Mercurial > repos > iuc > mummer_dnadiff

diff dnadiff.xml @ 3:c9685bc0407c draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mummer4 commit bacb32814054404587451948b3a6682cf0d1a33a"
author iuc
date Sat, 27 Nov 2021 09:58:09 +0000
parents 315c678562d2
children 5561a1193611
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--- a/dnadiff.xml	Tue Oct 13 21:39:50 2020 +0000
+++ b/dnadiff.xml	Sat Nov 27 09:58:09 2021 +0000
@@ -1,8 +1,9 @@
-<tool id="mummer_dnadiff" name="DNAdiff" version="@MUMMER_VERSION@@WRAPPER_VERSION@">
+<tool id="mummer_dnadiff" name="DNAdiff" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>Evaluate similarities/differences between two sequences</description>
     <macros>
         <import>macros.xml</import>
     </macros>
+    <expand macro="bio_tools"/>
     <expand macro="requirements" />
     <command detect_errors="exit_code">
         <![CDATA[
@@ -26,13 +27,13 @@
         <data name="delta" format="tabular" from_work_dir="out.delta" label="${tool.name} on ${on_string}: delta">
             <filter> report_only == 'no'</filter>
         </data>
-        <data name="1delta" format="tabular" from_work_dir="out.1delta" label="${tool.name} on ${on_string}: 1delta" >
+        <data name="delta1" format="tabular" from_work_dir="out.1delta" label="${tool.name} on ${on_string}: 1delta" >
             <filter> report_only == 'no' </filter>
         </data>
         <data name="mdelta" format="tabular" from_work_dir="out.mdelta" label="${tool.name} on ${on_string}: mdelta" >
             <filter> report_only == 'no' </filter>
         </data>
-        <data name="1coords" format="tabular" from_work_dir="out.1coords" label="${tool.name} on ${on_string}: 1coords" >
+        <data name="coords1" format="tabular" from_work_dir="out.1coords" label="${tool.name} on ${on_string}: 1coords" >
             <filter> report_only == 'no' </filter>
             <actions>
                     <action name="column_names" type="metadata" default="[S1], [E1], [S2], [E2], [LEN 1], [LEN 2], [% IDY], [LEN R], [LEN Q], [COV R], [COV Q], [REF TAG], [QUERY TAG]" />
@@ -67,13 +68,12 @@
         <test>
             <param name="reference_sequence" ftype="fasta" value="human_aqp3.fasta" />
             <param name="query_sequence" ftype="fasta" value="mouse_aqp3.fasta"/>
-            <param name="input_type" value="sequence" />
             <param name="report_only" value="no" />
             <output name="report" ftype="txt" compare="diff" sort="true" lines_diff="2" value="report.txt"/>
             <output name="delta" ftype="tabular" compare="diff" lines_diff="2" value="delta.txt"/>
-            <output name="1delta" ftype="tabular" compare="diff" lines_diff="2" value="1delta.txt"/>
+            <output name="delta1" ftype="tabular" compare="diff" lines_diff="2" value="1delta.txt"/>
             <output name="mdelta" ftype="tabular" compare="diff" lines_diff="2" value="mdelta.txt"/>
-            <output name="1coords" ftype="tabular" compare="diff" value="1coords.txt"/>
+            <output name="coords1" ftype="tabular" compare="diff" value="1coords.txt"/>
             <output name="mcoords" ftype="tabular" compare="diff" value="mcoords.txt"/>
             <output name="snps" ftype="tabular" compare="diff" value="snps.txt"/>
             <output name="rdiff" ftype="tabular" compare="diff" value="rdiff.txt"/>