Mercurial > repos > iuc > hamronize_summarize

diff hamronize_summarize.xml @ 1:a84e3131ae6a draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit b872ea086ebd98be64839e7bbb1ddf7a181943d0"
author iuc
date Sat, 23 Oct 2021 21:37:48 +0000
parents ef76d74a7171
children 6e2731b13533
line wrap: on
line diff
--- a/hamronize_summarize.xml	Tue Mar 16 12:39:05 2021 +0000
+++ b/hamronize_summarize.xml	Sat Oct 23 21:37:48 2021 +0000
@@ -1,12 +1,10 @@
-<tool id="hamronize_summarize" name="summarize" version="@VERSION@+galaxy0">
+<tool id="hamronize_summarize" name="summarize" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> 
     <description> harmorization reports</description>
     <macros>
         <import>macros.xml</import>
     </macros>
-
     <expand macro="requirements" />
     <expand macro="version_command" />
-
     <command detect_errors="exit_code"><![CDATA[
         #for $counter, $report in enumerate($reports):
             #if $report.is_of_type('tsv', 'tabular'):
@@ -31,7 +29,7 @@
     ]]>    </command>
 
     <inputs>
-        <param name="reports" type="data" multiple="true" format="tsv,json" label="Report files"/>
+        <param name="reports" type="data" multiple="true" format="tabular,json" label="Report files"/>
         <param name="summary_type" type="select" label="Output format" multiple="false">
             <option value="tsv">tsv</option>
             <option value="json">json</option>
@@ -40,7 +38,7 @@
     </inputs>
 
     <outputs>
-        <data format="tsv" name="output_tsv" label="${tool.name} on ${on_string}: Output" from_work_dir="output.tsv">
+        <data format="tabular" name="output_tsv" label="${tool.name} on ${on_string}: Output" from_work_dir="output.tsv">
             <filter>summary_type == "tsv"</filter>
         </data>
         <data format="json" name="output_json" label="${tool.name} on ${on_string}: Output" from_work_dir="output.json">
@@ -55,7 +53,7 @@
         <test expect_num_outputs="1">
             <param name="reports" value="hamronized_abricate.tsv,hamronized_abricate.json,hamronized_ariba.tsv,hamronized_ariba.json,hamronized_rgi.tsv,hamronized_rgi.json" />
             <param name="summary_type" value="tsv" />
-            <output name="output_tsv" ftype="tsv" file="summary.tsv" />
+            <output name="output_tsv" ftype="tabular" file="summary.tsv" />
         </test>
         <!-- json output -->
         <test expect_num_outputs="1">