Java version: 1.5.0_18
sparc SunOS 5.10
Error reading properties file: java.io.FileNotFoundException: /home/psgendb/.jalview_properties (No such file or directory)
Jalview Version: 2.4.0.b2
# INFO: Setting default net timeout to 30 seconds.
Java Accessibility Bridge for GNOME loaded.

../gtk-2.0-key/gtkrc:10: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:18: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:29: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:31: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:32: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:33: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:34: Binding assignment is unsupported, ignoring
(C) 2003-2007 Jmol Development
Jmol Version 11.0.2  2007-04-24 19:38
java.vendor:Sun Microsystems Inc.
java.version:1.5.0_18
os.name:SunOS


FileManager.openFile(/var/tmp/jalview_pdb4232821374157862840.txt,0,0,0,0)
FileManager opening /var/tmp/jalview_pdb4232821374157862840.txt
SmarterJmolAdapter:The Resolver thinks:Pdb
SmarterJmolAdapter:het: FES
SmarterJmolAdapter:hetero: FES FE2/S2 (INORGANIC) CLUSTER
SmarterJmolAdapter:setunitcellitem 6 0.032257996
SmarterJmolAdapter:setunitcellitem 7 0.0
SmarterJmolAdapter:setunitcellitem 8 0.0
SmarterJmolAdapter:setunitcellitem 9 0.0
SmarterJmolAdapter:setunitcellitem 10 0.0
SmarterJmolAdapter:setunitcellitem 11 0.025523
SmarterJmolAdapter:setunitcellitem 12 0.0
SmarterJmolAdapter:setunitcellitem 13 0.0
SmarterJmolAdapter:setunitcellitem 14 0.0
SmarterJmolAdapter:setunitcellitem 15 0.0
SmarterJmolAdapter:setunitcellitem 16 0.011973
SmarterJmolAdapter:setunitcellitem 17 0.0
openFile(/var/tmp/jalview_pdb4232821374157862840.txt,0,0,0,0)130 ms
frame: haveSymmetry:false haveUnitcells:true haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
measurement[0] = [2, 734, 664, 1.328 nm]
INFO - Not enabling Google Tracking.
INFO - http://www.compbio.dundee.ac.uk/JalviewWS/services/jpred Job Id '/jobs/www-jpred/jp_C63fBED'
Verifying against UNIPROT
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
INFO - Loading mapping descriptors from jar:file:/home/psgendb/java/Jalview2.4/jalview.jar!/uniprot_mapping.xml
Error getUniprotEntries() Premature end of file.
Verifying against PDB
Ignoring invalid pdb query: 'AF11'
Ignoring invalid pdb query: 'AF12'
Ignoring invalid pdb query: 'GMU1'
Ignoring invalid pdb query: 'BOAJ'
Ignoring invalid pdb query: 'BOAJ'
Ignoring invalid pdb query: 'ZMA1'
Verifying against UniProtKB/TrEMBL
No proxy for UniProtKB/TrEMBL
INFO - http://www.compbio.dundee.ac.uk/JalviewWS/services/jpred Job Id '/jobs/www-jpred/jp_vzxFzSs'
Java version: 1.5.0_18
sparc SunOS 5.10
Jalview Version: 2.4.0.b2
# INFO: Setting default net timeout to 30 seconds.
Java Accessibility Bridge for GNOME loaded.

../gtk-2.0-key/gtkrc:10: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:18: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:29: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:31: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:32: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:33: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:34: Binding assignment is unsupported, ignoring
Opening file: /home/psgendb/tutorials/GDE/multalign/bio2913166016992685367.tmp.fsa
INFO - Not enabling Google Tracking.
Java version: 1.5.0_18
sparc SunOS 5.10
Jalview Version: 2.4.0.b2
# INFO: Setting default net timeout to 30 seconds.
Java Accessibility Bridge for GNOME loaded.

../gtk-2.0-key/gtkrc:10: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:18: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:29: Binding specification is unsupported, ignoring
../gtk-2.0-key/gtkrc:31: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:32: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:33: Binding assignment is unsupported, ignoring
../gtk-2.0-key/gtkrc:34: Binding assignment is unsupported, ignoring
Opening file: /home/psgendb/tutorials/GDE/multalign/bio4432435374727566541.tmp.fsa
INFO - Not enabling Google Tracking.
