Mercurial > repos > iuc > bedtools

diff spacingBed.xml @ 4:607c0576c6ab draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 6692e3a4fa1bf6e9a407735afdbb2454ed32b316
author: iuc
date: Wed, 27 Jan 2016 15:15:59 -0500
children: 7308cc546a36
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/spacingBed.xml	Wed Jan 27 15:15:59 2016 -0500
@@ -0,0 +1,38 @@
+<tool id="bedtools_spacingbed" name="SpacingBed" version="@WRAPPER_VERSION@.0">
+    <description>reports the distances between features</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <command>
+<![CDATA[
+        bedtools spacing
+        -i $input
+        > $output
+]]>
+    </command>
+    <inputs>
+        <param format="bed,vcf,gff,gff3,bam" name="input" type="data" label="BED/VCF/GFF/BAM file"/>
+    </inputs>
+    <outputs>
+        <data format_source="input" name="output" metadata_source="input" label="Spaces between intervals of ${input}"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="input" value="a.bed" ftype="bed" />
+            <output name="output" file="spacingBed_result1.bed" ftype="bed" />
+        </test>
+    </tests>
+    <help>
+<![CDATA[
+**What it does**
+
+Report the spacing between intervals in a file.
+
+
+@REFERENCES@
+]]>
+    </help>
+    <expand macro="citations" />
+</tool>