# create genome directory for genome indices.
mkdir -p ${X_d}/genomeDir

STAR \
  --runMode genomeGenerate \
  --genomeDir ${X_d}/genomeDir \
  --genomeFastaFiles $( echo ${X_A} | sed 's/,/ /g' ) \
  --sjdbGTFfile ${X_B} \
  --sjdbOverhang ${X_C} \
  > genome-indexing.log.txt 2>&1
  