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| author | l-d-s <distefano.l@wehi.edu.au> | 2018-11-29 12:10:45 +1100 |
|---|---|---|
| committer | l-d-s <distefano.l@wehi.edu.au> | 2018-11-29 12:10:45 +1100 |
| commit | 16951e6f99636a2c9d924d49c549a918e403f276 (patch) | |
| tree | 677033f3d8edecfa238c39fc8d023ec9d1347f02 /tools/gridss-softClipsToSplitReads.nix | |
| parent | dcb23a997359160ffdc58a971027fd77c45c7157 (diff) | |
Correct argument for gridss option file
Diffstat (limited to 'tools/gridss-softClipsToSplitReads.nix')
| -rw-r--r-- | tools/gridss-softClipsToSplitReads.nix | 2 |
1 files changed, 1 insertions, 1 deletions
diff --git a/tools/gridss-softClipsToSplitReads.nix b/tools/gridss-softClipsToSplitReads.nix index 2fff15c..9bce063 100644 --- a/tools/gridss-softClipsToSplitReads.nix +++ b/tools/gridss-softClipsToSplitReads.nix @@ -32,7 +32,7 @@ stdenv.mkDerivation rec { I=${input} \ O=$out \ ${optionalString alignerStreaming "ALIGNER_STREAMING=true"} \ - ${optionalString (config != null) ("CONFIGURATION_FILE=" + bionix.gridss.gridssConfig config)} \ + ${optionalString (config != null) ("OPTIONS_FILE=" + bionix.gridss.gridssConfig config)} \ WORKER_THREADS=$NIX_BUILD_CORES ''; passthru.filetype = filetype.bam { ref = ref; sorting = matchFileSorting "grids-softClipsToSplitReads" { coord = _: input.sorting; name = _: sort.none {}; none = _: input.sorting;} input;}; |