From fb3c5b5b3166e8054b6b0c09a8e3cebe7bd9a184 Mon Sep 17 00:00:00 2001 From: Martin Craig Date: Thu, 4 Oct 2018 09:21:56 +0100 Subject: [PATCH] Pass the correct reference map to ASL_CALIB --- oxford_asl.in | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/oxford_asl.in b/oxford_asl.in index aa8d6cb..2a09ab2 100755 --- a/oxford_asl.in +++ b/oxford_asl.in @@ -402,10 +402,10 @@ Calibration() { usetrans=$tempdir/asl2struct.mat if [ ! -z $fasthasrun ]; then - # we have already run FAST so we can pass the PVE for CSF to asl_calib (to save running FAST again) - extraoptions=$extraoptions" --refpve $tempdir/pvcsf_struct" + # we have already run FAST so we can pass the PVE to asl_calib (to save running FAST again) + extraoptions=$extraoptions" --refpve $tempdir/pv${tissref}_struct" fi - + $asl_calib -c $tempdir/calib -s $usestruc -t $usetrans -o $outdir/calib --bmask $tempdir/mask --osen $outdir/native_space/sensitivity $maincaliboptions $extraoptions else