diff options
| author | Justin Bedo <cu@cua0.org> | 2020-10-13 08:39:36 +1100 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2020-10-13 08:39:36 +1100 |
| commit | 2e348fecd73df140c95089ad0304fd93088721f7 (patch) | |
| tree | 3d55f5e14d3b6ad810b57516a41c9cf15068d126 | |
| parent | 9cf1724895f001c625fba37d78f517acb6938e07 (diff) | |
mutect: fix app expression and tag output as vcf
| -rw-r--r-- | tools/mutect-app.nix | 2 | ||||
| -rw-r--r-- | tools/mutect-call.nix | 1 |
2 files changed, 2 insertions, 1 deletions
diff --git a/tools/mutect-app.nix b/tools/mutect-app.nix index 02c4f51..ca78d34 100644 --- a/tools/mutect-app.nix +++ b/tools/mutect-app.nix @@ -19,7 +19,7 @@ in stdenv.mkDerivation rec { sha256 = "1pq7iv720bp970qsyyshwk98xdb7naw566y6gk9cpj6bmm08z9v3"; }; - buildInputs = [ makeWrapper jre unzip ]; + buildInputs = [ makeWrapper unzip ]; unpackPhase = '' unzip $src -d $TMPDIR diff --git a/tools/mutect-call.nix b/tools/mutect-call.nix index e2fe3a1..e98ba4b 100644 --- a/tools/mutect-call.nix +++ b/tools/mutect-call.nix @@ -38,4 +38,5 @@ stage { --input_file:tumour tumour.bam \ --out $out ''; + passthru.filetype = types.filetype.vcf { inherit ref; }; } |