zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Don't try to share BCF2 yet

This commit is contained in:
Mark DePristo 2012-05-21 10:50:59 -04:00
parent c8ed0bfc4c
commit 6f469305ab
2 changed files with 3 additions and 2 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
build.xml
View File

@ -641,7 +641,7 @@
<jar jarfile="${dist.dir}/vcf.jar"> <jar jarfile="${dist.dir}/vcf.jar">
<fileset dir="${java.classes}"> <fileset dir="${java.classes}">
<include name="org/broadinstitute/sting/utils/codecs/vcf/**/*.class"/> <include name="org/broadinstitute/sting/utils/codecs/vcf/**/*.class"/>
<include name="org/broadinstitute/sting/utils/codecs/bcf2/**/*.class"/> <!-- <include name="org/broadinstitute/sting/utils/codecs/bcf2/**/*.class"/> -->
<include name="org/broadinstitute/sting/utils/variantcontext/**/*.class"/> <include name="org/broadinstitute/sting/utils/variantcontext/**/*.class"/>
<include name="org/broadinstitute/sting/utils/exceptions/**"/> <include name="org/broadinstitute/sting/utils/exceptions/**"/>
<include name="org/broadinstitute/sting/utils/help/DocumentedGATKFeature.class"/> <include name="org/broadinstitute/sting/utils/help/DocumentedGATKFeature.class"/>

3
public/java/test/org/broadinstitute/sting/utils/variantcontext/VCFJarClassLoadingUnitTest.java
View File

@ -50,7 +50,8 @@ public class VCFJarClassLoadingUnitTest {
ClassLoader classLoader = new URLClassLoader(jarURLs, null); ClassLoader classLoader = new URLClassLoader(jarURLs, null);
classLoader.loadClass("org.broadinstitute.sting.utils.variantcontext.VariantContext"); classLoader.loadClass("org.broadinstitute.sting.utils.variantcontext.VariantContext");
classLoader.loadClass("org.broadinstitute.sting.utils.codecs.bcf2.BCF2Codec"); // TODO -- uncomment when we include BCF2 codec
// classLoader.loadClass("org.broadinstitute.sting.utils.codecs.bcf2.BCF2Codec");
classLoader.loadClass("org.broadinstitute.sting.utils.codecs.vcf.VCFCodec"); classLoader.loadClass("org.broadinstitute.sting.utils.codecs.vcf.VCFCodec");
classLoader.loadClass("org.broadinstitute.sting.utils.codecs.vcf.VCF3Codec"); classLoader.loadClass("org.broadinstitute.sting.utils.codecs.vcf.VCF3Codec");
classLoader.loadClass("org.broadinstitute.sting.utils.variantcontext.writer.VariantContextWriter"); classLoader.loadClass("org.broadinstitute.sting.utils.variantcontext.writer.VariantContextWriter");