Hi, running bedpostx directly from the command line appears to have worked >bedpostx dmri
Multiple subjects now have the following files and directories within their bedpostx directory: bvals mean_ph2samples.nii.gz bvecs mean_th1samples.nii.gz commands.txt mean_th2samples.nii.gz dyads1.nii.gz merged_f1samples.nii.gz dyads1_dispersion.nii.gz merged_f2samples.nii.gz dyads2.nii.gz merged_ph1samples.nii.gz dyads2_dispersion.nii.gz merged_ph2samples.nii.gz logs merged_th1samples.nii.gz mean_S0samples.nii.gz merged_th2samples.nii.gz mean_dsamples.nii.gz monitor mean_f1samples.nii.gz nodif_brain_mask.nii.gz mean_f2samples.nii.gz xfms mean_ph1samples.nii.gz I just launched tracula - path, and it appears to be running thus far. As Shannon Buckley mentioned previously, it seems like we both encountered the same issues... Best, Scott -- Scott M. Hayes, Ph.D. Memory Disorders Research Center Neuroimaging Research Center VA Boston Healthcare System Assistant Professor Department of Psychiatry Boston University School of Medicine On Fri, Dec 16, 2011 at 5:31 PM, Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu> wrote: > > Hi Scott - Could you try running bedpostx on the dmri/ directory directly > and see what if any error you get? > > > a.y > > On Fri, 16 Dec 2011, Scott Hayes wrote: > >> Hi, >> The following files & directories are listed directly under dmri.bedpostX: >> >> bvals commands.txt logs >> nodif_brain_mask.nii.gz >> bvecs diff_slices monitor >> xfms >> >> --Scott >> >> >> Anastasia Yendiki >> Fri, 16 Dec 2011 09:43:47 -0800 >> >> Hi Scott - Are there any files created directly under dmri.bedpostX? >> >> a.y >> >> On Fri, 16 Dec 2011, Scott Hayes wrote: >> >>> Hi, >>> After I run step 2 of tracula (>trac-all -c config_DTI_B.txt -bedp), I >>> am missing multiple bedpost output files (e.g., mergedph1samples.nii). >>> Examining the output, it looks like data from only one slice was >>> written (dmri.bedpostX/diff_slices/data_slice_0002). This issue has >>> replicated across multiple subjects. I'm processing data locally on >>> mac os 10.6.8 (16 GB RAM; two 3.2 quadcore processors, which should be >>> able to handle bedpost), using FSL 4.1.9. I don't see any errors in >>> the tracula log files (until I run -path), and no complaints in the >>> terminal window (which writes: Queuing parallel processing stage >>> 0 slices processed >>> 1 slices processed >>> 1 slices processed >>> etc... >>> >>> Any insight as to what might be causing the issue? >>> >>> Thanks, >>> Scott >>> _______________________________________________ >>> 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
