htsjdk.variant.vcf

Interface VCFTextTransformer

All Known Implementing Classes:

VCFPassThruTextTransformer, VCFPercentEncodedTextTransformer

public interface VCFTextTransformer

Interface for transforming attribute values embedded in VCF. VCF version 4.3 supports percent-encoding of characters that have special meaning in VCF. Pre-v43, such encoding are not supported and no transformation needs to be done.

Method Summary

Modifier and Type	Method and Description
java.util.List<java.lang.String>	decodeText(java.util.List<java.lang.String> rawParts) Transform a list of strings.
java.lang.String	decodeText(java.lang.String rawPart) Transform a single string.

Method Detail

decodeText

java.lang.String decodeText(java.lang.String rawPart)

Transform a single string.

Parameters:

rawPart - the raw string to be decoded

Returns:

the decoded string

Throws:

TribbleException - if the the encoding is uninterpretable

decodeText

java.util.List<java.lang.String> decodeText(java.util.List<java.lang.String> rawParts)

Transform a list of strings.

Parameters:

rawParts - a list of raw strings

Returns:

a list of decoded strings

Throws:

TribbleException - if the the encoding is uninterpretable