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comparison spotyping.xml @ 8:ff5b31cdc6ba draft

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planemo upload
author jowong
date Tue, 13 Nov 2018 03:09:25 -0500
parents 1bf76073c034
children c3ae0772ef96
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7:1bf76073c034 8:ff5b31cdc6ba
1 <tool id="spotyping" name="Spoligotype Prediction" version="1.0.0"> 1 <tool id="spotyping" name="Spoligotype Prediction" version="1.0.1">
2 <description>fast and accurate in silico Mycobacterium spoligotyping from sequence reads</description> 2 <description>fast and accurate in silico Mycobacterium spoligotyping from sequence reads</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="2.1">spotyping</requirement> 4 <requirement type="package" version="2.1">spotyping</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"><![CDATA[ 6 <command detect_errors="aggressive"><![CDATA[
37 <param name="min" type="integer" value="5" label="MIN" help="minimum number of error-free hits to support presence of a spacer" /> 37 <param name="min" type="integer" value="5" label="MIN" help="minimum number of error-free hits to support presence of a spacer" />
38 <param name="min_relax" type="integer" value="6" label="MIN RELAX" help="minimum number of 1-error-tolerant hits to support presence of a spacer " /> 38 <param name="min_relax" type="integer" value="6" label="MIN RELAX" help="minimum number of 1-error-tolerant hits to support presence of a spacer " />
39 </section> 39 </section>
40 </inputs> 40 </inputs>
41 <outputs> 41 <outputs>
42 <data name="output1" label="spoligotyping results" format="txt" from_work_dir="SpoTyping"/> 42 <data name="spotyping_results" label="spoligotyping results" format="txt" from_work_dir="SpoTyping"/>
43 <data name="output2" label="spoligotyping log" format="txt" from_work_dir="SpoTyping.log"/> 43 <data name="spotyping_log" label="spoligotyping log" format="txt" from_work_dir="SpoTyping.log"/>
44 <data name="output3" label="query" format="excel.xls" from_work_dir="spotyping.xls"/> 44 <data name="sitvit_database_query" label="query" format="excel.xls" from_work_dir="spotyping.xls"/>
45 </outputs> 45 </outputs>
46 <help><![CDATA[ 46 <help><![CDATA[
47 This is a modified version of IUC's wrapper of spotyping without the concatenation and renaming of the input files. The wrapper also runs properly when supplied with paired-end reads 47 This is a modified version of IUC's wrapper of spotyping without the concatenation and renaming of the input files. The wrapper also runs properly when supplied with paired-end reads
48 48
49 SpoTyping_ is a software for predicting spoligotype_ from sequencing reads, complete genomic sequences and assembled contigs. 49 SpoTyping_ is a software for predicting spoligotype_ from sequencing reads, complete genomic sequences and assembled contigs.