Mercurial > repos > iuc > barrnap

comparison barrnap.xml @ 3:0e85267c5167 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit c95f14a2264c02a4d9ff1f629a450ba2ea73b109
author iuc
date Thu, 23 Jun 2022 07:43:17 +0000
parents d465ebeb058f
children
comparison
equal deleted inserted replaced
2:d465ebeb058f 3:0e85267c5167
1 <tool id="barrnap" name="barrnap" version="1.2.1"> 1 <tool id="barrnap" name="barrnap" version="1.2.2">
2 <description>Locate ribosomal RNA's in a fasta file. (GFF output)</description> 2 <description>Locate ribosomal RNA's in a fasta file. (GFF output)</description>
3 <xrefs> 3 <xrefs>
4 <xref type="bio.tools">barrnap</xref> 4 <xref type="bio.tools">barrnap</xref>
5 </xrefs> 5 </xrefs>
6 <requirements> 6 <requirements>
7 <requirement type="package" version="0.9">barrnap</requirement> 7 <requirement type="package" version="0.9">barrnap</requirement>
8 </requirements> 8 </requirements>
9 <version_command>barrnap --version</version_command> 9 <version_command>barrnap --version</version_command>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
11 ## symlink fasta because tool generates .fai
12 ln -s '$fasta_file' query.fa &&
13
11 barrnap 14 barrnap
12 --quiet 15 --quiet
13 --threads \${GALAXY_SLOTS:-1} 16 --threads \${GALAXY_SLOTS:-1}
14 --reject $reject 17 --reject $reject
15 --lencutoff $lencutoff 18 --lencutoff $lencutoff
19 #end if 22 #end if
20 #if $outseq 23 #if $outseq
21 --outseq '$fasta_out' 24 --outseq '$fasta_out'
22 #end if 25 #end if
23 --kingdom $kingdom 26 --kingdom $kingdom
24 '$fasta_file' 27 query.fa
25 > '$gff' 28 > '$gff'
26 ]]> 29 ]]>
27 </command> 30 </command>
28 31
29 <inputs> 32 <inputs>