Mercurial > repos > bgruening > hicexplorer_hicsummatrices
comparison hicSumMatrices.xml @ 0:c4ee66c35eb6 draft
planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit 2f347b0756d720114f037ed1ff9ba4836e1b3b04
| author | bgruening |
|---|---|
| date | Thu, 30 Mar 2017 03:09:22 -0400 |
| parents | |
| children | 2bbe234ca6ce |
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| -1:000000000000 | 0:c4ee66c35eb6 |
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| 1 <tool id="hicexplorer_hicsummatrices" name="@BINARY@" version="@WRAPPER_VERSION@.0"> | |
| 2 <description>combines Hi-C matrices of the same size</description> | |
| 3 <macros> | |
| 4 <token name="@BINARY@">hicSumMatrices</token> | |
| 5 <import>macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="requirements" /> | |
| 8 <command> | |
| 9 <![CDATA[ | |
| 10 #for $counter, $m in enumerate($matrices): | |
| 11 ln -s '$m' ${counter}.npz.h5 && | |
| 12 #end for | |
| 13 | |
| 14 #set $m = '" "'.join([ '%s.npz.h5' % $counter for $counter, $matrix in enumerate($matrices) ]) | |
| 15 hicSumMatrices | |
| 16 --matrices "$m" | |
| 17 --outFileName ./out.npz.h5 | |
| 18 | |
| 19 ]]> | |
| 20 </command> | |
| 21 <inputs> | |
| 22 | |
| 23 <param argument="--matrices" type="data" format="h5" multiple="True" | |
| 24 label="Matrices to combine" help="Needs to have the same shape"/> | |
| 25 | |
| 26 </inputs> | |
| 27 <outputs> | |
| 28 <data name="outFileName" from_work_dir="out.npz.h5" format="h5"/> | |
| 29 </outputs> | |
| 30 <tests> | |
| 31 <test> | |
| 32 <param name="matrices" value="hicCorrectMatrix_result1.npz.h5,hicCorrectMatrix_result1.npz.h5"/> | |
| 33 <output name="outFileName" file="hicSumMatrices_result1.npz.h5" ftype="h5" compare="sim_size" delta="70000"/> | |
| 34 </test> | |
| 35 </tests> | |
| 36 <help><![CDATA[ | |
| 37 | |
| 38 **What it does** | |
| 39 | |
| 40 Combines Hi-C matrices of the same size. | |
| 41 | |
| 42 ]]></help> | |
| 43 <expand macro="citations" /> | |
| 44 </tool> |