Mercurial > repos > bgruening > hicexplorer_hicmergematrixbins

diff hicMergeMatrixBins.xml @ 17:03dd3c16ae4e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f"
author iuc
date Tue, 16 Mar 2021 15:09:57 +0000
parents 49c8055f6830
children 977dc15add20
line wrap: on
line diff
--- a/hicMergeMatrixBins.xml	Fri Dec 11 21:36:59 2020 +0000
+++ b/hicMergeMatrixBins.xml	Tue Mar 16 15:09:57 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@WRAPPER_VERSION@.0">
+<tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
     <description>merge adjacent bins from a Hi-C contact matrix to reduce its resolution</description>
     <macros>
         <token name="@BINARY@">hicMergeMatrixBins</token>
@@ -13,29 +13,27 @@
             $runningWindow
             --outFileName 'matrix.$matrix_h5_cooler.ext'
         && mv 'matrix.$matrix_h5_cooler.ext' matrix
-
 ]]>
     </command>
     <inputs>
         <expand macro='matrix_h5_cooler_macro' />
-
         <param argument="--numBins" type="integer" min="1" value="3" label="Number of bins to merge" />
         <param argument="--runningWindow" type="boolean" falsevalue="" truevalue="--runningWindow" label="Set to merge for using a running window of length --numBins. Usually not set." />
     </inputs>
     <outputs>
         <data name="outFileName" from_work_dir="matrix" format="cool">
-              <change_format>
-                <when input_dataset="matrix_h5_cooler" attribute="ext" value="h5" format="h5"/>
+            <change_format>
+                <when input_dataset="matrix_h5_cooler" attribute="ext" value="h5" format="h5" />
             </change_format>
         </data>
     </outputs>
     <tests>
         <test>
-            <param name="matrix_h5_cooler" value="small_test_matrix.h5"/>
+            <param name="matrix_h5_cooler" value="small_test_matrix.h5" />
             <param name="numBins" value="5" />
             <output name="outFileName" ftype="h5">
                 <assert_contents>
-                    <has_h5_keys keys='intervals,matrix,nan_bins'/>
+                    <has_h5_keys keys='intervals,matrix,nan_bins' />
                 </assert_contents>
             </output>
         </test>
@@ -94,6 +92,6 @@
 | For more information about HiCExplorer please consider our documentation on readthedocs.io_
 
 .. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html
-]]></help>
+]]>    </help>
     <expand macro="citations" />
 </tool>