Mercurial > repos > dfornika > mob_recon_separate_chomosome_from_plasmids
changeset 0:b2c83e614ede draft default tip
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/mob_recon_separate_chromosome_from_plasmids commit 006cbba6513492f5a06b573c676400a2d464520b-dirty
| author | dfornika |
|---|---|
| date | Thu, 15 Aug 2019 16:16:26 -0400 |
| parents | |
| children | |
| files | mob_recon_separate_chromosome_from_plasmids.xml |
| diffstat | 1 files changed, 28 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/mob_recon_separate_chromosome_from_plasmids.xml Thu Aug 15 16:16:26 2019 -0400 @@ -0,0 +1,28 @@ +<tool id="mob_recon_separate_chromosome_from_plasmids" name="Separate Chromosome from Plasmids" version="0.1.0"> + <description>Separate chromosomal contigs from plasmid contigs</description> + <requirements> + </requirements> + <command detect_errors="exit_code"> + <![CDATA[ + #for $input in $inputs + cp '${input}' '${input.element_identifier}.fasta' && + #end for + mkdir 'plasmids' && mv plasmid_* 'plasmids' + ]]> + </command> + <inputs> + <param name="inputs" type="data_collection" format="fasta" multiple="true" label="Input" help="FASTA files with contig(s)"/> + </inputs> + <outputs> + <data name="chromosome" format="fasta" from_work_dir="chromosome.fasta" label="Chromosome contigs"/> + <collection name="plasmids" type="list" format="fasta" label="Plasmid contigs"> + <discover_datasets pattern="__name_and_ext__" directory="plasmids" /> + </collection> + </outputs> + <tests> + </tests> + <help> + </help> + <citations> + </citations> +</tool>