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Marginally cleaner isVCFStream() function 

-- cleanup trying to debug minor bug.  Failed to fix the bug, but the code is nicer now
This commit is contained in:
Mark DePristo 2011-09-21 15:25:01 -04:00
parent 74f9ccf6dd
commit 9f6f0c443c
1 changed files with 7 additions and 4 deletions
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11
public/java/src/org/broadinstitute/sting/utils/codecs/vcf/AbstractVCFCodec.java
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@ -601,12 +601,15 @@ public abstract class AbstractVCFCodec implements FeatureCodec, NameAwareCodec,
private final static boolean isVCFStream(final InputStream stream, final String MAGIC_HEADER_LINE) { private final static boolean isVCFStream(final InputStream stream, final String MAGIC_HEADER_LINE) {
try { try {
byte[] buff = new byte[MAGIC_HEADER_LINE.length()]; byte[] buff = new byte[MAGIC_HEADER_LINE.length()];
stream.read(buff, 0, MAGIC_HEADER_LINE.length()); int nread = stream.read(buff, 0, MAGIC_HEADER_LINE.length());
String firstLine = new String(buff); boolean eq = Arrays.equals(buff, MAGIC_HEADER_LINE.getBytes());
stream.close(); return eq;
return firstLine.startsWith(MAGIC_HEADER_LINE); // String firstLine = new String(buff);
// return firstLine.startsWith(MAGIC_HEADER_LINE);
} catch ( IOException e ) { } catch ( IOException e ) {
return false; return false;
} finally {
try { stream.close(); } catch ( IOException e ) {}
} }
} }
} }