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author | l-d-s <distefano.l@wehi.edu.au> | 2018-11-29 12:10:45 +1100 |
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committer | l-d-s <distefano.l@wehi.edu.au> | 2018-11-29 12:10:45 +1100 |
commit | 16951e6f99636a2c9d924d49c549a918e403f276 (patch) | |
tree | 677033f3d8edecfa238c39fc8d023ec9d1347f02 /tools/gridss-collectGridssMetrics.nix | |
parent | dcb23a997359160ffdc58a971027fd77c45c7157 (diff) |
Correct argument for gridss option file
Diffstat (limited to 'tools/gridss-collectGridssMetrics.nix')
-rw-r--r-- | tools/gridss-collectGridssMetrics.nix | 2 |
1 files changed, 1 insertions, 1 deletions
diff --git a/tools/gridss-collectGridssMetrics.nix b/tools/gridss-collectGridssMetrics.nix index 3babab4..91e04c7 100644 --- a/tools/gridss-collectGridssMetrics.nix +++ b/tools/gridss-collectGridssMetrics.nix @@ -26,7 +26,7 @@ stdenv.mkDerivation rec { java -Xmx1G -cp ${bionix.gridss.jar} \ gridss.analysis.CollectGridssMetrics \ ${optionalString sorted "ASSUME_SORTED=true"} \ - ${optionalString (config != null) ("CONFIGURATION_FILE=" + bionix.gridss.gridssConfig config)} \ + ${optionalString (config != null) ("OPTIONS_FILE=" + bionix.gridss.gridssConfig config)} \ I=input.bam \ O=$out \ THRESHOLD_COVERAGE=${toString thresholdCoverage} |