[feat] allow amino acid variations

Author: progistar

src/main/java/progistar/pXg/data/AAVariantTable.java

@@ -96,8 +96,13 @@ public static void parseTable (String tableFilePath) {
 				String aaRNA = fields[aaRNAIdx];
 				String aaPeptide = fields[aaPeptideIdx];
 
-				// add aaVariant
-				AAVariantTable.addAAVariant(aaRNA, aaPeptide);
+				if(aaRNA.equalsIgnoreCase(aaPeptide)) {
+					System.out.println("Skip synounymous amino acid variation: "+aaRNA+">"+aaPeptide);
+				} else {
+					// add aaVariant
+					AAVariantTable.addAAVariant(aaRNA, aaPeptide);
+				}
+				
 
 			}