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I guess you should read and throw away the header line:
TAB=$(printf "\t")
{ read x; IFS=$TAB read x x x max_x max_y max_z x; } < input_file
fslmaths InputImage -mul 0 -add 1 -roi "$max_x" 1...

To read only the first row you can leave out the while loop, you could try something like:


TAB=$(printf "\t")
IFS=$TAB read x x x max_x max_y max_z x < input_file
fslmaths InputImage -mul 0...

Try:
TAB=$(printf "\t")
while IFS=$TAB read ci voxels max max_x max_y max_z cog_x cog_y cog_z
do
echo "$max_x, $max_y, $max_z"
done < infile


If you only need those the three values you...