Mercurial > repos > genouest > feelnc2asko
comparison feelnc2asko.xml @ 0:e323c49b8bcc draft
planemo upload for repository https://github.com/genouest/galaxy-tools/tree/master/tools/feelnc2asko commit 92849224db1963d090fbb25d410cc659a5449241
| author | genouest |
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| date | Thu, 12 Apr 2018 06:05:23 -0400 |
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| -1:000000000000 | 0:e323c49b8bcc |
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| 1 <tool id="feelnc2asko" name="Convert FeelNC GTF" version="0.1"> | |
| 2 <description>to GFF3 for AskOmics</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="1.6.924">perl-bioperl</requirement> | |
| 5 </requirements> | |
| 6 | |
| 7 <command detect_errors="exit_code"><![CDATA[ | |
| 8 perl '$__tool_directory__/feelnc2asko.pl' --ann '${anngff}' --lnc '${lncgtf}' --new '${newgtf}' > '${outgff}' | |
| 9 ]]></command> | |
| 10 | |
| 11 <inputs> | |
| 12 <param format="gff" name="anngff" type="data" label="Initial annotation file" /> | |
| 13 <param format="gtf" name="lncgtf" type="data" label="FeelNC lncRNA annotation" /> | |
| 14 <param format="gtf" name="newgtf" type="data" label="FeelNC new mRNA annotation" /> | |
| 15 </inputs> | |
| 16 | |
| 17 <outputs> | |
| 18 <data format="gff" name="outgff" label="${tool.name} on ${on_string} : FeelNC GFF" /> | |
| 19 </outputs> | |
| 20 | |
| 21 <tests> | |
| 22 <test> | |
| 23 <param name="anngff" ftype="gff" value="initial.gff3" /> | |
| 24 <param name="lncgtf" ftype="gtf" value="feelnc_lncRNA.gtf" /> | |
| 25 <param name="newgtf" ftype="gtf" value="feelnc_mRNA.gtf" /> | |
| 26 <output name="outgff" ftype="gff" file="completeAnnot.gff3" compare="sim_size" /> | |
| 27 </test> | |
| 28 </tests> | |
| 29 | |
| 30 <help> | |
| 31 Generates a GFF compliant to AskOmics from the FeelNC output files merged with the initial annotation file. | |
| 32 </help> | |
| 33 | |
| 34 <citations> | |
| 35 </citations> | |
| 36 </tool> |