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As per the TODO message, I removed a check that was no longer necessary. Now ID is an allowable INFO field key.

This commit is contained in:
Eric Banks 2012-11-21 16:01:26 -05:00
parent ed50814ccb
commit 4f2229d399
1 changed files with 0 additions and 7 deletions
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7
public/java/src/org/broadinstitute/sting/utils/variantcontext/VariantContext.java
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@ -184,9 +184,6 @@ public class VariantContext implements Feature { // to enable tribble integratio
protected CommonInfo commonInfo = null; protected CommonInfo commonInfo = null;
public final static double NO_LOG10_PERROR = CommonInfo.NO_LOG10_PERROR; public final static double NO_LOG10_PERROR = CommonInfo.NO_LOG10_PERROR;
@Deprecated // ID is no longer stored in the attributes map
private final static String ID_KEY = "ID";
public final static Set<String> PASSES_FILTERS = Collections.unmodifiableSet(new LinkedHashSet<String>()); public final static Set<String> PASSES_FILTERS = Collections.unmodifiableSet(new LinkedHashSet<String>());
/** The location of this VariantContext */ /** The location of this VariantContext */
@ -287,10 +284,6 @@ public class VariantContext implements Feature { // to enable tribble integratio
this.commonInfo = new CommonInfo(source, log10PError, filters, attributes); this.commonInfo = new CommonInfo(source, log10PError, filters, attributes);
// todo -- remove me when this check is no longer necessary
if ( this.commonInfo.hasAttribute(ID_KEY) )
throw new IllegalArgumentException("Trying to create a VariantContext with a ID key. Please use provided constructor argument ID");
if ( alleles == null ) { throw new IllegalArgumentException("Alleles cannot be null"); } if ( alleles == null ) { throw new IllegalArgumentException("Alleles cannot be null"); }
// we need to make this a LinkedHashSet in case the user prefers a given ordering of alleles // we need to make this a LinkedHashSet in case the user prefers a given ordering of alleles