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Bug 221 - "Export to SWC" option in Simple Neurite Tracer can include temporary path
"Export to SWC" option in Simple Neurite Tracer can include temporary path
Status: RESOLVED FIXED
Product: Fiji
Classification: Unclassified
Component: Plugins
unspecified
PC Mac OS
: P2 normal
Assigned To: Mark Longair
Depends on:
Blocks:
 
Reported: 2010-08-18 12:04 CDT by Mark Longair
Modified: 2010-08-19 09:56 CDT
1 user (show)

See Also:
Description Mark Longair 2010-08-18 12:04:08 CDT 
Yihwa Kim discovered this problem, described in this comment:

   http://pacific.mpi-cbg.de/cgi-bin/bugzilla/﷒0﷓

I'm working on discovering how this could happen...
Comment 1 Mark Longair 2010-08-18 12:20:43 CDT 
One way of reproducing this is to take the following steps:

 - Create a completed path ("Path (0)")

 - Select "Path (0)"

 - Start a path at another point in the stack and click (with the join modifier key) on "Path (0)".

 - Click "No" to cancel this temporary path

 - Click "Cancel" to cancel the second path entirely

 - Click on "Export to SWC", and the error is produced.
Comment 2 Mark Longair 2010-08-18 13:49:17 CDT 
This bug is fixed in the most recent version of Simple Neurite Tracer.  You can get the new version via Help > Update Fiji.

Thank you for reporting this bug and helping to improve the software.

regards,
mark
Comment 3 Yihwa Kim 2010-08-19 03:15:40 CDT 
You're welcome
Thanks a lot for fixing this problem very quickly!!
 
Now it exports fine. 
However I have another question. 
In the current reconstruction, the reconstructed point don't seem to pass through the center of the actual neurites or the end point that I gave was a bit off from the actual neurite location. 
How could this problem be saved? 
Could this be solved via FitVolume or Hessian-based analysis? 

Thank you in advance!
Comment 4 Mark Longair 2010-08-19 09:56:41 CDT 
(In reply to comment #3)
> You're welcome
> Thanks a lot for fixing this problem very quickly!!
> 
> Now it exports fine. 
> However I have another question. 
> In the current reconstruction, the reconstructed point don't seem to pass
> through the center of the actual neurites or the end point that I gave was a
> bit off from the actual neurite location. 
> How could this problem be saved? 
> Could this be solved via FitVolume or Hessian-based analysis? 
> 
> Thank you in advance! 

Could I ask that you send this question to the fiji-users mailing list ( http://groups.google.com/group/fiji-users ) or to me by email?  Each bug report should just be about the bug in question.

many thanks,
mark