diff tools/get_orfs_or_cdss/get_orfs_or_cdss.xml @ 9:a06ad07431ba draft

v0.2.1 Adds table 24; Depends on Biopython 1.67 via Tool Shed package or bioconda.

--- a/tools/get_orfs_or_cdss/get_orfs_or_cdss.xml	Sat Jan 09 23:42:32 2016 -0500
+++ b/tools/get_orfs_or_cdss/get_orfs_or_cdss.xml	Wed May 10 13:24:46 2017 -0400
@@ -1,8 +1,7 @@
-<tool id="get_orfs_or_cdss" name="Get open reading frames (ORFs) or coding sequences (CDSs)" version="0.2.0">
+<tool id="get_orfs_or_cdss" name="Get open reading frames (ORFs) or coding sequences (CDSs)" version="0.2.1">
     <description>e.g. to get peptides from ESTs</description>
     <requirements>
-        <requirement type="package" version="1.65">biopython</requirement>
-        <requirement type="python-module">Bio</requirement>
+        <requirement type="package" version="1.67">biopython</requirement>
     </requirements>
     <stdio>
         <!-- Anything other than zero is an error -->
@@ -34,6 +33,15 @@
             <option value="22">22. Scenedesmus obliquus</option>
             <option value="23">23. Thraustochytrium Mitochondrial</option>
             <option value="24">24. Pterobranchia Mitochondrial</option>
+            <option value="25">25. Candidate Division SR1 and Gracilibacteria</option>
+            <!-- TODO, these are not in Biopython 1.67
+            <option value="26">26. Pachysolen tannophilus Nuclear</option>
+            <option value="26">27. Karyorelict Nuclear</option>
+            <option value="26">28. Condylostoma Nuclear</option>
+            <option value="26">29. Mesodinium Nuclear</option>
+            <option value="26">30. Peritrich Nuclear</option>
+            <option value="26">31. Blastocrithidia Nuclear</option>
+            -->
         </param>
         <param name="ftype" type="select" value="True" label="Look for ORFs or CDSs">
             <option value="ORF">Look for ORFs (check for stop codons only, ignore start codons)</option>