Mercurial > repos > iuc > mothur_trim_flows

comparison trim.flows.xml @ 5:40d7b488661e 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 13:39:18 -0400
parents 5c31047be933
children
comparison
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4:9239f8d71c48 5:40d7b488661e
70 <option value="A" selected="true"> A (TACG) </option> 70 <option value="A" selected="true"> A (TACG) </option>
71 <option value="B"> B </option> 71 <option value="B"> B </option>
72 <option value="I"> I </option> 72 <option value="I"> I </option>
73 </param> 73 </param>
74 <param name="fasta" type="boolean" truevalue="true" falsevalue="false" checked="false" label="fasta - translate the flowgram data to fasta sequence format"/> 74 <param name="fasta" type="boolean" truevalue="true" falsevalue="false" checked="false" label="fasta - translate the flowgram data to fasta sequence format"/>
75 <expand macro="param-savelog"/>
75 </inputs> 76 </inputs>
76 <outputs> 77 <outputs>
77 <expand macro="logfile-output"/> 78 <expand macro="logfile-output"/>
78 <data name="trim_flow" format="mothur.sff.flow" from_work_dir="flow.trim" label="${tool.name} on ${on_string}: trim.flow"/> 79 <data name="trim_flow" format="mothur.sff.flow" from_work_dir="flow.trim" label="${tool.name} on ${on_string}: trim.flow"/>
79 <data name="scrap_flow" format="mothur.sff.flow" from_work_dir="flow.scrap" label="${tool.name} on ${on_string}: scrap.flow"/> 80 <data name="scrap_flow" format="mothur.sff.flow" from_work_dir="flow.scrap" label="${tool.name} on ${on_string}: scrap.flow"/>
94 <output name="flow_files" ftype="tabular"> 95 <output name="flow_files" ftype="tabular">
95 <assert_contents> 96 <assert_contents>
96 <has_text text="flow"/> 97 <has_text text="flow"/>
97 </assert_contents> 98 </assert_contents>
98 </output> 99 </output>
100 <param name="savelog" value="true"/>
99 <expand macro="logfile-test"/> 101 <expand macro="logfile-test"/>
100 </test> 102 </test>
101 <test><!-- test with oligos file and fasta output --> 103 <test><!-- test with oligos file and fasta output -->
102 <param name="flow" value="testflow.flow" ftype="mothur.sff.flow"/> 104 <param name="flow" value="testflow.flow" ftype="mothur.sff.flow"/>
103 <param name="add" value="yes"/> 105 <param name="add" value="yes"/>
115 </output> 117 </output>
116 <output_collection name="flow_oligos" count="2"> 118 <output_collection name="flow_oligos" count="2">
117 <element name="F003D006" md5="5ea6613d7aa26f87ca9b983152e14a4b" ftype="mothur.sff.flow"/> 119 <element name="F003D006" md5="5ea6613d7aa26f87ca9b983152e14a4b" ftype="mothur.sff.flow"/>
118 </output_collection> 120 </output_collection>
119 <output name="flow_fasta" md5="0725967a9ed731c049d48ea876b0e308" ftype="fasta"/> 121 <output name="flow_fasta" md5="0725967a9ed731c049d48ea876b0e308" ftype="fasta"/>
122 <param name="savelog" value="true"/>
120 <expand macro="logfile-test"/> 123 <expand macro="logfile-test"/>
121 </test> 124 </test>
122 </tests> 125 </tests>
123 <help><![CDATA[ 126 <help><![CDATA[
124 127