Hi Yuko, your dicom file might be from a different versioned scanner than dt_recon is used to seeing. If so, then it cannot extract the bvecs and bvals. If you supply them in a file on the command line, it should run properly. doug
Yuko Yotsumoto wrote: > Hello, > > I'm having a problem with dt_recon on data scanned by Siemens TrioTim. > I'm using v4.5.0, with Mac OS 10.6.8. > > dt_recon ran for a while, and stopped with an error "ERROR: cannot extract > sWiPMemBlock.alFree[8] from > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-infodump.dat" > > I found the same errors reported to this mailing list, but found no solution. > https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-August/019755.html > http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg07935.html > > In YDTI/YD11A/ folder, I have the following files > dt_recon.log > dwi-ec.ecclog > dwi-ec.nii > dwi-infodump.dat > dwi.nii > mri_glmfit.log > > In dwi-infodump.dat, I see bunch of lines, but I don't see > "sWiPMemBlock.alFree". > > Please help! > Thanks, > Yuko Yotsumoto > > > > > #@#------------------------------- > Fitting Tensors > Wed Dec 7 10:15:52 JST 2011 > cd /Users/yuko/Documents/FreeSurfer/subjects > mri_glmfit --y > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-ec.nii --glmdir > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A --dti > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-infodump.dat > > $Id: mri_glmfit.c,v 1.138.2.15 2009/07/27 17:43:10 greve Exp $ > cwd /Users/yuko/Documents/FreeSurfer/subjects > cmdline mri_glmfit --y > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-ec.nii --glmdir > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A --dti > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-infodump.dat > sysname Darwin > hostname Yukos-iMac.local > machine i386 > user yuko > FixVertexAreaFlag = 1 > UseMaskWithSmoothing 1 > OneSampleGroupMean 0 > y /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-ec.nii > logyflag 1 > X /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-infodump.dat > usedti 1 > glmdir /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A > IllCondOK 0 > DoFFx 0 > Creating output directory /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A > Loading y from /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-ec.nii > Using DTI > bValue = 700 > ERROR: cannot extract sWiPMemBlock.alFree[8] from > /Users/yuko/Documents/FreeSurfer/sessions/YDTI/YD11A/dwi-infodump.dat > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ 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.
