Mercurial > repos > bgruening > hicexplorer_hicplotviewpoint

diff hicPlotViewpoint.xml @ 18:a1e583dc6579 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 8586409c5f329eaf75902eedc3d29a6e82560788
author iuc
date Mon, 01 Jul 2024 18:58:42 +0000
parents d488967c1625
children
line wrap: on
line diff
--- a/hicPlotViewpoint.xml	Tue Jan 10 18:07:11 2023 +0000
+++ b/hicPlotViewpoint.xml	Mon Jul 01 18:58:42 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="hicexplorer_hicplotviewpoint" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
+<tool id="hicexplorer_hicplotviewpoint" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>plot interactions around a viewpoint</description>
     <macros>
         <token name="@BINARY@">hicPlotViewpoint</token>
@@ -18,7 +18,7 @@
         #end if
         --outFileName plot.$image_file_format
         --region $region
-        --referencePoint $referencePoint
+        --referencePoint '$referencePoint'
         && mv plot.$image_file_format plot
 
         #if $interactionOutFileName:
@@ -30,7 +30,7 @@
 ]]>
     </command>
     <inputs>
-        <expand macro='matrix_h5_cooler_multiple_macro' />
+        <expand macro="matrix_h5_cooler_multiple_macro" />
         <expand macro="region" />
         <param name="referencePoint" type="text" label="Reference point" help="The format is chr:referencePoint or chr:regionStart-regionEnd.">
             <validator type="expression" message="Only alphanumeric characters, the colon or a dash are allowed.">not value or value.replace(':', '').replace('-', '').isalnum()</validator>
@@ -54,19 +54,19 @@
         </data>
     </outputs>
     <tests>
-        <test>
+        <test expect_num_outputs="1">
             <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.cool" />
             <param name="image_file_format" value="png" />
-            <param name='region' value='X:3000000-3500000' />
-            <param name='referencePoint' value='X:3200000' />
+            <param name="region" value="X:3000000-3500000" />
+            <param name="referencePoint" value="X:3200000" />
             <output name="outFileName" file="li_viewpoint_32Mb.png" ftype="png" compare="sim_size" />
         </test>
-        <test>
+        <test expect_num_outputs="2">
             <param name="matrix_h5_cooler_multiple" value="Li_et_al_2015.cool" />
             <param name="image_file_format" value="png" />
-            <param name='region' value='X:3000000-3500000' />
-            <param name='referencePoint' value='X:3200000-3300000' />
-            <param name='interactionOutFileName' value='True' />
+            <param name="region" value="X:3000000-3500000" />
+            <param name="referencePoint" value="X:3200000-3300000" />
+            <param name="interactionOutFileName" value="True" />
             <output name="outFileName" file="li_viewpoint_32-33Mb.png" ftype="png" compare="sim_size" />
             <output name="interactionFile">
                 <discovered_dataset designation="0_interactions" file="li_32-33mb_interactions.bedgraph" />