Hello everybody,
is anyone else having problems with the inline opening of files?
I seem to run out of heapspace every now and then even if i
dont do much in the background. (I am using jmol als an import for
my java applet). It crashes especially with big files such as nmr-Files.
However if i load them directly with jmol there is no error and they
get displayed correctly.
Also sometimes i get the error below. Anyone an idea why i am getting
it and how i can fix it?
Cheers
Franz
FileManager.openStringInline(,0,0,0,0)
SmarterJmolAdapter:The Resolver thinks:Pdb
: String index out of range: 70
java.lang.String - 1935 - substring
org.jmol.adapter.smarter.PdbReader - 482 - het
org.jmol.adapter.smarter.PdbReader - 102 - readAtomSetCollection
org.jmol.adapter.smarter.Resolver - 69 - resolve
org.jmol.adapter.smarter.SmarterJmolAdapter - 66 - openBufferedReader
org.jmol.viewer.FileManager$FileOpenThread - 527 - openBufferedReader
org.jmol.viewer.FileManager$FileOpenThread - 511 - run
org.jmol.viewer.FileManager - 179 - openStringInline
org.jmol.viewer.Viewer - 1153 - openStringInline
org.jmol.viewer.Viewer - 1212 - loadInline
org.jmol.viewer.Viewer - 1176 - loadInline
my.praktikum.PocketViewerPicker - 183 - Load_from_file
my.praktikum.CPocketViewerPicker - 211 - actionPerformed
javax.swing.AbstractButton - 1995 - fireActionPerformed
javax.swing.AbstractButton$Handler - 2318 - actionPerformed
javax.swing.DefaultButtonModel - 387 - fireActionPerformed
javax.swing.DefaultButtonModel - 242 - setPressed
javax.swing.plaf.basic.BasicButtonListener - 236 - mouseReleased
java.awt.Component - 6038 - processMouseEvent
javax.swing.JComponent - 3260 - processMouseEvent
java.awt.Component - 5803 - processEvent
java.awt.Container - 2058 - processEvent
java.awt.Component - 4410 - dispatchEventImpl
java.awt.Container - 2116 - dispatchEventImpl
java.awt.Component - 4240 - dispatchEvent
java.awt.LightweightDispatcher - 4322 - retargetMouseEvent
java.awt.LightweightDispatcher - 3986 - processMouseEvent
java.awt.LightweightDispatcher - 3916 - dispatchEvent
java.awt.Container - 2102 - dispatchEventImpl
java.awt.Component - 4240 - dispatchEvent
java.awt.EventQueue - 599 - dispatchEvent
java.awt.EventDispatchThread - 273 - pumpOneEventForFilters
java.awt.EventDispatchThread - 183 - pumpEventsForFilter
java.awt.EventDispatchThread - 173 - pumpEventsForHierarchy
java.awt.EventDispatchThread - 168 - pumpEvents
java.awt.EventDispatchThread - 160 - pumpEvents
java.awt.EventDispatchThread - 121 - run
error opening string
java.lang.StringIndexOutOfBoundsException: String index out of range: 70
> Von: "H. Paul Benton" <[EMAIL PROTECTED]>
> An: jmol-users@lists.sourceforge.net
> Betreff: Re: [Jmol-users] loading jmol file from open babel
> Datum: Mon, 22 Jan 2007 17:08:42 -0800
> Angel,
>
> I did the ../../ because the javascript was in java/jmol/ and the
> php was in the htdocs dir. However, I tried removing the ../.. and the
> java gave the errror of FileNotFound exception. I'm going to look at the
> script more and see if openbabel is causing problems.
>
> Thanks
>
> Research Technician
> Mass Spectrometry
> o The
> /
> o Scripps
> \
> o Research
> /
> o Institute
>
>
>
> Angel Herraez wrote:
> > Hi Paul
> >
> > I may be wrong, since I know no PHP, but it seems as if you are
> > reading "struct.mol"
> > writing "struct.xyz"
> > and then trying to load "../../struct.xyz"
> > which is on a different path
> >
> > Although that would give a Jmol error, not a webserver error.
> >
> > Can't you locate the line number where the error is?
> > Or simplify your code for testing, narrowing down the search.
> >
> >
> >
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