diff draw_variants.xml @ 24:248b06e86022

Added gd_genotype datatype. Modified tools to support new datatype.

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/draw_variants.xml	Tue May 28 16:24:19 2013 -0400
@@ -0,0 +1,36 @@
+<tool id="gd_draw_variants" name="Draw" version="1.0.0">
+  <description>variants</description>
+
+  <command interpreter="python">
+    draw_variants.py "$input" "$indel_input" "$coverage_input" "$annotation_input" "$indiv_input" "$ref_name" "$min_coverage" "$output"
+    #for $individual, $individual_col in zip($input.dataset.metadata.individual_names, $input.dataset.metadata.individual_columns)
+        #set $arg = '%s:%s' % ($individual_col, $individual)
+        "$arg"
+    #end for
+  </command>
+
+  <inputs>
+    <param name="input" type="data" format="gd_snp" label="SNP dataset" />
+    <param name="indel_input" type="data" format="gd_snp" label="Indel dataset" />
+    <param name="coverage_input" type="data" format="interval" label="Coverage dataset" />
+    <param name="annotation_input" type="data" format="interval" label="Annotation dataset" />
+    <param name="indiv_input" type="data" format="gd_indivs" label="Population Individuals" />
+
+    <param name="ref_name" type="select" label="Ref name">
+      <options from_dataset="indiv_input">
+        <column name="name" index="1"/>
+        <column name="value" index="1"/>
+        <filter type="add_value" name="default" value="default" index="0" />
+      </options>
+    </param>
+
+    <param name="min_coverage" type="integer" min="1" value="1" label="Minimum coverage" />
+  </inputs>
+
+  <outputs>
+    <data name="output" format="svg" />
+  </outputs>
+
+  <help>
+  </help>
+</tool>