Mercurial > repos > ebi-gxa > scanpy_find_cluster

comparison scanpy-find-cluster.xml @ 29:2ccd9f9e2cd0 draft

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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 6c9d530aa653101e9e21804393ec11f38cddf027-dirty
author ebi-gxa
date Thu, 16 Feb 2023 13:28:44 +0000
parents 1e820072e8f1
children d19920419c78
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28:35caf3c27c91 29:2ccd9f9e2cd0
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="scanpy_find_cluster" name="Scanpy FindCluster" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@"> 2 <tool id="scanpy_find_cluster" name="Scanpy FindCluster" version="@TOOL_VERSION@+galaxy9" profile="@PROFILE@">
3 <description>based on community detection on KNN graph</description> 3 <description>based on community detection on KNN graph</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"/>
92 <tests> 92 <tests>
93 <test> 93 <test>
94 <param name="input_obj_file" value="compute_graph.h5"/> 94 <param name="input_obj_file" value="compute_graph.h5"/>
95 <param name="input_format" value="anndata"/> 95 <param name="input_format" value="anndata"/>
96 <param name="output_format" value="anndata"/> 96 <param name="output_format" value="anndata"/>
97 <param name="output_txt" value="true"/>
98 <param name="default" value="false"/> 97 <param name="default" value="false"/>
99 <param name="resolution_file" value="resolution.txt"/> 98 <param name="resolution_file" value="resolution.txt"/>
100 <param name="random_seed" value="0"/> 99 <param name="random_seed" value="0"/>
101 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> 100 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/>
102 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> 101 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/>
103 </test> 102 </test>
104 <test> 103 <test>
105 <param name="input_obj_file" value="compute_graph.h5"/> 104 <param name="input_obj_file" value="compute_graph.h5"/>
106 <param name="input_format" value="anndata"/> 105 <param name="input_format" value="anndata"/>
107 <param name="output_format" value="anndata"/> 106 <param name="output_format" value="anndata"/>
108 <param name="output_txt" value="true"/>
109 <param name="default" value="false"/> 107 <param name="default" value="false"/>
110 <param name="resolution" value="1.0"/> 108 <param name="resolution" value="1.0"/>
111 <param name="random_seed" value="0"/> 109 <param name="random_seed" value="0"/>
112 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> 110 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/>
113 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> 111 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/>
114 </test> 112 </test>
115 <test> 113 <test>
116 <param name="input_obj_file" value="compute_graph.h5"/> 114 <param name="input_obj_file" value="compute_graph.h5"/>
117 <param name="input_format" value="anndata"/> 115 <param name="input_format" value="anndata"/>
118 <param name="output_format" value="anndata"/> 116 <param name="output_format" value="anndata"/>
119 <param name="output_txt" value="true"/>
120 <param name="default" value="false"/> 117 <param name="default" value="false"/>
121 <param name="method" value="louvain"/> 118 <param name="method" value="louvain"/>
122 <param name="resolution" value="1.0"/> 119 <param name="resolution" value="1.0"/>
123 <param name="key_added" value="METHOD_RESOLUTION"/> 120 <param name="key_added" value="METHOD_RESOLUTION"/>
124 <param name="random_seed" value="0"/> 121 <param name="random_seed" value="0"/>