comparison squidpy_spatial.xml @ 4:11ea000ad53f draft default tip

planemo upload for repository https://github.com/goeckslab/tools-mti/tree/main/tools/squidpy commit 389037ecb8da218c833d4e7ea8279215cc41d5bf

3:d30ef0613122

        python '$__tool_directory__/squidpy_spatial.py'
            --inputs '$inputs'
            --anndata '$anndata'
            --output '$output'
            #if $analyses.selected_tool in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']:
            --output_plot "`pwd`/image.png"
            #end if

        ]]>
    </command>
    <configfiles>
        <inputs name="inputs" data_style="paths"/>
    </configfiles>

            </when>
        </conditional>
    </inputs>
    <outputs>
        <data format="h5ad" name="output" label="Squidpy.gr.${analyses.selected_tool} on ${on_string}" />
        <data from_work_dir="image.png" format="png" name="output_plot" label="Squidpy.pl.${analyses.selected_tool} on ${on_string}" >
            <filter>analyses['selected_tool'] in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']</filter>
        </data>
    </outputs>
    <tests>
        <test expect_num_outputs="1">

4:11ea000ad53f

        python '$__tool_directory__/squidpy_spatial.py'
            --inputs '$inputs'
            --anndata '$anndata'
            --output '$output'
            #if $analyses.selected_tool in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']:
                 --output_plot image.png
            #end if
        ]]>
    </command>
    <configfiles>
        <inputs name="inputs" data_style="paths"/>
    </configfiles>

            </when>
        </conditional>
    </inputs>
    <outputs>
        <data format="h5ad" name="output" label="Squidpy.gr.${analyses.selected_tool} on ${on_string}" />
        <data from_work_dir="figures/image.png" format="png" name="output_plot" label="Squidpy.pl.${analyses.selected_tool} on ${on_string}" >
            <filter>analyses['selected_tool'] in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']</filter>
        </data>
    </outputs>
    <tests>
        <test expect_num_outputs="1">