Mercurial > repos > iuc > mothur_get_groups

comparison get.groups.xml @ 4:3d777453d29d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 38a2bbee32eaaceeb22d7549b13dbc0c613ee173
author iuc
date Tue, 20 Mar 2018 14:01:41 -0400
parents 378f8103cf1b
children
comparison
equal deleted inserted replaced
3:378f8103cf1b 4:3d777453d29d
92 <param name="taxonomy_in" type="data" format="mothur.seq.taxonomy" optional="true" label="taxonomy - Taxonomy"/> 92 <param name="taxonomy_in" type="data" format="mothur.seq.taxonomy" optional="true" label="taxonomy - Taxonomy"/>
93 <param name="phylip_in" type="data" format="mothur.lower.dist,mothur.square.dist" optional="true" label="phylip - Distance Matrix you would like to select distances from" 93 <param name="phylip_in" type="data" format="mothur.lower.dist,mothur.square.dist" optional="true" label="phylip - Distance Matrix you would like to select distances from"
94 help="must be a phylip-formatted distance matrix"/> 94 help="must be a phylip-formatted distance matrix"/>
95 <param name="column_in" type="data" format="mothur.pair.dist" optional="true" label="column - Distance Matrix you would like to select distances from" 95 <param name="column_in" type="data" format="mothur.pair.dist" optional="true" label="column - Distance Matrix you would like to select distances from"
96 help="must be a column-formatted distance matrix"/> 96 help="must be a column-formatted distance matrix"/>
97 <expand macro="param-savelog"/>
97 </inputs> 98 </inputs>
98 <outputs> 99 <outputs>
99 <expand macro="logfile-output"/> 100 <expand macro="logfile-output"/>
100 <data name="group_out" format="mothur.groups" from_work_dir="group_in*.pick.*" label="${tool.name} on ${on_string}: pick.groups"> 101 <data name="group_out" format="mothur.groups" from_work_dir="group_in*.pick.*" label="${tool.name} on ${on_string}: pick.groups">
101 <filter>group_in.ext == "mothur.groups"</filter> 102 <filter>group_in.ext == "mothur.groups"</filter>
134 <test><!-- test with group file --> 135 <test><!-- test with group file -->
135 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/> 136 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/>
136 <param name="source" value="groups"/> 137 <param name="source" value="groups"/>
137 <param name="groups" value="forest,pasture"/> 138 <param name="groups" value="forest,pasture"/>
138 <output name="group_out" md5="fb60628ae445e7b06f9833f632b2cd0c" ftype="mothur.groups"/> 139 <output name="group_out" md5="fb60628ae445e7b06f9833f632b2cd0c" ftype="mothur.groups"/>
140 <param name="savelog" value="true"/>
139 <expand macro="logfile-test"/> 141 <expand macro="logfile-test"/>
140 </test> 142 </test>
141 <test><!-- test with accnos file --> 143 <test><!-- test with accnos file -->
142 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/> 144 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/>
143 <param name="source" value="accnos"/> 145 <param name="source" value="accnos"/>
144 <param name="accnos" value="amazon.groupaccnos" ftype="mothur.accnos"/> 146 <param name="accnos" value="amazon.groupaccnos" ftype="mothur.accnos"/>
145 <output name="group_out" md5="fb60628ae445e7b06f9833f632b2cd0c" ftype="mothur.groups"/> 147 <output name="group_out" md5="fb60628ae445e7b06f9833f632b2cd0c" ftype="mothur.groups"/>
148 <param name="savelog" value="true"/>
146 <expand macro="logfile-test"/> 149 <expand macro="logfile-test"/>
147 </test> 150 </test>
148 <test><!-- test with accnos file and most extra files--> 151 <test><!-- test with accnos file and most extra files-->
149 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/> 152 <param name="group_in" value="amazon.groups" ftype="mothur.groups"/>
150 <param name="source" value="accnos"/> 153 <param name="source" value="accnos"/>
160 <element name="0.38" md5="49878dfbe53d5144f3bd885c629de822" ftype="mothur.list"/> 163 <element name="0.38" md5="49878dfbe53d5144f3bd885c629de822" ftype="mothur.list"/>
161 </output_collection> 164 </output_collection>
162 <output_collection name="sharedfiles" count="36"> 165 <output_collection name="sharedfiles" count="36">
163 <element name="0.38" md5="3c78742e0a480ca3353f9b591fc9bf36" ftype="mothur.shared"/> 166 <element name="0.38" md5="3c78742e0a480ca3353f9b591fc9bf36" ftype="mothur.shared"/>
164 </output_collection> 167 </output_collection>
168 <param name="savelog" value="true"/>
165 <expand macro="logfile-test"/> 169 <expand macro="logfile-test"/>
166 </test> 170 </test>
167 <test><!-- test with distance matrix --> 171 <test><!-- test with distance matrix -->
168 <param name="group_in" value="amazon_withgroups.count_table" ftype="mothur.count_table"/> 172 <param name="group_in" value="amazon_withgroups.count_table" ftype="mothur.count_table"/>
169 <param name="source" value="accnos"/> 173 <param name="source" value="accnos"/>
180 <assert_contents> 184 <assert_contents>
181 <expand macro="test-dist-format"/> 185 <expand macro="test-dist-format"/>
182 <has_text text="U68589"/> 186 <has_text text="U68589"/>
183 </assert_contents> 187 </assert_contents>
184 </output> 188 </output>
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