diff hyphy_fel.xml @ 26:8276bb2adea5 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 3908306ffa6f6cbc7b83303b2d4c581406d2fad9"

--- a/hyphy_fel.xml	Tue Apr 20 19:51:54 2021 +0000
+++ b/hyphy_fel.xml	Tue Apr 27 18:07:39 2021 +0000
@@ -1,27 +1,21 @@
 <?xml version="1.0"?>
-<tool id="hyphy_fel" name="HyPhy-FEL" version="@VERSION@+galaxy0" profile="19.09">
+<tool id="hyphy_fel" name="HyPhy-FEL" version="@VERSION@+galaxy1" profile="19.09">
     <description>Fixed Effects Likelihood</description>
     <macros>
         <import>macros.xml</import>
-        <token name="@OPERATION@">FEL</token>
-        <token name="@operation@">fel</token>
     </macros>
     <expand macro="requirements"/>
     <command detect_errors="exit_code"><![CDATA[
         @SYMLINK_FILES@
         @HYPHYMPI@ fel
             --alignment ./$input_file
-            #if $input_nhx:
-                --tree ./input.nhx
-            #end if
+            @INPUT_TREE@
             --code '$gencodeid'
-            --branches '$branches'
+            @branch_options@
             --srv '$include_srv'
             --pvalue '$p_value'
             --output '$fel_output'
-            > '$fel_log'
-            ;
-        @CATCH_ERROR@
+        @ERRORS@
     ]]></command>
     <inputs>
         <expand macro="inputs"/>
@@ -34,7 +28,6 @@
         </param>
     </inputs>
     <outputs>
-        <data name="fel_log" format="txt"/>
         <data name="fel_output" format="hyphy_results.json" />
     </outputs>
     <tests>