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-rw-r--r--tools/gridss-variants.nix2
1 files changed, 1 insertions, 1 deletions
diff --git a/tools/gridss-variants.nix b/tools/gridss-variants.nix
index a838da6..87c2877 100644
--- a/tools/gridss-variants.nix
+++ b/tools/gridss-variants.nix
@@ -90,7 +90,7 @@ rec {
name = "gridss-annotateVariants";
buildInputs = [ jre ];
buildCommand = mkLinks + ''
- ln -s ${identify} input.vcf
+ ln -s ${bionix.gridss.identifyVariants {inherit bwaIndexAttrs faidxAttrs indexAttrs assemblyAttrs collectMetricsAttrs softClipsToSplitReadsAttrs flags config; } inputs} input.vcf
java -Xmx4g -Dsamjdk.create_index=true \
-cp ${jar} gridss.AnnotateVariants \
REFERENCE_SEQUENCE=ref.fa \