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better to use _ instead of ., as this is a special case later.

This commit is contained in:
Mark DePristo 2011-07-14 14:45:16 -04:00
parent 9540df6998
commit 5ffeddd3b1
1 changed files with 3 additions and 1 deletions
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4
public/java/src/org/broadinstitute/sting/gatk/walkers/diffengine/VCFDiffableReader.java
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@ -56,7 +56,9 @@ public class VCFDiffableReader implements DiffableReader {
// must be read as state is stored in reader itself // must be read as state is stored in reader itself
VCFHeader header = (VCFHeader)vcfCodec.readHeader(lineReader); VCFHeader header = (VCFHeader)vcfCodec.readHeader(lineReader);
for ( VCFHeaderLine headerLine : header.getMetaData() ) { for ( VCFHeaderLine headerLine : header.getMetaData() ) {
final String key = (headerLine instanceof VCFNamedHeaderLine ? headerLine.getKey() + "." + ((VCFNamedHeaderLine) headerLine).getName() : headerLine.getKey()); String key = headerLine.getKey();
if ( headerLine instanceof VCFNamedHeaderLine )
key += "_" + ((VCFNamedHeaderLine) headerLine).getName();
root.add(key, headerLine.toString()); root.add(key, headerLine.toString());
} }