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comparison fastq_dump.xml @ 27:8be4f23d1018

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Add bam-dump and test data.
author Matt Shirley <mdshw5@gmail.com>
date Mon, 30 Mar 2015 22:40:59 -0400
parents 393a04ec0fa9
children fdc981664a43
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26:7d80b2b24270 27:8be4f23d1018
112 <exit_code range="127" level="fatal" description="Could not locate fastq-dump binary"/> 112 <exit_code range="127" level="fatal" description="Could not locate fastq-dump binary"/>
113 </stdio> 113 </stdio>
114 <requirements> 114 <requirements>
115 <requirement type="package" version="2.4.5">sra_toolkit</requirement> 115 <requirement type="package" version="2.4.5">sra_toolkit</requirement>
116 </requirements> 116 </requirements>
117 <tests>
118 <test>
119 <param name="input_select" value="accession_number"/>
120 <param name="accession" value="SRR000001"/>
121 <param name="maxID" value="5"/>
122 <output name="output" file="fastq_dump_result.fastq" ftype="fastq" />
123 </test>
124 </tests>
117 <help> 125 <help>
118 This tool extracts reads from SRA archives using fastq-dump. 126 This tool extracts reads from SRA archives using fastq-dump.
119 Browse the NCBI SRA for SRR accessions at http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=studies. 127 Browse the NCBI SRA for SRR accessions at http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=studies.
120 The fastq-dump program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software. 128 The fastq-dump program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software.
121 Contact Matt Shirley at mdshw5@gmail.com for support and bug reports. 129 Contact Matt Shirley at mdshw5@gmail.com for support and bug reports.