I am trying to run Tracula on a single subject with two time points. I get the following Error below. I suspect it is because I am not setting my dmrirc file up correctly, but I cannot figure out what the error is. I've copied my dmrirc file below as well.
Thanks,
Dylan
Command: trac-all -prep -nocorr -nointra -c dmrirc.long.RP0603
Error:
trac-preproc -c /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/trac-all.cmd ; trac-preproc -c /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/trac-all.cmd ; trac-preproc -c /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/trac-all.cmd ; ERROR: flag ; unrecognized -c /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/tp1002.long.002/scripts/trac-all.cmd ; trac-preproc -c /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/tp2002.long.002/scripts/trac-all.cmd ; trac-preproc -c /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/dmrirc.local -log /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/trac-all.log -cmd /home/dylan/fmri/RP0629_3T/freesurfer/002/scripts/trac-all.cmd ;
dmrirc.long setenv SUBJECTS_DIR ~/fmri/RP0629_3T/freesurfer set dtroot = ~/fmri/RP0629_3T/freesurfer set subjlist = ( tp1002.long.002 \ tp2002.long.002 ) set baselist = ( 002 002 ) set dcmroot = ~/fmri/RP0629_3T/freesurfer/ set dcmlist = ( tp1002.long.002/dmri/dwi.nii. gz \ tp2002.long.002/dmri/dwi.nii.gz ) set bvecfile = ( tp1002.long.002/dmri/bvec \ tp2002.long.002/dmri/bvec ) set bvalfile = ( tp1002.long.002/dmri/bval \ tp2002.long.002/dmri/bval ) set dob0 = 0 set doeddy = 0 set thrbet = 0.5 set doregflt = 0 set doregbbr = 1 set doregmni = 0 set doregcvs = 1 set cvstemp = cvs_avg35 set cvstempdir = $FREESURFER_HOME/subjects set usemaskanat = 1 set pathlist = ( lh.cst_AS rh.cst_AS \ lh.unc_AS \ lh.ilf_AS \ fmajor_PP fminor_PP \ lh.atr_PP rh.atr_PP \ lh.ccg_PP rh.ccg_PP \ lh.cab_PP rh.cab_PP \ lh.slfp_PP rh.slfp_PP \ lh.slft_PP rh.slft_PP ) set ncpts = (6 6 5 5 7 7 5 5 5 5 4 4 5 5 5 5) set trainfile = $FREESURFER_HOME/trctrain/trainlist.txt set nstick = 2 set nburnin = 200 set nsample = 7500 set nkeep = 5 set reinit = 0