diff options
| author | l-d-s <distefano.l@wehi.edu.au> | 2018-12-10 16:42:16 +1100 |
|---|---|---|
| committer | l-d-s <distefano.l@wehi.edu.au> | 2018-12-10 16:42:16 +1100 |
| commit | 6742864b8f92f5d7d56da4901486b7e83a271e23 (patch) | |
| tree | ad9d65650db23fca88b133bb70814f20e4be1cfe /tools/gridss-assemble.nix | |
| parent | 238c059743605853472d172f430227e06e20b891 (diff) | |
gridss: add java heapSize arguments.
Diffstat (limited to 'tools/gridss-assemble.nix')
| -rw-r--r-- | tools/gridss-assemble.nix | 3 |
1 files changed, 2 insertions, 1 deletions
diff --git a/tools/gridss-assemble.nix b/tools/gridss-assemble.nix index b24f742..00408d6 100644 --- a/tools/gridss-assemble.nix +++ b/tools/gridss-assemble.nix @@ -6,6 +6,7 @@ , collectMetricsAttrs ? {} , flags ? null , config ? null +, heapSize ? "31g" }: with nixpkgs; @@ -46,7 +47,7 @@ stdenv.mkDerivation rec { ln -s $f done ${concatMapStringsSep "\n" linkInput inputs} - java -Xmx31g -Dsamjdk.create_index=true \ + java -Xmx${heapSize} -Dsamjdk.create_index=true \ -cp ${bionix.gridss.jar} gridss.AssembleBreakends \ REFERENCE_SEQUENCE=ref.fa \ ${concatMapStringsSep " " (i: "INPUT='${i}'") inputs} \ |