Mercurial > repos > cstrittmatter > ss2v110

comparison seqsero2.xml @ 12:08832c0d3cbd draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 70dc513aa7d7ac6785847dfd86323687613b6b68-dirty
author cstrittmatter
date Fri, 15 May 2020 10:19:08 -0400
parents e8ce538c84a3
children e3b74e412f40
comparison
equal deleted inserted replaced
11:e8ce538c84a3 12:08832c0d3cbd
1 <tool id="seqsero2v110" name="SeqSero2 v1.1.0" version="5"> 1 <tool id="seqsero2v110" name="SeqSero2 v1.1.1" version="5">
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="1.74">biopython</requirement> 5 <requirement type="package" version="1.73">biopython</requirement>
6 <requirement type="package" version="2.7.1">blast</requirement> 6 <requirement type="package" version="2.7.1">blast</requirement>
7 <requirement type="package" version="1.9">samtools</requirement> 7 <requirement type="package" version="1.9">samtools</requirement>
8 <requirement type="package" version="2.9.1">sra-tools</requirement> 8 <requirement type="package" version="2.9.1">sra-tools</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="3.13.1">spades</requirement> 10 <requirement type="package" version="3.13.1">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 echo "SeqSero2 v1.1.0" ; 14 echo "SeqSero2 v1.1.1";
15 mkdir ./output; 15 mkdir ./output;
16 16
17 #if $reads.reads_select == 'history' 17 #if $reads.reads_select == 'history'
18 #set $name = $reads.forward.name.split('.')[0].replace(' ','_') 18 #set $name = $reads.forward.name.split('.')[0].replace(' ','_')
19 #set $forward = $reads.forward 19 #set $forward = $reads.forward