diff options
Diffstat (limited to 'tools')
| -rw-r--r-- | tools/strelka-callSomatic.nix | 4 |
1 files changed, 3 insertions, 1 deletions
diff --git a/tools/strelka-callSomatic.nix b/tools/strelka-callSomatic.nix index fd58d33..b409344 100644 --- a/tools/strelka-callSomatic.nix +++ b/tools/strelka-callSomatic.nix @@ -26,7 +26,7 @@ let out = stage { name = "strelka-callSomatic"; buildInputs = with pkgs; [ strelka ]; - outputs = [ "indels" "snvs" ]; + outputs = [ "out" "indels" "snvs" ]; buildCommand = '' ln -s ${ref} ref.fa ln -s ${bionix.samtools.faidx indexAttrs ref} ref.fa.fai @@ -56,6 +56,8 @@ out = stage { done mv somatic.indels.vcf $indels mv somatic.snvs.vcf $snvs + + ln -s $snvs $out ''; passthru.multicore = true; passthru.filetype = types.filetype.vcf {ref = ref;}; |