htsjdk.variant.variantcontext.writer.Options Maven / Gradle / Ivy
/*
* Copyright (c) 2012 The Broad Institute
*
* Permission is hereby granted, free of charge, to any person
* obtaining a copy of this software and associated documentation
* files (the "Software"), to deal in the Software without
* restriction, including without limitation the rights to use,
* copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the
* Software is furnished to do so, subject to the following
* conditions:
*
* The above copyright notice and this permission notice shall be
* included in all copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
* EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
* OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
* NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
* HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
* WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
* FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR
* THE USE OR OTHER DEALINGS IN THE SOFTWARE.
*/
package htsjdk.variant.variantcontext.writer;
/**
* Available writer options for VariantContextWriters
*
* @author Mark DePristo
* @since 5/12
*/
public enum Options {
INDEX_ON_THE_FLY,
DO_NOT_WRITE_GENOTYPES,
ALLOW_MISSING_FIELDS_IN_HEADER,
FORCE_BCF,
USE_ASYNC_IO, // Turn on or off the use of asynchronous IO for writing output VCF files.
WRITE_FULL_FORMAT_FIELD // Write the complete format field, even if trailing missing values could be trimmed?
}