diff options
Diffstat (limited to 'tools/gridss-collectMetrics.nix')
| -rw-r--r-- | tools/gridss-collectMetrics.nix | 9 |
1 files changed, 5 insertions, 4 deletions
diff --git a/tools/gridss-collectMetrics.nix b/tools/gridss-collectMetrics.nix index 2e3b3a9..8b09886 100644 --- a/tools/gridss-collectMetrics.nix +++ b/tools/gridss-collectMetrics.nix @@ -22,13 +22,14 @@ stage rec { buildCommand = '' mkdir $out java -Xmx${heapSize} -cp ${bionix.gridss.jar} \ - gridss.analysis.CollectGridssMetrics \ + gridss.analysis.CollectGridssMetrics \ ${optionalString (config != null) ("OPTIONS_FILE=" + bionix.gridss.gridssConfig config)} \ VERBOSITY=WARNING \ - I=${input}\ - O=$out/input \ + I=${input}\ + O=$out/input \ AS=true \ - THRESHOLD_COVERAGE=${toString thresholdCoverage} + THRESHOLD_COVERAGE=${toString thresholdCoverage} \ + ${optionalString (flags != null) flags} # Make the output deterministic by removing timestamps sed -i '/^# Started on:/d' $out/input.*_metrics |