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comparison quast.xml @ 2:8b8e2c141edd draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/quast commit 930a43568ac0d4d32dde38a56fbb0b826f8f591b
author iuc
date Fri, 04 Nov 2016 05:05:59 -0400
parents 8d407f2b5865
children 1dd49661494f
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1:8d407f2b5865 2:8b8e2c141edd
9 level="fatal" 9 level="fatal"
10 description="Something went wrong. Check the following errors : No labels..." /> 10 description="Something went wrong. Check the following errors : No labels..." />
11 </stdio> 11 </stdio>
12 <command> 12 <command>
13 <![CDATA[ 13 <![CDATA[
14 #import re
14 quast 15 quast
15 -o outputdir 16 -o outputdir
16 #if $gene_selection == "eukaryote": 17 #if $gene_selection == "eukaryote":
17 --eukaryote 18 --eukaryote
18 #else if $gene_selection == "metagenes": 19 #else if $gene_selection == "metagenes":
30 #if $input_size: 31 #if $input_size:
31 --est-ref-size $input_size 32 --est-ref-size $input_size
32 #end if 33 #end if
33 --min-contig $min_contig 34 --min-contig $min_contig
34 -l 35 -l
35 #set names = ','.join( ['"'+str( $x.input.element_identifier)+'"' for $x in $files ]) 36 #set names = ','.join( ['"'+ re.sub('[^\w\-_]', '_', str( $x.input.element_identifier))+'"' for $x in $files ])
37
36 $names 38 $names
37 --contig-thresholds $threshold_contig 39 --contig-thresholds $threshold_contig
38 #for $k in $files: 40 #for $k in $files:
39 #if $k.type_file == "scaffold": 41 #if $k.type_file == "scaffold":
40 -s 42 -s