From 05c164ec6917f9d3a8e08a86444207e878995f27 Mon Sep 17 00:00:00 2001 From: aaron Date: Tue, 1 Sep 2009 14:46:00 +0000 Subject: [PATCH] changing the default behavior to allow any sized read pile-up (which may exceed the memory limit); the user can then select their own read limit. The default of 100K was arbitrary. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1498 348d0f76-0448-11de-a6fe-93d51630548a --- .../org/broadinstitute/sting/gatk/GATKArgumentCollection.java | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java b/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java index beb54e03f..31bcf1083 100755 --- a/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java +++ b/java/src/org/broadinstitute/sting/gatk/GATKArgumentCollection.java @@ -122,8 +122,8 @@ public class GATKArgumentCollection { public Boolean unsafe = false; @Element(required = false) - @Argument(fullName = "max_reads_at_locus", shortName = "mrl", doc = "Sets the upper limit for the number of reads presented at a single locus. 100,000 by default.", required = false) - public int readMaxPileup = 100000; + @Argument(fullName = "max_reads_at_locus", shortName = "mrl", doc = "Sets the upper limit for the number of reads presented at a single locus. int.MAX_VALUE by default.", required = false) + public int readMaxPileup = Integer.MAX_VALUE; @Element(required = false) @Argument(fullName = "disablethreading", shortName = "dt", doc = "Disable experimental threading support.", required = false)