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comparison Resfinder_wrapper.xml @ 4:6010c8988869 draft default tip

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Uploaded fix output name
author p.lucas
date Fri, 08 Apr 2022 09:24:00 +0000
parents a64cdbcf2407
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3:a64cdbcf2407 4:6010c8988869
1 <tool id="Resfinder" name="Resfinder" version="0"> 1 <tool id="Resfinder" name="Resfinder" version="1">
2 <description> 2 <description>
3 Resfinder: Identifcation of acquired antibiotic resistance genes 3 Resfinder: Identifcation of acquired antibiotic resistance genes
4 </description> 4 </description>
5 <requirements> 5 <requirements>
6 <requirement type="package" version="0.1">_libgcc_mutex</requirement> 6 <requirement type="package" version="0.1">_libgcc_mutex</requirement>
142 </param> 142 </param>
143 <param name="l" type="text" area="false" value="0.6" label="Minimum (breadth-of) coverage of ResFinder within the range 0-1:"/> 143 <param name="l" type="text" area="false" value="0.6" label="Minimum (breadth-of) coverage of ResFinder within the range 0-1:"/>
144 <param name="t" type="text" value="0.8" area="false" label="Threshold for identity of ResFinder within the range 0-1:"/> 144 <param name="t" type="text" value="0.8" area="false" label="Threshold for identity of ResFinder within the range 0-1:"/>
145 </inputs> 145 </inputs>
146 <outputs> 146 <outputs>
147 <collection name="outputreport" type="list" label="${tool.name}: Report files"> 147 <collection name="outputreport" type="list" label="${tool.name} on ${on_string}: Report files">
148 <discover_datasets pattern="(?P&lt;name&gt;.+)\.txt$" directory="./output" format="txt"/> 148 <discover_datasets pattern="(?P&lt;name&gt;.+)\.txt$" directory="./output" format="txt"/>
149 </collection> 149 </collection>
150 <data format="fasta" name="resistance_genes" label="${tool.name}: resistance genes"/> 150 <data format="fasta" name="resistance_genes" label="${tool.name} on ${on_string}: resistance genes"/>
151 </outputs> 151 </outputs>
152 <help><![CDATA[ 152 <help><![CDATA[
153 This tool allows to identify acquired antimicrobial resistance genes in total or partial sequenced isolates of bacteria (in FASTA format). 153 This tool allows to identify acquired antimicrobial resistance genes in total or partial sequenced isolates of bacteria (in FASTA format).
154 154
155 BitBucket: https://bitbucket.org/genomicepidemiology/resfinder/src/master/ 155 BitBucket: https://bitbucket.org/genomicepidemiology/resfinder/src/master/