# HG changeset patch
# User greg
# Date 1448370957 18000
# Node ID d455f14530dcea7d4f25c6a8c648570e7e0c2a23
# Parent  00155140684834f521a1f11f5c21925192f2aa3a
Uploaded

diff -r 001551406848 -r d455f14530dc cwpair2.xml
--- a/cwpair2.xml	Tue Nov 24 08:15:48 2015 -0500
+++ b/cwpair2.xml	Tue Nov 24 08:15:57 2015 -0500
@@ -22,7 +22,6 @@
                 --relative_threshold $threshold_format_cond.relative_threshold
             #end if
             --output_files $output_files
-            --sort_chromosome $sort_chromosome
             --sort_score $sort_score
             --statistics_output "$statistics_output"
         ]]>
@@ -56,10 +55,6 @@
             <option value="simple_orphan_detail">matched pairs, orphans and details only (D,O,S)</option>
             <option value="all">no restrictions (output everything: C,D,F,O,P,S)</option>
         </param>
-        <param name="sort_chromosome" type="select" label="Sort output by chromosomes in" help="Chromosome strings that are not numeric will not be sorted" >
-            <option value="asc" selected="True">ascending order</option>
-            <option value="desc">descending order</option>
-        </param>
         <param name="sort_score" type="select" label="Sort output by score?">
             <option value="no" selected="True">No</option>
             <option value="asc">Yes, in ascending order</option>
@@ -151,7 +146,6 @@
             <param name="threshold_format" value="relative_threshold" />
             <param name="relative_threshold" value="0.0" />
             <param name="output_files" value="simple" />
-            <param name="sort_chromosome" value="asc" />
             <param name="sort_score" value="asc" />
             <output_collection name="closest_S" type="list">
                 <element name="closest_S_data_1_f0u25d100b1" file="closest_s_output1.gff" ftype="gff" />
@@ -173,7 +167,6 @@
             <param name="threshold_format" value="relative_threshold" />
             <param name="relative_threshold" value="0.0" />
             <param name="output_files" value="all" />
-            <param name="sort_chromosome" value="asc" />
             <param name="sort_score" value="no" />
             <output_collection name="closest_D" type="list">
                 <element name="closest_D_data_1_f0u50d100b1" file="closest_d_output2.tabular" ftype="tabular" />