Mercurial > repos > galaxytrakr > aws_sra

comparison aws_sra.xml @ 16:58cc45662c63 draft

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planemo upload for repository https://github.com/CFSAN-Biostatistics/galaxytrakr-tools commit 98b1c300d492ffb675d64e6c64484c681b277369
author galaxytrakr
date Mon, 23 Mar 2026 20:23:58 +0000
parents 25cf81d65cb8
children 9fb80e0392ce
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15:25cf81d65cb8 16:58cc45662c63
1 <tool id="aws_sra" name="NCBI SRA AWS Fetch" version="0.3.0+gt_0.15" profile="23.0"> 1 <tool id="aws_sra" name="NCBI SRA AWS Fetch" version="0.3.0+gt_0.16" profile="23.0">
2 <description>Fetches SRA runs from AWS and converts them to FASTQ</description> 2 <description>Fetches SRA runs from AWS and converts them to FASTQ</description>
3 3
4 <requirements> 4 <requirements>
5 <requirement type="package" version="2.34.8">awscli</requirement> 5 <requirement type="package" version="2.34.8">awscli</requirement>
6 <requirement type="package" version="3.2.1">sra-tools</requirement> 6 <requirement type="package" version="3.2.1">sra-tools</requirement>
81 <test expect_num_outputs="2"> 81 <test expect_num_outputs="2">
82 <param name="mode" value="single"/> 82 <param name="mode" value="single"/>
83 <param name="accession" value="SRR13333333"/> 83 <param name="accession" value="SRR13333333"/>
84 <param name="layout" value="paired"/> 84 <param name="layout" value="paired"/>
85 <output_collection name="output_r1" type="list" count="1"> 85 <output_collection name="output_r1" type="list" count="1">
86 <element name="SRR13333333_1" ftype="fastqsanger.gz" has_text="@SRR13333333"/> 86 <element name="SRR13333333_1" ftype="fastqsanger.gz">
87 <assert_contents>
88 <has_text text="@SRR13333333"/>
89 </assert_contents>
90 </element>
87 </output_collection> 91 </output_collection>
88 <output_collection name="output_r2" type="list" count="1"> 92 <output_collection name="output_r2" type="list" count="1">
89 <element name="SRR13333333_2" ftype="fastqsanger.gz" has_text="@SRR13333333"/> 93 <element name="SRR13333333_2" ftype="fastqsanger.gz">
94 <assert_contents>
95 <has_text text="@SRR13333333"/>
96 </assert_contents>
97 </element>
90 </output_collection> 98 </output_collection>
91 </test> 99 </test>
92 </tests> 100 </tests>
93 101
94 <help><![CDATA[ 102 <help><![CDATA[