#!/bin/bash

if [[ $# -ne 3 ]]; then
    echo "Missing arguments."
    exit 1
fi

SUBJ=$1
RUN=$2
PEDIR=$3

if [[ ${SUBJ} == ARRAY ]]; then
    SUBJ=${PARTICIPANT_FROM_ARRAY}
fi

echo "Subject="${SUBJ}", RUN="${RUN}", PEDIR="${PEDIR}

mkdir -p /data_out/HCP_1200/minpreprocslfofilt/${SUBJ}
gmscalc \
    /data_out/HCP_1200/${SUBJ}/rapidtide_rfMRI_${RUN}_${PEDIR}_desc-lfofilterCleaned_bold.nii.gz
    /data_out/HCP_1200/fixglm/${SUBJ}/rapidtide_rfMRI_${RUN}_${PEDIR}_lfofilteredCleanedGMS \
    --dmask /data_out/HCP_1200/${SUBJ}/rapidtide_rfMRI_${RUN}_${PEDIR}_desc-corrfit_mask.nii.gz
