Hello,
I am new to this list, and I don't know whether this has been asked before.
I apologize before hand if there's duplication.
When I try to upload my reference and then draft genome to Mauve, I get an
error saying that java cannot bind my document to parent. I am running the
latest JRE version (8u102) on a 64-bit Windows computer. I understand that
it should work, because Mauve can work on 1.4 or later.
Could you please point out what could be the issue?
See details below:
Thank you!
Maryam
-------
shown
Exception in thread "AWT-EventQueue-0" java.lang.InternalError: Unable to
bind C:\Users\p270270\Desktop\CompGenTutorial\NC_011748.fna to parent
at sun.awt.shell.Win32ShellFolder2$4.call(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$4.call(Unknown Source)
at sun.awt.shell.Win32ShellFolderManager2$ComInvoker.invoke(Unknown
Source)
at sun.awt.shell.ShellFolder.invoke(Unknown Source)
at sun.awt.shell.Win32ShellFolder2.getIShellFolder(Unknown Source)
at sun.awt.shell.Win32ShellFolder2.access$200(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$16.call(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$16.call(Unknown Source)
at java.util.concurrent.FutureTask.run(Unknown Source)
at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at sun.awt.shell.Win32ShellFolderManager2$ComInvoker$3.run(Unknown
Source)
at java.lang.Thread.run(Unknown Source)
Exception in thread "AWT-EventQueue-0" java.lang.InternalError: Unable to
bind C:\Users\p270270\Desktop\CompGenTutorial\SRR292770_unordered.fasta to
parent
at sun.awt.shell.Win32ShellFolder2$4.call(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$4.call(Unknown Source)
at sun.awt.shell.Win32ShellFolderManager2$ComInvoker.invoke(Unknown
Source)
at sun.awt.shell.ShellFolder.invoke(Unknown Source)
at sun.awt.shell.Win32ShellFolder2.getIShellFolder(Unknown Source)
at sun.awt.shell.Win32ShellFolder2.access$200(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$16.call(Unknown Source)
at sun.awt.shell.Win32ShellFolder2$16.call(Unknown Source)
at java.util.concurrent.FutureTask.run(Unknown Source)
at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
at sun.awt.shell.Win32ShellFolderManager2$ComInvoker$3.run(Unknown
Source)
at java.lang.Thread.run(Unknown Source)
Copying...
C:\Users\p270270\Desktop\CompGenTutorial\NC_011748.fna\NC_011748.fna
to
C:\Users\p270270\Desktop\CompGenTutorial\MauveOutput\alignment1\NC_011748.fna
java.io.FileNotFoundException:
C:\Users\p270270\Desktop\CompGenTutorial\NC_011748.fna\NC_011748.fna (The
system cannot find the path specified)
at java.io.FileInputStream.open0(Native Method)
at java.io.FileInputStream.open(Unknown Source)
at java.io.FileInputStream.<init>(Unknown Source)
at org.gel.air.util.IOUtils.copyFile(Unknown Source)
at org.gel.mauve.contigs.ContigOrderer.copyInputFiles(Unknown Source)
at
org.gel.mauve.contigs.ContigMauveAlignFrame.alignButtonActionPerformed(Unknown
Source)
at org.gel.mauve.gui.AlignFrame$9.actionPerformed(Unknown Source)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown
Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$500(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
Source)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at
java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)
Running alignment.
Executing
win64\progressiveMauve
--output=C:\Users\p270270\Desktop\CompGenTutorial\MauveOutput\alignment1\alignment1
--skip-refinement
--weight=200
--output-guide-tree=C:\Users\p270270\Desktop\CompGenTutorial\MauveOutput\alignment1\alignment1.guide_tree
--backbone-output=C:\Users\p270270\Desktop\CompGenTutorial\MauveOutput\alignment1\alignment1.backbone
C:\Users\p270270\Desktop\CompGenTutorial\NC_011748.fna\NC_011748.fna
C:\Users\p270270\Desktop\CompGenTutorial\SRR292770_unordered.fasta\SRR292770_unordered.fasta
Exception FileNotOpened thrown from
Unknown() in ..\libGenome\gnFileSource.cpp 67
Called by Unknown()
Exited with error code: -1073741676
--
Maryam Chaib De Mares
M.Sc. Evolutionary Biology
PhD Candidate - Microbial Ecology Department
Groningen Institute for Evolutionary Life Sciences (GELIFES)
Rijksuniversiteit Groningen
Nijenborgh 7, 9747 AG Groningen
Linnaeusborg, room 0766
+31 50 363 2169
m.chaib.de.ma...@rug.nl
------------------------------------------------------------------------------
Check out the vibrant tech community on one of the world's most
engaging tech sites, SlashDot.org! http://sdm.link/slashdot
_______________________________________________
Mauve-users mailing list
Mauve-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/mauve-users
