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Convert between dishevelled and htsjdk data models.
/*
dsh-bio-convert-htsjdk Convert between dishevelled and htsjdk data models.
Copyright (c) 2013-2022 held jointly by the individual authors.
This library is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License as published
by the Free Software Foundation; either version 3 of the License, or (at
your option) any later version.
This library is distributed in the hope that it will be useful, but WITHOUT
ANY WARRANTY; with out even the implied warranty of MERCHANTABILITY or
FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public
License for more details.
You should have received a copy of the GNU Lesser General Public License
along with this library; if not, write to the Free Software Foundation,
Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
> http://www.fsf.org/licensing/licenses/lgpl.html
> http://www.opensource.org/licenses/lgpl-license.php
*/
package org.dishevelled.bio.convert.htsjdk;
import javax.annotation.concurrent.Immutable;
import htsjdk.variant.vcf.VCFFilterHeaderLine;
import htsjdk.variant.vcf.VCFFormatHeaderLine;
import htsjdk.variant.vcf.VCFHeaderLineCount;
import htsjdk.variant.vcf.VCFHeaderLineType;
import htsjdk.variant.vcf.VCFInfoHeaderLine;
import com.google.inject.AbstractModule;
import com.google.inject.Provides;
import com.google.inject.Singleton;
import org.bdgenomics.convert.Converter;
import org.dishevelled.bio.variant.vcf.header.VcfFilterHeaderLine;
import org.dishevelled.bio.variant.vcf.header.VcfFormatHeaderLine;
import org.dishevelled.bio.variant.vcf.header.VcfHeaderLineNumber;
import org.dishevelled.bio.variant.vcf.header.VcfHeaderLineType;
import org.dishevelled.bio.variant.vcf.header.VcfInfoHeaderLine;
/**
* Guice module for the org.dishevelled.bio.convert.htsjdk package.
*
* @author Michael Heuer
*/
@Immutable
public final class HtsjdkModule extends AbstractModule {
@Override
protected void configure() {
// empty
}
@Provides @Singleton
Converter createVcfHeaderLineNumberToVCFHeaderLineCount() {
return new VcfHeaderLineNumberToVCFHeaderLineCount();
}
@Provides @Singleton
Converter createVcfHeaderLineTypeToVCFHeaderLineType() {
return new VcfHeaderLineTypeToVCFHeaderLineType();
}
@Provides @Singleton
Converter createVcfFilterHeaderLineToVCFFilterHeaderLine() {
return new VcfFilterHeaderLineToVCFFilterHeaderLine();
}
@Provides @Singleton
Converter createVcfFormatHeaderLineToVCFFormatHeaderLine(final Converter numberConverter,
final Converter typeConverter) {
return new VcfFormatHeaderLineToVCFFormatHeaderLine(numberConverter, typeConverter);
}
@Provides @Singleton
Converter createVcfInfoHeaderLineToVCFInfoHeaderLine(final Converter numberConverter,
final Converter typeConverter) {
return new VcfInfoHeaderLineToVCFInfoHeaderLine(numberConverter, typeConverter);
}
}