diff CADDSuite/galaxyconfigs/tools/Converter.xml @ 4:af446ca2d5c6

Uploaded

--- a/CADDSuite/galaxyconfigs/tools/Converter.xml	Tue Jul 12 10:53:07 2011 -0400
+++ b/CADDSuite/galaxyconfigs/tools/Converter.xml	Fri Sep 02 08:54:17 2011 -0400
@@ -1,6 +1,6 @@
 
 <!--This is a configuration file for the integration of a CADDSuite tool into Galaxy (http://usegalaxy.org). This file was automatically generated using GalaxyConfigGenerator, so do not bother to make too many manual modifications.-->
-<tool id="converter" name="Converter" version="0.95">
+<tool id="converter" name="Converter" version="0.9.6">
     <description>interconvert molecular file-formats</description>
     <command interpreter="bash"><![CDATA[../../Converter 
 #if str( $i ) != ''  and str( $i ) != 'None' :
@@ -12,6 +12,9 @@
 #if str( $f ) != ''  and str( $f ) != 'None' :
    -f "$f"
 #end if
+#if str( $rm ) != ''  and str( $rm ) != 'None' :
+   -rm
+#end if
  | tail -n 5
 ]]></command>
     <inputs>
@@ -27,7 +30,18 @@
             <option value="hin">hin</option>
             <option value="mol">mol</option>
             <option value="xyz">xyz</option>
+            <option value="mol2.gz">mol2.gz</option>
+            <option value="sdf.gz">sdf.gz</option>
+            <option value="drf.gz">drf.gz</option>
+            <option value="pdb.gz">pdb.gz</option>
+            <option value="ac.gz">ac.gz</option>
+            <option value="ent.gz">ent.gz</option>
+            <option value="brk.gz">brk.gz</option>
+            <option value="hin.gz">hin.gz</option>
+            <option value="mol.gz">mol.gz</option>
+            <option value="xyz.gz">xyz.gz</option>
         </param>
+        <param name="rm" optional="true" label="remove input file when finished" type="boolean" truevalue="true" falsevalue=""/>
     </inputs>
     <outputs>
         <data name="o" format="mol2/sdf/drf">
@@ -42,9 +56,19 @@
                 <when input="f" value="hin" format="hin"/>
                 <when input="f" value="mol" format="mol"/>
                 <when input="f" value="xyz" format="xyz"/>
+                <when input="f" value="mol2.gz" format="mol2.gz"/>
+                <when input="f" value="sdf.gz" format="sdf.gz"/>
+                <when input="f" value="drf.gz" format="drf.gz"/>
+                <when input="f" value="pdb.gz" format="pdb.gz"/>
+                <when input="f" value="ac.gz" format="ac.gz"/>
+                <when input="f" value="ent.gz" format="ent.gz"/>
+                <when input="f" value="brk.gz" format="brk.gz"/>
+                <when input="f" value="hin.gz" format="hin.gz"/>
+                <when input="f" value="mol.gz" format="mol.gz"/>
+                <when input="f" value="xyz.gz" format="xyz.gz"/>
             </change_format>
         </data>
     </outputs>
     <help>This tool can be used to convert between different molecular file-formats.
-Supported formats are mol2, sdf, drf, pdb, ac, ent, brk, hin, mol, xyz.</help>
+Supported formats are mol2, sdf, drf, pdb, ac, ent, brk, hin, mol, xyz, mol2.gz, sdf.gz, drf.gz, pdb.gz, ac.gz, ent.gz, brk.gz, hin.gz, mol.gz, xyz.gz.</help>
 </tool>
\ No newline at end of file