Mercurial > repos > iuc > orthofinder_onlygroups

comparison orthofinder_only_groups.xml @ 9:f03ba0ec3eed draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/orthofinder commit 254941ef6bb2127fbcf2315e72f1361cd812c4b7"
author iuc
date Sat, 27 Nov 2021 10:39:53 +0000
parents f55cad755bcc
children
comparison
equal deleted inserted replaced
8:f55cad755bcc 9:f03ba0ec3eed
53 $init.input_type 53 $init.input_type
54 #elif $init.start == "blast": 54 #elif $init.start == "blast":
55 -b . 55 -b .
56 #end if 56 #end if
57 57
58 -I $I 58 -I $inflation
59 59
60 #if $trees.run_mode == "full": 60 #if $trees.run_mode == "full":
61 -M '${trees.tree_method.method}' 61 -M '${trees.tree_method.method}'
62 #if $trees.tree_method.method == "msa": 62 #if $trees.tree_method.method == "msa":
63 -A '${trees.tree_method.msa_program}' 63 -A '${trees.tree_method.msa_program}'
149 </when> 149 </when>
150 150
151 <when value="-og"/> 151 <when value="-og"/>
152 </conditional> 152 </conditional>
153 153
154 <param argument="-I" type="float" value="1.5" label="Inflation parameter" help="Modify inflation parameter for MCL. Not recommended." /> 154 <param argument="-I" name="inflation" type="float" value="1.5" label="Inflation parameter" help="Modify inflation parameter for MCL. Not recommended." />
155 <param name="output_duplications" type="boolean" checked="false" label="Generate output about gene duplication events"/> 155 <param name="output_duplications" type="boolean" checked="false" label="Generate output about gene duplication events"/>
156 </inputs> 156 </inputs>
157 <outputs> 157 <outputs>
158 <!-- Orthogroups results --> 158 <!-- Orthogroups results -->
159 <data format="txt" name="orthogroups1" label="OrthoFinder on ${on_string}: orthogroups (txt)" from_work_dir="results/Orthogroups/Orthogroups.txt" /> 159 <data format="txt" name="orthogroups1" label="OrthoFinder on ${on_string}: orthogroups (txt)" from_work_dir="results/Orthogroups/Orthogroups.txt" />