Search found 63 matches
- Thu Nov 01, 2018 1:10 pm
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27340
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Here is the complete sequence of error messages I get with the first execution of the FreeSurfer=>Morphologist process. It starts with a warning saying that the UUID of the nobias volume had to be changed (while this file didn't exist previously in the DB): Launch T1BiasCorrection Warning: changed u...
- Thu Nov 01, 2018 11:20 am
- Forum: BrainVISA
- Topic: Error with process Import_FROM_FreeSurfer_TO_Morpho.py
- Replies: 6
- Views: 20576
Error with process Import_FROM_FreeSurfer_TO_Morpho.py
Any clue where is this error coming from? progress: 83.5714285714 / 100 ... Building left hemisphere attributed relational sulci graph... Traceback (most recent call last): File "/home/ftadel/IntrAnat/brainvisa-4.6.1-beta-Ubuntu-16.04_x86_64/bin/real-bin/AimsFoldsGraphThickness.py", line 8...
- Thu Nov 01, 2018 11:14 am
- Forum: BrainVISA
- Topic: Error message: htmllib.HTMLParseError: unexpected call to parse_starttag
- Replies: 1
- Views: 13357
Error message: htmllib.HTMLParseError: unexpected call to parse_starttag
I get a lot this error. It looks like an error in the error message display rather than in the process in itself. I suspect I miss some more interesting error messages because of this. How can I fix this? Launch VipGreyStatFromClassif to generate a histo analysis file Now run the last part of the re...
- Tue Oct 30, 2018 8:46 am
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27340
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
And a third blocking issue I get with the process Import_FROM_FreeSurfer_TO_Morpho.py . Sometimes it works, sometimes not... what am I doing wrong? progress: 83.5714285714 / 100 ... Building left hemisphere attributed relational sulci graph... Traceback (most recent call last): File "/home/ftad...
- Tue Oct 30, 2018 8:41 am
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27340
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
In the same context, I also have this other error regularly: Launch VipGreyStatFromClassif to generate a histo analysis file Now run the last part of the regular Morphologist pipeline. SkipSkip unselected unselected node: Image orientation handlingnode: progress: Image orientation handling 0.0 / 100...
- Tue Oct 30, 2018 8:24 am
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27340
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Now I get this: Launch T1BiasCorrection UUID conflict in database, uuid: 3f4fea27-3899-ddcc-b9ad-b9a83f3a1dbd error: UNIQUE constraint failed: _DISKITEMS_._uuid while inserting: /home/ftadel/IntrAnat/brainvisa_db/Epilepsy/0001BAR_FreeSurfer/t1mri/FreesurferAtlaspre_2016-11-27/default_analysis/nobias...
- Thu Oct 25, 2018 7:33 pm
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27340
Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Hello, I'm having this issue when trying to run Morphologist on a FreeSurfer segmentation. How is this possible that two files get attributed exactly the same UUID? How can I know which is the offending file, and what can I do to get around this issue? Thanks Francois Process Import FreeSurfer grey/...
- Wed Oct 24, 2018 10:03 am
- Forum: Anatomist
- Topic: Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
- Replies: 2
- Views: 14397
Re: Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
Great, it works!
I tried with maxVal=the number of colors, but without this option "absoluteMode".
Thanks!
I tried with maxVal=the number of colors, but without this option "absoluteMode".
Thanks!
- Tue Oct 23, 2018 6:44 pm
- Forum: Anatomist
- Topic: Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
- Replies: 2
- Views: 14397
Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
Hello I'm trying to display the FreeSurfer Destrieux atlas (aparc.a2009s+aseg.mgz) in Anatomist, with appropriate colors: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurferColorLUT The voxel values in this atlas go from 0 to 14175. To display the atlas correctly in anatomi...
- Fri Sep 07, 2018 3:43 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38289
Re: Difference of behavior in cutMesh
Ok thanks!
I'll wait for your update instead of trying to recode cutMesh on my end then.
(I will need both the Ubuntu16 and Mandriva2008 versions... sorry for the added work)
I'll wait for your update instead of trying to recode cutMesh on my end then.
(I will need both the Ubuntu16 and Mandriva2008 versions... sorry for the added work)
- Fri Sep 07, 2018 2:37 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38289
Re: Difference of behavior in cutMesh
Thanks Btw, I am "subscribed" to the topic but I don't receive the new posts by email. I checked the preferences of my account and it all seems to indicate that I should receive notifications by email. So I just keep the page open and refresh it from time to time... Is there anything I'm n...
- Wed Sep 05, 2018 1:52 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38289
Re: Difference of behavior in cutMesh
Any update on this topic?
Should I start looking for another solution?
Should I start looking for another solution?
- Fri Aug 31, 2018 7:34 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38289
Difference of behavior in cutMesh
Hello, I noticed a weird difference of behavior between the stable 4.6.0 and a recent 4.6.1 build that Denis sent me (Ubuntu16). Consider the following code: mesh = aims.read("/home/ftadel/test_cutmesh/test_mesh.gii") testcut = aims.AimsSurfaceTriangle() border = aims.AimsTimeSurface(2) ai...
- Mon May 28, 2018 2:40 pm
- Forum: Anatomist
- Topic: Registration issue
- Replies: 3
- Views: 13497
Re: Registration issue
It looks like it's working when I do it when starting anatomist from the command line. But I haven't managed to make it work yet when starting anatomist from a python script. These two preferences to change are not saved from one session to the next. How do I set this programmatically? (after callin...
- Mon May 28, 2018 11:37 am
- Forum: Anatomist
- Topic: Registration issue
- Replies: 3
- Views: 13497
Registration issue
Hello, I have a non-isotropic volume (t1pre.nii) that I have processed with FreeSurfer. I have imported the FreeSurfer output back to my BrainVISA database with the "Freesurfer outputs To BrainVisa conversion pipeline". I want to display the FreeSurfer/MarsAtlas parcellation together with ...