diff options
Diffstat (limited to 'tools/strelka.nix')
| -rw-r--r-- | tools/strelka.nix | 12 |
1 files changed, 6 insertions, 6 deletions
diff --git a/tools/strelka.nix b/tools/strelka.nix index 1cf8961..d3068b5 100644 --- a/tools/strelka.nix +++ b/tools/strelka.nix @@ -20,9 +20,9 @@ with types; drv: stage { name = "strelka-call-variants"; buildCommand = '' - ln -s ${drv}/variants/variants.vcf.gz $out + ln -s ${drv}/variants/variants.vcf $out ''; - passthru.filetype = filetype.gz (filetype.vcf {ref=ref;}); + passthru.filetype = filetype.vcf {ref=ref;}; }; /* Extract indels from somatic results Type: indels :: somatic results -> vcf @@ -31,8 +31,8 @@ with types; # result of callSomatic drv: stage { name = "strelka-callVariants-indels"; - buildCommand = "ln -s ${drv}/variants/somatic.indels.vcf.gz $out"; - passthru.filetype = filetype.gz (filetype.vcf {ref = ref;}); + buildCommand = "ln -s ${drv}/variants/somatic.indels.vcf $out"; + passthru.filetype = filetype.vcf {ref = ref;}; }; /* Extract SNVs from somatic results Type: snvs :: somatic results -> vcf @@ -41,7 +41,7 @@ with types; # result of callSomatic drv: stage { name = "strelka-callVariants-snvs"; - buildCommand = "ln -s ${drv}/variants/somatic.snvs.vcf.gz $out"; - passthru.filetype = filetype.gz (filetype.vcf {ref = ref;}); + buildCommand = "ln -s ${drv}/variants/somatic.snvs.vcf $out"; + passthru.filetype = filetype.vcf {ref = ref;}; }; } |