From 262c08aee3dd1d11063da45792d85d051c85644b Mon Sep 17 00:00:00 2001
From: Ron Levine <rlevine@broadinstitute.org>
Date: Wed, 23 Nov 2016 01:06:13 -0500
Subject: [PATCH] Make exit system file type message generic

---
 .../gatk/utils/commandline/CommandLineProgram.java            | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/public/gatk-utils/src/main/java/org/broadinstitute/gatk/utils/commandline/CommandLineProgram.java b/public/gatk-utils/src/main/java/org/broadinstitute/gatk/utils/commandline/CommandLineProgram.java
index 04ed1c135..8bb1c3f29 100644
--- a/public/gatk-utils/src/main/java/org/broadinstitute/gatk/utils/commandline/CommandLineProgram.java
+++ b/public/gatk-utils/src/main/java/org/broadinstitute/gatk/utils/commandline/CommandLineProgram.java
@@ -457,9 +457,9 @@ public abstract class CommandLineProgram {
             throw new ReviewedGATKException("SamException found with no message!", t);
 
         errorPrintf("------------------------------------------------------------------------------------------%n");
-        errorPrintf("A BAM/CRAM ERROR has occurred (version %s): %n", getVersionNumber());
+        errorPrintf("AN INPUT FILE ERROR has occurred (version %s): %n", getVersionNumber());
         errorPrintf("%n");
-        errorPrintf("This means that there is something wrong with the BAM/CRAM file(s) you provided.%n");
+        errorPrintf("This means that there is something wrong with the input file(s) you provided.%n");
         errorPrintf("The error message below tells you what is the problem.%n");
         errorPrintf("%n");
         printDocumentationReference();