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Verified Commit eab763e8 authored by Laurent Modolo's avatar Laurent Modolo
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macs3: fix awk cmd

parent 0d885dcd
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...@@ -47,9 +47,9 @@ process peak_calling_bg { ...@@ -47,9 +47,9 @@ process peak_calling_bg {
script: script:
/* remove --nomodel option for real dataset */ /* remove --nomodel option for real dataset */
""" """
awk '{print $1"\t"$2"\t"$3"\t.\t+\t"$4}' ${file_ip} > \ awk '{print \$1"\t"\$2"\t"\$3"\t.\t+\t"\$4}' ${file_ip} > \
${file_ip.simpleName}.bed ${file_ip.simpleName}.bed
awk '{print $1"\t"$2"\t"$3"\t.\t+\t"$4}' ${file_control} > \ awk '{print \$1"\t"\$2"\t"\$3"\t.\t+\t"\$4}' ${file_control} > \
${file_control.simpleName}.bed ${file_control.simpleName}.bed
macs2 callpeak \ macs2 callpeak \
--treatment ${file_ip.simpleName}.bed \ --treatment ${file_ip.simpleName}.bed \
......
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