Mercurial > repos > iuc > seqtk
diff seqtk_sample.xml @ 0:e0a0fd938de4 draft
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author | iuc |
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date | Thu, 05 Feb 2015 11:52:40 -0500 |
parents | |
children | 61718851f199 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/seqtk_sample.xml Thu Feb 05 11:52:40 2015 -0500 @@ -0,0 +1,38 @@ +<?xml version="1.0"?> +<tool id="seqtk_sample" name="seqtk_sample" version="@WRAPPER_VERSION@.0"> + <description/> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <expand macro="stdio"/> + <command><![CDATA[seqtk sample -s $s + $in_file + $subsample_size +> $default]]></command> + <inputs> + <expand macro="in_faq" /> + <param label="RNG seed" help="(-s)" name="s" type="integer" value="4"/> + <param label="Subsample (decimal fraction or number)" name="subsample_size" type="integer" value="100"/> + </inputs> + <outputs> + <data format_source="in_file" hidden="false" name="default" label="Subsample of reads from $in_file.name"/> + </outputs> + <tests> + <test> + <param name="in_file" value="seqtk_sample.fa"/> + <param name="subsample_size" value="4"/> + <param name="s" value="4"/> + <output name="default" file="seqtk_sample.out" ftype="fasta"/> + </test> + </tests> + <help><![CDATA[ +**What it does** + +Takes a random subsample of fasta or fastq sequences. The RNG is seedable to allow for reproducible results, and defaults to `4 <http://xkcd.com/221/>`__. + +The subsample size can be a decimal fraction <=1, where 1 implies 100% of the reads should be used. If a number >1 is provided, that many reads will be taken from the dataset. + +@ATTRIBUTION@ +]]></help> +</tool>