Loading launch_universc.sh +19 −0 Original line number Diff line number Diff line Loading @@ -1046,6 +1046,25 @@ for key in ${keys[@]}; do list[$j]=$read ;; esac #allow detection of file extension (needed for --file input) if [[ -f ${read} ]] || [[ -h ${read} ]]; then echo " $read file found" elif [[ -f ${read}.fq ]] || [[ -h ${read}.fq ]]; then read=${read}.fq elif [[ -f ${read}.fastq ]] || [[ -h ${read}.fastq ]]; then read=${read}.fastq elif [[ -f ${read}.fq.gz ]] || [[ -h ${read}.fq.gz ]]; then gunzip -f -k ${read}.fq.gz read=${read}.fq elif [[ -f ${read}.fastq.gz ]] || [[ -h ${read}.fastq.gz ]]; then gunzip -f -k ${read}.fastq.gz read=${read}.fastq.gz else echo "Error: $read not found" exit 1 fi list[$j]=$read done if [[ $readkey == "R1" ]]; then Loading Loading
launch_universc.sh +19 −0 Original line number Diff line number Diff line Loading @@ -1046,6 +1046,25 @@ for key in ${keys[@]}; do list[$j]=$read ;; esac #allow detection of file extension (needed for --file input) if [[ -f ${read} ]] || [[ -h ${read} ]]; then echo " $read file found" elif [[ -f ${read}.fq ]] || [[ -h ${read}.fq ]]; then read=${read}.fq elif [[ -f ${read}.fastq ]] || [[ -h ${read}.fastq ]]; then read=${read}.fastq elif [[ -f ${read}.fq.gz ]] || [[ -h ${read}.fq.gz ]]; then gunzip -f -k ${read}.fq.gz read=${read}.fq elif [[ -f ${read}.fastq.gz ]] || [[ -h ${read}.fastq.gz ]]; then gunzip -f -k ${read}.fastq.gz read=${read}.fastq.gz else echo "Error: $read not found" exit 1 fi list[$j]=$read done if [[ $readkey == "R1" ]]; then Loading
