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comparison sra_pileup.xml @ 47:04cc8176e86f draft default tip

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update to SRA toolkit 2.3.3-3
author Matt Shirley <mdshw5@gmail.com>
date Mon, 16 Sep 2013 20:27:28 -0400
parents 88a13a2fd23f
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46:88a13a2fd23f 47:04cc8176e86f
1 <tool id="sra_pileup" name="Generate pileup format" version="1.0.1"> 1 <tool id="sra_pileup" name="Generate pileup format" version="1.1.1">
2 <description> from NCBI sra.</description> 2 <description> from NCBI sra.</description>
3 <command>sra-pileup --log-level fatal 3 <command>sra-pileup --log-level fatal
4 #if str( $region ) != "": 4 #if str( $region ) != "":
5 --aligned-region $region 5 --aligned-region $region
6 #end if 6 #end if
38 </inputs> 38 </inputs>
39 <outputs> 39 <outputs>
40 <data format="pileup" name="output"/> 40 <data format="pileup" name="output"/>
41 </outputs> 41 </outputs>
42 <requirements> 42 <requirements>
43 <requirement type="package" version="2.3.2-4">sra_toolkit</requirement> 43 <requirement type="package" version="2.3.3-3">sra_toolkit</requirement>
44 </requirements> 44 </requirements>
45 <help> 45 <help>
46 This tool produces pileup format from sra archives using sra-pileup. 46 This tool produces pileup format from sra archives using sra-pileup.
47 Browse the NCBI SRA for SRR accessions at http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=studies. 47 Browse the NCBI SRA for SRR accessions at http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=studies.
48 The sra-pileup program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software. 48 The sra-pileup program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software.