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Commit 7d5b7928 authored by Ruben Vorderman's avatar Ruben Vorderman
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Merge branch 'BIOWDL-38' of github.com:biowdl/tasks into BIOWDL-38

parents 2b903b2b d1015063
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1 merge request!34Move all files to version 1.0
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...@@ -341,8 +341,8 @@ task ValidateAnnotation { ...@@ -341,8 +341,8 @@ task ValidateAnnotation {
set -e -o pipefail set -e -o pipefail
~{preCommand} ~{preCommand}
~{toolCommand} \ ~{toolCommand} \
~{"-r" + refRefflat} \ ~{"-r " + refRefflat} \
~{"-g" + gtfFile} \ ~{"-g " + gtfFile} \
-R ~{refFasta} -R ~{refFasta}
} }
...@@ -374,7 +374,7 @@ task ValidateFastq { ...@@ -374,7 +374,7 @@ task ValidateFastq {
command { command {
set -e -o pipefail set -e -o pipefail
~{preCommand} ~{preCommand}
~{toolCommand}\ ~{toolCommand} \
--fastq1 ~{fastq1} \ --fastq1 ~{fastq1} \
~{"--fastq2 " + fastq2} ~{"--fastq2 " + fastq2}
} }
...@@ -407,7 +407,7 @@ task ValidateVcf { ...@@ -407,7 +407,7 @@ task ValidateVcf {
command { command {
set -e -o pipefail set -e -o pipefail
~{preCommand} ~{preCommand}
~{toolCommand}\ ~{toolCommand} \
-i ~{vcfFile} \ -i ~{vcfFile} \
-R ~{refFasta} -R ~{refFasta}
} }
......
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