Mercurial > repos > iuc > merqury

diff merqury.xml @ 4:09c589057ee8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/merqury commit 2c0e1d33bb5a462cd31bb4ad1ec4821520caccd4
author iuc
date Thu, 10 Aug 2023 22:57:52 +0000
parents f8113c25bc6b
children eb7b00ec347d
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line diff
--- a/merqury.xml	Tue Jul 12 15:23:31 2022 +0000
+++ b/merqury.xml	Thu Aug 10 22:57:52 2023 +0000
@@ -164,6 +164,7 @@
             <option value="stats" selected="true">Stats file</option>
             <option value="bed">BED: hap-mer tracks</option>
             <option value="wig">WIG: hap-mer tracks</option>
+            <option value="hist">Histogram files</option>
             <option value="log">Log file</option>
         </param>
         <param name="output_add_headers" type="boolean" value="false" label="Add column header on tabular outputs" />
@@ -196,6 +197,10 @@
         <data name="log_file" format="txt" label="${tool.name} on ${on_string}: log file">
             <filter>"log" in output_selector</filter>
         </data>
+        <collection name="hist_files" type="list" label="${tool.name} on ${on_string}: histograms">
+            <discover_datasets pattern="(?P&lt;name&gt;.+)\.hist" format="tabular" directory="output_files"/>
+            <filter>"hist" in output_selector</filter>
+        </collection>
     </outputs>
     <tests>
         <!--Test 01: trio mode-->
@@ -217,7 +222,7 @@
             </output_collection>
         </test>
         <!--Test 02: standard mode with tabular headers -->
-        <test expect_num_outputs="6">
+        <test expect_num_outputs="7">
             <conditional name="mode">
                 <param name="options" value="default"/>
                 <param name="meryldb_F1" value="read-db.meryldb" ftype="meryldb"/>
@@ -227,7 +232,7 @@
                 </conditional>
             </conditional>
             <param name="label" value="output_02"/>
-            <param name="output_selector" value="stats,plots,bed,sizes,qv,wig"/>
+            <param name="output_selector" value="stats,plots,bed,sizes,qv,wig,hist"/>
             <output_collection name="png_files" type="list" count="6">
                 <element name="output_02.assembly.spectra-cn.fl">
                     <assert_contents>
@@ -284,6 +289,12 @@
                     </assert_contents>
                 </element>
             </output_collection>
+            <output_collection name="hist_files" type="list" count="4">
+                <element name="output_02.spectra-asm" file="output_02.spectra-asm.hist" ftype="tabular"/>
+                <element name="output_02.dist_only" file="output_02.dist_only.hist" ftype="tabular"/>
+                <element name="output_02.assembly.spectra-cn" file="output_02.assembly.spectra-cn.hist" ftype="tabular"/>
+                <element name="output_02.assembly.only" file="output_02.assembly.only.hist" ftype="tabular"/>
+            </output_collection>
         </test>
         <!--Test 03: Standard mode two assemblies-->
         <test expect_num_outputs="2">