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planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
author public-health-bioinformatics
date Thu, 04 Jul 2019 19:41:09 -0400
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-1:000000000000 0:a3130cc156dd
1 <tool id="change_fasta_deflines" name="Change Fasta Deflines" version="0.0.1">
2 <requirements>
3 <requirement type="package" version="1.70">biopython</requirement>
4 </requirements>
5 <command detect_errors="exit_code"><![CDATA[
6 python $__tool_directory__/change_fasta_deflines.py
7 '$key_value_pairs'
8 '$input_fasta'
9 '$output_file'
10 #if $tab_delim
11 -t
12 #end if
13 ]]></command>
14 <inputs>
15 <param name="input_fasta" format="fasta" type="data" />
16 <param name="tab_delim" type="boolean" label="Names file is tab-delimited." checked="false" />
17 <param name="key_value_pairs" format="csv" type="data" />
18 </inputs>
19 <outputs>
20 <data name="output_file" format="fasta"/>
21 </outputs>
22 <tests>
23 <test>
24 <param name="input_fasta" value="fasta_2_rename.fasta" />
25 <param name="key_value_pairs" value="csv_rename_file.csv" />
26 <output name="output_file" value="output.fasta" />
27 </test>
28 <test>
29 <param name="input_fasta" value="fasta_2_rename.fasta" />
30 <param name="key_value_pairs" value="tab_delim_rename_file.txt" />
31 <param name="tab_delim" value="true" />
32 <output name="output_file" value="output.fasta" />
33 </test>
34 </tests>
35 <help><![CDATA[
36 ]]></help>
37 <citations>
38 </citations>
39 </tool>