From 69e6a2cd5b95cf72955649b6d5fc154a106f376d Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Fri, 8 Apr 2016 11:09:52 +0200
Subject: [PATCH] Fix command
---
.../main/scala/nl/lumc/sasc/biopet/extensions/Snptest.scala | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Snptest.scala b/public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Snptest.scala
index 1bd138070..d11cfceb9 100644
--- a/public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Snptest.scala
+++ b/public/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Snptest.scala
@@ -128,8 +128,8 @@ class Snptest(val root: Configurable) extends BiopetCommandLineFunction with Ref
multiArg("-frequentist", frequentist) +
conditional(fullParameterEstimates, "-full_parameter_estimates") +
optional("-method", method) +
- optional("-pheno", pheno)
- conditional(summaryStatsOnly, "-summary_stats_only") +
+ optional("-pheno", pheno) +
+ conditional(summaryStatsOnly, "-summary_stats_only") +
conditional(covAll, "-cov_all") +
conditional(covAllContinuous, "-cov_all_continuous") +
conditional(covAllDiscrete, "-cov_all_discrete") +
--
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