comparison manipulate.xml @ 7:43cb7b5a6fe7 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/anndata/ commit 033c2d20a0c73cd84c5c3aee73ae224183a9c1c2"

6:d4af736e7b83

#if $manipulate.function == 'concatenate'
    #for i, filepath in enumerate($manipulate.other_adatas)
adata_$i = ad.read('$filepath')
    #end for
adata.concatenate(
    #for i, filepath in enumerate($manipulate.other_adatas)
    adata_$i,
    #end for
    join='$manipulate.join',
    #if str($manipulate.index_unique) != ''

            </when>
            <when value="rename_categories">
                <param name="key" type="text" value="" label="Key for observations or variables annotation" help="Annotation key in obs or var"/>
                <param name="categories" type="text" value="" label="Comma-separated list of new categories" help="It should be the same number as the old categories"/>
            </when>
            <when value="strings_to_categoricals"/>
            <when value="transpose"/>
            <when value="add_annotation">
                <param name="var_obs" type="select" label="What to annotate?">
                    <option value="var">Variables (var)</option>
                    <option value="obs">Observations (obs)</option>
                </param>

                            </when>
                        </conditional>
                    </when>
                </conditional>
            </when>
        </conditional>
    </inputs>
    <outputs>
        <data name="anndata" format="h5ad" from_work_dir="anndata.h5ad" label="${tool.name} (${manipulate.function}) on ${on_string}"/>
    </outputs>

7:43cb7b5a6fe7

#if $manipulate.function == 'concatenate'
    #for i, filepath in enumerate($manipulate.other_adatas)
adata_$i = ad.read('$filepath')
    #end for
adata = adata.concatenate(
    #for i, filepath in enumerate($manipulate.other_adatas)
    adata_$i,
    #end for
    join='$manipulate.join',
    #if str($manipulate.index_unique) != ''

            </when>
            <when value="rename_categories">
                <param name="key" type="text" value="" label="Key for observations or variables annotation" help="Annotation key in obs or var"/>
                <param name="categories" type="text" value="" label="Comma-separated list of new categories" help="It should be the same number as the old categories"/>
            </when>
            <when value="strings_to_categoricals" ></when>
            <when value="transpose" ></when>
            <when value="add_annotation">
                <param name="var_obs" type="select" label="What to annotate?">
                    <option value="var">Variables (var)</option>
                    <option value="obs">Observations (obs)</option>
                </param>

                            </when>
                        </conditional>
                    </when>
                </conditional>
            </when>
            <when value="save_raw"></when>
        </conditional>
    </inputs>
    <outputs>
        <data name="anndata" format="h5ad" from_work_dir="anndata.h5ad" label="${tool.name} (${manipulate.function}) on ${on_string}"/>
    </outputs>