ps that is my modified script for 2 Group.
This is the original 3-group script
GNU nano 2.3.1 File: MVM_Creator_Covar_IQ.sh
#!/bin/bash
usage(){
echo "Usage: $0 $1 testname $2 Group1ScansList $3 Group2ScanList $4 Group3ScanList $5 Contrast $6 CovName $7 CovNum what number is it$
exit 1
}
[[ $# -eq 0 ]] && usage
Testname=$1
Group1List=$2
Group1Name=$(echo $2|cut -d ‘_’ -f 1 )
Group2List=$3
Group2Name=$(echo $3|cut -d ‘_’ -f 1 )
Group3List=$4
Group3Name=$(echo $4|cut -d ‘_’ -f 1 )
GroupList=“$Group1List $Group2List $Group3List”
Contrast=$5
CovName=$6
CovNum=Cov"$7"
maindir=/data/project/OXYASP/OXYASP_ANALYSIS/01_subbricks/01_DM/
echo “3dMVM -prefix $1 -jobs 40 -bsVars "Group+$CovName" -wsVars Time -qVars $CovName \” > “$Testname”.csh
echo “-num_glt 12 \” >> “$Testname”.csh
echo “-gltLabel 1 “$Group1Name”_PreLtPost -gltCode 1 ‘Group : 1*$Group1Name Time : -1Pre 1Post’ \” >> “$Testname”.csh
echo “-gltLabel 2 “$Group2Name”_PreLtPost -gltCode 2 ‘Group : 1*$Group2Name Time : -1Pre 1Post’ \” >> “$Testname”.csh
echo “-gltLabel 3 “$Group3Name”_PreLtPost -gltCode 3 ‘Group : 1*$Group3Name Time : -1Pre 1Post’ \” >> “$Testname”.csh
echo “-gltLabel 4 “$Group1Name"Gr”$Group2Name”_Pre -gltCode 4 ‘Group : 1*$Group1Name -1*$Group2Name Time : 1*Pre’ \" >> “$Testname”.csh
echo “-gltLabel 5 “$Group1Name"Gr”$Group3Name”_Pre -gltCode 5 ‘Group : 1*$Group1Name -1*$Group3Name Time : 1*Pre’ \" >> “$Testname”.csh
echo “-gltLabel 6 “$Group2Name"Gr”$Group3Name”_Pre -gltCode 6 ‘Group : 1*$Group2Name -1*$Group3Name Time : 1*Pre’ \" >> “$Testname”.csh
echo “-gltLabel 7 “$Group1Name"Gr”$Group2Name”_Post -gltCode 7 ‘Group : 1*$Group1Name -1*$Group2Name Time : 1*Post’ \" >> “$Testname”.csh
echo “-gltLabel 8 “$Group1Name"Gr”$Group3Name”_Post -gltCode 8 ‘Group : 1*$Group1Name -1*$Group3Name Time : 1*Post’ \" >> “$Testname”.csh
echo “-gltLabel 9 “$Group2Name"Gr”$Group3Name”_Post -gltCode 9 ‘Group : 1*$Group2Name -1*$Group3Name Time : 1*Post’ \" >> “$Testname”.csh
echo “-gltLabel 10 “$Group1Name"PreLtPost”$Group2Name”_PreGtPost -gltCode 10 ‘Group : 1*$Group1Name -1*$Group2Name Time : -1Pre 1Post’ \$
echo “-gltLabel 11 “$Group1Name"PreLtPost”$Group3Name”_PreGtPost -gltCode 11 ‘Group : 1*$Group1Name -1*$Group3Name Time : -1Pre 1Post’ \$
echo “-gltLabel 12 “$Group2Name"PreLtPost”$Group3Name”_PreGtPost -gltCode 12 ‘Group : 1*$Group2Name -1*$Group3Name Time : -1Pre 1Post’ \$
echo “-dataTable \” >> “$Testname”.csh
echo “Subj Group Time $CovName InputFile \” >> “$Testname”.csh
for Group in $GroupList; do
GroupName=$(echo $Group|cut -d ‘_’ -f 1 )
while IFS=$‘\t’ read Subj Cov1; do
#TestCov=$CovNum
echo “$Subj $GroupName Pre ${!CovNum} “$maindir”/”$Subj"_P/“$Contrast”+tlrc.HEAD \"
echo “$Subj $GroupName Post ${!CovNum} “$maindir”/”$Subj"_O/“$Contrast”+tlrc.HEAD \"
done < $Group >> “$Testname”.csh
done
for otherargs in “${@:10}” ; do
echo “$otherargs \”
done >> “$Testname”.csh
echo " " >> “$Testname”.csh
chmod +x “$Testname”.csh
tcsh “$Testname”.csh