Mercurial > repos > estrain > seqsero2_v1_0_1

comparison seqsero2.xml @ 33:6d8f3c66a836

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author estrain
date Sat, 07 Sep 2019 14:52:06 -0400
parents 67621118a465
children b99f3a65254d
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32:7c51eb2396a9 33:6d8f3c66a836
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 "SeqSero 2 v. 1.0.1" ; 14 echo "SeqSero 2 v. 1.0.1" ;
15 mkdir ./output; 15 mkdir ./output;
16 cp $__tool_directory__/SalmID.py output/;
17 cp $__tool_directory__/invA_mers_dict output/;
18 cp $__tool_directory__/rpoB_mers_dict output/;
19 16
20 #if $reads.reads_select == 'history' 17 #if $reads.reads_select == 'history'
21 #set $name = $reads.forward.name.split('.')[0].replace(' ','_') 18 #set $name = $reads.forward.name.split('.')[0].replace(' ','_')
22 #set $forward = $reads.forward 19 #set $forward = $reads.forward
23 #set $reverse = $reads.reverse 20 #set $reverse = $reads.reverse