Mercurial > repos > iuc > qiime_core_diversity

diff core_diversity_analyses.xml @ 3:61e86fd975a4 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit a831282140ce160035a4ce984f48cc20198ed0a1
author iuc
date Thu, 22 Jun 2017 07:02:52 -0400
parents 2a7e18c4a657
children 486570c88d1b
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line diff
--- a/core_diversity_analyses.xml	Fri May 19 04:14:14 2017 -0400
+++ b/core_diversity_analyses.xml	Thu Jun 22 07:02:52 2017 -0400
@@ -98,6 +98,25 @@
                 </assert_contents>
             </output>
         </test>
+        <test><!-- test alpha diversity -->
+             <param name="input_biom_fp" value="core_diversity_analyses/otu_table.biom"/>
+             <param name="mapping_fp" value="core_diversity_analyses/map.txt"/>
+             <param name="parameter_fp" value="core_diversity_analyses/alpha_diversity_params.txt"/>
+             <param name="sampling_depth" value="22"/>
+             <param name="parallel" value="--parallel"/>
+             <param name="nonphylogenetic_diversity" value="--nonphylogenetic_diversity"/>
+             <param name="suppress_taxa_summary" value="--suppress_taxa_summary"/>
+             <param name="suppress_beta_diversity" value="--suppress_beta_diversity"/>
+             <param name="suppress_alpha_diversity" value=""/>
+             <param name="suppress_group_significance" value="--suppress_group_significance"/>
+             <output name="html_report">
+                 <assert_contents>
+                     <has_text text="Filtered BIOM table (minimum sequence count: 22)"/>
+                     <has_text text="rarefied BIOM table (sampling depth: 22)"/>
+                     <has_text text="Alpha rarefaction plots"/>
+                 </assert_contents>
+             </output>
+        </test>
         <test><!-- test suppressing all -->
             <param name="input_biom_fp" value="core_diversity_analyses/otu_table.biom"/>
             <param name="mapping_fp" value="core_diversity_analyses/map.txt"/>