# HG changeset patch
# User sanbi-uwc
# Date 1537249762 14400
# Node ID 9f7a8169356119c5ea747570b3da2e8e773ba945
# Parent  00788810fe5705c5ecd719540da28614ae64d9ed
planemo upload for repository https://github.com/CPGRZA/cpgr_ancestry commit 72b6cb6029a3979b51e796a8c210fcf903cf7b23-dirty

diff -r 00788810fe57 -r 9f7a81693561 shapeit_phase.xml
--- a/shapeit_phase.xml	Tue Sep 18 01:25:46 2018 -0400
+++ b/shapeit_phase.xml	Tue Sep 18 01:49:22 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="shapeit_phase" name="shapeit_phase" version="0.7.0">
+<tool id="shapeit_phase" name="shapeit_phase" version="0.8.0">
     <description>genomic data with or without reference panel</description>
 
     <requirements>
@@ -11,7 +11,7 @@
     <command><![CDATA[
         #if str($use_ref_panel.use_ref_panel_select) == "use_ref_panel_yes" and str($use_ref_panel.ref_panel_from_table.ref_panel_from_table_select) == "ref_panel_from_table_yes" and str($input_files.input_type_select) == 'plink_bed_bim_fam_list':
           PART=`head -1 myfile.bim | cut -f1` && 
-          echo "Working on PART: $PART" &&
+          echo "Working on PART: \$PART" &&
           REF_DIR='${use_genetic_map.genetic_map_from_table.map_from_table.fields.path}' &&
           REF_PREFIX='${use_genetic_map.genetic_map_from_table.map_from_table.fields.reference_prefix}' &&
           SAMPLE_PREFIX="\$REF_DIR/${use_genetic_map.genetic_map_from_table.map_from_table.fields.sample_prefix}" &&