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Bug 287 - sholl analysis with simple neurite tracer
sholl analysis with simple neurite tracer
Status: RESOLVED FIXED
Product: Fiji
Classification: Unclassified
Component: Plugins
unspecified
PC Windows
: P4 normal
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2011-02-15 14:25 CST by Rona Baron
Modified: 2011-05-17 16:44 CDT
2 users (show)

See Also:


Attachments
Screenshot on Windows (143.37 KB, image/jpeg)
2011-05-17 09:42 CDT, Johannes Schindelin

Description Rona Baron 2011-02-15 14:25:48 CST
I can't generate a graph, the error that apears is "failed to write out the graph point"
however "make sholl image" works, as well as "export detailed results..."
This error apears in all the options that I choose : "Use standard axes" or "use semi-log... etc'
Thanks,
Rona

Information about your version of Java - this information is useful for the Fiji developers:

  os.arch => x86
  os.name => Windows XP
  os.version => 5.1
  java.version => 1.6.0_20
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_20-b02
  java.vm.name => Java HotSpot(TM) Client VM
  java.vm.version => 16.3-b01
  java.vm.vendor => Sun Microsystems Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => windows
  file.separator => \

The up-to-date check says: Up-to-date

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: D:\Fiji.app/java/win32/jdk1.6.0_20/jre
  fiji.dir => D:\Fiji.app

Information about the version of each plugin:

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Comment 1 Johannes Schindelin 2011-02-15 15:22:23 CST
Thank you for the report. As was requested in http://groups.google.com/group/fiji-users/browse_thread/thread/9b54f1e4b9e86897/1bf00d55be3ae024#1bf00d55be3ae024 it would be good to have a screenshot of the options.

A real world-class report would include a recipe how to reproduce from the first to the last step, of course.
Comment 2 Johannes Schindelin 2011-03-23 15:46:35 CDT
Assuming that this bug was fixed in the meantime. If that is not correct, please supply more information and reopen the report.
Comment 3 lakej 2011-05-17 03:13:31 CDT
Sorry, I don't have much in the way of additional information except to say that this bug is not fixed and affects both win32 computers I've tried it on (XP 32-bit) running the latest (up to date as of 5/16/11) Fiji.

It does not, however, affect my copy of Fiji on OS X (10.6.5) also updated the same day. All traces were of single 2D images, not stacks. 

Also, the "Add to results" table does nothing.

screenshot:
http://imageshack.us/photo/my-images/707/failtowriteoutthegraphp.png/
Comment 4 Johannes Schindelin 2011-05-17 09:42:45 CDT
Created attachment 45
Screenshot on Windows

Attaching a further compressed version of the screenshot, also to avoid having to send people to a website that closes windows and pops up new ones with advertisements.
Comment 5 Mark Longair 2011-05-17 11:04:24 CDT
(In reply to comment #3)
> Sorry, I don't have much in the way of additional information except to say
> that this bug is not fixed and affects both win32 computers I've tried it on
> (XP 32-bit) running the latest (up to date as of 5/16/11) Fiji.
> 
> It does not, however, affect my copy of Fiji on OS X (10.6.5) also updated the
> same day. All traces were of single 2D images, not stacks. 
> 
> Also, the "Add to results" table does nothing.
> 
> screenshot:
> http://imageshack.us/photo/my-images/707/failtowriteoutthegraphp.png/

Thanks for the update.  One of my tasks for today is to try to find a Windows machine for some Fiji testing and I'll look into this if I succeed.

Comment 6 Mark Longair 2011-05-17 16:20:59 CDT
OK, I think I've fixed this now - it was a really stupid mistake, leaving in some debugging code that only works on particular systems.

Could you try updating Fiji with Help > Update Fiji and check that this now works for you?
Comment 7 lakej 2011-05-17 16:44:00 CDT
It works now!