Dear Anastasia, I added in the dmrirc file the following line:
set nb0 = 1 because I red in the forum that it is necessary to indicate the number of b0 volume and I don't get the error about fslroi anymore. However now I have the following error: Error: bvecs and bvals don't have the same number of entries I removed the blank line as you suggested (see attach) so I don't understand the error Thanks Lucia
bvals
Description: Binary data
bvecs
Description: Binary data
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 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 _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ Il giorno 26/set/2013, alle ore 18:31, Anastasia Yendiki ha scritto: > > Hi Lucia - Does it work if you remove the extra blank line at the end of the > bvecs file? > > a.y > > On Thu, 26 Sep 2013, Lucia Billeci wrote: > >> Dear all, >> >> I am trying to apply TRACULA on my DATA (GE data) but when I run the >> following command: >> >> trac-all -prep -c /Users/Desktop/FreesurferData/SUBJECT1/dmrirc_subject1 >> >> after eddy current correction, I obtain this error: >> >> mv -f /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs >> /Users/luciabilleci/Desktop/FreesurferData/FRANCINI1/dmri/bvecs.norot >> 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: -.999993: expected numeric value >> printf: -.003594: expected numeric value >> printf: .000852: expected numeric value >> R: Subscript out of range. >> R: Subscript out of range. >> R: Subscript out of range. >> 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. >> Darwin dhcp225.ifc.cnr.it 11.4.2 Darwin Kernel Version 11.4.2: Thu Aug 23 >> 16:25:48 PDT 2012; root:xnu-1699.32.7~1/RELEASE_X86_64 x86_64 >> >> trac-preproc exited with ERRORS at Gio 26 Set 2013 10:12:38 CEST >> >> I attach my bvals and bvecs >> Could you help me? >> >> Thanks >> Lucia >> >> >> >> >> >> > > > 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. >
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