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Commit 0bf8c70f authored by Ruben Vorderman's avatar Ruben Vorderman
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change camelization

parent 9b7c5ff9
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1 merge request!47Fix fastqc and cutadapt for use with WDL 1.0
......@@ -61,12 +61,12 @@ task Cutadapt {
String? reportPath
}
String read2outputarg = if (defined(read2output)) then "mkdir -p $(dirname " + read2output + ")" else ""
String read2outputArg = if (defined(read2output)) then "mkdir -p $(dirname " + read2output + ")" else ""
command {
set -e -o pipefail
~{"mkdir -p $(dirname " + read1output + ")"}
~{read2outputarg}
~{read2outputArg}
~{"mkdir -p $(dirname " + reportPath + ")"}
~{preCommand}
cutadapt \
......
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