htsjdk.variant.variantcontext.writer
Class BCF2FieldEncoder.GenericInts
java.lang.Object
htsjdk.variant.variantcontext.writer.BCF2FieldEncoder
htsjdk.variant.variantcontext.writer.BCF2FieldEncoder.GenericInts
- Enclosing class:
- BCF2FieldEncoder
public static class BCF2FieldEncoder.GenericInts
- extends BCF2FieldEncoder
Methods inherited from class htsjdk.variant.variantcontext.writer.BCF2FieldEncoder |
getCountType, getField, getStaticType, getType, hasConstantNumElements, hasContextDeterminedNumElements, hasValueDeterminedNumElements, isDynamicallyTyped, isStaticallyTyped, numElements, numElements, numElements, numElements, numElementsFromValue, toString, writeFieldKey |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
BCF2FieldEncoder.GenericInts
public BCF2FieldEncoder.GenericInts(VCFCompoundHeaderLine headerLine,
java.util.Map<java.lang.String,java.lang.Integer> dict)
getDynamicType
public BCF2Type getDynamicType(java.lang.Object value)
- Overrides:
getDynamicType
in class BCF2FieldEncoder
encodeValue
public void encodeValue(BCF2Encoder encoder,
java.lang.Object value,
BCF2Type type,
int minValues)
throws java.io.IOException
- Description copied from class:
BCF2FieldEncoder
- Key abstract method that should encode a value of the given type into the encoder.
Value will be of a type appropriate to the underlying encoder. If the genotype field is represented as
an int[], this will be value, and the encoder needs to handle encoding all of the values in the int[].
The argument should be used, not the getType() method in the superclass as an outer loop might have
decided a more general type (int16) to use, even through this encoder could have been done with int8.
If minValues > 0, then encodeValue must write in at least minValues items from value. If value is atomic,
this means that minValues - 1 MISSING values should be added to the encoder. If minValues is a collection
type (int[]) then minValues - values.length should be added. This argument is intended to handle padding
of values in genotype fields.
- Specified by:
encodeValue
in class BCF2FieldEncoder
- Throws:
java.io.IOException