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

Rev picard, sam-jdk, tribble, and variant jars to 1.104.1628 

-update VariantFiltration to work with new Lazy wrapper around the
 JexlEngine in VariantContextUtils
This commit is contained in:
David Roazen 2013-12-05 12:25:33 -05:00
parent 6d2fcd2df9
commit 0e65296efb
11 changed files with 9 additions and 9 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
public/java/src/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltration.java
View File

@ -230,7 +230,7 @@ public class VariantFiltration extends RodWalker<Integer, Integer> {
filterExps = VariantContextUtils.initializeMatchExps(FILTER_NAMES, FILTER_EXPS);
genotypeFilterExps = VariantContextUtils.initializeMatchExps(GENOTYPE_FILTER_NAMES, GENOTYPE_FILTER_EXPS);
VariantContextUtils.engine.setSilent(true);
VariantContextUtils.engine.get().setSilent(true);
initializeVcfWriter();
}

3
settings/repository/net.sf/picard-1.102.1595.xml
View File

@ -1,3 +0,0 @@
<ivy-module version="1.0">
<info organisation="net.sf" module="picard" revision="1.102.1595" status="release" />
</ivy-module>

BIN
settings/repository/net.sf/picard-1.102.1595.jar → settings/repository/net.sf/picard-1.104.1628.jar
View File

Binary file not shown.

3
settings/repository/net.sf/picard-1.104.1628.xml 100644
View File

@ -0,0 +1,3 @@
<ivy-module version="1.0">
<info organisation="net.sf" module="picard" revision="1.104.1628" status="release" />
</ivy-module>

3
settings/repository/net.sf/sam-1.102.1595.xml
View File

@ -1,3 +0,0 @@
<ivy-module version="1.0">
<info organisation="net.sf" module="sam" revision="1.102.1595" status="release" />
</ivy-module>

BIN
settings/repository/net.sf/sam-1.102.1595.jar → settings/repository/net.sf/sam-1.104.1628.jar
View File

Binary file not shown.

3
settings/repository/net.sf/sam-1.104.1628.xml 100644
View File

@ -0,0 +1,3 @@
<ivy-module version="1.0">
<info organisation="net.sf" module="sam" revision="1.104.1628" status="release" />
</ivy-module>

BIN
settings/repository/org.broad/tribble-1.102.1595.jar → settings/repository/org.broad/tribble-1.104.1628.jar
View File

Binary file not shown.

2
settings/repository/org.broad/tribble-1.102.1595.xml → settings/repository/org.broad/tribble-1.104.1628.xml
View File

@ -1,3 +1,3 @@
<ivy-module version="1.0">
<info organisation="org.broad" module="tribble" revision="1.102.1595" status="integration" />
<info organisation="org.broad" module="tribble" revision="1.104.1628" status="integration" />
</ivy-module>

BIN
settings/repository/org.broadinstitute/variant-1.102.1595.jar → settings/repository/org.broadinstitute/variant-1.104.1628.jar
View File

Binary file not shown.

2
settings/repository/org.broadinstitute/variant-1.102.1595.xml → settings/repository/org.broadinstitute/variant-1.104.1628.xml
View File

@ -1,3 +1,3 @@
<ivy-module version="1.0">
<info organisation="org.broadinstitute" module="variant" revision="1.102.1595" status="integration" />
<info organisation="org.broadinstitute" module="variant" revision="1.104.1628" status="integration" />
</ivy-module>