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comparison fastq_paired_end_joiner.xml @ 5:822cc1e6274e draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/galaxy_sequence_utils/fastq_paired_end_joiner commit 28c441e8aa66a55d276b0f6325d34086eb715872
author devteam
date Sat, 07 Oct 2017 09:58:53 -0400
parents 080a058abf1e
children 09a2199cd356
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4:080a058abf1e 5:822cc1e6274e
1 <tool id="fastq_paired_end_joiner" name="FASTQ joiner" version="2.0.1.0"> 1 <tool id="fastq_paired_end_joiner" name="FASTQ joiner" version="2.0.1.1">
2 <description>on paired end reads</description> 2 <description>on paired end reads</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.1.1">galaxy_sequence_utils</requirement> 4 <requirement type="package" version="1.1.2">galaxy_sequence_utils</requirement>
5 </requirements> 5 </requirements>
6 <command><![CDATA[ 6 <command><![CDATA[
7 gx-fastq-paired-end-joiner '$input1_file' '${input1_file.extension[len('fastq'):]}' '$input2_file' '${input2_file.extension[len('fastq'):]}' '$output_file' $style '${paste_sequence}' 7 gx-fastq-paired-end-joiner '$input1_file' '${input1_file.extension[len('fastq'):]}' '$input2_file' '${input2_file.extension[len('fastq'):]}' '$output_file' $style '${paste_sequence}'
8 ]]></command> 8 ]]></command>
9 <inputs> 9 <inputs>
21 <tests> 21 <tests>
22 <test> 22 <test>
23 <param name="input1_file" value="split_pair_reads_1.fastqsanger" ftype="fastqsanger" /> 23 <param name="input1_file" value="split_pair_reads_1.fastqsanger" ftype="fastqsanger" />
24 <param name="input2_file" value="split_pair_reads_2.fastqsanger" ftype="fastqsanger" /> 24 <param name="input2_file" value="split_pair_reads_2.fastqsanger" ftype="fastqsanger" />
25 <output name="output_file" file="3.fastqsanger" ftype="fastqsanger" /> 25 <output name="output_file" file="3.fastqsanger" ftype="fastqsanger" />
26 </test>
27 <test>
28 <param name="input1_file" value="split_pair_reads_1.fastqsanger.gz" ftype="fastqsanger.gz" />
29 <param name="input2_file" value="split_pair_reads_2.fastqsanger.gz" ftype="fastqsanger.gz" />
30 <output name="output_file" file="3.fastqsanger" ftype="fastqsanger.gz" decompress="true" />
31 </test>
32 <test>
33 <param name="input1_file" value="split_pair_reads_1.fastqsanger.bz2" ftype="fastqsanger.bz2" />
34 <param name="input2_file" value="split_pair_reads_2.fastqsanger.bz2" ftype="fastqsanger.bz2" />
35 <output name="output_file" file="3.fastqsanger" ftype="fastqsanger.bz2" decompress="true" />
26 </test> 36 </test>
27 </tests> 37 </tests>
28 <help><![CDATA[ 38 <help><![CDATA[
29 **What it does** 39 **What it does**
30 40