# HG changeset patch
# User Jim Johnson <jj@umn.edu>
# Date 1403787418 18000
# Node ID cd8f8c54bf9a2292203c3650bacf3771612a6553
# Parent  926c8f02b3ba5cded4231b9038f8bbdbb990061e
Make regulation and annotation metadata optional, write metadata into the dataset after setting metadata

diff -r 926c8f02b3ba -r cd8f8c54bf9a lib/galaxy/datatypes/snpeff.py
--- a/lib/galaxy/datatypes/snpeff.py	Tue Jun 24 17:32:11 2014 -0400
+++ b/lib/galaxy/datatypes/snpeff.py	Thu Jun 26 07:56:58 2014 -0500
@@ -12,8 +12,8 @@
     """Class describing a SnpEff genome build"""
     file_ext = "snpeffdb"
     MetadataElement( name="genome_version", default=None, desc="Genome Version", readonly=True, visible=True, no_value=None )
-    MetadataElement( name="regulation", default=[], desc="Regulation Names", readonly=True, visible=True, no_value=[] )
-    MetadataElement( name="annotation", default=[], desc="Annotation Names", readonly=True, visible=True, no_value=[] )
+    MetadataElement( name="regulation", default=[], desc="Regulation Names", readonly=True, visible=True, no_value=[], optional=True)
+    MetadataElement( name="annotation", default=[], desc="Annotation Names", readonly=True, visible=True, no_value=[], optional=True)
 
     def __init__( self, **kwd ):
         Text.__init__( self, **kwd )
@@ -45,4 +45,14 @@
                             annotations.append(name)
             dataset.metadata.regulation = regulations
             dataset.metadata.annotation = annotations
+            try:
+                fh = file(dataset.file_name,'w')
+                fh.write("%s\n" % genome_version)
+                if annotations:
+                    fh.write("annotations: %s\n" % ','.join(annotations))
+                if regulations:
+                    fh.write("regulations: %s\n" % ','.join(regulations))
+                fh.close()
+            except:
+                pass