Posted by
Jörg Hammel on
Jan 23, 2013; 8:39am
URL: http://imagej.273.s1.nabble.com/Problems-loading-TrakEM-XML-files-tp5001502.html
Hi,
We have recently had problems with the very nice TrakEM plugin in Fiji.
Since a very short time we have difficulties opening saved TrakEM projects
on two Win7 x64 machines. The projects have been set up on the same machine.
However, even downgrading to an earlier version of Fiji, e.g. one of the
Heidelberg releases doesnt fix the problem.
The error logs we keep getting are basically the following ones:
Restarted mipmap Executor Service for all projects with 4 threads.
Fatal error: column=12 line=313
==================
ERROR:
org.xml.sax.SAXParseException: An invalid XML character (Unicode: 0x{2}) was
found in the value of attribute "{1}" and element is "0".
at
com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.parse(AbstractS
AXParser.java:1231)
at
com.sun.org.apache.xerces.internal.jaxp.SAXParserImpl$JAXPSAXParser.parse(SA
XParserImpl.java:522)
at javax.xml.parsers.SAXParser.parse(SAXParser.java:395)
at
ini.trakem2.persistence.FSLoader.openFSProject(FSLoader.java:291)
at ini.trakem2.Project.openFSProject(Project.java:554)
at ini.trakem2.Project.openFSProject(Project.java:544)
at ini.trakem2.Open_Project.run(Open_Project.java:34)
at ij.IJ.runUserPlugIn(IJ.java:184)
at ij.IJ.runPlugIn(IJ.java:151)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native
Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39
)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:597)
at ij.Command.runPlugIn(Command.java:148)
at ij.Command.runCommand(Command.java:97)
at ij.Executer.run(Executer.java:64)
at java.lang.Thread.run(Thread.java:662)
==================
And from the TrakEM SystemLog:
MAX_MEMORY: 6188294144
cache size: 2475317760
project file path 1: E:/Henry/Master/2006a_usb02/TrakEM/test/untitled.xml
Loader.openFSProject: path is null
storage folder is E:/Henry/Master/2006a_usb02/TrakEM/test/
Restarted mipmap Executor Service for all projects with 4 threads.
mipmaps folder is
E:/Henry/Master/2006a_usb02/TrakEM/test/trakem2.1358868921994.42186459.21116
42674/trakem2.mipmaps/
Set mipmap format to 4
parsed: layer_mipmaps=true
parsed: n_mipmap_threads=4
parsed: n_undo_steps=32
parsed: look_ahead_cache=0
WARNING: could not delete crash detector file .open.t2 from trakem2.mipmaps
folder at
E:/Henry/Master/2006a_usb02/TrakEM/test/trakem2.1358868921994.42186459.21116
42674/trakem2.mipmaps/
MAX_MEMORY: 6188294144
cache size: 2475317760
project file path 1: E:/Henry/Master/2006a_usb02/TrakEM/test/untitled.xml
Loader.openFSProject: path is null
storage folder is E:/Henry/Master/2006a_usb02/TrakEM/test/
Restarted mipmap Executor Service for all projects with 4 threads.
mipmaps folder is
E:/Henry/Master/2006a_usb02/TrakEM/test/trakem2.1358868921994.42186459.21116
42674/trakem2.mipmaps/
Set mipmap format to 4
parsed: layer_mipmaps=true
parsed: n_mipmap_threads=4
parsed: n_undo_steps=32
parsed: look_ahead_cache=0
WARNING: could not delete crash detector file .open.t2 from trakem2.mipmaps
folder at
E:/Henry/Master/2006a_usb02/TrakEM/test/trakem2.1358868921994.42186459.21116
42674/trakem2.mipmaps/
Any help and suggestions are highly appreciated. I assume it is somehow
related to a configuration problem, not really a bug in the software.
However, we have no idea in what we should have a look any further.
Best
Jörg
_________________________________________________
Dr. Jörg U. Hammel
Institut für Spezielle Zoologie und Evolutionsbiologie mit Phyletischem
Museum
Erbertstr. 1
07743 Jena
T: +49 3641 949173
M: <mailto:
[hidden email]>
[hidden email]
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http://www.uni-jena.de/szeb.html> www.uni-jena.de/szeb.html
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