Mercurial > repos > dfornika > mob_suite

annotate separate_chromosome_from_plasmids.xml @ 8:1b64a4d31408 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
author dfornika
date Tue, 25 Jun 2019 13:31:47 -0400
parents
children 4ea788be628e
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
8
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
1 <tool id="separate_chromosome_from_plasmids" name="Separate Chromosome from Plasmids" version="1.4.9.1">
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
2 <description>Separate chromosomal contigs from plasmid contigs</description>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
3 <requirements>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
4 </requirements>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
5 <command detect_errors="exit_code">
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
6 <![CDATA[
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
7 #for $input in $inputs
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
8 ln -s '${input}' '${input.element_identifier}.fasta'
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
9 #end for
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
10 ]]>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
11 </command>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
12 <inputs>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
13 <param name="inputs" type="data" format="fasta" multiple="true" label="Input" help="FASTA files with contig(s)"/>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
14 </inputs>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
15 <outputs>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
16 <data name="chromosome" format="fasta" from_work_dir="chromosome.fasta" label="Chromosome contigs"/>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
17 <collection name="plasmids" type="list" label="Plasmid contigs (zipped)">
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
18 <discover_datasets pattern="plasmid*" format="fasta" />
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
19 </collection>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
20 </outputs>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
21 <tests>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
22 </tests>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
23 <help>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
24 </help>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
25 <citations>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
26 </citations>
1b64a4d31408 planemo upload for repository https://github.com/phac-nml/mob-suite commit 4046a822176aafd34a2ae8dc24ad6d0337fafbe6-dirty
dfornika
parents:
diff changeset
27 </tool>