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rockt · Mar 14, 2014 · 3319a76 · 3319a76
1 parent 76c9587
commit 3319a76
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/src/main/scala/seth/ner/SETHNER.scala b/src/main/scala/seth/ner/SETHNER.scala
@@ -137,7 +137,7 @@ class SETHNER(val strictNomenclature: Boolean = false) extends RegexParsers with
 
   //Top-level Rule
   //FIXED: we do not want to extract mentions like r.0? and r.spl?
-  lazy val Var:P                = SingleVar //| UnkEffectVar | NoRNAVar | SplicingVar //| MultiVar | MultiTranscriptVar
+  lazy val Var:P                = SingleVar | noDNA //| UnkEffectVar | NoRNAVar | SplicingVar //| MultiVar | MultiTranscriptVar
 
   //Locations
   lazy val Loc:P                = (UncertainLoc | RangeLoc | PtLoc) ^^ { LocString(_) }
@@ -230,7 +230,7 @@ class SETHNER(val strictNomenclature: Boolean = false) extends RegexParsers with
   lazy val UnkEffectVar:P       = Ref ~ ("(=)" | "?")
   lazy val SplicingVar:P        = Ref ~ ("spl?" | "(spl?)")
   lazy val NoRNAVar:P           = Ref ~ "0" ~ "?".?
-
+  lazy val noDNA:P              = "c.0" ~ "?".?  ^^ { SubstString(_) }
 
 
   //Protein variant nomenclature

diff --git a/src/test/scala/seth/ner/SETHSuite.scala b/src/test/scala/seth/ner/SETHSuite.scala
@@ -944,6 +944,7 @@ class SingleTest extends FunSuite {
     assert(SETH.isValid("c.457_458ins?", SETH.mutation, debug) === true)
     assert(SETH.isValid("c.184_185ins?", SETH.mutation, debug) === true)
     assert(SETH.isValid("c.182_183ins?", SETH.mutation, debug) === true)
+    assert(SETH.isValid("c.0?", SETH.mutation, debug) === true)
 
     // Questionable cases:
     //missing amino acids