# HG changeset patch
# User peterjc
# Date 1494431544 14400
# Node ID 128f5379d89c249ab6fd43fe1f52dc9aaaf5b754
# Parent  036e4151b27aaddebe8b8784d4ac31e93cc6f933
planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/tools/get_orfs_or_cdss commit 7cf7d2e3fc5480fbe1a463e8a876e54c5c858dbe-dirty

diff -r 036e4151b27a -r 128f5379d89c tools/get_orfs_or_cdss/README.rst
--- a/tools/get_orfs_or_cdss/README.rst	Fri Apr 21 12:02:44 2017 -0400
+++ b/tools/get_orfs_or_cdss/README.rst	Wed May 10 11:52:24 2017 -0400
@@ -77,7 +77,9 @@
         - Added NCBI genetic code table 24, Pterobranchia Mitochondrial.
 v0.1.1  - Reorder XML elements (internal change only).
 v0.2.0  - Tool now also outputs GFF3 formatted calls (Eric Rasche).
-v0.2.1  - Depends on Biopython 1.67 via legacy Tool Shed package or bioconda
+v0.2.1  - Depends on Biopython 1.67 via legacy Tool Shed package or bioconda.
+        - Added NCBI genetic code table 24, Candidate Division SR1 and
+	  Gracilibacteria.
 ======= ======================================================================
 
 
diff -r 036e4151b27a -r 128f5379d89c tools/get_orfs_or_cdss/get_orfs_or_cdss.xml
--- a/tools/get_orfs_or_cdss/get_orfs_or_cdss.xml	Fri Apr 21 12:02:44 2017 -0400
+++ b/tools/get_orfs_or_cdss/get_orfs_or_cdss.xml	Wed May 10 11:52:24 2017 -0400
@@ -33,6 +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>