[Freesurfer] question about TRACULA
Dear Madam/Sir, I am trying to applying TRACULA on my data but when I run the following command: trac-all -prep -c /Users/Desktop/FreesurferData/SUBJECT1/dmrirc_subject1 after some processing I obtain the following error xfmrot /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dwi.ecclog /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs.norot /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs printf: .97: expected numeric value printf: .002040: expected numeric value printf: .001230: expected numeric value printf: 8.010424: not completely converted printf: -4.983286: not completely converted printf: -.000389: expected numeric value printf: -.759652: expected numeric value printf: -5.031242: not completely converted printf: 8.006841: not completely converted printf: 7.864457: not completely converted printf: 3.131627: not completely converted printf: -3.216084: not completely converted printf: -1.957800: not completely converted printf: 7.048668: not completely converted printf: 5.956787: not completely converted printf: -7.998542: not completely converted printf: 1.996216: not completely converted printf: 4.004804: not completely converted printf: 7.008384: not completely converted printf: -2.985687: not completely converted printf: 3.996015: not completely converted printf: -.986002: expected numeric value printf: -9.000231: not completely converted printf: .153834: expected numeric value printf: 7.937660: not completely converted printf: .875656: expected numeric value printf: 4.150514: not completely converted printf: -2.115330: not completely converted printf: 8.962086: not completely converted printf: 2.050965: not completely converted printf: 5.758588: not completely converted printf: 8.092588: not completely converted printf: -4.165180: not completely converted printf: 4.753098: not completely converted printf: 5.079427: not completely converted printf: -6.132490: not completely converted printf: -4.21: not completely converted printf: 4.007709: not completely converted printf: 6.995579: not completely converted printf: -4.879465: not completely converted printf: -7.066532: not completely converted printf: 1.120257: not completely converted printf: -5.186508: not completely converted printf: -2.066011: not completely converted printf: -7.863320: not completely converted printf: -5.008038: not completely converted printf: 5.995846: not completely converted printf: 3.996178: not completely converted printf: 5.717007: not completely converted printf: 5.121524: not completely converted printf: -7.147437: not completely converted printf: 1.743757: not completely converted printf: 7.060581: not completely converted printf: -9.005971: not completely converted printf: -4.251174: not completely converted printf: 5.953915: not completely converted printf: -4.845450: not completely converted printf: -4.010977: not completely converted printf: -8.049025: not completely converted printf: -2.850488: not completely converted printf: 4.005690: not completely converted printf: -7.995851: not completely converted printf: 1.010371: not completely converted printf: -5.118400: not completely converted printf: -4.070279: not completely converted printf: -6.872761: not completely converted printf: 8.143535: not completely converted printf: 4.835332: not completely converted printf: 1.817269: not completely converted printf: 2.268035: not completely converted printf: -2.989943: not completely converted printf: 7.931980: not completely converted printf: -4.199139: not completely converted printf: -3.025800: not completely converted printf: -8.900100: not completely converted grep: /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dcminfo.dat: No such file or directory fslroi /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dwi.nii.gz /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/lowb.nii.gz 0 Usage: fslroi input output xmin xsize ymin ysize zmin zsize fslroi input output tmin tsize fslroi input output xmin xsize ymin ysize zmin zsize tmin tsize Note: indexing (in both time and space) starts with 0 not 1! Inputting -1 for a size will set it to the full image extent for that dimension. Could you please give me some help? Thanks a lot Best Regards Lucia Billeci_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa ITALY Tel: +39-0506213204 e-mail: lucia.bill...@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ___ 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
Re: [Freesurfer] question about TRACULA
Hi Lucia - The error occurs when the text file with the gradient vectors is being processed. Can you please attach that file? Thanks, a.y On Fri, 20 Sep 2013, Lucia Billeci wrote: Dear Madam/Sir, I am trying to applying TRACULA on my data but when I run the following command: trac-all -prep -c /Users/Desktop/FreesurferData/SUBJECT1/dmrirc_subject1 after some processing I obtain the following error xfmrot /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dwi.ecclog /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs.norot /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs printf: .97: expected numeric value printf: .002040: expected numeric value printf: .001230: expected numeric value printf: 8.010424: not completely converted printf: -4.983286: not completely converted printf: -.000389: expected numeric value printf: -.759652: expected numeric value printf: -5.031242: not completely converted printf: 8.006841: not completely converted printf: 7.864457: not completely converted printf: 3.131627: not completely converted printf: -3.216084: not completely converted printf: -1.957800: not completely converted printf: 7.048668: not completely converted printf: 5.956787: not completely converted printf: -7.998542: not completely converted printf: 1.996216: not completely converted printf: 4.004804: not completely converted printf: 7.008384: not completely converted printf: -2.985687: not completely converted printf: 3.996015: not completely converted printf: -.986002: expected numeric value printf: -9.000231: not completely converted printf: .153834: expected numeric value printf: 7.937660: not completely converted printf: .875656: expected numeric value printf: 4.150514: not completely converted printf: -2.115330: not completely converted printf: 8.962086: not completely converted printf: 2.050965: not completely converted printf: 5.758588: not completely converted printf: 8.092588: not completely converted printf: -4.165180: not completely converted printf: 4.753098: not completely converted printf: 5.079427: not completely converted printf: -6.132490: not completely converted printf: -4.21: not completely converted printf: 4.007709: not completely converted printf: 6.995579: not completely converted printf: -4.879465: not completely converted printf: -7.066532: not completely converted printf: 1.120257: not completely converted printf: -5.186508: not completely converted printf: -2.066011: not completely converted printf: -7.863320: not completely converted printf: -5.008038: not completely converted printf: 5.995846: not completely converted printf: 3.996178: not completely converted printf: 5.717007: not completely converted printf: 5.121524: not completely converted printf: -7.147437: not completely converted printf: 1.743757: not completely converted printf: 7.060581: not completely converted printf: -9.005971: not completely converted printf: -4.251174: not completely converted printf: 5.953915: not completely converted printf: -4.845450: not completely converted printf: -4.010977: not completely converted printf: -8.049025: not completely converted printf: -2.850488: not completely converted printf: 4.005690: not completely converted printf: -7.995851: not completely converted printf: 1.010371: not completely converted printf: -5.118400: not completely converted printf: -4.070279: not completely converted printf: -6.872761: not completely converted printf: 8.143535: not completely converted printf: 4.835332: not completely converted printf: 1.817269: not completely converted printf: 2.268035: not completely converted printf: -2.989943: not completely converted printf: 7.931980: not completely converted printf: -4.199139: not completely converted printf: -3.025800: not completely converted printf: -8.900100: not completely converted grep: /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dcminfo.dat: No such file or directory fslroi /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/dwi.nii.gz /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/lowb.nii.gz 0 Usage: fslroi input output xmin xsize ymin ysize zmin zsize fslroi input output tmin tsize fslroi input output xmin xsize ymin ysize zmin zsize tmin tsize Note: indexing (in both time and space) starts with 0 not 1! Inputting -1 for a size will set it to the full image extent for that dimension. Could you please give me some help? Thanks a lot Best Regards Lucia Billeci_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa ITALY Tel: +39-0506213204 e-mail: lucia.bill...@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ___ 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
