Mercurial > repos > ebi-gxa > scanpy_run_umap

comparison scanpy-run-umap.xml @ 27:ea91cfd0444e draft default tip

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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit ee197a80b2d591c393e1662854bc119b2ecab11e-dirty
author ebi-gxa
date Tue, 27 Feb 2024 16:42:43 +0000
parents 9984f48961d0
children
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26:9984f48961d0 27:ea91cfd0444e
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="scanpy_run_umap" name="Scanpy RunUMAP" version="@TOOL_VERSION@+galaxy93" profile="@PROFILE@"> 2 <tool id="scanpy_run_umap" name="Scanpy RunUMAP" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
3 <description>visualise cell clusters using UMAP</description> 3 <description>visualise cell clusters using UMAP</description>
4 <macros> 4 <macros>
5 <import>scanpy_macros2.xml</import> 5 <import>scanpy_macros2.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
89 <param name="input_format" value="anndata"/> 89 <param name="input_format" value="anndata"/>
90 <param name="output_format" value="anndata"/> 90 <param name="output_format" value="anndata"/>
91 <param name="default" value="false"/> 91 <param name="default" value="false"/>
92 <param name="embeddings" value="true"/> 92 <param name="embeddings" value="true"/>
93 <param name="random_seed" value="0"/> 93 <param name="random_seed" value="0"/>
94 <output name="output_h5" file="run_umap.h5" ftype="h5" compare="sim_size"/> 94 <output name="output_h5" ftype="h5">
95 <output name="output_embed" file="run_umap.embeddings.tsv" ftype="tabular" compare="sim_size"> 95 <assert_contents>
96 <has_h5_keys keys="obsm/X_umap"/>
97 </assert_contents>
98 </output>
99 <output name="output_embed" file="run_umap.embeddings.tsv" ftype="tabular" compare="sim_size" delta_frac="0.1">
96 <assert_contents> 100 <assert_contents>
97 <has_n_columns n="3"/> 101 <has_n_columns n="3"/>
98 </assert_contents> 102 </assert_contents>
99 </output> 103 </output>
100 </test> 104 </test>