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comparison spotyping.xml @ 5:f1b3a263dd3a draft

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planemo upload
author jowong
date Mon, 05 Nov 2018 11:10:46 -0500
parents d849a2f860e2
children 20c20bcdec36
comparison
equal deleted inserted replaced
4:d849a2f860e2 5:f1b3a263dd3a
1 <tool id="spotyping" name="Spoligotype Prediction" version="0.1.3"> 1 <tool id="spotyping" name="Spoligotype Prediction" version="0.1.4">
2 <requirements> 2 <requirements>
3 <requirement type="package" version="2.1">spotyping</requirement> 3 <requirement type="package" version="2.1">spotyping</requirement>
4 </requirements> 4 </requirements>
5 <command detect_errors="aggressive"><![CDATA[ 5 <command detect_errors="aggressive"><![CDATA[
6 SpoTyping.py 6 SpoTyping.py
8 $data_input.input1.forward $data_input.input1.reverse 8 $data_input.input1.forward $data_input.input1.reverse
9 #end if 9 #end if
10 #if str( $data_input.data_selector ) == "single" 10 #if str( $data_input.data_selector ) == "single"
11 $data_input.input2.element_identifier 11 $data_input.input2.element_identifier
12 #end if 12 #end if
13 && cp SITVIT_ONLINE.*.xls spotyping.xls
13 ]]> 14 ]]>
14 </command> 15 </command>
15 <inputs> 16 <inputs>
16 <conditional name="data_input"> 17 <conditional name="data_input">
17 <param name="data_selector" type="select" label="Single or Paired-end Data" help="Select between paired and single end data to add name to dataset"> 18 <param name="data_selector" type="select" label="Single or Paired-end Data" help="Select between paired and single end data to add name to dataset">
27 </conditional> 28 </conditional>
28 </inputs> 29 </inputs>
29 <outputs> 30 <outputs>
30 <data name="output1" label="spoligotyping results" format="txt" from_work_dir="SpoTyping"/> 31 <data name="output1" label="spoligotyping results" format="txt" from_work_dir="SpoTyping"/>
31 <data name="output2" label="spoligotyping log" format="txt" from_work_dir="SpoTyping.log"/> 32 <data name="output2" label="spoligotyping log" format="txt" from_work_dir="SpoTyping.log"/>
32 <data name="output3" label="query" format="txt" from_work_dir="*.xls"/> 33 <data name="output3" label="query" format="excel.xls" from_work_dir="spotyping.xls"/>
33 </outputs> 34 </outputs>
34 <help><![CDATA[ 35 <help><![CDATA[
35 Usage: python SpoTyping.py [options] FASTQ_1/FASTA FASTQ_2(optional) 36 Usage: python SpoTyping.py [options] FASTQ_1/FASTA FASTQ_2(optional)
36 ]]></help> 37 ]]></help>
37 <citations> 38 <citations>