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Fixed exception for BAMs without filenames (unit tests, BAM input streaming, 

etc.).


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5379 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2011-03-06 13:43:49 +00:00
parent ad51f30244
commit c40efe1dea
1 changed files with 1 additions and 1 deletions
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2
java/src/org/broadinstitute/sting/utils/exceptions/UserException.java
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@ -137,7 +137,7 @@ public class UserException extends ReviewedStingException {
public static class MalformedBAM extends UserException {
public MalformedBAM(SAMRecord read, String message) {
super(String.format("SAM/BAM file %s is malformed: %s", read.getFileSource().getReader(), message));
super(String.format("SAM/BAM file %s is malformed: %s", read.getFileSource() != null ? read.getFileSource().getReader() : "(none)", message));
}
}