diff emboss_textsearch.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_textsearch.xml	Wed Feb 08 12:42:22 2017 -0500
@@ -0,0 +1,51 @@
+<tool id="EMBOSS: textsearch98" name="textsearch" version="5.0.0">
+  <description>Search sequence documentation. Slow, use SRS and Entrez!</description>
+  <macros>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="requirements" />
+  <code file="emboss_format_corrector.py" />
+  <command>textsearch -sequence '$input1' -outfile '$out_file1' -pattern '$pattern' -casesensitive -heading $heading -usa $usa -accession $accession -name $search_name -description $description -html
+  $html_out1 -auto</command>
+  <inputs>
+    <param name="input1" type="data" format="data" label="Sequence" />
+    <param name="pattern" type="text" value="" label="Pattern to search for" />
+    <param name="casesensitive" type="select" label="Do a case-sensitive search">
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+    <param name="heading" type="select" label="Display column headings">
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="usa" type="select" label="Display the USA of the sequence">
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="accession" type="select" label="Display accession column">
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="search_name" type="select" label="Display name column">
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="description" type="select" label="Display description column">
+      <option value="yes">Yes</option>
+      <option value="no">No</option>
+    </param>
+    <param name="html_out1" type="select" label="Format output as an HTML table">
+      <option value="no">No</option>
+      <option value="yes">Yes</option>
+    </param>
+  </inputs>
+  <outputs>
+    <data name="out_file1" format="textsearch" />
+  </outputs>
+  <help>
+    You can view the original documentation here_.
+
+    .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/textsearch.html
+  </help>
+  <expand macro="citations" />
+</tool>