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

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planemo upload for repository https://github.com/goeckslab/tools-mti/tree/main/tools/squidpy commit 389037ecb8da218c833d4e7ea8279215cc41d5bf
author goeckslab
date Tue, 02 Jul 2024 19:54:29 +0000
parents d30ef0613122
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3:d30ef0613122 4:11ea000ad53f
15 python '$__tool_directory__/squidpy_spatial.py' 15 python '$__tool_directory__/squidpy_spatial.py'
16 --inputs '$inputs' 16 --inputs '$inputs'
17 --anndata '$anndata' 17 --anndata '$anndata'
18 --output '$output' 18 --output '$output'
19 #if $analyses.selected_tool in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']: 19 #if $analyses.selected_tool in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']:
20 --output_plot "`pwd`/image.png" 20 --output_plot image.png
21 #end if 21 #end if
22
23 ]]> 22 ]]>
24 </command> 23 </command>
25 <configfiles> 24 <configfiles>
26 <inputs name="inputs" data_style="paths"/> 25 <inputs name="inputs" data_style="paths"/>
27 </configfiles> 26 </configfiles>
244 </when> 243 </when>
245 </conditional> 244 </conditional>
246 </inputs> 245 </inputs>
247 <outputs> 246 <outputs>
248 <data format="h5ad" name="output" label="Squidpy.gr.${analyses.selected_tool} on ${on_string}" /> 247 <data format="h5ad" name="output" label="Squidpy.gr.${analyses.selected_tool} on ${on_string}" />
249 <data from_work_dir="image.png" format="png" name="output_plot" label="Squidpy.pl.${analyses.selected_tool} on ${on_string}" > 248 <data from_work_dir="figures/image.png" format="png" name="output_plot" label="Squidpy.pl.${analyses.selected_tool} on ${on_string}" >
250 <filter>analyses['selected_tool'] in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']</filter> 249 <filter>analyses['selected_tool'] in ['nhood_enrichment', 'centrality_scores', 'interaction_matrix', 'ligrec', 'ripley', 'co_occurrence']</filter>
251 </data> 250 </data>
252 </outputs> 251 </outputs>
253 <tests> 252 <tests>
254 <test expect_num_outputs="1"> 253 <test expect_num_outputs="1">