Mercurial > repos > bgruening > hicexplorer_hicmergematrixbins
changeset 5:1111999ae668 draft
planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit d76f2040a05a5f8752cbfe9a8bc1ef9efae45c01
| author | iuc |
|---|---|
| date | Wed, 03 Jan 2018 13:19:56 -0500 |
| parents | 936741507eb1 |
| children | 0c6d98e9c6e8 |
| files | hicMergeMatrixBins.xml |
| diffstat | 1 files changed, 12 insertions(+), 3 deletions(-) [+] |
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--- a/hicMergeMatrixBins.xml Tue Jan 02 09:47:24 2018 -0500 +++ b/hicMergeMatrixBins.xml Wed Jan 03 13:19:56 2018 -0500 @@ -1,4 +1,4 @@ -<tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@WRAPPER_VERSION@.0"> +<tool id="hicexplorer_hicmergematrixbins" name="@BINARY@" version="@WRAPPER_VERSION@.1"> <description>Merges bins from a Hi-C matrix</description> <macros> <token name="@BINARY@">hicMergeMatrixBins</token> @@ -10,7 +10,8 @@ --matrix '$matrix_h5_cooler' --numBins $numBins $runningWindow - --outFileName ./out.npz.h5 + --outFileName matrix.$outputFormat + && mv matrix.$outputFormat matrix ]]> </command> @@ -19,9 +20,17 @@ <param argument="--numBins" type="integer" min="1" value="3" label="Number of bins to merge" /> <param argument="--runningWindow" type="boolean" falsevalue="" truevalue="--runningWindow" label="Merge using a running window of length --numBins" /> + <param name='outputFormat' type='select' label="Output file format"> + <option value='h5' selected='true'>HiCExplorer format</option> + <option value="cool">cool</option> + </param> </inputs> <outputs> - <data name="outFileName" from_work_dir="out.npz.h5" format="h5"/> + <data name="outFileName" from_work_dir="matrix" format="h5"> + <change_format> + <when input="outputFormat" value="cool" format="cool" /> + </change_format> + </data> </outputs> <tests> <test>