diff options
| author | Justin Bedo <cu@cua0.org> | 2022-02-28 20:53:00 +1100 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2022-03-09 13:57:07 +1100 |
| commit | c4255587d157100db3bc05fa1feba4f16ffe140c (patch) | |
| tree | a65f0f07163716a20413fb6dbf6ab3788c979d36 | |
| parent | e67120ee854880c6c47628baddb6218adfeec81c (diff) | |
octopus: strip ARGV line to prevent huge closures
| -rw-r--r-- | tools/octopus-call.nix | 4 | ||||
| -rw-r--r-- | tools/octopus-callSomatic.nix | 4 |
2 files changed, 8 insertions, 0 deletions
diff --git a/tools/octopus-call.nix b/tools/octopus-call.nix index 252e210..8a78f01 100644 --- a/tools/octopus-call.nix +++ b/tools/octopus-call.nix @@ -63,7 +63,11 @@ stage { ${optionalString (max-genotypes != null) "--max-genotypes ${toString max-genotypes}"} \ ${optionalString (targets != null) (handleTarget targets)} \ ${flags} + + # Strip out octopus ARGV + sed -i '/^##octopus=/d' $out ''; passthru.filetype = filetype.vcf { inherit ref; }; passthru.multicore = true; + stripStorePaths = false; } diff --git a/tools/octopus-callSomatic.nix b/tools/octopus-callSomatic.nix index f2e264c..b6106a7 100644 --- a/tools/octopus-callSomatic.nix +++ b/tools/octopus-callSomatic.nix @@ -77,7 +77,11 @@ stage { ${optionalString (targets != null) (handleTarget targets)} \ -N $normal \ ${flags} + + # Strip out octopus ARGV + sed -i '/^##octopus=/d' $out ''; passthru.filetype = filetype.vcf { inherit ref; }; passthru.multicore = true; + stripStorePaths = false; } |