Class jalview.io.CrossRef2xmlTests

File format identified as Jalview
registry.getSupportedServices: [RNAalifoldWS, AAConWS, MuscleWS, ClustalWS, ClustalOWS, DisemblWS, MSAprobsWS, MafftWS, GLprobsWS, IUPredWS, TcoffeeWS, GlobPlotWS, ProbconsWS, JronnWS]
Attempting to connect with MafftWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@3460720
Attempting to connect with MuscleWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@2e578ff6
Attempting to connect with ClustalWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@4bc31d4a
Attempting to connect with ClustalOWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@673a6954
Attempting to connect with TcoffeeWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@12e8c65c
Attempting to connect with ProbconsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@4ae3f1f1
Attempting to connect with MSAprobsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5ebb7c6c
Attempting to connect with GLprobsWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@7b04106a
Attempting to connect with AAConWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@2dbcd46c
Attempting to connect with RNAalifoldWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@496b2d90
Attempting to connect with JronnWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@4ee9caeb
Attempting to connect with DisemblWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@44c54dd1
Attempting to connect with GlobPlotWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@53660159
Attempting to connect with IUPredWS...
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@65cc1fe

DEBUG - (Re)-Initialising the discovery URL list.
DEBUG - Setting default services
DEBUG - Firing service changed event for []
DEBUG - A MsaWS service called Muscle Multiple Protein Sequence Alignment exists at http://www.compbio.dundee.ac.uk/JalviewWS/services/MuscleWS

DEBUG - A MsaWS service called MAFFT Multiple Sequence Alignment exists at http://www.compbio.dundee.ac.uk/JalviewWS/services/MafftWS

DEBUG - A MsaWS service called ClustalW Multiple Sequence Alignment exists at http://www.compbio.dundee.ac.uk/JalviewWS/services/ClustalWS

DEBUG - A SecStrPred service called JPred Secondary Structure Prediction exists at http://www.compbio.dundee.ac.uk/JalviewWS/services/jpred

DEBUG - No service endpoints to use for service discovery.
DEBUG - Firing service changed event for []
DEBUG - Firing service changed event for []
DEBUG - Starting news thread.
DEBUG - Filechooser init thread finished.
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
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Rebuild WS Menu for service change
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Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
DEBUG - Constructing news reader.
DEBUG - Scanning news items: newsnew=false and lastDate is Thu Aug 13 13:06:04 BST 2020
DEBUG - Completed construction of reader.
DEBUG - Completed news thread.
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connectToRegistry
INFO: Connected to RegistryWS successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
Aug 13, 2020 12:06:04 PM compbio.ws.client.Jws2Client connect
INFO: Connected successfully!
DEBUG - Firing service changed event for [jalview.ws.jws2.jabaws2.Jws2Instance@673a6954, jalview.ws.jws2.jabaws2.Jws2Instance@5ebb7c6c, jalview.ws.jws2.jabaws2.Jws2Instance@7b04106a, jalview.ws.jws2.jabaws2.Jws2Instance@4bc31d4a, jalview.ws.jws2.jabaws2.Jws2Instance@2e578ff6, jalview.ws.jws2.jabaws2.Jws2Instance@3460720, jalview.ws.jws2.jabaws2.Jws2Instance@4ae3f1f1, jalview.ws.jws2.jabaws2.Jws2Instance@12e8c65c, jalview.ws.jws2.jabaws2.Jws2Instance@2dbcd46c, jalview.ws.jws2.jabaws2.Jws2Instance@44c54dd1, jalview.ws.jws2.jabaws2.Jws2Instance@53660159, jalview.ws.jws2.jabaws2.Jws2Instance@65cc1fe, jalview.ws.jws2.jabaws2.Jws2Instance@4ee9caeb, jalview.ws.jws2.jabaws2.Jws2Instance@496b2d90]
DEBUG - Firing service changed event for [jalview.ws.jws2.jabaws2.Jws2Instance@673a6954, jalview.ws.jws2.jabaws2.Jws2Instance@5ebb7c6c, jalview.ws.jws2.jabaws2.Jws2Instance@7b04106a, jalview.ws.jws2.jabaws2.Jws2Instance@4bc31d4a, jalview.ws.jws2.jabaws2.Jws2Instance@2e578ff6, jalview.ws.jws2.jabaws2.Jws2Instance@3460720, jalview.ws.jws2.jabaws2.Jws2Instance@4ae3f1f1, jalview.ws.jws2.jabaws2.Jws2Instance@12e8c65c, jalview.ws.jws2.jabaws2.Jws2Instance@2dbcd46c, jalview.ws.jws2.jabaws2.Jws2Instance@44c54dd1, jalview.ws.jws2.jabaws2.Jws2Instance@53660159, jalview.ws.jws2.jabaws2.Jws2Instance@65cc1fe, jalview.ws.jws2.jabaws2.Jws2Instance@4ee9caeb, jalview.ws.jws2.jabaws2.Jws2Instance@496b2d90]
DEBUG - Firing service changed event for [jalview.ws.jws2.jabaws2.Jws2Instance@673a6954, jalview.ws.jws2.jabaws2.Jws2Instance@5ebb7c6c, jalview.ws.jws2.jabaws2.Jws2Instance@7b04106a, jalview.ws.jws2.jabaws2.Jws2Instance@4bc31d4a, jalview.ws.jws2.jabaws2.Jws2Instance@2e578ff6, jalview.ws.jws2.jabaws2.Jws2Instance@3460720, jalview.ws.jws2.jabaws2.Jws2Instance@4ae3f1f1, jalview.ws.jws2.jabaws2.Jws2Instance@12e8c65c, jalview.ws.jws2.jabaws2.Jws2Instance@2dbcd46c, jalview.ws.jws2.jabaws2.Jws2Instance@44c54dd1, jalview.ws.jws2.jabaws2.Jws2Instance@53660159, jalview.ws.jws2.jabaws2.Jws2Instance@65cc1fe, jalview.ws.jws2.jabaws2.Jws2Instance@4ee9caeb, jalview.ws.jws2.jabaws2.Jws2Instance@496b2d90]
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
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Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
Rebuild WS Menu for service change
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DEBUG - Created new dataset ds01 for alignment 1144912124
DEBUG - Scanning news items: newsnew=false and lastDate is Thu Aug 13 13:06:04 BST 2020
DEBUG - Saved last read date as 13 Aug 2020, 13:06:04
DEBUG - Scanning news items: newsnew=false and lastDate is Thu Aug 13 13:06:04 BST 2020
DEBUG - Saved last read date as 13 Aug 2020, 13:06:04
DEBUG - Scanning news items: newsnew=false and lastDate is Thu Aug 13 13:06:04 BST 2020
DEBUG - Saved last read date as 13 Aug 2020, 13:06:04
DEBUG - Not enabling Google Tracking.
DEBUG - Setting viewport's sequence set id : 40932922564112
DEBUG - Setting viewport's view id : 409329225.45476459264112
Warning - overwriting a sequenceSetId for a viewport!