#!/bin/tcsh

#set SUBJ = 10005
set HOMEDIR = /scratch/g/tmeier/ChronEx/FS7.2
#subjects = ( $(basename -s _nii $(ls -d ${HOMEDIR}/data/*_nii)) )
set SUBJ=${SUBJ}
#set SUBJ = ${subjects[${SLURM_ARRAY_TASK_ID}]}
set ANATDIR = ${HOMEDIR}/data/${SUBJ}_nii
set DCDIR = /scratch/g/tmeier/ChronEx/FS7.2/tracula/dti
set BDIR = /scratch/g/tmeier/ChronEx/processing/utils/dti_files
export OMP_NUM_THREADS=12
export SUBJECTS_DIR=${HOMEDIR}/data

setenv SUBJECTS_DIR ${HOMEDIR}/data
set dtroot = ${HOMEDIR}/tracula
set subjlist = ( ${SUBJ}_T2_3T )
#set runlist = (1)
#set dcmroot looks like setting this will pull bvac an bvec from same dir so skipped 
set dcmlist = ( ${DCDIR}/${SUBJ}.DTI_ECCr.nii.gz )
set bveclist = ( ${BDIR}/bvecs.txt )
set bvallist = ( ${BDIR}/bvals.txt )
set dob0 = 0
set doeddy = 0


####array stuff - LE
#arr=( $(basename -s _nii $(ls -d ${HOMEDIR}/data/*_nii)) )
#--array=0-2
#SUBJ=${arr[${SLURM_ARRAY_TASK_ID}]}
#output=%A_%a-%j