72ca2b02e36e794d3ceadac2133af10588a35d49
gperez2
  Fri Aug 21 11:46:00 2026 -0700
Commenting out the alt and fix patch sequence hgBlat browser link click-through steps due to hgBlat's new results page no longer having a "browser" link, and updating the allGenomes checkbox id to blat_allGenomes after it changed, No RM

diff --git src/utils/qa/qaTestScript.py src/utils/qa/qaTestScript.py
index 8e1c7c51ce5..87e0c3fd51e 100755
--- src/utils/qa/qaTestScript.py
+++ src/utils/qa/qaTestScript.py
@@ -422,51 +422,55 @@
 #driver.find_element(By.XPATH, "//div[@id='firstSection']/table/tbody/tr/td/table/tbody/tr/td/table/tbody/tr[2]/td[2]/div[2]/pre/a").click()
 #driver.find_element(By.XPATH, "//td[@id='td_data_hgUserPsl']/div[2]/map/area").click()
 time.sleep(3)
 #driver.find_element(By.XPATH, "//div[@id='firstSection']/table/tbody/tr/td/table/tbody/tr/td/table/tbody/tr[2]/td[2]/a").click()
 time.sleep(3)
 driver.get(machine + "/cgi-bin/hgGateway?db=hg38")
 
 
 # Tests hgBlat for alt patch sequence
 driver.get(machine + "/cgi-bin/hgGateway?db=hg38")
 hover_and_click(driver, "tools3", "blatMenuLink")
 driver.find_element(By.NAME, "userSeq").clear()
 driver.find_element(By.NAME, "userSeq").send_keys("CACACTGTGGATGACATCCAGCAGATCGCTGCTGCGCTGGCCCAGTGCATGGTAGGATGGCCCCACATGCTCTCCCCGCCCCGCATGCCTGCCAGGGTACTGGGTTCAGCCCCCCAGGGCAGACGGGCAGCTTGGCCGAGGAGCTGAGCCTCCAGCCTGGGC")
 driver.find_element(By.NAME, "Submit").click()
 time.sleep(3)
-driver.find_element(By.LINK_TEXT, "browser").click()
+# Same new hgBlat results page issue as the earlier hgBlat test block (no "browser"
+# link, blatNewPage=1 by default). Commented out until the new page settles.
+#driver.find_element(By.LINK_TEXT, "browser").click()
 #driver.find_element(By.XPATH, "//div[@id='firstSection']/table/tbody/tr/td/table/tbody/tr/td/table/tbody/tr[2]/td[2]/div[2]/pre/a").click()
 time.sleep(3)
-driver.find_element(By.XPATH, "//td[@id='td_data_altSeqLiftOverPsl']/div[2]/map/area[3]").click()
+#driver.find_element(By.XPATH, "//td[@id='td_data_altSeqLiftOverPsl']/div[2]/map/area[3]").click()
 time.sleep(3)
-driver.find_element(By.LINK_TEXT, "Show chr16_KI270853v1_alt placed on its chromosome").click()
+#driver.find_element(By.LINK_TEXT, "Show chr16_KI270853v1_alt placed on its chromosome").click()
 time.sleep(3)
 
 # Tests hgBlat for fix patch sequence
 driver.get(machine + "/cgi-bin/cartReset")
 driver.get(machine + "/cgi-bin/hgGateway?db=hg38")
 hover_and_click(driver, "tools3", "blatMenuLink")
 driver.find_element(By.NAME, "userSeq").clear()
 driver.find_element(By.NAME, "userSeq").send_keys("GTTTTTTCTCCTATGGCATGCAGGCGACATGTTACTTCCTATTCCCATAAACCCTCCACTGTAGGATTAACACCTAAGACACCAACCAAGACAAAAAAGATATGACCCTTGGT")
 driver.find_element(By.NAME, "Submit").click()
 time.sleep(3)
-driver.find_element(By.LINK_TEXT, "browser").click()
+# Same new hgBlat results page issue as the earlier hgBlat test blocks (no "browser"
+# link, blatNewPage=1 by default). Commented out until the new page settles.
+#driver.find_element(By.LINK_TEXT, "browser").click()
 #driver.find_element(By.XPATH, "//div[@id='firstSection']/table/tbody/tr/td/table/tbody/tr/td/table/tbody/tr[2]/td[2]/div[2]/pre/a").click()
 time.sleep(3)
-driver.find_element(By.XPATH, "//td[@id='td_data_fixSeqLiftOverPsl']/div[2]/map/area[4]").click()
-driver.find_element(By.LINK_TEXT, "Show chr1_MU273333v1_fix placed on its chromosome").click()
+#driver.find_element(By.XPATH, "//td[@id='td_data_fixSeqLiftOverPsl']/div[2]/map/area[4]").click()
+#driver.find_element(By.LINK_TEXT, "Show chr1_MU273333v1_fix placed on its chromosome").click()
 time.sleep(3)
 
 # Tests hgPcr for hg38
 driver.get(machine + "/cgi-bin/hgGateway?db=hg38")
 time.sleep(2)
 hover_and_click(driver, "tools3", "ispMenuLink")
 driver.find_element(By.NAME, "wp_f").clear()
 driver.find_element(By.NAME, "wp_f").send_keys("AACAAAATCAAACTGTTTTTGTTGGACAATTCTCTGTTAAGCAGCTATAA")
 driver.find_element(By.NAME, "wp_r").clear()
 driver.find_element(By.NAME, "wp_r").send_keys("AACTGTTCTTTTATTTTAAAGGGTTTACACTGCCACATCTGAATGGACTA")
 driver.find_element(By.NAME, "wp_flipReverse").click()
 driver.find_element(By.NAME, "Submit").click()
 time.sleep(3)
 driver.find_element(By.LINK_TEXT, "chrX:40059679+40060178").click()
 time.sleep(3)
@@ -580,30 +584,30 @@
 else:
      driver.find_element(By.XPATH, "//td[@id='td_data_hub_37972_multiWig4']/div[2]/map/area").click()
 
 # Tests hub with HAL tracks
 driver.get(machine + "/cgi-bin/cartReset")
 driver.set_page_load_timeout(300)
 driver.get(machine + "/cgi-bin/hgTracks?hubUrl=https://genecats.gi.ucsc.edu/qa/hubTesting/CICHLID2023/myHub/hub.txt&genome=hub_68124_Anc0&position=lastDbPos")
 driver.set_page_load_timeout(120)
 driver.get(machine + "/cgi-bin/hgTracks")
 driver.find_element(By.ID, "positionInput").clear()
 
 # Tests hgBlat All and Monk Seal/Human MYLK Protein
 driver.get(machine + "/cgi-bin/cartReset")
 driver.get(machine + "/cgi-bin/hgGateway?db=hg19")
 hover_and_click(driver, "tools3", "blatMenuLink")
-driver.find_element(By.ID, "allGenomes").click()
+driver.find_element(By.ID, "blat_allGenomes").click()
 driver.find_element(By.NAME, "userSeq").clear()
 driver.find_element(By.NAME, "userSeq").send_keys("MIPDTDLQVQLASRNRVGECSCQVSLMLQSSPGRAPLRGREPVSCEGLCS\\nQGAGAHGAGGDCYGTLRPGWPARGQGWPEEEDGEDVRGLLKRRVETRQHT\\nEEAIRQQEVEQLDFRDLLGKKVSTKTVSEEDLKEIPAEQMDFRANLQRQV\\nKPKTVSEEERKVHSPQQVDFRSVLAKKGTPKTPVPEKAPLPKPATPDFRS\\nVLGSKKKLPAENGSNNAEALNAKAAESPKAVSNAQPLGSLKPLGNAKPAE\\nTLRPVGNAKPAEPTKPVDNTKLAETLKPIGNAKPAETPKPMGNA")
 driver.find_element(By.NAME, "Submit").click()
 driver.find_element(By.ID, "res0").click()
 time.sleep(3)
 
 # Tests hgFind.matches cart variable
 driver.get(machine + "/cgi-bin/cartReset")
 driver.get(machine + "/cgi-bin/hgTracks?position=chr2:25,485,759-25,487,667&ignoreCookie=1&db=hg19&hgFind.matches=this&filterAlign=pack")
 driver.find_element(By.ID, "goButton").click()
 
 # Closes the current window on which Selenium is running
 driver.quit()
 sys.exit()