diff emboss_newcpgreport.xml @ 10:d49956b87f7e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/emboss_newcpgreport.xml	Wed Feb 08 12:42:22 2017 -0500
@@ -0,0 +1,36 @@
+<tool id="EMBOSS: newcpgreport57" name="newcpgreport" version="5.0.0.1">
+  <description>Report CpG rich areas</description>
+  <macros>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="requirements" />
+  <command>newcpgreport -sequence '$input1' -window $window -shift $shift -minlen $minlen -minpc $minpc -outfile '$out_file1' -minoe $minoe -auto</command>
+  <inputs>
+    <param name="input1" type="data" format="data" label="Sequence" />
+    <param name="window" type="integer" value="100" label="Window size" />
+    <param name="shift" type="integer" value="1" label="Step size (shift)" />
+    <param name="minlen" type="integer" value="200" label="Minimum length" />
+    <param name="minoe" type="float" value="0.6" label="Minimum average observed to expected ratio" />
+    <param name="minpc" type="float" value="50.0" label="Minimum average percentage of G plus C" />
+  </inputs>
+  <outputs>
+    <data name="out_file1" format="newcpgreport" />
+  </outputs>
+  <tests>
+    <test>
+      <param name="input1" value="2.fasta"/>
+      <param name="window" value="100"/>
+      <param name="shift" value="1"/>
+      <param name="minlen" value="200"/>
+      <param name="minoe" value="0.6"/>
+      <param name="minpc" value="50.0"/>
+      <output name="out_file1" file="emboss_newcpgreport_out.newcpgreport"/>
+    </test>
+  </tests>
+  <help>
+    You can view the original documentation here_.
+
+    .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/newcpgreport.html
+  </help>
+  <expand macro="citations" />
+</tool>