From 11833086922e38561dcbb0cb772c0e29e493ff1b Mon Sep 17 00:00:00 2001
From: Chris Nobles <chris.l.nobles@gmail.com>
Date: Wed, 5 Aug 2015 12:06:10 -0400
Subject: [PATCH] fix #30 Can run fragment length abundance by default or
 sonicLenth

---
 makeGeneTherapyPatientReport.R | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/makeGeneTherapyPatientReport.R b/makeGeneTherapyPatientReport.R
index 8eff20f..2717d11 100644
--- a/makeGeneTherapyPatientReport.R
+++ b/makeGeneTherapyPatientReport.R
@@ -11,7 +11,7 @@ if( length(args)==1 ) {
 }
 if( length(args)==2 & args[2] == "-s"){
   csvfile <- args[1]
-  use.sonicLength <- TRUE
+  use.sonicLength <- FALSE
 }else if(length(args)==2 & args[2] != "-s"){
   message("Incorrect flags.")
   stop()