src/main/java/org/helm/notation2/parser/StateMachineParser.java
public boolean checkPolymeridConnection(String polymerId) {
    LOG.debug("Validation of polymerID in the connection section:");
    String ratio = "(:[1-9][0-9]*(\\.[0-9]+)?)?";
    String id = "(PEPTIDE[1-9][0-9]*|RNA[1-9][0-9]*|CHEM[1-9][0-9]*|BLOB[1-9][0-9]*|G[1-9][0-9]*)";
    String pattern = "(\\(" + id + ratio + "(," + id + ratio + ")+\\)" + ratio + "|" + id + ratio + ")";
    Pattern p = Pattern.compile(pattern,Pattern.CASE_INSENSITIVE);
    Matcher m  = p.matcher(polymerId);
    if (m.matches()) {
      LOG.debug("PolymerID in the connection section is valid:");
      return true;
    }

    LOG.debug("PolymerID in the connection section is not valid: " + polymerId);
    return false;
  }
public boolean checkPolymeridConnection(String polymerId) {
    LOG.debug("Validation of polymerID in the connection section:");
    String ratio = "(:[1-9][0-9]*(\\.[0-9]+)?)?";
    String id = "(PEPTIDE[1-9][0-9]*|RNA[1-9][0-9]*|CHEM[1-9][0-9]*|BLOB[1-9][0-9]*|G[1-9][0-9]*)";
    String pattern = "(\\(" + id + ratio + "(," + id + ratio + ")+\\)" + ratio + "|" + id + ratio + ")";
    Pattern p = Pattern.compile(pattern,Pattern.CASE_INSENSITIVE);
    Matcher m  = p.matcher(polymerId);
    if (m.matches()) {
      LOG.debug("PolymerID in the connection section is valid:");
      return true;
    }

    LOG.debug("PolymerID in the connection section is not valid: " + polymerId);
    return false;
  }
public boolean checkPolymeridConnection ( String polymerId ) { LOG . debug ( "Validation of polymerID in the connection section:" ) ; String ratio = "(:[1-9][0-9]*(\\.[0-9]+)?)?" ; String id = "(PEPTIDE[1-9][0-9]*|RNA[1-9][0-9]*|CHEM[1-9][0-9]*|BLOB[1-9][0-9]*|G[1-9][0-9]*)" ; String pattern = "(\\(" + id + ratio + "(," + id + ratio + ")+\\)" + ratio + "|" + id + ratio + ")" ; Pattern p = Pattern . compile ( pattern , Pattern . CASE_INSENSITIVE ) ; Matcher m = p . matcher ( polymerId ) ; if ( m . matches ( ) ) { LOG . debug ( "PolymerID in the connection section is valid:" ) ; return true ; } LOG . debug ( "PolymerID in the connection section is not valid: " + polymerId ) ; return false ; }
method to validate the polymer id in the connection section the id can be
peptide, rna, chem or blob the ratio + range was also included, the
ambiguity is also proven

@param polymerId ID of a polymer
@return true if the ID is valid, false otherwise
method to validate the polymer id in the connection section the id can be peptide rna chem or blob the ratio + range was also included the ambiguity is also proven