Mercurial > repos > jpayne > seqsero_v2

comparison seqsero2.xml @ 10:00ed20576a29

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planemo upload
author jpayne
date Fri, 09 Aug 2019 15:26:33 -0400
parents 87c7eebc6797
children f6f0702de3b4
comparison
equal deleted inserted replaced
9:eefafc531698 10:00ed20576a29
1 <tool id="seqsero_v2" name="SeqSero 2" version="2.0-cbdca79"> 1 <tool id="seqsero_v2" name="SeqSero 2" version="2.0.1">
2 <description>Salmonella serotype prediction</description> 2 <description>Salmonella serotype prediction</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="3.6">python</requirement> 4 <requirement type="package" version="3.6">python</requirement>
5 <requirement type="package" version="1.70">biopython</requirement> 5 <requirement type="package" version="1.70">biopython</requirement>
6 <requirement type="package" version="2.7.1">blast</requirement> 6 <requirement type="package" version="2.7.1">blast</requirement>
9 <requirement type="package" version="0.7.17">bwa</requirement> 9 <requirement type="package" version="0.7.17">bwa</requirement>
10 <requirement type="package" version="3.12.0">spades</requirement> 10 <requirement type="package" version="3.12.0">spades</requirement>
11 <requirement type="package" version="2.27.1">bedtools</requirement> 11 <requirement type="package" version="2.27.1">bedtools</requirement>
12 </requirements> 12 </requirements>
13 <command detect_errors="exit_code"><![CDATA[ 13 <command detect_errors="exit_code"><![CDATA[
14 git describe --always ;
15 echo "SeqSero 2 v. 1.0.0" ;
14 #if $reads.reads_select == 'history' 16 #if $reads.reads_select == 'history'
15 #set $name = $reads.forward.name.split('.')[0].replace(' ','_') 17 #set $name = $reads.forward.name.split('.')[0].replace(' ','_')
16 #set $forward = $reads.forward 18 #set $forward = $reads.forward
17 #set $reverse = $reads.reverse 19 #set $reverse = $reads.reverse
18 #else 20 #else