Mercurial > repos > dfornika > mob_suite
changeset 29:3851907651ad draft
planemo upload for repository https://github.com/phac-nml/mob-suite commit 0dd60ac52b9d34ee1f446182eda78cb8c01de6d1-dirty
| author | dfornika |
|---|---|
| date | Mon, 23 Sep 2019 21:33:51 -0400 |
| parents | dd81ad72726a |
| children | 14d499c3fe1d |
| files | mob_recon.xml |
| diffstat | 1 files changed, 5 insertions(+), 4 deletions(-) [+] |
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--- a/mob_recon.xml Mon Sep 23 21:26:07 2019 -0400 +++ b/mob_recon.xml Mon Sep 23 21:33:51 2019 -0400 @@ -33,8 +33,7 @@ --min_con_ident '${adv_param.min_con_ident}' --min_rpp_ident '${adv_param.min_rpp_ident}' --outdir '.' && - mkdir ./plasmids && (cp plasmid*.fasta ./plasmids 2> /dev/null || true) && - zip -r "plasmids.tar.gz" "plasmids" + mkdir ./plasmids && (cp plasmid*.fasta ./plasmids 2> /dev/null || true) ]]> </command> <inputs> @@ -76,8 +75,10 @@ <data name="contig_report" format="tabular" from_work_dir="contig_report.txt" label="${tool.name} on ${on_string}: Overall contig MOB-recon report"/> <data name="repetitive_element_report" format="tabular" from_work_dir="repetitive_blast_report.txt" label="${tool.name} on ${on_string}: Repetitive elements BLAST report"/> <data name="mobtyper_aggregate_report" format="tabular" from_work_dir="mobtyper_aggregate_report.txt" label="${tool.name} on ${on_string}: Aggregate MOB-typer report for all contigs"/> - <data name="chromosome" format="fasta" from_work_dir="chromosome.fasta" label="${tool.name} on ${on_string}: Chromosomal contigs" /> - <data name="plasmids" format="zip" from_work_dir="plasmids.tar.gz" label="${tool.name} on ${on_string}: Plasmid contigs (tar.gz)" /> + <data name="chromosome" format="fasta" from_work_dir="chromosome.fasta" label="${tool.name} on ${on_string}: Chromosome" /> + <collection name="plasmids" type="list" label="${tool.name} on ${on_string}: Plasmids"> + <discover_datasets pattern="__name_and_ext__" directory="plasmids" /> + </collection> </outputs> <tests> <test>