Mercurial > repos > ebi-gxa > scanpy_run_umap
comparison scanpy-run-umap.xml @ 27:ea91cfd0444e draft default tip
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> |