Mercurial > repos > iuc > anndata_manipulate

comparison manipulate.xml @ 7:43cb7b5a6fe7 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/anndata/ commit 033c2d20a0c73cd84c5c3aee73ae224183a9c1c2"
author iuc
date Wed, 22 Jul 2020 12:21:13 -0400
parents d4af736e7b83
children b85871dd69f9
comparison
equal deleted inserted replaced
6:d4af736e7b83 7:43cb7b5a6fe7
24 24
25 #if $manipulate.function == 'concatenate' 25 #if $manipulate.function == 'concatenate'
26 #for i, filepath in enumerate($manipulate.other_adatas) 26 #for i, filepath in enumerate($manipulate.other_adatas)
27 adata_$i = ad.read('$filepath') 27 adata_$i = ad.read('$filepath')
28 #end for 28 #end for
29 adata.concatenate( 29 adata = adata.concatenate(
30 #for i, filepath in enumerate($manipulate.other_adatas) 30 #for i, filepath in enumerate($manipulate.other_adatas)
31 adata_$i, 31 adata_$i,
32 #end for 32 #end for
33 join='$manipulate.join', 33 join='$manipulate.join',
34 #if str($manipulate.index_unique) != '' 34 #if str($manipulate.index_unique) != ''
165 </when> 165 </when>
166 <when value="rename_categories"> 166 <when value="rename_categories">
167 <param name="key" type="text" value="" label="Key for observations or variables annotation" help="Annotation key in obs or var"/> 167 <param name="key" type="text" value="" label="Key for observations or variables annotation" help="Annotation key in obs or var"/>
168 <param name="categories" type="text" value="" label="Comma-separated list of new categories" help="It should be the same number as the old categories"/> 168 <param name="categories" type="text" value="" label="Comma-separated list of new categories" help="It should be the same number as the old categories"/>
169 </when> 169 </when>
170 <when value="strings_to_categoricals"/> 170 <when value="strings_to_categoricals" ></when>
171 <when value="transpose"/> 171 <when value="transpose" ></when>
172 <when value="add_annotation"> 172 <when value="add_annotation">
173 <param name="var_obs" type="select" label="What to annotate?"> 173 <param name="var_obs" type="select" label="What to annotate?">
174 <option value="var">Variables (var)</option> 174 <option value="var">Variables (var)</option>
175 <option value="obs">Observations (obs)</option> 175 <option value="obs">Observations (obs)</option>
176 </param> 176 </param>
231 </when> 231 </when>
232 </conditional> 232 </conditional>
233 </when> 233 </when>
234 </conditional> 234 </conditional>
235 </when> 235 </when>
236 <when value="save_raw"></when>
236 </conditional> 237 </conditional>
237 </inputs> 238 </inputs>
238 <outputs> 239 <outputs>
239 <data name="anndata" format="h5ad" from_work_dir="anndata.h5ad" label="${tool.name} (${manipulate.function}) on ${on_string}"/> 240 <data name="anndata" format="h5ad" from_work_dir="anndata.h5ad" label="${tool.name} (${manipulate.function}) on ${on_string}"/>
240 </outputs> 241 </outputs>