Mercurial > repos > xuebing > sharplabtool

annotate fastqdump.xml @ 11:b7f1d9f8f3bc

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author xuebing
date Sat, 10 Mar 2012 07:59:27 -0500
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1 <tool id="fastqdump" name="fastq-dump">
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2 <description>convert SRA to FASTQ</description>
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3 <command>/Users/xuebing/tools/sratoolkit.2.1.9-mac32/fastq-dump -A $input -M $minReadLen -Z > $out_file1 </command>
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4 <inputs>
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5 <param name="input" format="sra" type="data" label="Original file (SRA)"/>
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6 <param name="minReadLen" size="10" type="integer" value="10" label="minimum read length to output"/>
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7 </inputs>
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8 <outputs>
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9 <data format="fastq" name="out_file1" />
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10 </outputs>
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11 <help>
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12
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13 **What it does**
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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
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17 </help>
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18 </tool>