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Cleanup code in VariantContext

This commit is contained in:
Mark DePristo 2012-08-23 08:55:27 -04:00
parent d973863039
commit 0b735884db
1 changed files with 1 additions and 2 deletions
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3
public/java/src/org/broadinstitute/sting/utils/variantcontext/VariantContext.java
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@ -1,6 +1,5 @@
package org.broadinstitute.sting.utils.variantcontext; package org.broadinstitute.sting.utils.variantcontext;
import org.apache.commons.math.stat.descriptive.rank.Max;
import org.apache.log4j.Logger; import org.apache.log4j.Logger;
import org.broad.tribble.Feature; import org.broad.tribble.Feature;
import org.broad.tribble.TribbleException; import org.broad.tribble.TribbleException;
@ -179,7 +178,7 @@ import java.util.*;
*/ */
public class VariantContext implements Feature { // to enable tribble integration public class VariantContext implements Feature { // to enable tribble integration
private final static boolean WARN_ABOUT_BAD_END = true; private final static boolean WARN_ABOUT_BAD_END = true;
private final static long MAX_ALLELE_SIZE_FOR_NON_SV = 150; private final static int MAX_ALLELE_SIZE_FOR_NON_SV = 150;
final protected static Logger logger = Logger.getLogger(VariantContext.class); final protected static Logger logger = Logger.getLogger(VariantContext.class);
private boolean fullyDecoded = false; private boolean fullyDecoded = false;
protected CommonInfo commonInfo = null; protected CommonInfo commonInfo = null;