Mercurial > repos > artbio > sequence_format_converter

comparison sequence_format_converter.xml @ 2:f1d59113125a draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sequence_format_converter commit e045004f4c0469cf069d76988afb31f51c33fd4e
author artbio
date Tue, 20 Feb 2018 12:13:40 -0500
parents 9ce7ccd468aa
children 772bd67ef26a
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1:9ce7ccd468aa 2:f1d59113125a
1 <tool id="sequence_format_converter" name="sequence_format_converter" version="2.1.0"> 1 <tool id="sequence_format_converter" name="sequence_format_converter" version="2.1.1">
2 <description></description> 2 <description></description>
3 <command><![CDATA[ 3 <command><![CDATA[
4 #if $input.is_of_type('fastq.gz'): 4 #if $input.is_of_type('fastq.gz'):
5 gzip -dc $input > '${input}.tmp'; 5 gzip -dc $input > '${input}.tmp';
6 python '$__tool_directory__'/sequence_format_converter.py 6 python '$__tool_directory__'/sequence_format_converter.py
15 --format '$output_format' 15 --format '$output_format'
16 #end if 16 #end if
17 ]]></command> 17 ]]></command>
18 18
19 <inputs> 19 <inputs>
20 <param name="input" type="data" format="fasta, fastq, tabular" label="file to convert to tabular (input format is automatically detected)"/> 20 <param name="input" type="data" format="fasta,fastq,tabular" label="file to convert to tabular (input format is automatically detected)"/>
21 <param name="output_format" type="select" label="conversion options"> 21 <param name="output_format" type="select" label="conversion options">
22 <option value="tabular" selected="true">tabular</option> 22 <option value="tabular" selected="true">tabular</option>
23 <option value="fasta">Fasta</option> 23 <option value="fasta">Fasta</option>
24 <option value="fastaw">Weighted fasta</option> 24 <option value="fastaw">Weighted fasta</option>
25 </param> 25 </param>