# HG changeset patch
# User dfornika
# Date 1574881321 0
# Node ID efab08a0ad98b26595a56d1cea02ceb51e142811
# Parent  425b9839241afad7b5b17e43b004b72f48c4996c
Uploaded

diff -r 425b9839241a -r efab08a0ad98 tetyper.xml
--- a/tetyper.xml	Wed Nov 27 18:16:25 2019 +0000
+++ b/tetyper.xml	Wed Nov 27 19:02:01 2019 +0000
@@ -1,7 +1,10 @@
-<tool id="tetyper" name="TETyper" version="1.1+galaxy0">
+<tool id="tetyper" name="TETyper" version="@TOOL_VERSION@+galaxy0">
     <description>Transposable Element Typer</description>
+    <macros>
+        <token name="@TOOL_VERSION@">query</token>
+    </macros>
     <requirements>
-        <requirement type="package" version="1.1">tetyper</requirement>
+        <requirement type="package" version="@TOOL_VERSION@">tetyper</requirement>
     </requirements>
     <command detect_errors="exit_code">
         <![CDATA[
@@ -49,13 +52,16 @@
         <param name="min_qual" type="integer" min="0" value="10" max="100" label="Minimum quality" help="Minimum quality value across extracted flanking sequence." />
         <param name="snp_profiles" type="data" format="text" label="SNP Profiles" optional="true" />
         <param name="struct_profiles" type="data" format="text" label="Structural Variant Profiles" optional="true" />
+        <param name="include_log" type="boolean" label="Include log in output"/>
     </inputs>
     <outputs>
         <data name="summary" format="tabular" from_work_dir="output_summary.txt" label="${tool.name} on ${on_string}: summary"/>
         <data name="snps" format="vcf" from_work_dir="output.vcf" label="${tool.name} on ${on_string}: SNPs"/>
         <data name="blast" format="tabular" from_work_dir="output_blast.txt" label="${tool.name} on ${on_string}: BLAST alignment"/>
         <data name="alignment" format="bam" from_work_dir="output.bam" label="${tool.name} on ${on_string}: BWA alignment"/>
-        <data name="log" format="text" from_work_dir="output.log" label="${tool.name} on ${on_string}: log"/>
+        <data name="log" format="text" from_work_dir="output.log" label="${tool.name} on ${on_string}: log">
+            <filter>include_log</filter>
+        </data>
     </outputs>
     <tests>
         <test>