mc-sess with -perrun failed with the output: targstem: Undefined variable. *** Bug report: ***
on machine ai source /usr/local/freesurfer/nmr-dev-env setenv SUBJECTS_DIR /space/cognito/5/users/raij/subjects_mri cd /space/cognito/5/users/raij/avml_fmri_mcseparately/avml19_session_BRISI13_ISI1TR_BERT which mc-sess /usr/local/freesurfer/dev/fsfast/bin/mc-sess mc-sess -sf sessid -df sesspar -perrun Logfile is /autofs/space/cognito_005/users/raij/avml_fmri_mcseparately/avml19_session_BRISI13_ISI1TR_BERT/log/mc-avml19_session_BRISI13_ISI1TR_BERT-bold.log ------------------------------------------- /autofs/space/cognito_005/users/raij/avml_fmri_mcseparately/avml19_session_BRISI13_ISI1TR_BERT RunList: 004 005 006 targstem: Undefined variable. Notice that I am using the building 120 "cognito" installation where: /usr/local/feeesurfer = /space/cognito/24/opt/freesurfer/centos4.0 Bests, Tommi > > [EMAIL PROTECTED] wrote: > >>Hi Doug, >> >>The issue is motion correction in FS-FAST. The environment is >> nmr-dev-env. >> >>mc-sess flag -perrun is documented like this: >>"MC each run separately (targ=mid)". >> >>1. Does "targ=mid" implicate that the target, within each run, is the >>image half way through the run? >> >> > Yes > >>2. Does this equal to using the mc-sess -rlf runlistfile flag, and >>changing the contents of the runlistfile to match each of the run >> numbers, >>one at a time? >> >> > Almost. Method #2 will use the first image instead of the middle image. > > doug > >>Thanks, >> >>Tommi >> >>--- >>Tommi Raij, M.D., Ph.D. >>MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging >>Bldg 149, 13th St >>Charlestown, MA 02129 >>U.S.A. >> >>[EMAIL PROTECTED] >>_______________________________________________ >>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 > [EMAIL PROTECTED] > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > In order to help us help you, please follow the steps in: > surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
