Hi Torben - I'm looking at all the invocations of "trac-all -prep" in your log file, and they've both exited with an error (the same bvecs error).
> grep prep trac-all.log -prep -c /Users/torben/Desktop/tracon/tracon New invocation of trac-preproc /Applications/MRSoftware/freesurfer/bin/trac-preproc trac-preproc exited with ERRORS at Do 21 Jun 2012 20:34:41 CEST ... -prep -c /Users/torben/Desktop/tracon/tracon New invocation of trac-preproc /Applications/MRSoftware/freesurfer/bin/trac-preproc trac-preproc exited with ERRORS at So 24 Jun 2012 22:37:30 CEST After that you've ran "trac-all -bedp" and "trac-all -path", but obviously these are going to fail if "trac-all -prep" has failed. I hope this makes sense. a.y On Fri, 29 Jun 2012, Torben Prokscha wrote: > Hi Anastasia! > > Yes, we reran trac-all -prep after fixing the bvec issue. I am still > surprised how you know that the latest failure was due to a bvecs problem, > because the last error message was the one about the missing tract ...? > > Thank you for your help! > > Best > Torben > > >> >> Hi Torben - I just scrolled to the end of your log file. The last >> invocation of trac-all -prep is the one that failed b/c of the bvecs >> error. Did you rerun trac-all -prep after you fixed the bvecs? >> >> Thanks, >> a.y >> >> On Tue, 26 Jun 2012, Torben Prokscha wrote: >> >>> Hi Priti, >>> >>> thank you for your reply, but I'm afraid you didn't scroll to the end of >>> the log file: Yes, we had that bvecs/bvals error in the first run, but >>> we >>> corrected it and got the error I reported in my previous mail (it is >>> also >>> printed at the end of the log file): >>> >>> ERROR: Could not open >>> /Users/torben/Desktop/tracon/fs_diff/s001/dlabel/diff/lh.cst_AS_avg33_mni_flt_cpts_5.txt >>> >>> Could you or anybody else please help with this problem which is >>> obviously >>> related to missing tracts? >>> >>> Thanks in advance >>> Torben >>> >>> >>>> Hi Torben, >>>> >>>> Your trac-preproc exited with errors because of the following error. >>>> >>>> Error: bvecs and bvals don't have the same number of entries >>>> >>>> You should check to see if your bvals and bvecs have the same no.of >>>> lines >>>> and then rerun trac-all -prep. >>>> >>>> Priti >>>> >>>> >>>>> Dear all, >>>>> >>>>> while running trac-all, I got the following error: >>>>> >>>>> ERROR: Could not open >>>>> /Users/torben/Desktop/tracon/fs_diff/s001/dlabel/diff/lh.cst_AS_avg33_mni_flt_cpts_5.txt >>>>> >>>>> Obviously, a similar problem was discussed before (here: >>>>> https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-August/019570.html). >>>>> However, no general solution was publicly mailed. Since it was >>>>> requested >>>>> then, I attach the trac-all.log file. >>>>> >>>>> Thanks in advance for any help! >>>>> >>>>> Best >>>>> Torben Prokscha >>>>> >>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> Freesurfer@nmr.mgh.harvard.edu >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>>> _______________________________________________ >>>> 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. >>>> >>>> >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> >> > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
