Class jalview.project.Jalview2xmlTests

all > jalview.project > Jalview2xmlTests

tests

failures

ignored

32.164s

duration

94%

successful

Failed tests
Tests
Standard output
Standard error

testColourByAnnotScores

java.lang.AssertionError: Failed to import new project expected object to not be null
	at org.testng.Assert.fail(Assert.java:110)
	at org.testng.Assert.assertNotNull(Assert.java:1319)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1i97w87451j(Jalview2xmlTests.java:229)
	at jalview.project.Jalview2xmlTests.testColourByAnnotScores(Jalview2xmlTests.java:192)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)

Test	Duration	Result
gatherViewsHere	0.368s	passed
noDuplicatePdbMappingsMade	2.694s	passed
testColourByAnnotScores	0.245s	failed
testCopyViewSettings	3.437s	passed
testIsVersionStringLaterThan	0.001s	passed
testMergeDatasetsforManyViews	0.366s	passed
testMergeDatasetsforViews	0.093s	passed
testPcaViewAssociation	0.331s	passed
testRNAStructureRecovery	0.348s	passed
testSaveLoadFeatureColoursAndFilters	0.083s	passed
testStoreAndRecoverColourThresholds	0.141s	passed
testStoreAndRecoverExpandedviews	9.085s	passed
testStoreAndRecoverGeneLocus	0.074s	passed
testStoreAndRecoverGroupRepSeqs	0.172s	passed
testStoreAndRecoverHmmProfile	0.266s	passed
testStoreAndRecoverPDBEntry	0.942s	passed
testStoreAndRecoverReferenceSeqSettings	9.595s	passed
testTCoffeeScores	0.141s	passed
viewRefPdbAnnotation	3.782s	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
loading services
Could not make Java version check
File format identified as Jalview
registry.getSupportedServices: [RNAalifoldWS, ClustalWS, ProbconsWS, ClustalOWS, DisemblWS, JronnWS, TcoffeeWS, IUPredWS, MSAprobsWS, GlobPlotWS, MafftWS, GLprobsWS, MuscleWS, AAConWS]
Attempting to connect with MafftWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@27b0bb5b
Attempting to connect with MuscleWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@324b89f
Attempting to connect with ClustalWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@1f13d5b9
Attempting to connect with ClustalOWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@2f3161a4
Attempting to connect with TcoffeeWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5d71dada
Attempting to connect with ProbconsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@a1ae1b4
Attempting to connect with MSAprobsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@13a2ea67
Attempting to connect with GLprobsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5ab704cb
Attempting to connect with AAConWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@51d8562
Attempting to connect with RNAalifoldWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@2dd9b7c8
Attempting to connect with JronnWS...
deregistering discoverer listener
deregistering discoverer listener
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5afd26db
deregistering discoverer listener
deregistering discoverer listener
Attempting to connect with DisemblWS...
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@7cfe542e
Attempting to connect with GlobPlotWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@3df01fcc
Attempting to connect with IUPredWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@270ff83b
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 709.1/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession15133128526472862737.tmp)
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 580.3/891.3
processors available: 4
useCommandThread: false
FileManager opening file /tmp/viewerSession15133128526472862737.tmp
Time for openFile(/tmp/viewerSession15133128526472862737.tmp): 510 ms
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 5 ms
FileManager opening file /tmp/viewerSession15133128526472862737.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb15499305484240366179.txt)
FileManager opening file /tmp/jalview_pdb15499305484240366179.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb15499305484240366179.txt): 183 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
unrecognized SET parameter in Jmol state script (set anyway): usearcball
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 390.0/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 296.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
deregistering discoverer listener
ALL CLOSED
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
File format identified as Fasta
Time for creating model: 4 ms
deregistering discoverer listener
File format identified as Jalview
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 326.4/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession8586471107377022437.tmp)
FileManager opening file /tmp/viewerSession8586471107377022437.tmp
Time for openFile(/tmp/viewerSession8586471107377022437.tmp): 207 ms
FileManager opening file /tmp/viewerSession8586471107377022437.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb10916733884127017415.txt)
FileManager opening file /tmp/jalview_pdb10916733884127017415.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb10916733884127017415.txt): 201 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 4 ms
unrecognized SET parameter in Jmol state script (set anyway): usearcball
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 303.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 303.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 323.2/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 4 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 308.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Fasta
deregistering discoverer listener
deregistering discoverer listener
Writing jar entry 0uniref50.fa.xml
Writing jar entry 1uniref50.fa.xml
Writing jar entry 2uniref50.fa.xml
Writing jar entry 1888885883  Dataset for examples/uniref50.fa.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Stockholm
Writing jar entry RF00031_folded.stk.xml
Writing jar entry 1252914333  Dataset for examples/RF00031_folded.stk.xml
deregistering discoverer listener
File format identified as Jalview
Read in same number of annotations as originally present (61)
deregistering discoverer listener
ALL CLOSED
File format identified as Fasta
Writing jar entry Copied From Clipboard.xml
Writing jar entry 1068496545  Dataset for Copied From Clipboard.xml
deregistering discoverer listener
File format identified as Jalview
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Fasta
Writing jar entry uniref50.fa.xml
Writing jar entry 1636356584  Dataset for examples/uniref50.fa.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 435.3/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession13843586961934310768.tmp)
FileManager opening file /tmp/viewerSession13843586961934310768.tmp
Time for openFile(/tmp/viewerSession13843586961934310768.tmp): 210 ms
FileManager opening file /tmp/viewerSession13843586961934310768.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb10811812920797545999.txt)
FileManager opening file /tmp/jalview_pdb10811812920797545999.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb10811812920797545999.txt): 206 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
unrecognized SET parameter in Jmol state script (set anyway): usearcball
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 385.3/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 386.3/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 389.6/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 391.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 399.9/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
JMOL CREATE IMAGE
JMOL CREATE IMAGE
Writing jar entry viewer__jalview_pre2_4_512,285,363,365396702378797848224085276920969 (JMOL)
Writing jar entry 1A70 (1A70)
Writing jar entry MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry MAFFT Multiple Sequence Alignment of Retrieved from Uniprot_1.xml
Writing jar entry MAFFT Multiple Sequence Alignment of Retrieved from Uniprot_2.xml
Writing jar entry MAFFT Multiple Sequence Alignment of Retrieved from Uniprot_3.xml
Writing jar entry MAFFT Multiple Sequence Alignment of Retrieved from Uniprot_4.xml
Writing jar entry 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 442.0/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession14586654515126469440.tmp)
FileManager opening file /tmp/viewerSession14586654515126469440.tmp
Time for openFile(/tmp/viewerSession14586654515126469440.tmp): 220 ms
FileManager opening file /tmp/viewerSession14586654515126469440.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb8050411484867942439.txt)
FileManager opening file /tmp/jalview_pdb8050411484867942439.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb8050411484867942439.txt): 207 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 387.6/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 400.9/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 404.9/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 405.1/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 410.0/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Fasta
Writing jar entry Copied From Clipboard.xml
Writing jar entry 134027730  Dataset for Copied From Clipboard.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Fasta
deregistering discoverer listener
Writing jar entry 0uniref50.fa.xml
Writing jar entry 1uniref50.fa.xml
Writing jar entry 7578299  Dataset for examples/uniref50.fa.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Fasta
File format identified as HMMER3
Writing jar entry hmmer_0
Writing jar entry uniref50.hmm.xml
Writing jar entry hmmer_1
Writing jar entry uniref50.fa.xml
Writing jar entry 91848593  Dataset for examples/uniref50.hmm.xml
Writing jar entry 91848593  Dataset for examples/uniref50.fa.xml
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as PDB
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 571.1/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
ELECTRON TRANSPORT                      06-FEB-13   3W5V
CROSS-LINKED COMPLEX BETWEEN FERREDOXIN AND FERREDOXIN-NADP+ R
found biomolecule 1: A, D
biomolecule 1: number of transforms: 1
found biomolecule 2: C, B
biomolecule 2: number of transforms: 1
FAD = FLAVIN-ADENINE DINUCLEOTIDE
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 1 21 1
3W5V
reading 6290 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
6290 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 19 ms

blah
Writing jar entry 3W5V (3W5V)
Writing jar entry 3W5V.pdb.xml
Writing jar entry 1492337002  Dataset for examples/3W5V.pdb.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
blah
deregistering discoverer listener
ALL CLOSED
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 461.4/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession5079399168537415770.tmp)
FileManager opening file /tmp/viewerSession5079399168537415770.tmp
Time for openFile(/tmp/viewerSession5079399168537415770.tmp): 251 ms
FileManager opening file /tmp/viewerSession5079399168537415770.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb11757959647049276176.txt)
FileManager opening file /tmp/jalview_pdb11757959647049276176.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb11757959647049276176.txt): 220 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
unrecognized SET parameter in Jmol state script (set anyway): usearcball
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 414.9/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 412.1/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 425.0/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 429.1/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
JMOL CREATE IMAGE
JMOL CREATE IMAGE
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 429.7/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Writing jar entry viewer__jalview_pre2_4_512,285,363,365396702378797848224085276931658 (JMOL)
Writing jar entry 1A70 (1A70)
Writing jar entry 0MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 2MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 3MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 4MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
Writing jar entry 1107080170  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 454.2/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession18235173803373297663.tmp)
FileManager opening file /tmp/viewerSession18235173803373297663.tmp
Time for openFile(/tmp/viewerSession18235173803373297663.tmp): 230 ms
FileManager opening file /tmp/viewerSession18235173803373297663.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb2961571215790997543.txt)
FileManager opening file /tmp/jalview_pdb2961571215790997543.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb2961571215790997543.txt): 218 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 422.3/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 420.2/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 429.3/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 438.4/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 438.8/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
ALL CLOSED
File format identified as Fasta
Writing jar entry uniref50.fa.xml
Writing jar entry 1246553077  Dataset for examples/uniref50.fa.xml
deregistering discoverer listener
File format identified as Jalview
T-Coffee score shading successfully recovered from project.
deregistering discoverer listener
ALL CLOSED
File format identified as Jalview
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 470.7/891.3
processors available: 4
useCommandThread: false
appConsole Linux

FileManager.getAtomSetCollectionFromFile(/tmp/viewerSession17858782477519068018.tmp)
FileManager opening file /tmp/viewerSession17858782477519068018.tmp
Time for openFile(/tmp/viewerSession17858782477519068018.tmp): 250 ms
FileManager opening file /tmp/viewerSession17858782477519068018.tmp

FileManager.getAtomSetCollectionFromFile(/tmp/jalview_pdb5251601177533467187.txt)
FileManager opening file /tmp/jalview_pdb5251601177533467187.txt
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
Time for openFile(/tmp/jalview_pdb5251601177533467187.txt): 12 ms
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
unrecognized SET parameter in Jmol state script (set anyway): usearcball
measurement[0] = [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 427.6/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 3 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 428.9/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 6 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 439.2/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 443.4/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically
Time for creating model: 2 ms
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
deregistering discoverer listener
Operating headless display=null nographicsallowed=true
(C) 2015 Jmol Development
Jmol Version: 15.1.3  2018-01-29 21:09
java.vendor: Java: Eclipse Adoptium
java.version: Java 11.0.25
os.name: Linux
Access: ALL
memory: 447.6/891.3
processors available: 4
useCommandThread: false
The Resolver thinks Pdb
IRON-SULFUR PROTEIN                     19-MAR-98   1A70
SPINACH FERREDOXIN
FES = FE2/S2 (INORGANIC) CLUSTER
Setting space group name to P 21 21 21
1A70
reading 817 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
817 atoms created
deregistering discoverer listener
ALL CLOSED
ModelSet: autobonding; use  autobond=false  to not generate bonds automatically

INFO - Loaded Sequence Ontology from so-xp-simple.obo.zip (18ms)
INFO - Discovering jws1 services
Could not load jar:file:/srv/bamboo/bamboo-home/xml-data/build-dir/196609/JB-GDB665-JOB1/build/clover/clover-classes/!/.build_properties
INFO - Reloading services for jalview.ws2.client.slivka.SlivkaWSDiscoverer
INFO - Reloading services for jalview.ws2.client.ebi.JobDispatcherWSDiscoverer
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 - Fetching list of services from https://www.ebi.ac.uk/Tools/services/rest/hmmer3_phmmer/
INFO - Fetching list of services from https://www.compbio.dundee.ac.uk/slivka/
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
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
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
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
Warning - overwriting a sequenceSetId for a viewport!
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 2:55:12 PM compbio.ws.client.Jws2Client connectToRegistry
INFO: Connected to RegistryWS 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
Feb 28, 2025 2:55:12 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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Reloading services for jalview.ws2.client.jpred4.JPred4WSDiscoverer
INFO - Fetching list of services from https://www.compbio.dundee.ac.uk/jpred4/
Feb 28, 2025 2:55:12 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
Feb 28, 2025 2:55:12 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
Feb 28, 2025 2:55:12 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jobs dispatcher
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Rebuiling WS menu
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web service menu for slivka
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jobs dispatcher
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jobs dispatcher
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
WARN - java.lang.NullPointerException
java.lang.NullPointerException: null
	at jalview.ws2.gui.WebServicesMenuManager.isActionEnabled(WebServicesMenuManager.java:440) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addEntriesForAction(WebServicesMenuManager.java:180) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.addOneshotEntries(WebServicesMenuManager.java:172) ~[clover-classes/:?]
	at jalview.ws2.gui.WebServicesMenuManager.setServices(WebServicesMenuManager.java:110) ~[clover-classes/:?]
	at jalview.gui.AlignFrame.lambda$new$1(AlignFrame.java:986) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.fireServicesChanged(AbstractWebServiceDiscoverer.java:199) ~[clover-classes/:?]
	at jalview.ws2.client.api.AbstractWebServiceDiscoverer.lambda$startDiscoverer$1(AbstractWebServiceDiscoverer.java:178) ~[clover-classes/:?]
	at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:930) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:907) [?:?]
	at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:506) [?:?]
	at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:610) [?:?]
	at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:910) [?:?]
	at java.util.concurrent.CompletableFuture$Completion.exec(CompletableFuture.java:479) [?:?]
	at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:290) [?:?]
	at java.util.concurrent.ForkJoinPool$WorkQueue.topLevelExec(ForkJoinPool.java:1020) [?:?]
	at java.util.concurrent.ForkJoinPool.scan(ForkJoinPool.java:1656) [?:?]
	at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1594) [?:?]
	at java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:183) [?:?]
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 2:55:13 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 - 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
Warning - overwriting a sequenceSetId for a viewport!
Feb 28, 2025 2:55:13 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
Feb 28, 2025 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Feb 28, 2025 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Feb 28, 2025 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Feb 28, 2025 2:55:13 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
Feb 28, 2025 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
INFO - Building web services menu for jpred4
Feb 28, 2025 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
java.lang.NullPointerException
	at jalview.gui.TreeCanvas.<init>(TreeCanvas.java:132)
	at jalview.gui.TreePanel.initTreePanel(TreePanel.java:144)
	at jalview.gui.TreePanel.<init>(TreePanel.java:122)
	at jalview.gui.AlignFrame.showNewickTree(AlignFrame.java:4659)
	at jalview.gui.AlignFrame.showNewickTree(AlignFrame.java:4625)
	at jalview.project.Jalview2XML.loadTrees(Jalview2XML.java:4412)
	at jalview.project.Jalview2XML$9.run(Jalview2XML.java:4225)
	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)
WARN - There was a problem recovering stored Newick tree: 
(((FER1_MAIZE:35.666668,(FER1_ARATH:14.25,(FER3_RAPSA:10.5,FER2_ARATH:10.5):3.75):21.416668):7.083332,(FER1_MESCR:32.5,FER1_SPIOL:32.5):10.25):0.77083206,((FER_CAPAA:17.5,FER1_SOLLC:17.5):18.0,(Q7XA98_TRIPR:26.0,FER1_PEA:26.0):9.5):8.020832);
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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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 2:55:13 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Warning - overwriting a sequenceSetId for a viewport!
Feb 28, 2025 2:55:13 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
Allocating Jmol Viewer: 
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
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
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
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
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
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
Squashed Jmol callback handler error:
java.lang.NullPointerException
	at jalview.structures.models.AAStructureBindingModel.getFeatureRenderer(AAStructureBindingModel.java:1241)
	at jalview.ext.jmol.JalviewJmolBinding.notifyFileLoaded(JalviewJmolBinding.java:774)
	at jalview.ext.jmol.JalviewJmolBinding.processCallback(JalviewJmolBinding.java:534)
	at jalview.ext.jmol.JalviewJmolBinding$1.run(JalviewJmolBinding.java:516)
	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)
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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)
java.lang.NullPointerException
	at jalview.gui.TreeCanvas.<init>(TreeCanvas.java:132)
	at jalview.gui.TreePanel.initTreePanel(TreePanel.java:144)
	at jalview.gui.TreePanel.<init>(TreePanel.java:122)
	at jalview.gui.AlignFrame.showNewickTree(AlignFrame.java:4659)
	at jalview.gui.AlignFrame.showNewickTree(AlignFrame.java:4625)
	at jalview.project.Jalview2XML.loadTrees(Jalview2XML.java:4412)
	at jalview.project.Jalview2XML$9.run(Jalview2XML.java:4225)
	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)
WARN - There was a problem recovering stored Newick tree: 
(((FER1_MAIZE:35.666668,(FER1_ARATH:14.25,(FER3_RAPSA:10.5,FER2_ARATH:10.5):3.75):21.416668):7.083332,(FER1_MESCR:32.5,FER1_SPIOL:32.5):10.25):0.77083206,((FER_CAPAA:17.5,FER1_SOLLC:17.5):18.0,(Q7XA98_TRIPR:26.0,FER1_PEA:26.0):9.5):8.020832);
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)
java.lang.NullPointerException
	at jalview.project.Jalview2XML.storeAlignmentAnnotation(Jalview2XML.java:2399)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:1380)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:884)
	at jalview.project.Jalview2XML.saveAllFrames(Jalview2XML.java:710)
	at jalview.project.Jalview2XML.saveAlignment(Jalview2XML.java:815)
	at jalview.gui.AlignFrame.saveAlignment(AlignFrame.java:1697)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1i97w87451j(Jalview2xmlTests.java:222)
	at jalview.project.Jalview2xmlTests.testColourByAnnotScores(Jalview2xmlTests.java:192)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
java.lang.NullPointerException
	at jalview.gui.AppJmolBinding.releaseReferences(AppJmolBinding.java:175)
	at jalview.structure.StructureSelectionManager.removeStructureViewerListener(StructureSelectionManager.java:894)
	at jalview.gui.AlignmentPanel.closePanel(AlignmentPanel.java:1492)
	at jalview.gui.AlignFrame.closeMenuItem_actionPerformed(AlignFrame.java:2024)
	at jalview.gui.AlignFrame$6.internalFrameClosed(AlignFrame.java:1035)
	at java.desktop/javax.swing.JInternalFrame.fireInternalFrameEvent(JInternalFrame.java:1541)
	at java.desktop/javax.swing.JInternalFrame.dispose(JInternalFrame.java:1767)
	at java.desktop/javax.swing.JInternalFrame.setClosed(JInternalFrame.java:807)
	at jalview.gui.AlignFrame.closeMenuItem_actionPerformed(AlignFrame.java:2044)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1i97w87451j(Jalview2xmlTests.java:225)
	at jalview.project.Jalview2xmlTests.testColourByAnnotScores(Jalview2xmlTests.java:192)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AppJmolBinding$1.run(AppJmolBinding.java:115)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AppJmolBinding$1.run(AppJmolBinding.java:115)
	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
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Allocating Jmol Viewer: 
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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)
Assuming project file with null is compatible with Jalview version null
Assuming project file with null is compatible with Jalview version 2.8.3
Assuming project file with 2.8.3 is compatible with Jalview version null
Assuming project file with Development Build is compatible with Jalview version null
Assuming project file with DEVELOPMENT BUILD is compatible with Jalview version null
Assuming project file with Development Build is compatible with Jalview version 2.8.3
Assuming project file with Test is compatible with Jalview version null
Assuming project file with TEST is compatible with Jalview version null
Assuming project file with Test is compatible with Jalview version 2.8.3
Assuming project file with Automated Build is compatible with Jalview version null
Assuming project file with Automated Build is compatible with Jalview version 2.8.3
Assuming project file with AUTOMATED BUILD is compatible with Jalview version 2.8.3
Invalid version format found: For input string: "3B1"
Invalid version format found: For input string: "3B1"
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
	at jalview.gui.AlignmentPanel.getStructureSelectionManager(AlignmentPanel.java:1594)
	at jalview.gui.AppJmol.<init>(AppJmol.java:110)
	at jalview.gui.StructureViewer.createView(StructureViewer.java:377)
	at jalview.project.Jalview2XML$13.run(Jalview2XML.java:6351)
	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)
Warning - overwriting a sequenceSetId for a viewport!
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
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
DEBUG Notice:  Merged dataset sequence (if you see this often, post at http://issues.jalview.org/browse/JAL-1474)
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
INFO - Rebuiling WS menu
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Exception in thread "AWT-EventQueue-0" java.lang.ArrayIndexOutOfBoundsException: Index 2 out of bounds for length 2
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.paintTabArea(BasicTabbedPaneUI.java:897)
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.paint(BasicTabbedPaneUI.java:860)
	at java.desktop/javax.swing.plaf.metal.MetalTabbedPaneUI.paint(MetalTabbedPaneUI.java:933)
	at java.desktop/javax.swing.plaf.metal.MetalTabbedPaneUI.update(MetalTabbedPaneUI.java:814)
	at java.desktop/javax.swing.JComponent.paintComponent(JComponent.java:797)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1074)
	at java.desktop/javax.swing.JComponent.paintChildren(JComponent.java:907)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1083)
	at java.desktop/javax.swing.JComponent.paintChildren(JComponent.java:907)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1083)
	at java.desktop/javax.swing.JLayeredPane.paint(JLayeredPane.java:590)
	at java.desktop/javax.swing.JComponent.paintChildren(JComponent.java:907)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1083)
	at java.desktop/javax.swing.JComponent.paintChildren(JComponent.java:907)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1083)
	at java.desktop/javax.swing.JComponent.paintChildren(JComponent.java:907)
	at java.desktop/javax.swing.JComponent.paint(JComponent.java:1083)
	at java.desktop/javax.swing.JLayeredPane.paint(JLayeredPane.java:590)
	at java.desktop/javax.swing.JComponent.paintToOffscreen(JComponent.java:5255)
	at java.desktop/javax.swing.RepaintManager$PaintManager.paintDoubleBufferedImpl(RepaintManager.java:1643)
	at java.desktop/javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(RepaintManager.java:1618)
	at java.desktop/javax.swing.RepaintManager$PaintManager.paint(RepaintManager.java:1556)
	at java.desktop/javax.swing.BufferStrategyPaintManager.paint(BufferStrategyPaintManager.java:271)
	at java.desktop/javax.swing.RepaintManager.paint(RepaintManager.java:1323)
	at java.desktop/javax.swing.JComponent._paintImmediately(JComponent.java:5203)
	at java.desktop/javax.swing.JComponent.paintImmediately(JComponent.java:5013)
	at java.desktop/javax.swing.RepaintManager$4.run(RepaintManager.java:865)
	at java.desktop/javax.swing.RepaintManager$4.run(RepaintManager.java:848)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:848)
	at java.desktop/javax.swing.RepaintManager.paintDirtyRegions(RepaintManager.java:823)
	at java.desktop/javax.swing.RepaintManager.prePaintDirtyRegions(RepaintManager.java:772)
	at java.desktop/javax.swing.RepaintManager$ProcessingRunnable.run(RepaintManager.java:1890)
	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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Allocating Jmol Viewer: 
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Error writing Jalview project
java.util.zip.ZipException: duplicate entry: 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
	at java.base/java.util.zip.ZipOutputStream.putNextEntry(ZipOutputStream.java:233)
	at java.base/java.util.jar.JarOutputStream.putNextEntry(JarOutputStream.java:109)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:1741)
	at jalview.project.Jalview2XML.writeDatasetFor(Jalview2XML.java:863)
	at jalview.project.Jalview2XML.saveAllFrames(Jalview2XML.java:728)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:651)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:603)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1odp6yo455a(Jalview2xmlTests.java:454)
	at jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews(Jalview2xmlTests.java:433)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
Error writing Jalview project
java.util.zip.ZipException: duplicate entry: 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
	at java.base/java.util.zip.ZipOutputStream.putNextEntry(ZipOutputStream.java:233)
	at java.base/java.util.jar.JarOutputStream.putNextEntry(JarOutputStream.java:109)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:1741)
	at jalview.project.Jalview2XML.writeDatasetFor(Jalview2XML.java:863)
	at jalview.project.Jalview2XML.saveAllFrames(Jalview2XML.java:728)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:651)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:603)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1odp6yo455a(Jalview2xmlTests.java:454)
	at jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews(Jalview2xmlTests.java:433)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
Error writing Jalview project
java.util.zip.ZipException: duplicate entry: 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
	at java.base/java.util.zip.ZipOutputStream.putNextEntry(ZipOutputStream.java:233)
	at java.base/java.util.jar.JarOutputStream.putNextEntry(JarOutputStream.java:109)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:1741)
	at jalview.project.Jalview2XML.writeDatasetFor(Jalview2XML.java:863)
	at jalview.project.Jalview2XML.saveAllFrames(Jalview2XML.java:728)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:651)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:603)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1odp6yo455a(Jalview2xmlTests.java:454)
	at jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews(Jalview2xmlTests.java:433)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
Error writing Jalview project
java.util.zip.ZipException: duplicate entry: 1606301142  Dataset for MAFFT Multiple Sequence Alignment of Retrieved from Uniprot.xml
	at java.base/java.util.zip.ZipOutputStream.putNextEntry(ZipOutputStream.java:233)
	at java.base/java.util.jar.JarOutputStream.putNextEntry(JarOutputStream.java:109)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:1741)
	at jalview.project.Jalview2XML.writeDatasetFor(Jalview2XML.java:863)
	at jalview.project.Jalview2XML.saveAllFrames(Jalview2XML.java:728)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:651)
	at jalview.project.Jalview2XML.saveState(Jalview2XML.java:603)
	at jalview.project.Jalview2xmlTests.__CLR4_4_1odp6yo455a(Jalview2xmlTests.java:454)
	at jalview.project.Jalview2xmlTests.testStoreAndRecoverExpandedviews(Jalview2xmlTests.java:433)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.testng.internal.invokers.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:139)
	at org.testng.internal.invokers.TestInvoker.invokeMethod(TestInvoker.java:677)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethod(TestInvoker.java:221)
	at org.testng.internal.invokers.MethodRunner.runInSequence(MethodRunner.java:50)
	at org.testng.internal.invokers.TestInvoker$MethodInvocationAgent.invoke(TestInvoker.java:969)
	at org.testng.internal.invokers.TestInvoker.invokeTestMethods(TestInvoker.java:194)
	at org.testng.internal.invokers.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:148)
	at org.testng.internal.invokers.TestMethodWorker.run(TestMethodWorker.java:128)
	at java.base/java.util.ArrayList.forEach(ArrayList.java:1541)
	at org.testng.TestRunner.privateRun(TestRunner.java:829)
	at org.testng.TestRunner.run(TestRunner.java:602)
	at org.testng.SuiteRunner.runTest(SuiteRunner.java:437)
	at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:431)
	at org.testng.SuiteRunner.privateRun(SuiteRunner.java:391)
	at org.testng.SuiteRunner.run(SuiteRunner.java:330)
	at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52)
	at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:95)
	at org.testng.TestNG.runSuitesSequentially(TestNG.java:1256)
	at org.testng.TestNG.runSuitesLocally(TestNG.java:1176)
	at org.testng.TestNG.runSuites(TestNG.java:1099)
	at org.testng.TestNG.run(TestNG.java:1067)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141)
	at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90)
	at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:566)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36)
	at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24)
	at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33)
	at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94)
	at com.sun.proxy.$Proxy2.stop(Unknown Source)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100)
	at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60)
	at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133)
	at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69)
	at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Allocating Jmol Viewer: 
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web service menu for slivka
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Allocating Jmol Viewer: 
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
Exception in thread "AWT-EventQueue-0" java.lang.ArrayIndexOutOfBoundsException: Index 0 out of bounds for length 0
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.getTabBounds(BasicTabbedPaneUI.java:1733)
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.getTabBounds(BasicTabbedPaneUI.java:1668)
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.repaintTab(BasicTabbedPaneUI.java:2338)
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI.setFocusIndex(BasicTabbedPaneUI.java:2322)
	at java.desktop/javax.swing.plaf.basic.BasicTabbedPaneUI$Handler.focusGained(BasicTabbedPaneUI.java:4116)
	at java.desktop/java.awt.AWTEventMulticaster.focusGained(AWTEventMulticaster.java:227)
	at java.desktop/java.awt.Component.processFocusEvent(Component.java:6524)
	at java.desktop/java.awt.Component.processEvent(Component.java:6391)
	at java.desktop/java.awt.Container.processEvent(Container.java:2263)
	at java.desktop/java.awt.Component.dispatchEventImpl(Component.java:5011)
	at java.desktop/java.awt.Container.dispatchEventImpl(Container.java:2321)
	at java.desktop/java.awt.Component.dispatchEvent(Component.java:4843)
	at java.desktop/java.awt.KeyboardFocusManager.redispatchEvent(KeyboardFocusManager.java:1950)
	at java.desktop/java.awt.DefaultKeyboardFocusManager.typeAheadAssertions(DefaultKeyboardFocusManager.java:1050)
	at java.desktop/java.awt.DefaultKeyboardFocusManager.dispatchEvent(DefaultKeyboardFocusManager.java:674)
	at java.desktop/java.awt.Component.dispatchEventImpl(Component.java:4892)
	at java.desktop/java.awt.Container.dispatchEventImpl(Container.java:2321)
	at java.desktop/java.awt.Component.dispatchEvent(Component.java:4843)
	at java.desktop/java.awt.KeyboardFocusManager.dispatchAndCatchException(KeyboardFocusManager.java:2597)
	at java.desktop/java.awt.KeyboardFocusManager.processCurrentLightweightRequests(KeyboardFocusManager.java:2693)
	at java.desktop/java.awt.KeyboardFocusManager.retargetFocusEvent(KeyboardFocusManager.java:2942)
	at java.desktop/java.awt.Component.dispatchEventImpl(Component.java:4884)
	at java.desktop/java.awt.Container.dispatchEventImpl(Container.java:2321)
	at java.desktop/java.awt.Component.dispatchEvent(Component.java:4843)
	at java.desktop/java.awt.EventQueue.dispatchEventImpl(EventQueue.java:772)
	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.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:95)
	at java.desktop/java.awt.EventQueue$5.run(EventQueue.java:745)
	at java.desktop/java.awt.EventQueue$5.run(EventQueue.java:743)
	at java.base/java.security.AccessController.doPrivileged(Native Method)
	at java.base/java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:85)
	at java.desktop/java.awt.EventQueue.dispatchEvent(EventQueue.java:742)
	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
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Assuming project file with TEST is compatible with Jalview version 2.8.1
INFO - Rebuiling WS menu
INFO - Building web service menu for slivka
Warning - overwriting a sequenceSetId for a viewport!
INFO - Building web services menu for jobs dispatcher
INFO - Building web services menu for jpred4
Allocating Jmol Viewer: 
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Assuming project file with TEST is compatible with Jalview version 2.8.1
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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
Allocating Jmol Viewer: 
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
Unhandled callback MEASURE [[FES]1602.S1 #736, [THR]89.OG1 #665, 1.328 nm]
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
Warning - overwriting a sequenceSetId for a viewport!
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
Warning - overwriting a sequenceSetId for a viewport!
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

Class jalview.project.Jalview2xmlTests

Failed tests

testColourByAnnotScores