool) preg_match('/^r\\.\\([\\s\\S]\\)$/', $firstRNAValue));
     // Check protein description for first transcript.
     $firstProteinInputSelector = '(//input[contains(@name, "VariantOnTranscript/Protein")])[1]';
     $firstProteinInput = $this->driver->findElement(WebDriverBy::xpath($firstProteinInputSelector));
     $firstProteinValue = $firstProteinInput->getAttribute('value');
     $this->assertEquals("p.(Gly12Cys)", $firstProteinValue);
     $GenomicDNAChange = $this->driver->findElement(WebDriverBy::name('VariantOnGenome/DNA'));
     $this->assertEquals("g.70443591G>T", $GenomicDNAChange->getAttribute('value'));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Maternal (confirmed)"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     // Move mouse to let browser hide tooltip of pubmed link (needed for chrome)
     $this->driver->getMouse()->mouseMove(null, 200, 200);
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "0.003");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin (#00001)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     $this->assertEquals("Successfully created the variant entry!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testPostFinishAddPhenotypeInfoToCMTIndividual()
 {
     // Wait for redirect
     $this->waitUntil(WebDriverExpectedCondition::titleContains("Submission of"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit\\/screening\\/0000000003$/', $this->driver->getCurrentURL()));
     // Move mouse to Individuals tab and click 'view all individuals' option.
     $tabElement = $this->driver->findElement(WebDriverBy::id("tab_individuals"));
     $this->driver->getMouse()->mouseMove($tabElement->getCoordinates());
     $allIndividualsLink = $this->driver->findElement(WebDriverBy::partialLinkText('View all individuals'));
     $allIndividualsLink->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/individuals$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::cssSelector("td.ordered"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/individuals\\/00000001$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::id("viewentryOptionsButton_Individuals"));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("Add phenotype information to individual"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/phenotypes[\\s\\S]create&target=00000001$/', $this->driver->getCurrentURL()));
     $this->enterValue(WebDriverBy::name("Phenotype/Additional"), "Additional phenotype information");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="Phenotype/Inheritance"]/option[text()="Familial"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create phenotype information entry']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
     // Wait for redirect
     $this->waitUntil(WebDriverExpectedCondition::titleContains("View phenotype"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/phenotypes\\/0000000002$/', $this->driver->getCurrentURL()));
 }

 public function testAddVariantOnlyDescribedOnGenomicLevelToIVAIndividual()
 {
     // wait for page redirect
     $this->waitUntil(WebDriverExpectedCondition::titleContains("Submission of"));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit\\/screening\\/0000000002$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&target=0000000002$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//table[2]/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&reference=Genome&target=0000000002$/', $this->driver->getCurrentURL()));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Paternal (confirmed)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="chromosome"]/option[text()="15"]'));
     $option->click();
     $this->enterValue(WebDriverBy::name("VariantOnGenome/DNA"), "g.40702876G>T");
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     // Move mouse to let browser hide tooltip of pubmed link (needed for chrome)
     $this->driver->getMouse()->mouseMove(null, 200, 200);
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "11/10000");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin (#00001)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     $this->assertEquals("Successfully created the variant entry!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testCreateIndividualDiagnosedWithCMT()
 {
     $element = $this->driver->findElement(WebDriverBy::id("tab_submit"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/individuals[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $this->enterValue(WebDriverBy::name("Individual/Lab_ID"), "12345CMT");
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     // Move mouse to let browser hide tooltip of pubmed link (needed for chrome)
     $this->driver->getMouse()->mouseMove(null, 200, 200);
     $this->enterValue(WebDriverBy::name("Individual/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("Individual/Remarks"), "No Remarks");
     $this->enterValue(WebDriverBy::name("Individual/Remarks_Non_Public"), "Still no remarks");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="active_diseases[]"]/option[text()="CMT (Charcot Marie Tooth Disease)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin (#00001)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create individual information entry']"));
     $element->click();
     $this->assertEquals("Successfully created the individual information entry!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testAddVariantLocatedWithinGeneToHealthyIndividual()
 {
     // wait for page redirect
     $this->waitUntil(WebDriverExpectedCondition::presenceOfElementLocated(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b")));
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit\\/screening\\/0000000001$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&target=0000000001$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath('//b[contains(., "A variant that is located within a gene")]'));
     //        $element = $this->driver->findElement(WebDriverBy::xpath("//table[2]/tbody/tr/td[2]/b"));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//tr[@id='IVD']/td[2]"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&reference=Transcript&geneid=IVD&target=0000000001$/', $this->driver->getCurrentURL()));
     $this->uncheck(WebDriverBy::name("ignore_00000001"));
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/Exon"), "2");
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/DNA"), "c.456T>G");
     $element = $this->driver->findElement(WebDriverBy::cssSelector("button.mapVariant"));
     $element->click();
     // Wait until RNA description field is filled after AJAX request.
     $firstRNAInputSelector = '(//input[contains(@name, "VariantOnTranscript/RNA")])[1]';
     $this->waitUntil(function ($driver) use($firstRNAInputSelector) {
         $firstRNAInput = $driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
         $firstRNAValue = $firstRNAInput->getAttribute('value');
         return !empty($firstRNAValue);
     });
     // Check RNA description.
     $firstRNAInput = $this->driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
     $firstRNAValue = $firstRNAInput->getAttribute('value');
     $this->assertTrue((bool) preg_match('/^r\\.\\([\\s\\S]\\)$/', $firstRNAValue));
     // Check protein description.
     $firstProteinInputSelector = '(//input[contains(@name, "VariantOnTranscript/Protein")])[1]';
     $firstProteinInput = $this->driver->findElement(WebDriverBy::xpath($firstProteinInputSelector));
     $firstProteinValue = $firstProteinInput->getAttribute('value');
     $this->assertRegExp('/^p\\.\\(Tyr152[\\s\\S]*\\)$/', $firstProteinValue);
     $GenomicDNAChange = $this->driver->findElement(WebDriverBy::name('VariantOnGenome/DNA'));
     $this->assertEquals("g.40702987T>G", $GenomicDNAChange->getAttribute('value'));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Paternal (confirmed)"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "0.05");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin (#00001)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     $this->assertEquals("Successfully created the variant entry!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testMakeUserCurator()
 {
     $this->driver->get(ROOT_URL . "/src/genes/IVD?authorize");
     $element = $this->driver->findElement(WebDriverBy::linkText("Test Curator"));
     $element->click();
     $this->enterValue(WebDriverBy::xpath("//td/input[@type='password']"), "test1234");
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Save curator list']"));
     $element->click();
     $this->assertEquals("Successfully updated the curator list!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testCreateGenderColumn()
 {
     $this->driver->get(ROOT_URL . "/src/columns/Individual/Gender");
     $element = $this->driver->findElement(WebDriverBy::id("viewentryOptionsButton_Columns"));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("Enable column"));
     $element->click();
     $this->enterValue(WebDriverBy::name("password"), "test1234");
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Add/enable custom data column Individual/Gender']"));
     $element->click();
 }

 public function testPostFinishAddVariantOnlyDescribedOnGenomicLevelToCMT()
 {
     $this->logout();
     $this->login('collaborator', 'test1234');
     $this->driver->get(ROOT_URL . "/src/");
     // Move mouse to Screenings tab and click 'view all screenings' option.
     $tabElement = $this->driver->findElement(WebDriverBy::id("tab_screenings"));
     $this->driver->getMouse()->mouseMove($tabElement->getCoordinates());
     $allVariantsLink = $this->driver->findElement(WebDriverBy::partialLinkText('View all screenings'));
     $allVariantsLink->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/screenings$/', $this->driver->getCurrentURL()));
     //        $element = $this->driver->findElement(WebDriverBy::cssSelector("#0000000002 > td.ordered"));
     $element = $this->driver->findElement(WebDriverBy::xpath("//td[text()='0000000002']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/screenings\\/0000000002$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::id("viewentryOptionsButton_Screenings"));
     $element->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("Add variant to screening"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&target=0000000002$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//table[2]/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create&reference=Genome&target=0000000002$/', $this->driver->getCurrentURL()));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Maternal (confirmed)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="chromosome"]/option[text()="X"]'));
     $option->click();
     $this->enterValue(WebDriverBy::name("VariantOnGenome/DNA"), "g.40702876G>T");
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     // Move mouse to let browser hide tooltip of pubmed link (needed for chrome)
     $this->driver->getMouse()->mouseMove(null, 200, 200);
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "11/10000");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     for ($second = 0;; $second++) {
         if ($second >= 60) {
             $this->fail("timeout");
         }
         try {
             if ($this->isElementPresent(WebDriverBy::cssSelector("table[class=info]"))) {
                 break;
             }
         } catch (Exception $e) {
         }
         sleep(1);
     }
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
 }

 public function find(RemoteWebDriver $webDriver)
 {
     switch ($this->type) {
         case self::ID:
             return $webDriver->findElement(WebDriverBy::id($this->value));
         case self::CSS_SELECTOR:
             return $webDriver->findElement(WebDriverBy::cssSelector($this->value));
         case self::LINK_TEXT:
             return $webDriver->findElement(WebDriverBy::linkText($this->value));
         default:
             throw new \LogicException('Invalid element search type: ' . $this->type);
     }
 }

 public function testMakeUserCollaboratorGJB()
 {
     $this->driver->get(ROOT_URL . "/src/genes/GJB1?authorize");
     //        $this->selectWindow("null");
     $element = $this->driver->findElement(WebDriverBy::linkText("Test Collaborator"));
     $element->click();
     //        $this->uncheck("xpath=(//input[@name='allow_edit[]'])[2]");
     $this->uncheck(WebDriverBy::xpath("(//input[@name='allow_edit[]'])[2]"));
     $this->enterValue(WebDriverBy::xpath("//td/input[@type='password']"), "test1234");
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Save curator list']"));
     $element->click();
     $this->assertEquals("Successfully updated the curator list!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }

 public function testAddSummaryVariantVCFFile()
 {
     // Mouse hover over Submit tab, to make 'submit new data' link visible.
     $tabElement = $this->driver->findElement(WebDriverBy::xpath("//img[@id='tab_submit']"));
     $this->driver->getMouse()->mouseMove($tabElement->getCoordinates());
     $element = $this->driver->findElement(WebDriverBy::linkText("Submit new data"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*Please reconsider to submit individual data as well, as it makes the data you submit much more valuable![\\s\\S]*$/', $this->getConfirmation()));
     $this->chooseOkOnNextConfirmation();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//tr[3]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants\\/upload[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr/td[2]/b"));
     $element->click();
     $this->driver->get(ROOT_URL . "/src/variants/upload?create&type=VCF");
     $this->enterValue(WebDriverBy::name("variant_file"), ROOT_PATH . "../tests/test_data_files/ShortVCFfilev1.vcf");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="hg_build"]/option[text()="hg19"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="dbSNP_column"]/option[text()="VariantOnGenome/Reference"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="genotype_field"]/option[text()="Use Phred-scaled genotype likelihoods (PL)"]'));
     $option->click();
     $this->check(WebDriverBy::name("allow_mapping"));
     $this->check(WebDriverBy::name("allow_create_genes"));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Upload VCF file']"));
     $element->click();
     $this->assertEquals("25 variants were imported, 1 variant could not be imported.", $this->driver->findElement(WebDriverBy::id("lovd__progress_message"))->getText());
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Continue »']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
     for ($second = 0;; $second++) {
         if ($second >= 600) {
             $this->fail("timeout");
         }
         $this->driver->get(ROOT_URL . "/src/ajax/map_variants.php");
         if (strcmp("0 99 There are no variants to map in the database", $this->driver->findElement(WebDriverBy::tagName("body"))->getText())) {
             break;
         }
         $this->assertNotContains("of 25 variants", $this->driver->findElement(WebDriverBy::tagName("body"))->getText());
         sleep(1);
     }
 }

 public function testAddSummaryVariantSeattleseqFile()
 {
     // Mouse hover over Submit tab, to make 'submit new data' link visible.
     $tabElement = $this->driver->findElement(WebDriverBy::xpath("//img[@id='tab_submit']"));
     $this->driver->getMouse()->mouseMove($tabElement->getCoordinates());
     $element = $this->driver->findElement(WebDriverBy::linkText("Submit new data"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/submit$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*Please reconsider to submit individual data as well, as it makes the data you submit much more valuable![\\s\\S]*$/', $this->getConfirmation()));
     $this->chooseOkOnNextConfirmation();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//tr[3]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants\\/upload[\\s\\S]create$/', $this->driver->getCurrentURL()));
     $element = $this->driver->findElement(WebDriverBy::xpath("//div/table/tbody/tr/td/table/tbody/tr[2]/td[2]/b"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^[\\s\\S]*\\/src\\/variants\\/upload[\\s\\S]create&type=SeattleSeq$/', $this->driver->getCurrentURL()));
     $this->enterValue(WebDriverBy::name("variant_file"), ROOT_PATH . "../tests/test_data_files/ShortSeattleSeqAnnotation138v1.txt");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="hg_build"]/option[text()="hg19"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="dbSNP_column"]/option[text()="VariantOnGenome/Reference"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="autocreate"]/option[text()="Create genes and transcripts"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="LOVD3 Admin"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Upload SeattleSeq file']"));
     $this->clickNoTimeout($element);
     for ($second = 0;; $second++) {
         if ($second >= 300) {
             $this->fail("timeout");
         }
         try {
             if ($this->isElementPresent(WebDriverBy::xpath("//input[@value='Continue »']"))) {
                 break;
             }
         } catch (Exception $e) {
         }
         sleep(1);
     }
     $this->assertContains("138 variants were imported, 1 variant could not be imported.", $this->driver->findElement(WebDriverBy::id("lovd__progress_message"))->getText());
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Continue »']"));
     $element->click();
     $this->assertTrue((bool) preg_match('/^Successfully processed your submission and sent an email notification to the relevant curator[\\s\\S]*$/', $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText()));
 }

 public function testAddVariantLocatedWithinGeneToIVAIndividual()
 {
     $this->driver->get(ROOT_URL . "/src/variants?create&reference=Transcript&geneid=IVD&target=0000000001");
     $this->uncheck(WebDriverBy::name("ignore_00000001"));
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/Exon"), "2");
     $this->enterValue(WebDriverBy::name("00000001_VariantOnTranscript/DNA"), "c.345G>T");
     $element = $this->driver->findElement(WebDriverBy::cssSelector("button.mapVariant"));
     $element->click();
     // Wait until RNA description field is filled after AJAX request.
     $firstRNAInputSelector = '(//input[contains(@name, "VariantOnTranscript/RNA")])[1]';
     $this->waitUntil(function ($driver) use($firstRNAInputSelector) {
         $firstRNAInput = $driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
         $firstRNAValue = $firstRNAInput->getAttribute('value');
         return !empty($firstRNAValue);
     });
     // Check RNA description for first transcript.
     $firstRNAInput = $this->driver->findElement(WebDriverBy::xpath($firstRNAInputSelector));
     $firstRNAValue = $firstRNAInput->getAttribute('value');
     $this->assertTrue((bool) preg_match('/^r\\.\\([\\s\\S]\\)$/', $firstRNAValue));
     // Check protein description for first transcript.
     $firstProteinInputSelector = '(//input[contains(@name, "VariantOnTranscript/Protein")])[1]';
     $firstProteinInput = $this->driver->findElement(WebDriverBy::xpath($firstProteinInputSelector));
     $firstProteinValue = $firstProteinInput->getAttribute('value');
     $this->assertEquals("p.(Met115Ile)", $firstProteinValue);
     $GenomicDNAChange = $this->driver->findElement(WebDriverBy::name('VariantOnGenome/DNA'));
     $this->assertEquals("g.40702876G>T", $GenomicDNAChange->getAttribute('value'));
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="00000001_effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="allele"]/option[text()="Paternal (confirmed)"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::linkText("PubMed"));
     $element->click();
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Reference"), "{PMID:Fokkema et al (2011):21520333}");
     $this->enterValue(WebDriverBy::name("VariantOnGenome/Frequency"), "0.05");
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_reported"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="effect_concluded"]/option[text()="Effect unknown"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="owned_by"]/option[text()="Test Owner (#00006)"]'));
     $option->click();
     $option = $this->driver->findElement(WebDriverBy::xpath('//select[@name="statusid"]/option[text()="Public"]'));
     $option->click();
     $element = $this->driver->findElement(WebDriverBy::xpath("//input[@value='Create variant entry']"));
     $element->click();
     $this->assertEquals("Successfully created the variant entry!", $this->driver->findElement(WebDriverBy::cssSelector("table[class=info]"))->getText());
 }