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comparison abricate_list.xml @ 1:15197951a756 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abricate/ commit 626b990b38e0585abfb6a06a2516ff498dc2257b
author iuc
date Fri, 03 Mar 2017 14:56:09 -0500
parents 862f5a86854d
children 2aa02d2a6af3
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0:862f5a86854d 1:15197951a756
1 <tool id="abricate_list" name="ABRicate List" version="0.1.0"> 1 <tool id="abricate_list" name="ABRicate List" version="0.3">
2 <requirements> 2 <requirements>
3 <requirement type="package" version="0.3">abricate</requirement> 3 <requirement type="package" version="0.3">abricate</requirement>
4 <requirement type="package" version="5.18.1">perl</requirement>
5 <requirement type="package" version="2.2.31">blast+</requirement>
6 </requirements> 4 </requirements>
7 5
8 <version_command>abricate --version</version_command> 6 <version_command>abricate --version</version_command>
9 7
10 <command detect_errors="exit_code"><![CDATA[ 8 <command detect_errors="exit_code"><![CDATA[
11 abricate --list 2> "$report" 9 abricate --list 2> '$report'
12 ]]></command> 10 ]]></command>
13 11
14 <inputs> 12 <inputs>
15
16 </inputs> 13 </inputs>
17 14
18 <outputs> 15 <outputs>
19 <data format="txt" name="report" label="${tool.name} - list of databases"/> 16 <data name="report" format="txt" label="${tool.name} - list of databases"/>
20 </outputs> 17 </outputs>
21 18
22 <tests> 19 <tests>
23 <test> 20 <test>
24 <output name="report" ftype="txt" file="output_list.txt" /> 21 <output name="report" ftype="txt" file="output_list.txt" />
27 24
28 <help><![CDATA[ 25 <help><![CDATA[
29 **What it does** 26 **What it does**
30 27
31 ABRicate List will list all the antibiotic databases used by ABRicate. The database of these genes is built from ResFinder. 28 ABRicate List will list all the antibiotic databases used by ABRicate. The database of these genes is built from ResFinder.
32
33 ]]></help> 29 ]]></help>
34 30
35 <citations> 31 <citations>
36 <citation type="bibtex"> 32 <citation type="bibtex">
37 @UNPUBLISHED{Seemann2016, 33 @UNPUBLISHED{Seemann2016,
38 author = "Seemann T", 34 author = {Seemann, Torsten},
39 title = "ABRicate: mass screening of contigs for antiobiotic resistance genes", 35 title = {ABRicate: mass screening of contigs for antiobiotic resistance genes},
40 year = "2016", 36 year = {2016},
41 note = "https://github.com/tseemann/abricate"} 37 url = {https://github.com/tseemann/abricate},
42 </citation> 38 }
39 </citation>
43 </citations> 40 </citations>
44 </tool> 41 </tool>