[MOBY-guts] biomoby commit

[Paul Gordon]

gordonp
Fri Jul 27 23:47:07 EDT 2007
Update of /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/resources
In directory dev.open-bio.org:/tmp/cvs-serv27026/src/main/ca/ucalgary/seahawk/resources

Modified Files:
	mobyBuilderRules.xml 
Log Message:
Simplified DNA/AA MOB rules
moby-live/Java/src/main/ca/ucalgary/seahawk/resources mobyBuilderRules.xml,1.5,1.6
===================================================================
RCS file: /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/resources/mobyBuilderRules.xml,v
retrieving revision 1.5
retrieving revision 1.6
diff -u -r1.5 -r1.6
--- /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/resources/mobyBuilderRules.xml	2007/06/08 14:04:27	1.5
+++ /home/repository/moby/moby-live/Java/src/main/ca/ucalgary/seahawk/resources/mobyBuilderRules.xml	2007/07/28 03:47:07	1.6
@@ -6,24 +6,24 @@
 
 <!-- Creates a DNASequence, \N is IUPAC nucleotide shorthand --> 
 <object>
-  <regex>(\N*\s*(\N{10,}(?:\x20|\r|\t|\n)?)+\N*)</regex>
+  <regex>\N*\s*(?:\N{10,}(?:\x20|\r|\t|\n)*)+\N*</regex>
   <datatype value="DNASequence"/>
   <namespace>
     <ns value="unknown">''</ns>
   </namespace>
-  <member value="SequenceString" whitespace="strip">$1</member>
-  <member value="Length" whitespace="strip">string-length('$1')</member>
+  <member value="SequenceString" whitespace="strip">$0</member>
+  <member value="Length" whitespace="strip">string-length('$0')</member>
 </object>
 
 <!-- Creates an AminoAcidSequence, \P is IUPAC amino acid residue shorthand -->
 <object>
-  <regex>(\P*\s*(\P{10,}(?:\x20|\r|\t|\n)?)+\P*)</regex>
+  <regex>\P*\s*(?:\P{10,}(?:\x20|\r|\t|\n)*)+\P*</regex>
   <datatype value="AminoAcidSequence"/>
   <namespace>
     <ns value="unknown">''</ns>
   </namespace>
-  <member value="SequenceString" whitespace="strip">$1</member>
-  <member value="Length" whitespace="strip">string-length('$1')</member>
+  <member value="SequenceString" whitespace="strip">$0</member>
+  <member value="Length" whitespace="strip">string-length('$0')</member>
 </object>
 
 <!-- ABI sequence trace's magic signature at start of file -->