Mercurial > repos > iuc > mothur_classify_seqs

comparison classify.seqs.xml @ 6:a4e9f02da98c 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 13:59:55 -0400
parents 5780dd6cfec9
children ccb08c40f6f9
comparison
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5:18456180898c 6:a4e9f02da98c
125 <param argument="name" type="data" format="mothur.names" optional="true" label="names file"/> 125 <param argument="name" type="data" format="mothur.names" optional="true" label="names file"/>
126 <param argument="relabund" type="boolean" falsevalue="false" truevalue="true" checked="false" 126 <param argument="relabund" type="boolean" falsevalue="false" truevalue="true" checked="false"
127 label="relabund - allows you to indicate that you want the summary files to be relative abundances rather than raw abundances"/> 127 label="relabund - allows you to indicate that you want the summary files to be relative abundances rather than raw abundances"/>
128 <expand macro="param-output"/> 128 <expand macro="param-output"/>
129 <expand macro="param-printlevel"/> 129 <expand macro="param-printlevel"/>
130 <expand macro="param-savelog"/>
130 </inputs> 131 </inputs>
131 <outputs> 132 <outputs>
132 <expand macro="logfile-output"/> 133 <expand macro="logfile-output"/>
133 <data name="taxonomy_out" format="mothur.seq.taxonomy" from_work_dir="fasta*.taxonomy" label="${tool.name} on ${on_string}: taxonomy"/> 134 <data name="taxonomy_out" format="mothur.seq.taxonomy" from_work_dir="fasta*.taxonomy" label="${tool.name} on ${on_string}: taxonomy"/>
134 <data name="tax_summary" format="mothur.tax.summary" from_work_dir="fasta*.tax.summary" label="${tool.name} on ${on_string}: tax.summary"/> 135 <data name="tax_summary" format="mothur.tax.summary" from_work_dir="fasta*.tax.summary" label="${tool.name} on ${on_string}: tax.summary"/>
159 <has_text text="@WRAPPER_VERSION@"/> 160 <has_text text="@WRAPPER_VERSION@"/>
160 <has_text text="Root"/> 161 <has_text text="Root"/>
161 <has_text text="Bacteria"/> 162 <has_text text="Bacteria"/>
162 </assert_contents> 163 </assert_contents>
163 </output> 164 </output>
165 <param name="savelog" value="true"/>
164 <expand macro="logfile-test"/> 166 <expand macro="logfile-test"/>
165 </test> 167 </test>
166 <test><!-- test with knn method --> 168 <test><!-- test with knn method -->
167 <param name="fasta" value="amazon.fasta" ftype="fasta"/> 169 <param name="fasta" value="amazon.fasta" ftype="fasta"/>
168 <param name="source" value="hist"/> 170 <param name="source" value="hist"/>
181 <assert_contents> 183 <assert_contents>
182 <has_text text="Bacteria"/> 184 <has_text text="Bacteria"/>
183 <has_text text="U68589"/> 185 <has_text text="U68589"/>
184 </assert_contents> 186 </assert_contents>
185 </output> 187 </output>
188 <param name="savelog" value="true"/>
186 <expand macro="logfile-test"/> 189 <expand macro="logfile-test"/>
187 </test> 190 </test>
188 <test><!-- test with knn method and blast algorithm --> 191 <test><!-- test with knn method and blast algorithm -->
189 <param name="fasta" value="abrecovery.fasta" ftype="fasta"/> 192 <param name="fasta" value="abrecovery.fasta" ftype="fasta"/>
190 <param name="source" value="hist"/> 193 <param name="source" value="hist"/>
204 <assert_contents> 207 <assert_contents>
205 <has_text text="Bacteria"/> 208 <has_text text="Bacteria"/>
206 <has_text text="AY457914"/> 209 <has_text text="AY457914"/>
207 </assert_contents> 210 </assert_contents>
208 </output> 211 </output>
212 <param name="savelog" value="true"/>
209 <expand macro="logfile-test"/> 213 <expand macro="logfile-test"/>
210 </test> 214 </test>
211 </tests> 215 </tests>
212 <help><![CDATA[ 216 <help><![CDATA[
213 217