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Commit 628b9169 authored by JasperBoom's avatar JasperBoom
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Add missing 

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bam2fastx.wdl
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......@@ -39,9 +39,10 @@ task Bam2Fasta {
command {
set -e
mkdir -p "$(dirname ~{outputPrefix})"
chmod 755 ~{inputFile}
bam2fasta \
--output ~{outputPrefix} \
-c ~{compressionLevel}
-c ~{compressionLevel} \
~{true="-u" false="" uncompressedOutput} \
~{true="--split-barcodes" false="" splitByBarcode} \
~{"--seqid-prefix " + seqIdPrefix} \
......@@ -95,9 +96,10 @@ task Bam2Fastq {
command {
set -e
mkdir -p "$(dirname ~{outputPrefix})"
chmod 755 ~{inputFile}
bam2fastq \
--output ~{outputPrefix} \
-c ~{compressionLevel}
-c ~{compressionLevel} \
~{true="-u" false="" uncompressedOutput} \
~{true="--split-barcodes" false="" splitByBarcode} \
~{"--seqid-prefix " + seqIdPrefix} \
......
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