diff --git a/bin/CramConversion.sh b/bin/CramConversion.sh index ae6ba90..3dd526d 100755 --- a/bin/CramConversion.sh +++ b/bin/CramConversion.sh @@ -38,7 +38,7 @@ if [[ -z "${inputFolder:-}" ]]; then showHelp ; echo "inputFolder is not specifi if [[ -z "${workDir:-}" ]]; then workDir=$(pwd)/BAM; mkdir -p ${workDir} ; fi ; echo "workDir=${workDir}" if [[ -z "${reference:-}" ]]; then reference="/apps/data/1000G/phase1/human_g1k_v37_phiX.fasta"; fi ; echo "reference=${reference}" -module load io_lib/1.14.6-foss-2015b +module load io_lib module load SAMtools #To convert from CRAM -> BAM do: