Class jalview.schemes.ColourSchemesTest

all > jalview.schemes > ColourSchemesTest
4

tests
0

failures
0

ignored
0.080s

duration
100%

successful
Test Duration Result
testGetColourScheme 0.057s passed
testGetColourSchemes 0.001s passed
testNameExists 0.001s passed
testRegisterColourScheme 0.021s passed 
Java version: 11.0.25
Java Home: /srv/bamboo/home/bamboo/buildtools/jdk/jdk-11-linux-x64/jdk
amd64 Linux 3.10.0-1160.24.1.el7.x86_64
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5cee020e
Attempting to connect with AAConWS...
loading services
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@abbc816
Attempting to connect with RNAalifoldWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@4f96ed3b
Attempting to connect with JronnWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@1b0f0138
Attempting to connect with DisemblWS...
Could not make Java version check
File format identified as Fasta
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@7f7e0566
Attempting to connect with GlobPlotWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@6fc7aea6
deregistering discoverer listener
File format identified as Fasta
INFO: I18N missing key with root label.colourScheme_: en_GB	label.colourScheme_stripy
INFO: I18N missing key with root label.colourScheme_: en_GB	label.colourScheme_myclustal

INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Feb 28, 2025 2:55:45 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Loaded Sequence Ontology from so-xp-simple.obo.zip (18ms)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Feb 28, 2025 2:55:45 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Feb 28, 2025 2:55:46 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
Feb 28, 2025 2:55:46 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440)
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180)
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172)
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110)
	at jalview.gui.AlignFrame.lambda$buildWebServicesMenu$8(AlignFrame.java:4704)
	at java.desktop/java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:313)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:770)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:721)
	at java.desktop/java.awt.EventQueue$4.run(EventQueue.java:715)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:740)
	at java.desktop/java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:203)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:124)
	at java.desktop/java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:113)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:109)
	at java.desktop/java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
	at java.desktop/java.awt.EventDispatchThread.run(EventDispatchThread.java:90)
Could not load jar:file:/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB665-JOB1/build/clover/clover-classes/!/.build_properties
INFO - Discovering jws1 services
INFO - Reloading services for jalview.ws2.client.slivka.SlivkaWSDiscoverer
INFO - Fetching list of services from https://www.compbio.dundee.ac.uk/slivka/
Invalid or corrupt date in property 'JALVIEW_NEWS_RSS_LASTMODIFIED' : value was 'Apr 23, 2014 2:53:26 PM'
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Feb 28, 2025 2:55:46 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Feb 28, 2025 2:55:46 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Reloading services for jalview.ws2.client.ebi.JobDispatcherWSDiscoverer
INFO - Fetching list of services from https://www.ebi.ac.uk/Tools/services/rest/hmmer3_phmmer/
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4