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Verified Commit 4f37c0be authored by Laurent Modolo's avatar Laurent Modolo
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macs3: fix gsize parameter

parent 558ec8ce
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version = "3.0.0a6" version = "3.0.0a6"
container_url = "lbmc/macs3:${version}" container_url = "lbmc/macs3:${version}"
macs3_genome_size=3e9 params.macs_gsize=3e9
process peak_calling { process peak_calling {
container = "${container_url}" container = "${container_url}"
...@@ -24,7 +24,7 @@ macs3 callpeak \ ...@@ -24,7 +24,7 @@ macs3 callpeak \
--control ${bam_control} \ --control ${bam_control} \
--keep-dup all \ --keep-dup all \
--name ${bam_ip.simpleName} \ --name ${bam_ip.simpleName} \
--gsize ${macs3_genome_size} 2> \ --gsize ${params.macs_gsize} 2> \
${bam_ip.simpleName}_macs3_report.txt ${bam_ip.simpleName}_macs3_report.txt
if grep -q "ERROR" ${bam_ip.simpleName}_macs3_report.txt; then if grep -q "ERROR" ${bam_ip.simpleName}_macs3_report.txt; then
...@@ -59,7 +59,7 @@ macs3 callpeak \ ...@@ -59,7 +59,7 @@ macs3 callpeak \
--control ${bg_control.simpleName}.bed \ --control ${bg_control.simpleName}.bed \
--keep-dup all \ --keep-dup all \
--name ${bg_ip.simpleName} \ --name ${bg_ip.simpleName} \
--gsize ${macs3_genome_size} 2> \ --gsize ${params.macs_gsize} 2> \
${bg_ip.simpleName}_macs3_report.txt ${bg_ip.simpleName}_macs3_report.txt
if grep -q "ERROR" ${bg_ip.simpleName}_macs3_report.txt; then if grep -q "ERROR" ${bg_ip.simpleName}_macs3_report.txt; then
......
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