diff tools/emboss_5/emboss_infoseq.xml @ 0:9071e359b9a3

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/emboss_5/emboss_infoseq.xml	Fri Mar 09 19:37:19 2012 -0500
@@ -0,0 +1,76 @@
+<tool id="EMBOSS: infoseq46" name="infoseq" version="5.0.0">
+  <!-- info contains file information always -->
+  <description>Displays some simple information about sequences</description>
+  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
+  <command>infoseq -sequence $input1 -outfile $out_file1 -html $html_out1 -heading $heading -usa $usa -name $disname -accession $accession -gi $gi -version $version -type $type -length $length -pgc
+  $pgc -description $description -auto</command>
+  <inputs>
+    <param format="data" name="input1" type="data">
+      <label>Sequences</label>
+    </param>
+    <param name="html_out1" type="select">
+      <label>Format output as an HTML table</label>
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+    <param name="heading" type="select">
+      <label>Display column headings</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="usa" type="select">
+      <label>Display the USA of the sequence</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="disname" type="select">
+      <label>Display 'name' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="accession" type="select">
+      <label>Display 'accession' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="gi" type="select">
+      <label>Display 'GI' column</label>
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+    <param name="version" type="select">
+      <label>Display 'version' column</label>
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+    <param name="type" type="select">
+      <label>Display 'type' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="length" type="select">
+      <label>Display 'length' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="pgc" type="select">
+      <label>Display 'percent GC content' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="description" type="select">
+      <label>Display 'description' column</label>
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+  </inputs>
+  <outputs>
+    <data format="txt" name="out_file1" />
+  </outputs>
+  <code file="emboss_format_corrector.py" />
+  <help>
+    You can view the original documentation here_.
+    
+    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/infoseq.html
+  </help>
+</tool>
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