Mercurial > repos > public-health-bioinformatics > assign_clades
annotate assign_clades.xml @ 0:a971083404a4 draft default tip
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
author | public-health-bioinformatics |
---|---|
date | Thu, 04 Jul 2019 19:34:32 -0400 |
parents | |
children |
rev | line source |
---|---|
0
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
1 <tool id="assign_clades" name="Assign Clades" version="0.0.1"> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
2 <requirements> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
3 <requirement type="package" version="1.70">biopython</requirement> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
4 </requirements> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
5 <command detect_errors="exit_code"><![CDATA[ |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
6 python $__tool_directory__/assign_clades.py |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
7 '$input_fasta' |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
8 '$clade_definitions' |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
9 '$output_file' |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
10 ]]></command> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
11 <inputs> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
12 <param name="input_fasta" format="fasta" type="data" /> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
13 <param name="clade_definitions" format="csv" type="data" /> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
14 </inputs> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
15 <outputs> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
16 <data name="output_file" format="fasta"/> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
17 </outputs> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
18 <tests> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
19 <test> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
20 <param name="input_fasta" value="input_fasta.fasta" /> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
21 <param name="clade_definitions" value="clades.csv" /> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
22 <output name="output_file" value="output.fasta" /> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
23 </test> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
24 </tests> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
25 <help><![CDATA[ |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
26 ]]></help> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
27 <citations> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
28 </citations> |
a971083404a4
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
public-health-bioinformatics
parents:
diff
changeset
|
29 </tool> |