[Freesurfer] SOLVED? recon on all subjects error: on "CA Reg Inv" but "CA Reg" fails cause "CUDA Error in file '../include/ctfactory.hpp' on line 76 : out of memory."

2013-07-21 Thread r . navarra
Hi. only to notify that witout -use_gpu it worked :) Riccardo - Messaggio inoltrato da r.nava...@itab.unich.it - Data: Sat, 20 Jul 2013 11:59:47 +0200 Da: r.nava...@itab.unich.it Oggetto: recon on all subjects error: on "CA Reg Inv" but "CA Reg" fails cause "CUDA Error in f

[Freesurfer] [Tracula] ERRORS in Tracula Preprocessing

2013-07-21 Thread r . navarra
Hi Vivian, did you solve your issue? I got (almost) same error, not "Too many )'s." but "ERROR: flag ; unrecognized" and the final "trac-preproc exited with ERRORS ... IsRunningFile: Undefined variable." Thank you. Riccardo -

Re: [Freesurfer] possible to use multiple B value DTI in Tracula?

2013-07-22 Thread r . navarra
Hi, did you try specifying values in bvals file? (set bvalfile=... ) Riccardo Salil Soman ha scritto: > Hi, > > I was wondering - is it possible to use DTI data of multiple B values in > Tracula (acquired during the same session and same TE)? > > Best wishes, > > Sal > > Salil Soman, MD, MS >

[Freesurfer] [Tracula] Run trac-all with 2 time points for DTI scan but 1 time point for T1 scan. How to?

2013-07-22 Thread r . navarra
Hi, I need to run trac-all on subjects scanned first time in T1 and DTI, second time DTI only. How to configure dmrirc? I've seen long.example but it seems that it require T1 second run too. Tnx, Riccardo ___ Freesurfer mailing list Freesurfer@nmr.mgh

[Freesurfer] mgz to nii.gz... T1 and ROIs. Is there a way to do (5) from command line?

2011-07-19 Thread r . navarra
Hi FS expert. I need to port my T1 and a couple of ROIs from mgz to nii.gz. The same for many subjects. The issue's about dimensions. When I use fslview, it respond me that "All overlays must have same dimensions as the base image!". Indeed T1's 256x256x256 with voxel sizee 1mm3, ROIs are d

Re: [Freesurfer] mgz to nii.gz... T1 and ROIs. Is there a way to do (5) from command line?

2011-07-20 Thread r . navarra
Hi Bruce, (4) open in mricon t1_zero and use roi1 as overlay...anyway -rl option is what I was looking for! :D Thank you New pipiline is: (command line:) (a) mri_convert t1.mgz t1.nii.gz (b) for roiX -> mri_convert roiX.mgz roiX.nii.gz -rl t1.mgz (it works with t1.nii.gz also ) Thank you