diff options
Diffstat (limited to 'tools/snpeff-annotate.nix')
-rw-r--r-- | tools/snpeff-annotate.nix | 9 |
1 files changed, 4 insertions, 5 deletions
diff --git a/tools/snpeff-annotate.nix b/tools/snpeff-annotate.nix index a119c3c..dee99f1 100644 --- a/tools/snpeff-annotate.nix +++ b/tools/snpeff-annotate.nix @@ -1,21 +1,20 @@ {bionix -,nixpkgs ,db ,flags ? ""}: input: -with nixpkgs; -with bionix.types; +with bionix; +with types; assert (matchFiletype "snpeff-annotate" { vcf = _: true; } input); -stdenv.mkDerivation { +stage { name = "snpeff-annotate"; + buildInputs = with pkgs; [ snpeff ]; buildCommand = '' ln -s ${db} ${db.name} snpeff -nodownload -dataDir $TMPDIR ${db.name} ${input} > $out ''; - buildInputs = [ snpeff ]; passthru.filetype = input.filetype; } |