Hi Anastasia, I attach the bvecs that I'm using. The second is produced in the dmri.You are noting that the first is in 3 rows, the second contains only 3 row with a 0 This is the last errorfslroi /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/dwi.nii.gz /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb.nii.gz 0 1fslmaths /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb.nii.gz -Tmean /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb.nii.gzbet /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb.nii.gz /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb_brain.nii.gz -m -f 0.3mv -f /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb_brain_mask.nii.gz /Applications/freesurfer/subjects/subject_prova/Diff01/dlabel/diff#-------------------------------------#@# Inter-subject registration Gio 31 Gen 2013 22:40:26 CETflirt -in /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb_brain.nii.gz -ref /usr/local/fsl/data/standard/MNI152_T1_1mm_brain.nii.gz -out /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/lowb_brain_mni.nii.gz -omat /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/xfms/diff2mni.mat -cost mutualinfoconvert_xfm -omat /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/xfms/mni2diff.mat -inverse /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/xfms/diff2mni.mat#-------------------------------------#@# Masks Gio 31 Gen 2013 22:41:55 CET#-------------------------------------#@# Tensor fit Gio 31 Gen 2013 22:41:55 CETdtifit -k /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/dwi.nii.gz -m /Applications/freesurfer/subjects/subject_prova/Diff01/dlabel/diff/lowb_brain_mask.nii.gz -r /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/bvecs -b /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/bvals -o /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/dtifitError: bvecs and bvals don't have the same number of entriesDarwin iMac-di-Stefano.local 12.2.1 Darwin Kernel Version 12.2.1: Thu Oct 18 12:13:47 PDT 2012; root:xnu-2050.20.9~1/RELEASE_X86_64 x86_64 trac-preproc exited with ERRORS at Gio 31 Gen 2013 22:42:02 CET Thanks,
Stefano ----Messaggio originale---- Da: ayend...@nmr.mgh.harvard.edu Data: 31-gen-2013 21.43 A: <std...@virgilio.it> Cc: <freesurfer@nmr.mgh.harvard.edu> Ogg: Re: [Freesurfer] bvecs tracula Hi Stefano - Are the original bvecs (that you specify in your configuration file) arranged in 3 rows or 3 columns? a.y On Thu, 31 Jan 2013, std...@virgilio.it wrote: > Hi list, > I'm running trac-all -prep -c > > but I have this error > > dtifit -k > /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/dwi.nii.gz -m > /Applications/freesurfer/subjects/subject_prova/Diff01/dlabel/diff/lowb_brain_mask.nii.gz > -r > /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/bvecs -b > /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/bvals -o > /Applications/freesurfer/subjects/subject_prova/Diff01/dmri/dtifit > Error: bvecs and bvals don't have the same number of entries > > I'm noting that my original bvecs are > > 0 -0.460 -0.539 0.490 -0.071 0.226 0.463 0.483 -0.643 0.468 > -0.730 -0.707 -0.318 0.175 0.488 0.460 > 0 -0.395 -0.588 -0.706 -0.605 -0.607 -0.236 -0.180 -0.464 -0.562 > -0.337 -0.699 -0.786 -0.786 -0.712 -0.301 > 0 -0.795 0.419 -0.057 -0.793 -0.725 -0.708 -0.695 -0.609 0.333 > 0.413 -0.108 0.368 0.392 -0.004 0.476 > > and in dmri > > 0 > 0 > 0 > > bvals conversion is ok. What's happen? Why are there an error about > conversion to FSL format? > > Thank you very much, I really appreciate your patience. > > Stefano > > >_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
bvecs
Description: Binary data
0.000 0.000 0.000 -0.460 -0.395 -0.795 -0.539 -0.588 0.419 0.490 -0.706 -0.057 -0.071 -0.605 -0.793 0.226 -0.607 -0.725 0.463 -0.236 -0.708 0.483 -0.180 -0.695 -0.643 -0.464 -0.609 0.468 -0.562 0.333 -0.730 -0.337 0.413 -0.707 -0.699 -0.108 -0.318 -0.786 0.368 0.175 -0.786 0.392 0.488 -0.712 -0.004 0.460 -0.301 0.476
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