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Hi Cibu! Hmmm... Did you run the self evaluation of FSL FEEDS sucessfully? (cd <feeds_directory> and type /usr/bin/time ./RUN all) If yes, you might upload your data as Saad kindly proposed ;-) Hope you will finally find the problem! Markus 2009/2/4 Cibu <[log in to unmask]> > HI Markus > > Here's my response to your questions > > Have you alreay run dtifit on other subjects sucessully? > > (Yes, but it was with an earlier version of FSL (4.0). I upgraded to 4.1.2 > because of some problems I had running randomise) > > > Are you sure that there is no other process running on the data at the same > time? Also MATLAB, even if only in the path, can cause the NEWMAT error. > > (No other process, including matlab was running) > - Is the directory write-protected? > > (NO) > > Can you try to run dtifit on these data but on another place (copy them > elswhere)? > > I did as you recommended and still get the newmat error. > > > > Thanks for your help > > > > - Cibu > ------------------------------ > > *From:* FSL - FMRIB's Software Library [mailto:[log in to unmask]] *On > Behalf Of *Markus Gschwind > *Sent:* Tuesday, February 03, 2009 2:20 PM > > *To:* [log in to unmask] > *Subject:* Re: [FSL] Incompatible Dimensions Exception > > > > Hi Cibu! > > I think, we know that the data are seen by dtifit and that they match > (bedpostx_datacheck). > - Have you alreay run dtifit on other subjects sucessully? > - Are you sure that there is no other process running on the data at the > same time? Also MATLAB, even if only in the path, can cause the NEWMAT > error. > - Is the directory write-protected? Can you try to run dtifit on these data > but on another place (copy them elswhere)? > > All the best, > Markus > > > 2009/2/3 Cibu <[log in to unmask]> > > Yes Matt > There is a carriage return at the last line for both files. > > Cheers > Cibu > > > -----Original Message----- > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf > > Of Matt Glasser > Sent: Tuesday, February 03, 2009 11:51 AM > To: [log in to unmask] > Subject: Re: [FSL] Incompatible Dimensions Exception > > Is there a carriage return after the last line of both the bvecs and the > bvals? > > Peace, > > Matt. > > -----Original Message----- > From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf > Of Cibu Thomas > Sent: Tuesday, February 03, 2009 9:55 AM > To: [log in to unmask] > Subject: Re: [FSL] Incompatible Dimensions Exception > > Hello there > Here's the output from the data integrity check. Looks fine to me. But > DTIfit continues to produce the same error message > > /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/data > data_type INT16 > dim1 128 > dim2 128 > dim3 60 > dim4 70 > datatype 4 > pixdim1 2.0000000000 > pixdim2 2.0000000000 > pixdim3 2.0000002384 > pixdim4 1.0000000000 > cal_max 0.0000 > cal_min 0.0000 > file_type NIFTI-1+ > > > /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/nodif_brain_mas > k > data_type INT16 > dim1 128 > dim2 128 > dim3 60 > dim4 1 > datatype 4 > pixdim1 2.0000000000 > pixdim2 2.0000000000 > pixdim3 2.0000002384 > pixdim4 1.0000000000 > cal_max 0.0000 > cal_min 0.0000 > file_type NIFTI-1+ > > num lines > in /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/bvals > 1 > num words > in /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/bvals > 70 > num lines > in /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/bvecs > 3 > num words > in /autofs/space/bomba_001/users/Cibu/TBSS_ISO/1226_ISO/dti/009/bvecs > 210 > > > > On Mon, 2009-02-02 at 23:05 +0100, Markus Gschwind wrote: > > Hi! > > > > What does it say if you type: > > bedpostx_datacheck <your_dtifit_directory> > > > > Can you post the answere here, please? > > > > All the best, > > Markus > > > > > > > > 2009/2/2 Cibu <[log in to unmask]> > > > > Hello > > > > I am having some trouble running the DTIFIT > > reconstruction tool box. > > > > The error message says: > > > > Terminate called after throwing an instance of > > 'NEWMAT::IncompatibleDimensionsException' > > > > I made sure the bval and bvec values are horizontally > > ordered. Please see attachment for the files. > > > > Many thanks in advance for your suggestions > > > > > > > > - cibu > > > > > > > > > > > > > > > > -- > > Dr. med. Markus Gschwind, M.D. > > Laboratory for Neurology and Imaging of Cognition > > Dept of Neurosciences > > University Medical Center (CMU) > > 1 Michel-Servet - 1211 GENEVA - CH > > > > Tel 0041 (0) 22 379 5324 > > Fax 0041 (0) 22 379 5402 > > email: [log in to unmask] > > http://labnic.unige.ch > > > > > > > > -- > > Dr. med. Markus Gschwind, M.D. > > Laboratory for Neurology and Imaging of Cognition > > Dept of Neurosciences > > University Medical Center (CMU) > > 1 Michel-Servet - 1211 GENEVA - CH > > > > Tel 0041 (0) 22 379 5324 > > Fax 0041 (0) 22 379 5402 > > email: [log in to unmask] > > http://labnic.unige.ch > > > > > -- > Dr. med. Markus Gschwind, M.D. > Laboratory for Neurology and Imaging of Cognition > Dept of Neurosciences > University Medical Center (CMU) > 1 Michel-Servet - 1211 GENEVA - CH > > Tel 0041 (0) 22 379 5324 > Fax 0041 (0) 22 379 5402 > email: [log in to unmask] > http://labnic.unige.ch > -- Dr. med. Markus Gschwind, M.D. Laboratory for Neurology and Imaging of Cognition Dept of Neurosciences University Medical Center (CMU) 1 Michel-Servet - 1211 GENEVA - CH Tel 0041 (0) 22 379 5324 Fax 0041 (0) 22 379 5402 email: [log in to unmask] http://labnic.unige.ch