comparison region_motif_intersect.xml @ 6:d281fed8ec61 draft

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author jeremyjliu
date Sat, 25 Oct 2014 15:07:28 -0400
parents 5d9014614d28
children 0c1627c2f09d
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5:7a3bb055f3d0 6:d281fed8ec61
1 <tool id="region_motif_intersect" name="Region Motif Intersect"> 1 <tool id="region_motif_intersect" name="Region Motif Intersect">
2 <description>for computing the motifs that lie inside a region set</description> 2 <description>for computing the motifs that lie inside a region set</description>
3 <requirements> 3 <requirements>
4 <requirement type="set_environment">MOTIF_DB_PATH</requirement> 4 <requirement type="set_environment">R_SCRIPT_PATH</requirement>
5 <requirement type="package" version="2.15.1">R</requirement>
5 </requirements> 6 </requirements>
6 <command interpreter="Rscript"> 7 <command interpreter="Rscript">
7 region_motif_intersect.r --args $MOTIF_DB_PATH $db_type $in_bed $out_tab 8 region_motif_intersect.r --args \$R_SCRIPT_PATH $db_type $in_bed $out_tab
8 </command> 9 </command>
9 <inputs> 10 <inputs>
10 <param name="in_bed" type="data" format="bed" label="Input BED File" /> 11 <param name="in_bed" type="data" format="bed" label="Input BED File" />
11 <param name="db_type" type="select" label="Select Motif Database" > 12 <param name="db_type" type="select" label="Select Motif Database" >
12 <option value="t">Test Pouya Subset (hg19)</option> 13 <option value="t">Test Pouya Subset (hg19)</option>