Mercurial > repos > iuc > barrnap
comparison barrnap.xml @ 2:fe48aa4ccd5e draft default tip
planemo upload commit c95f14a2264c02a4d9ff1f629a450ba2ea73b109
| author | iuc |
|---|---|
| date | Thu, 23 Jun 2022 07:44:02 +0000 |
| parents | 7355bbf5e05f |
| children |
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| 1:7355bbf5e05f | 2:fe48aa4ccd5e |
|---|---|
| 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> | |
| 4 <xref type="bio.tools">barrnap</xref> | |
| 5 </xrefs> | |
| 3 <requirements> | 6 <requirements> |
| 4 <requirement type="package" version="0.9">barrnap</requirement> | 7 <requirement type="package" version="0.9">barrnap</requirement> |
| 5 </requirements> | 8 </requirements> |
| 6 <version_command>barrnap --version</version_command> | 9 <version_command>barrnap --version</version_command> |
| 7 <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 | |
| 8 barrnap | 14 barrnap |
| 9 --quiet | 15 --quiet |
| 10 --threads \${GALAXY_SLOTS:-1} | 16 --threads \${GALAXY_SLOTS:-1} |
| 11 --reject $reject | 17 --reject $reject |
| 12 --lencutoff $lencutoff | 18 --lencutoff $lencutoff |
| 16 #end if | 22 #end if |
| 17 #if $outseq | 23 #if $outseq |
| 18 --outseq '$fasta_out' | 24 --outseq '$fasta_out' |
| 19 #end if | 25 #end if |
| 20 --kingdom $kingdom | 26 --kingdom $kingdom |
| 21 '$fasta_file' | 27 query.fa |
| 22 > '$gff' | 28 > '$gff' |
| 23 ]]> | 29 ]]> |
| 24 </command> | 30 </command> |
| 25 | 31 |
| 26 <inputs> | 32 <inputs> |