Mercurial > repos > bgruening > hicexplorer_hicplotsvl
diff hicPlotSVL.xml @ 6:b75f87deaa15 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f"
| author | iuc |
|---|---|
| date | Tue, 16 Mar 2021 15:14:22 +0000 |
| parents | 3a7752b8d2cb |
| children | 279fb179dae7 |
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--- a/hicPlotSVL.xml Fri Dec 11 21:11:52 2020 +0000 +++ b/hicPlotSVL.xml Tue Mar 16 15:14:22 2021 +0000 @@ -1,4 +1,4 @@ -<tool id="hicexplorer_hicplotsvl" name="@BINARY@" version="@WRAPPER_VERSION@.0"> +<tool id="hicexplorer_hicplotsvl" name="@BINARY@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> <description>plots the relation of short vs long range contacts</description> <macros> <token name="@BINARY@">hicPlotSVL</token> @@ -39,12 +39,11 @@ ]]> </command> <inputs> - <expand macro='matrix_h5_cooler_multiple_macro'/> - <param argument="--distance" optional='true' type="integer" label="Short range distance" - help="Distance which should be considered as short range. Default 2MB." value='2000000'/> + <expand macro='matrix_h5_cooler_multiple_macro' /> + <param argument="--distance" optional='true' type="integer" label="Short range distance" help="Distance which should be considered as short range. Default 2MB." value='2000000' /> <expand macro="chromosome_list" /> <param argument="--colorList" optional='true' type="text" label="Colorlist" help="Colorlist for the boxplots." /> - <param name='dpi' type='integer' label='DPI for image' help='Change the default resolution of the plot.' optional='true'/> + <expand macro="dpi" /> <param name="image_file_format" type="select" label="Image output format"> <option value="png" selected="True">png</option> <option value="svg">svg</option> @@ -58,31 +57,31 @@ <when input="image_file_format" value="pdf" format="pdf" /> </change_format> </data> - <data name='output_p_values' from_work_dir='p_values.txt' format='txt' label='P values svl'/> - <data name='output_ratios' from_work_dir='ratios.txt' format='txt' label='Ratios svl'/> + <data name='output_p_values' from_work_dir='p_values.txt' format='txt' label='P values svl' /> + <data name='output_ratios' from_work_dir='ratios.txt' format='txt' label='Ratios svl' /> </outputs> <tests> <test> - <param name="matrix_h5_cooler_multiple" value="small_test_matrix.h5,small_test_matrix.h5"/> - <param name="distance" value="2000000"/> - <param name="dpi" value="10"/> - <param name="color" value="y m c"/> + <param name="matrix_h5_cooler_multiple" value="small_test_matrix.h5,small_test_matrix.h5" /> + <param name="distance" value="2000000" /> + <param name="dpi" value="10" /> + <param name="color" value="y m c" /> <repeat name="chromosome_list"> - <param name="chromosomes" value="chr2L"/> + <param name="chromosomes" value="chr2L" /> </repeat> <repeat name="chromosome_list"> - <param name="chromosomes" value="chr3L"/> + <param name="chromosomes" value="chr3L" /> </repeat> <repeat name="chromosome_list"> - <param name="chromosomes" value="chr4"/> + <param name="chromosomes" value="chr4" /> </repeat> <param name="image_file_format" value="png" /> - <output name="output_plot" file="hicPlotSVL/plot.png" ftype="png" compare="sim_size"/> - <output name="output_p_values" file="hicPlotSVL/p_values.txt" ftype="txt" compare="sim_size"/> - <output name="output_ratios" file="hicPlotSVL/ratios.txt" ftype="txt" compare="sim_size"/> + <output name="output_plot" file="hicPlotSVL/plot.png" ftype="png" compare="sim_size" /> + <output name="output_p_values" file="hicPlotSVL/p_values.txt" ftype="txt" /> + <output name="output_ratios" file="hicPlotSVL/ratios.txt" ftype="txt" /> </test> </tests> @@ -170,6 +169,6 @@ .. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html -]]></help> +]]> </help> <expand macro="citations" /> </tool>