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Commit 99192a4a authored by bow's avatar bow
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Remove CLI option for max read per interval

parent f3ea203e
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......@@ -93,10 +93,6 @@ object ExtractAlignedFastq extends ToolCommand {
opt[File]("o2") optional() valueName "<fastq>" action { (x, c) =>
c.copy(outputFastq1 = x) } text "Output FASTQ file 2 (default: none)"
opt[Int]('N', "max_read_per_interval") optional() valueName "<num>" action { (x, c) =>
c.copy(maxReadPerInterval = x)
} text "Maximum number of reads to capture per given interval (default: " + Int.MaxValue.toString + ")"
opt[Int]('Q', "min_mapq") optional() action { (x, c) =>
c.copy(minMapQ = x) } text "Minimum MAPQ of reads in target region to remove (default: 0)"
......
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