# HG changeset patch
# User sanbi-uwc
# Date 1537292328 14400
# Node ID 394bd82a4c40bd9280657e3b50d25928bdd16792
# Parent  a5ef4f2c8124a22ec4eba376759811f92ba53838
planemo upload for repository https://github.com/CPGRZA/cpgr_ancestry commit 98e23aec0945a9922ab30e6ca15ab08800a2abb7-dirty

diff -r a5ef4f2c8124 -r 394bd82a4c40 shapeit_phase.xml
--- a/shapeit_phase.xml	Tue Sep 18 11:57:49 2018 -0400
+++ b/shapeit_phase.xml	Tue Sep 18 13:38:48 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="shapeit_phase" name="shapeit_phase" version="0.19.0">
+<tool id="shapeit_phase" name="shapeit_phase" version="0.20.0">
     <description>genomic data with or without reference panel</description>
     <requirements>
         <requirement type="package" version="2.r837">shapeit</requirement>
@@ -60,12 +60,13 @@
         #end if
 
         shapeit
-        --thread \${GALAXY_SLOTS:-1}
 
         #if $check_mode != "":
           -check
         #end if
 
+        --thread \${GALAXY_SLOTS:-1}
+
         #if $input_files.input_type_select == "vcf":
           --input-vcf ${input_files.vcf_file}
         #else if $input_files.input_type_select == "plink_ped_map":