diff options
Diffstat (limited to 'tools')
| -rw-r--r-- | tools/snpeff-dbnsfp.nix | 4 |
1 files changed, 3 insertions, 1 deletions
diff --git a/tools/snpeff-dbnsfp.nix b/tools/snpeff-dbnsfp.nix index 003f7f8..ec09f14 100644 --- a/tools/snpeff-dbnsfp.nix +++ b/tools/snpeff-dbnsfp.nix @@ -1,12 +1,14 @@ { bionix , dbnsfp , heapSize ? "31g" +, fields ? [ ] , flags ? "" }: input: with bionix; +with lib; with types; assert (matchFiletype "snpeff-dbnsfp" { vcf = _: true; } input); @@ -17,7 +19,7 @@ stage { buildCommand = '' ln -s ${dbnsfp.db} dbNSFP.txt.gz ln -s ${dbnsfp.index} dbNSFP.txt.gz.tbi - snpsift dbnsfp -db dbNSFP.txt.gz ${input} > $out + snpsift dbnsfp -db dbNSFP.txt.gz ${optionalString (length fields > 0) "-f ${concatStringsSep "," fields}"} ${flags} ${input} > $out ''; buildInputs = with pkgs; [ snpeff ]; passthru.filetype = input.filetype; |