comparison BlastParser_and_hits.xml @ 11:77346ecf5a28 draft

planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_blastparser_and_hits commit e979a94ca761f94e6617b3e761bde5775846d2d8
author drosofff
date Fri, 05 Feb 2016 09:40:00 -0500
parents ddebfe3fb11a
children 80e4273db58d
comparison
equal deleted inserted replaced
10:ddebfe3fb11a 11:77346ecf5a28
1 <tool id="BlastParser_and_hits" name="Parse blast output and compile hits" version="2.4.2"> 1 <tool id="BlastParser_and_hits" name="Parse blast output and compile hits" version="2.4.3">
2 <description>for virus discovery</description> 2 <description>for virus discovery</description>
3 <requirements></requirements> 3 <requirements></requirements>
4 <command interpreter="python"> 4 <command interpreter="python">
5 BlastParser_and_hits.py 5 BlastParser_and_hits.py
6 --sequences "$sequences" 6 --sequences $sequences
7 --blast "$blast" 7 --blast $blast
8 --tabularOutput "$tabularOutput" 8 --tabularOutput $tabularOutput
9 --fastaOutput "$fastaOutput" 9 --fastaOutput $fastaOutput
10 --flanking "$flanking" 10 --flanking $flanking
11 --mode "$mode" 11 --mode $mode
12 ## Additional parameters. 12 ## Additional parameters.
13 #if $additional_filters.use_filters == "yes": 13 #if $additional_filters.use_filters == "yes":
14 --filter_relativeCov "$additional_filters.filter_relativeCov" 14 --filter_relativeCov $additional_filters.filter_relativeCov
15 --filter_maxScore "$additional_filters.filter_maxScore" 15 --filter_maxScore $additional_filters.filter_maxScore
16 --filter_meanScore "$additional_filters.filter_meanScore" 16 --filter_meanScore $additional_filters.filter_meanScore
17 --filter_term_in "$additional_filters.filter_term_in" 17 --filter_term_in "$additional_filters.filter_term_in"
18 --filter_term_out "$additional_filters.filter_term_out" 18 --filter_term_out "$additional_filters.filter_term_out"
19 #end if 19 #end if
20 --al_sequences "$al_sequences" 20 --al_sequences $al_sequences
21 --un_sequences "$un_sequences" 21 --un_sequences $un_sequences
22 --dataset_name "$blast.element_identifier" 22 --dataset_name "$blast.element_identifier"
23 23
24 </command> 24 </command>
25 <inputs> 25 <inputs>
26 <param name="sequences" type="data" format="fasta" label="fasta sequences that have been blasted" /> 26 <param name="sequences" type="data" format="fasta" label="fasta sequences that have been blasted" />