diff options
Diffstat (limited to 'tools')
| -rw-r--r-- | tools/mosdepth-depth.nix | 6 |
1 files changed, 5 insertions, 1 deletions
diff --git a/tools/mosdepth-depth.nix b/tools/mosdepth-depth.nix index 586cdcb..be28aaf 100644 --- a/tools/mosdepth-depth.nix +++ b/tools/mosdepth-depth.nix @@ -1,6 +1,8 @@ { stdenv , lib +, callPackage , mosdepth +, index ? callPackage ./samtools-index.nix {} , flags ? null}: with lib; @@ -12,6 +14,8 @@ stdenv.mkDerivation { buildInputs = [ mosdepth ]; buildCommand = '' mkdir $out - mosdepth -t $NIX_BUILD_CORES ${optionalString (flags != null) flags} $out/out ${input} + ln -s ${input} input.bam + ln -s ${index input} input.bam.bai + mosdepth -t $NIX_BUILD_CORES ${optionalString (flags != null) flags} $out/out input.bam ''; } |