Hi Anastasia: Yes this file does exist but it did not have the *.txt suffix. Maybe I will change the suffix and run this again.
thanks, Alan On Mon, Aug 5, 2013 at 1:57 PM, Anastasia Yendiki < ayend...@nmr.mgh.harvard.edu> wrote: > > The error says: > `/autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** > Data/diffusion_recons/bvecs.**txt': No such file or directory > > Does this file exist? > > > On Mon, 5 Aug 2013, Alan Francis wrote: > > Hi All: >> >> When I ran trac-preproc I got an error that read s as follows: >> >> trac-preproc exited with ERRORS at Mon Aug 5 13:12:53 EDT 2013. I do >> have a bvec.txt and bval file in each directory. >> >> thanks for your help, >> >> Alan >> >> >> The following are the messages: >> >> csh::alanf@cerebro [/autofs/space/dali_003/users/** >> BW_project_DTI/FreeSurfer_5.3_**Data] : trac-all -prep -c >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons/dmrirc >> INFO: SUBJECTS_DIR is /autofs/space/dali_003/users/** >> BW_project_DTI/FreeSurfer_5.3_**Data/diffusion_recons >> INFO: Diffusion root is /autofs/space/dali_003/users/** >> BW_project_DTI/FreeSurfer_5.3_**Data/diffusion_recons/ >> Actual FREESURFER_HOME /autofs/cluster/freesurfer/** >> centos6_x86_64/stable5_3_0 >> trac-preproc -c /autofs/space/dali_003/users/** >> BW_project_DTI/FreeSurfer_5.3_**Data/diffusion_recons//BW_101/**scripts/dmrirc.local >> -log >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**scripts/trac-all.log -cmd >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**scripts/trac-all.cmd >> #-----------------------------**-------- >> /usr/local/freesurfer/stable5_**3_0//bin/trac-preproc >> #-----------------------------**-------- >> #@# Image corrections Mon Aug 5 13:12:10 EDT 2013 >> mri_convert /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_ >> **Data/diffusion_recons//BW_101/**Diffusion_Recons/20080424_** >> 182054563000-000012-**000001DTIValeras012a001.nii >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**dmri/dwi_orig.nii.gz >> mri_convert /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_ >> **Data/diffusion_recons//BW_101/**Diffusion_Recons/20080424_** >> 182054563000-000012-**000001DTIValeras012a001.nii >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**dmri/dwi_orig.nii.gz >> $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ >> reading from >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**Diffusion_Recons/20080424_** >> 182054563000-000012-**000001DTIValeras012a001.nii... >> TR=7570.00, TE=0.00, TI=0.00, flip angle=0.00 >> i_ras = (-0.989696, 0.0161603, 0.142271) >> j_ras = (0.0163, 0.999867, -0.000183368) >> k_ras = (0.142255, -0.00213754, 0.989828) >> writing to /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_* >> *Data/diffusion_recons//BW_101/**dmri/dwi_orig.nii.gz... >> cp /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons/bvecs.**txt >> /autofs/space/dali_003/users/**BW_project_DTI/FreeSurfer_5.3_** >> Data/diffusion_recons//BW_101/**dmri/dwi_orig.mghdti.bvecs >> cp: cannot stat `/autofs/space/dali_003/users/** >> BW_project_DTI/FreeSurfer_5.3_**Data/diffusion_recons/bvecs.**txt': No >> such file or directory >> Linux cerebro 2.6.32-358.2.1.el6.x86_64 #1 SMP Wed Mar 13 00:26:49 UTC >> 2013 x86_64 x86_64 x86_64 GNU/Linux >> >> trac-preproc exited with ERRORS at Mon Aug 5 13:12:53 EDT 2013 >> >> >> >> >> >> > > 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<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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