Mercurial > repos > bgruening > hicexplorer_hicmergematrixbins

comparison hicMergeMatrixBins.xml @ 20:11fa44ee0603 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 20:13:46 +0000
parents 977dc15add20
children
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19:977dc15add20 20:11fa44ee0603
1 <tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> 1 <tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 <description>merge adjacent bins from a Hi-C contact matrix to reduce its resolution</description> 2 <description>merge adjacent bins from a Hi-C contact matrix to reduce its resolution</description>
3 <macros> 3 <macros>
4 <token name="@BINARY@">hicMergeMatrixBins</token> 4 <token name="@BINARY@">hicMergeMatrixBins</token>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
9 ln -s '$matrix_h5_cooler' 'matrix.$matrix_h5_cooler.ext' && 9 ln -s '$matrix_h5_cooler' 'matrix.$matrix_h5_cooler.ext' &&
10 @BINARY@ 10 @BINARY@
11 --matrix 'matrix.$matrix_h5_cooler.ext' 11 --matrix 'matrix.$matrix_h5_cooler.ext'
12 --numBins $numBins 12 --numBins $numBins
13 $runningWindow 13 $runningWindow
14 --outFileName 'matrix.$matrix_h5_cooler.ext' 14 --outFileName 'out_matrix.$matrix_h5_cooler.ext'
15 && mv 'matrix.$matrix_h5_cooler.ext' matrix 15 && mv 'out_matrix.$matrix_h5_cooler.ext' matrix
16 ]]> 16 ]]>
17 </command> 17 </command>
18 <inputs> 18 <inputs>
19 <expand macro="matrix_h5_cooler_macro" /> 19 <expand macro="matrix_h5_cooler_macro" />
20 <param argument="--numBins" type="integer" min="1" value="3" label="Number of bins to merge" /> 20 <param argument="--numBins" type="integer" min="1" value="3" label="Number of bins to merge" />