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@@ -12,9 +12,7 @@ task qualimap { |
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set -e |
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nt=$(nproc) |
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/opt/qualimap/qualimap bamqc -bam ${bam} -outformat HTML -nt $nt -outdir ${bamname}_bamqc --java-mem-size=32G |
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/opt/qualimap/qualimap rnaseq -bam ${bam_percent} -outformat HTML -outdir ${bamname}_rnaseq -gtf ${gtf} -pe --java-mem-size=32G |
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tar -zcf ${bamname}_bamqc_qualimap.tar.gz ${bamname}_bamqc |
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tar -zcf ${bamname}_rnaseq_qualimap.tar.gz ${bamname}_rnaseq |
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>>> |
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@@ -27,6 +25,5 @@ task qualimap { |
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output { |
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File bamqc_gz="${bamname}_bamqc_qualimap.tar.gz" |
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File rnaseq_gz="${bamname}_rnaseq_qualimap.tar.gz" |
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} |
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} |