Mercurial > repos > xuebing > sharplabtool
comparison mytools/fastqdump.xml @ 7:f0dc65e7f6c0
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| author | xuebing |
|---|---|
| date | Fri, 09 Mar 2012 19:59:07 -0500 |
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| 6:094f377db4e5 | 7:f0dc65e7f6c0 |
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| 1 <tool id="fastqdump" name="fastq-dump"> | |
| 2 <description>convert SRA to FASTQ</description> | |
| 3 <command>/Users/xuebing/tools/sratoolkit.2.1.9-mac32/fastq-dump -A $input -M $minReadLen -Z > $out_file1 </command> | |
| 4 <inputs> | |
| 5 <param name="input" format="sra" type="data" label="Original file (SRA)"/> | |
| 6 <param name="minReadLen" size="10" type="integer" value="10" label="minimum read length to output"/> | |
| 7 </inputs> | |
| 8 <outputs> | |
| 9 <data format="fastq" name="out_file1" /> | |
| 10 </outputs> | |
| 11 <help> | |
| 12 | |
| 13 **What it does** | |
| 14 | |
| 15 This is a wrapper of the fastq-dump tool from sra-toolkit. See http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software | |
| 16 | |
| 17 </help> | |
| 18 </tool> |