Mercurial > repos > iuc > mothur_classify_otu

comparison classify.otu.xml @ 5:5301655f34bb draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 38a2bbee32eaaceeb22d7549b13dbc0c613ee173
author iuc
date Tue, 20 Mar 2018 14:05:21 -0400
parents ccbf829666b6
children 970693ff9731
comparison
equal deleted inserted replaced
4:5a4307508458 5:5301655f34bb
76 help="default false"/> 76 help="default false"/>
77 <param argument="relabund" type="boolean" checked="false" truevalue="T" falsevalue="F" label="Relative abundance values?" 77 <param argument="relabund" type="boolean" checked="false" truevalue="T" falsevalue="F" label="Relative abundance values?"
78 help="use relative abundances rather than raw abundances for the tax.summary file"/> 78 help="use relative abundances rather than raw abundances for the tax.summary file"/>
79 <expand macro="param-output"/> 79 <expand macro="param-output"/>
80 <expand macro="param-printlevel"/> 80 <expand macro="param-printlevel"/>
81 <expand macro="param-savelog"/>
81 </inputs> 82 </inputs>
82 <outputs> 83 <outputs>
83 <expand macro="logfile-output"/> 84 <expand macro="logfile-output"/>
84 <collection name="taxsummaries" type="list" label="${tool.name} on ${on_string}: tax.summary"> 85 <collection name="taxsummaries" type="list" label="${tool.name} on ${on_string}: tax.summary">
85 <discover_datasets pattern=".*?\.(?P&lt;designation&gt;.*)\.cons\.tax\.summary" format="mothur.tax.summary"/> 86 <discover_datasets pattern=".*?\.(?P&lt;designation&gt;.*)\.cons\.tax\.summary" format="mothur.tax.summary"/>
107 <expand macro="test-taxsummary-format"/> 108 <expand macro="test-taxsummary-format"/>
108 <has_text text="Root"/> 109 <has_text text="Root"/>
109 </assert_contents> 110 </assert_contents>
110 </element> 111 </element>
111 </output_collection> 112 </output_collection>
113 <param name="savelog" value="true"/>
112 <expand macro="logfile-test"/> 114 <expand macro="logfile-test"/>
113 </test> 115 </test>
114 <test><!-- test with names file and label select --> 116 <test><!-- test with names file and label select -->
115 <param name="otu" value="amazon.an.list" ftype="mothur.list"/> 117 <param name="otu" value="amazon.an.list" ftype="mothur.list"/>
116 <param name="name" value="amazon1.names" ftype="mothur.names"/> 118 <param name="name" value="amazon1.names" ftype="mothur.names"/>
132 <expand macro="test-taxsummary-format"/> 134 <expand macro="test-taxsummary-format"/>
133 <has_text text="Root"/> 135 <has_text text="Root"/>
134 </assert_contents> 136 </assert_contents>
135 </element> 137 </element>
136 </output_collection> 138 </output_collection>
139 <param name="savelog" value="true"/>
137 <expand macro="logfile-test"/> 140 <expand macro="logfile-test"/>
138 </test> 141 </test>
139 <test><!-- test with count table --> 142 <test><!-- test with count table -->
140 <param name="otu" value="amazon.an.list" ftype="mothur.list"/> 143 <param name="otu" value="amazon.an.list" ftype="mothur.list"/>
141 <param name="count" value="amazon1.count_table" ftype="mothur.count_table"/> 144 <param name="count" value="amazon1.count_table" ftype="mothur.count_table"/>
156 <expand macro="test-taxsummary-format"/> 159 <expand macro="test-taxsummary-format"/>
157 <has_text text="Root"/> 160 <has_text text="Root"/>
158 </assert_contents> 161 </assert_contents>
159 </element> 162 </element>
160 </output_collection> 163 </output_collection>
164 <param name="savelog" value="true"/>
161 <expand macro="logfile-test"/> 165 <expand macro="logfile-test"/>
162 </test> 166 </test>
163 <test><!-- test with group file --> 167 <test><!-- test with group file -->
164 <param name="otu" value="amazon.an.list" ftype="mothur.list"/> 168 <param name="otu" value="amazon.an.list" ftype="mothur.list"/>
165 <param name="group" value="amazon.groups" ftype="mothur.groups"/> 169 <param name="group" value="amazon.groups" ftype="mothur.groups"/>
180 <expand macro="test-taxsummary-format"/> 184 <expand macro="test-taxsummary-format"/>
181 <has_text text="Root"/> 185 <has_text text="Root"/>
182 </assert_contents> 186 </assert_contents>
183 </element> 187 </element>
184 </output_collection> 188 </output_collection>
189 <param name="savelog" value="true"/>
185 <expand macro="logfile-test"/> 190 <expand macro="logfile-test"/>
186 </test> 191 </test>
187 </tests> 192 </tests>
188 <help><![CDATA[ 193 <help><![CDATA[
189 194