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Commit 3ddf2f10 authored by Ruben Vorderman's avatar Ruben Vorderman
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fix bugs

parent c4cbdc2b
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2 merge requests!9Changes for virus assembly pipeline,!10Extra tasks required for assembly.
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...@@ -22,10 +22,10 @@ task fastq { ...@@ -22,10 +22,10 @@ task fastq {
${"--end " + end } \ ${"--end " + end } \
${"--min-length " + minLength } \ ${"--min-length " + minLength } \
${"--max-length " + maxLength } \ ${"--max-length " + maxLength } \
${if highQuality then "--high-quality" else ""} \ ${true="--high-quality" false="" highQuality} \
${if normalQuality then "--normal-quality" else ""} \ ${true="--normal-quality" false="" normalQuality} \
${"--group " + group} \ ${"--group " + group} \
${sep=" " files} ${if gzip then "| gzip " else ""}> ${outputFile} ${sep=" " files} ${true="| gzip " false="" gzip}> ${outputFile}
} }
output { output {
......
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