diff options
Diffstat (limited to 'tools/gridss-annotateVariants.nix')
-rw-r--r-- | tools/gridss-annotateVariants.nix | 4 |
1 files changed, 3 insertions, 1 deletions
diff --git a/tools/gridss-annotateVariants.nix b/tools/gridss-annotateVariants.nix index df3b1bd..d5390b9 100644 --- a/tools/gridss-annotateVariants.nix +++ b/tools/gridss-annotateVariants.nix @@ -9,6 +9,8 @@ , identifyVariantsAttrs ? {} , flags ? null , config ? null +, heapSize ? "4g" + }: with nixpkgs; @@ -66,7 +68,7 @@ stdenv.mkDerivation rec { ${concatMapStringsSep "\n" (linkInput collectMetrics collectMetricsAttrs) inputs} ${linkInput collectMetrics collectMetricsAttrs assembly} ln -s ${identifyVariants identifyVariantsAttrs inputs} input.vcf - java -Xmx4g -Dsamjdk.create_index=true \ + java -Xmx${heapSize} -Dsamjdk.create_index=true \ -cp ${jar} gridss.AnnotateVariants \ REFERENCE_SEQUENCE=ref.fa \ ${concatMapStringsSep " " (i: "INPUT='${i}'") inputs} \ |