Guideline Definition Language (GDL)

(GUIDE) <
    gdl_version = <"0.1">
    id = <"CHA2DS2VASc_Score_calculation.v1-Revised function">
    concept = <"gt0036">
    language = (LANGUAGE) <
        original_language = <[ISO_639-1::en]>
    >
    description = (RESOURCE_DESCRIPTION) <
        details = <
            ["en"] = (RESOURCE_DESCRIPTION_ITEM) <
                copyright = <"">
                keywords = <"Atrial Fibrillation", "Stroke", "CHA2DS2-VASc">
                misuse = <"">
                purpose = <"Calculates stroke risk for patients with atrial fibrillation, possibly better than the CHADS2 score.">
                use = <"Calculates stroke risk for patients with atrial fibrillation, possibly better than the CHADS2 score.">
            >
        >
        lifecycle_state = <"Author draft">
        original_author = <
            ["date"] = <"2012/12/03">
            ["email"] = <"rong.chen@cambio.se">
            ["name"] = <"Rong Chen">
            ["organisation"] = <"Cambio Healthcare Systems">
        >
        other_contributors = <"Carlos Valladares",...>
    >
>

definition = (GUIDE_DEFINITION) <
    archetype_bindings = <
        [1] = (ARCHETYPE_BINDING) <
            archetype_id = <"openEHR-EHR-EVALUATION.problem-diagnosis.v1">
            domain = <"EHR">
            elements = <
                ["gt0107"] = (ELEMENT_BINDING) <
                    path = <"/data[at0001]/items[at0002.1]">
                >
            >
        >
    >
>

definition = (GUIDE_DEFINITION) <
    archetype_bindings = <
        [1] = (ARCHETYPE_BINDING) <
            archetype_id = <"openEHR-EHR-EVALUATION.problem-diagnosis.v1">
            domain = <"EHR">
            elements = <
                ["gt0107"] = (ELEMENT_BINDING) <
                    path = <"/data[at0001]/items[at0002.1]">
                >
            >
            predicates = <"/data[at0001]/items[at0002.1] is_a local::gt0105|Atrial fibrillation|",...>
            template_id = <"diagnosis_chadvas_icd10">
        >
    >
    pre_conditions = <"$gt0107!=null",...>
>

rules = <
    ["gt0018"] = (RULE) <
        when = <"$gt0108!=null",...>
        then = <"$gt0014=1|local::at0031|Present|",...>
        priority = (11)
    >
    ["gt0019"] = (RULE) <
        when = <"$gt0109!=null",...>
        then = <"$gt0010=1|local::at0034|Present|",...>
        priority = (9)
    >
    ["gt0026"] = (RULE) <
        then = <"$gt0016.magnitude=( ( ( ( ( (gt0009.value+$gt0010.value)+$gt0011.value)+$gt0015.value)+$gt0012.value)+$gt0013.value)+$gt0014.value)",...>
        priority = (1)
    >
>

term_definitions = <
    ["en"] = (TERM_DEFINITION) <
        terms = <
            ["gt0003"] = (TERM) <
                text = <"Diagnosis">
            >
            ["gt0014"] = (TERM) <
                text = <"Hypertension">
            >
            ["gt0102"] = (TERM) <
                text = <"Diabetes">
            >
            ["gt0105"] = (TERM) <
                text = <"Atrial fibrillation">
            >
            ["gt0018"] = (TERM) <
                text = <"Set hypertension">
            >
            ["gt0019"] = (TERM) <
                text = <"Set diabetes">
            >
            ["gt0026"] = (TERM) <
                text = <"Calculate total score">
            >
        >
    >
>

term_definitions = <
    ["ICD10"] = (TERM_BINDING) <
        bindings = <
            ["gt0105"] = (BINDING) <
                codes = <[ICD10::I48],...>
                uri = <"">
            >
        >
    >
>

 /**
 * Expression parser
 *
 * @author rong.chen    
 */
options
{
  JDK_VERSION = "1.5";

  LOOKAHEAD= 1;
  DEBUG_PARSER = false;
  DEBUG_TOKEN_MANAGER = false;
  DEBUG_LOOKAHEAD = false;
  UNICODE_INPUT = true;

  static = false;
}

PARSER_BEGIN(ExpressionParser)
package se.cambio.cds.gdl.parser;
import java.io.*;
import java.util.*;
import se.cambio.cds.gdl.model.expression.*;
import org.openehr.rm.datatypes.text.CodePhrase;
import org.openehr.rm.datatypes.quantity.*;
import org.openehr.rm.datatypes.basic.DataValue;

public class ExpressionParser
{
  private static final String CHARSET = "UTF-8";

  /* =========================  public interface ======================== */
  /* execute the parsing */
  public List < ExpressionItem > parseBooleanExpressions() throws ParseException
  {
    return expressions();
  }

  public List < ExpressionItem > parseArithmeticExpressions() throws ParseException
  {
    return expressions();
  }

  public ExpressionItem parse() throws ParseException
  {
    return expression_item();
  }

  /* re-initial the parser */
  public void reInit(File file) throws IOException
  {
    ReInit(new FileInputStream(file), CHARSET);
  }

  /* re-initial the parser */
  public void reInit(InputStream input) throws IOException
  {
    ReInit(new BufferedInputStream(input));
  }

  public static void main(String args []) throws ParseException
  {}
}

PARSER_END(ExpressionParser)

<* >
SKIP : /* WHITE SPACE */
{
  " "
| "\t"
| "\n"
| "\r"
| "\f"
}

<* >
SPECIAL_TOKEN : /* COMMENTS */
{
  < SINGLE_LINE_COMMENT : "--" (~[ "\n", "\r" ])* >
}

<* >
TOKEN : /* SYMBOLS - common */
{
  < SYM_MINUS : "-" >
| < SYM_PLUS : "+" >
| < SYM_STAR : "*" >
| < SYM_SLASH : "/" >
| < SYM_CARET : "^" >
| < SYM_DOT : "." >
| < SYM_SEMICOLON : ";" >
| < SYM_COMMA : "," >
| < SYM_TWO_COLONS : "::" >
| < SYM_COLON : ":" >
| < SYM_EXCLAMATION : "!" >
| < SYM_L_PARENTHESIS : "(" >
| < SYM_R_PARENTHESIS : ")" >
| < SYM_DOLLAR : "$" >
| < SYM_QUESTION : "?" >
| < SYM_L_BRACKET : "[" >
| < SYM_R_BRACKET : "]" >
| < SYM_INTERVAL_DELIM : "|" >
| < SYM_EQ : "==" >
| < SYM_GE : ">=" >
| < SYM_LE : "<=" >
| < SYM_LT : "<" >
| < SYM_GT : ">" >
| < SYM_NE : "!=" >
| < SYM_NOT : "not" >
| < SYM_AND :
    "and"
  | "&&" >
| < SYM_OR :
    "or"
  | "||" >
| < SYM_FALSE : "false" >
| < SYM_TRUE : "true" >
| < SYM_NULL : "null" >
| < SYM_IS_A : "is_a" >
| < SYM_IS_NOT_A : "!is_a" >
| < SYM_FOR_ALL : "for_all" >
| < SYM_MAX : "max" >
| < SYM_MIN : "min" >
| < SYM_CURRENT_DATETIME : "currentDateTime" >
| < SYM_ASSIGNMENT : "=" >
| < SYM_MODULO : "\\" >
| < SYM_DIV : "//" >
| < SYM_ELLIPSIS : ".." >
| < SYM_LIST_CONTINUE : "..." >
}

<* >
TOKEN :
{
  < #V_LOCAL_CODE_CORE : "g" [ "c", "t" ] ([ "0"-"9", "." ])+ [ "0"-"9" ] >
| < V_LOCAL_CODE : < V_LOCAL_CODE_CORE > >
| < V_QUANTITY :
    (
      < V_REAL >
    | < V_INTEGER >
    )
    "," ([ "a"-"z", "A"-"Z", "µ", "°", "%", "*", "0"-"9", "[", "]", "/" ])+
        ([ "a"-"z", "A"-"Z", "µ", "°", "%", "*","0"-"9", "[", "]", "/" ])*
        ([ "a"-"z", "A"-"Z", "µ", "°", "%", "*","0"-"9", "[", "]"])* >
| < V_PROPORTION :
    (
      < V_REAL >
    | < V_INTEGER >
    )
    ","
    (
      < V_REAL >
    | < V_INTEGER >
    )
    ","
    (["0"-"4"]) >
| < V_INTEGER :
    (< DIG >)+
  |
    "(-" (< DIG >)+ ")"
  |
    (< DIG >)
    {
      1, 3
    }
    (
      "," (< DIG >)
      {
        3
      }
    )+ >
|
  < V_ISO8601_DURATION: ("-")? "P"((<DIG>)+["y","Y"])?((<DIG>)+["m","M"])?((<DIG>)+["w","W"])?
  ((<DIG>)+["d","D"])?("T"((<DIG>)+["h","H"])?((<DIG>)+["m","M"])?
  ((<DIG>)+["s","S"])?)?>
|
  < V_ISO8601_DURATION_CONSTRAINT_PATTERN: "P"(["y","Y"])?(["m","M"])?
  (["w","W"])?(["d","D"])?"T"(["h","H"])?(["m","M"])?(["s","S"])? 
  |"P"(["y","Y"])?(["m","M"])?(["w","W"])?(["d","D"])?>
|
  < V_DATE: (["0"-"9"]){4} "-" ( "0"["1"-"9"] | "1"["0"-"2"] ) "-"
            ( "0"["1"-"9"] | ["1"-"2"]["0"-"9"]|"3"["0"-"1"] ) >
|
  < V_HHMM_TIME: <HOUR_MINUTE> >
|
  < V_HHMMSS_TIME: < HOUR_MINUTE> <SECOND> >
|
  < V_HHMMSSss_TIME: < HOUR_MINUTE> <SECOND> <MILLI_SECOND> >
|
  < V_HHMMSSZ_TIME: < HOUR_MINUTE> <SECOND> <TIME_ZONE> >
|
  < V_HHMMSSssZ_TIME: < HOUR_MINUTE> <SECOND> <MILLI_SECOND> <TIME_ZONE> >
|
  < V_TIME: <HOUR_MINUTE> <SECOND> >
|
  
  < V_DATE_TIME_MS: <DATE_TIME> <MILLI_SECOND> >
|
  < V_DATE_TIME_Z: "("<DATE_TIME> <TIME_ZONE> ")" >
|
  < V_DATE_TIME: "("<DATE_TIME> ")" >
|
   < V_DATE_TIME_MSZ: <DATE_TIME> <MILLI_SECOND> <TIME_ZONE> >
|
   < #DATE_TIME: <V_DATE>"T"<V_TIME>>
|  < #TIME_ZONE: ["-","+"](["0"-"9"]){2}":"(["0"-"9"]){2} | "Z" >
|
  < #SECOND: ":" ["0"-"5"]["0"-"9"] >
|
  < #MILLI_SECOND: "."(["0"-"9"]){2, 3} >
|
  < #HOUR_MINUTE: ["0"-"9"]["0"-"9"] ":" ["0"-"5"]["0"-"9"] >
| < V_CODE_PHRASE : "[" (< LET_DIG_DUDSLR >)+ "::" (< LET_DIG_DUDS >)+ "]" >
| < V_CODE_PHRASE_RAW : (< LET_DIG_DUDSLR >)+ "::" (< LET_DIG_DUDS >)+ >
| < V_ORDINAL : < V_INTEGER > "|" < V_CODE_PHRASE_RAW > < V_LABEL > >
| < V_ATTRIBUTE_IDENTIFIER : [ "a"-"z" ] (< LET_DIG_U >)* >
| < V_LABEL : "|" (~[ "|" ])* "|" >
| < V_REAL :
    (< DIG >)+ "./" ~[ ".", "0"-"9" ]
  | (< DIG >)+ "." (< DIG >)* [ "e", "E" ] ([ "+", "-" ])? (< DIG >)+
  | (< DIG >)* "." (< DIG >)+
    (
      [ "e", "E" ] ([ "+", "-" ])? (< DIG >)+
    )?
  | "(-" (< DIG >)* "." (< DIG >)+
    (
      [ "e", "E" ] ([ "+", "-" ])? (< DIG >)+
    )? ")"
  | (< DIG >)
    {
      1, 3
    }
    (
      "_" (< DIG >)
      {
        3
      }
    )+
    "./" ~[ ".", "0"-"9" ]
  | (< DIG >)
    {
      1, 3
    }
    (
      "_" (< DIG >)
      {
        3
      }
    )*
    "."
    (
      (< DIG >)
      {
        1, 3
      }
      (
        "_" (< DIG >)
        {
          3
        }
      )*
    )?
    [ "e", "E" ] ([ "+", "-" ])? (< DIG >)
    {
      1, 3
    }
    (
      "_" (< DIG >)
      {
        3
      }
    )*
  |
    (
      (< DIG >)
      {
        1, 3
      }
      (
        "_" (< DIG >)
        {
          3
        }
      )*
    )?
    "." (< DIG >)
    {
      1, 3
    }
    (
      "_" (< DIG >)
      {
        3
      }
    )*
    (
      [ "e", "E" ] ([ "+", "-" ])? (< DIG >)
      {
        1, 3
      }
      (
        "_" (< DIG >)
        {
          3
        }
      )*
    )? >
| < V_STRING :
    "'"
    (
      (
        "\\\"" (~[ "\'", "\n", "\\" ])*
      )
    |
      (
        "\\\\" (~[ "\'", "\n", "\\" ])*
      )
    |
      (
        "\n" ([ "\r", " ", "\t" ])*
      )
    | (~[ "\\", "\n", "\'" ])*
    )*
    "'" >
}

<* >
TOKEN : /* LOCAL TOKENS */
{
  < #DIG : [ "0"-"9" ] >
| < #LET_DIG : [ "a"-"z", "A"-"Z", "0"-"9" ] >
| < #LET_DIG_DD :
    < LET_DIG >
  | "."
  | "_"
  | "-" >
| < #LET_DIG_U :
    < LET_DIG >
  | "_" >
| < #LET_DIG_DU :
    < LET_DIG_U >
  | "-" >
| < #LET_DIG_DUDS :
    < LET_DIG_DU >
  | "."
  | "\\" >
| < #LET_DIG_DUDSLR :
    < LET_DIG_DUDS >
  | "("
  | ")" >
| < V_LOCAL_TERM_CODE_REF : "[" < LET_DIG > (< LET_DIG_DD >)* "]" >
| < #PATH_SEGMENT : < V_ATTRIBUTE_IDENTIFIER > (< V_LOCAL_TERM_CODE_REF >)? >
| < V_ABSOLUTE_PATH : < SYM_SLASH > < PATH_SEGMENT > (< SYM_SLASH > < PATH_SEGMENT >)* >
}

List < ExpressionItem > expressions() :
{
  List < ExpressionItem > items = new ArrayList < ExpressionItem > ();
  ExpressionItem item = null;
}
{
  item = expression_item()
  {
    items.add(item);
  }
  (
    LOOKAHEAD(2)
    < SYM_COMMA > item = expression_item()
    {
      items.add(item);
    }
  )*
  {
    return items;
  }
}

ExpressionItem expression_item() :
{
  ExpressionItem item = null;
}
{
  (
    LOOKAHEAD(4)
    item = expression_node()
  | LOOKAHEAD(4)
    item = expression_leaf()
  )
  {
    return item;
  }
  {
    return item;
  }
}

CodePhrase code_phrase() :
{
  Token t;
  String lang = null;
  String langTerm = null;
  String langCode = null;
}
{
  t = < V_CODE_PHRASE >
  {
    lang = t.image;
    int i = lang.indexOf("::");
    langTerm = lang.substring(1, i);
    langCode = lang.substring(i + 2, lang.length() - 1);
  }
  {
    return new CodePhrase(langTerm, langCode);
  }
}

CodePhrase code_phrase_raw() :
{
  Token t;
  String lang = null;
  String langTerm = null;
  String langCode = null;
}
{
  t = < V_CODE_PHRASE_RAW >
  {
    lang = t.image;
    int i = lang.indexOf("::");
    langTerm = lang.substring(0, i);
    langCode = lang.substring(i + 2);
  }
  {
    return new CodePhrase(langTerm, langCode);
  }
}

/* ----------------------- expressions ----------------------- */
ExpressionItem expression_node() :
{
  ExpressionItem ret = null;
  ExpressionItem item = null;
  ExpressionItem item2 = null;
  OperatorKind op = null;
  List<AssignmentExpression> assignmentExpressions = null;
  boolean precedenceOverridden = false; // TODO
  Token t = null;
  String attrId = null;
}
{
  (
    (
      < SYM_FOR_ALL > item = expression_leaf()
      {
        op = OperatorKind.FOR_ALL;
      }
    | < SYM_MAX > item = expression_leaf()
      {
        op = OperatorKind.MAX;
      }
    | < SYM_MIN > item = expression_leaf()
      {
        op = OperatorKind.MIN;
      }
    )
    {
      return new UnaryExpression(item, op);
  	}
  |
    (
      item = expression_leaf()
      (
        < SYM_EQ >
        {
          op = OperatorKind.EQUALITY;
        }
      | < SYM_NE >
        {
          op = OperatorKind.INEQUAL;
        }
      | < SYM_LT >
        {
          op = OperatorKind.LESS_THAN;
        }
      | < SYM_GT >
        {
          op = OperatorKind.GREATER_THAN;
        }
      | < SYM_LE >
        {
          op = OperatorKind.LESS_THAN_OR_EQUAL;
        }
      | < SYM_GE >
        {
          op = OperatorKind.GREATER_THAN_OR_EQUAL;
        }
      | < SYM_PLUS >
        {
          op = OperatorKind.ADDITION;
        }
      | < SYM_MINUS >
        {
          op = OperatorKind.SUBSTRATION;
        }
      | < SYM_STAR >
        {
          op = OperatorKind.MULTIPLICATION;
        }
      | < SYM_SLASH >
        {
          op = OperatorKind.DIVISION;
        }
      | < SYM_CARET >
        {
          op = OperatorKind.EXPONENT;
        }
      | < SYM_AND >
        {
          op = OperatorKind.AND;
        }
      | < SYM_OR >
        {
          op = OperatorKind.OR;
        }
      | < SYM_IS_A >
        {
          op = OperatorKind.IS_A;
        }
      | < SYM_IS_NOT_A >
        {
          op = OperatorKind.IS_NOT_A;
        }
      | LOOKAHEAD(4)
        < SYM_ASSIGNMENT >
        {
          op = OperatorKind.ASSIGNMENT;
        }
        item2 = expression_leaf()
        {
          return new AssignmentExpression((Variable) item, item2);
        }
      | assignmentExpressions = assignmentExpressions()
        {
          return new CreateInstanceExpression((Variable) item, assignmentExpressions);
        }
      )
      item2 = expression_leaf()
      {
        ret = new BinaryExpression(item, item2, op);
      }
    )
  )
  {
    return ret;
  }
}

ExpressionItem expression_leaf() :
{
  ExpressionItem item = null;
  Token t = null;
}
{
  (
    < SYM_L_PARENTHESIS >
    (
      LOOKAHEAD(expression_node())
      item = expression_node()
    | LOOKAHEAD(variable())
      item = variable()
    | LOOKAHEAD(constant_expression())
      item = constant_expression()
    )
    < SYM_R_PARENTHESIS >
  | item = constant_expression()
  | item = variable()
  )
  {
    return item;
  }
}

AssignmentExpression assignmentExpression() :
{
    ExpressionItem item = null;
    ExpressionItem item2 = null;
}
{
    (
     item = expression_leaf()
     < SYM_ASSIGNMENT >
     item2 = expression_leaf()
    )
    {
        return new AssignmentExpression((Variable) item, item2);
    }
}

List < AssignmentExpression > assignmentExpressions() :
{
    List < AssignmentExpression > items = new ArrayList < AssignmentExpression > ();
    AssignmentExpression item = null;
}
{
    (
     < SYM_L_PARENTHESIS >
     item = assignmentExpression()
     {
     items.add(item);
     }
     (
      LOOKAHEAD(2)
      < SYM_SEMICOLON > item = assignmentExpression()
      {
      items.add(item);
      }
     )*
     < SYM_R_PARENTHESIS >
    )

    {
        return items;
    }
}


ConstantExpression constant_expression() :
{
  Token t = null;
  CodePhrase code = null;
  String text = null;
  String units = null;
  Integer order = null;
}
{
  (
    t = < V_STRING >
    {
      String str = t.image;
      return new StringConstant(str.substring(1, str.length() - 1));
    }
  | t = < V_ORDINAL >
    {
      String value = "DV_ORDINAL," + t.image;
      DvOrdinal ordinal = (DvOrdinal) DataValue.parseValue(value);
      return new OrdinalConstant(ordinal);
    }
  | t = < V_REAL >
  | t = < V_INTEGER >
  | t = < V_PROPORTION >
  | t = <V_DATE>
  | t = <V_DATE_TIME_Z>
    {
      text = t.image;
      text = text.replace("(","");
      text = text.replace(")","");
      return new DateTimeConstant(text);
     }
  | t = <V_DATE_TIME>
    {
      text = t.image;
      text = text.replace("(","");
      text = text.replace(")","");
      return new DateTimeConstant(text);
     }
  | t = <V_TIME>
  | t = <V_ISO8601_DURATION>
  | t = < SYM_NULL >
  | t = < SYM_TRUE >
  | t = < SYM_FALSE >
  | LOOKAHEAD(2)
    code = code_phrase_raw() [ text = label() ]
    {
      if (text != null)
      {
        return new CodedTextConstant(text, code);
      }
      else
      {
        return new CodePhraseConstant(code);
      }
    }
  | t = < V_QUANTITY >
    {
      text = t.image;
      text = text.replace("(","");
      text = text.replace(")","");
      DvQuantity q = new DvQuantity("m",1,0).parse(text);
      return new QuantityConstant(q);
    }
  )
  {
    return new ConstantExpression(t.image);
  }
}

Variable variable() :
{
  Variable v;
  Token t;
  String code = null;
  String path = null;
  String label = null;
  String attribute = null;
}
{
  (
    < SYM_DOLLAR >
    (
      t = < V_LOCAL_CODE >
    | t = < SYM_CURRENT_DATETIME >
    )
    {
      code = t.image;
    }
    [ label = label() ]
  | t = < V_ABSOLUTE_PATH >
    {
      path = t.image;
    }
  )
  [
    < SYM_DOT > t = < V_ATTRIBUTE_IDENTIFIER >
    {
      attribute = t.image;
    }
  ]
  {
    return new Variable(code, label, path, attribute);
  }
}

String label() :
{
  Token t;
  String label = null;
}
{
  t = < V_LABEL >
  {
    label = t.image;
    label = label.substring(1, label.length() - 1);
    return label;
  }
}

double real() :
{
  Token t;
  String value = null;
}
{
  t = < V_REAL >
  {
    value = t.image;
    return Double.parseDouble(value);
  }
}

int integer() :
{
  Token t;
  String value = null;
}
{
  t = < V_INTEGER >
  {
    value = t.image;
    return Integer.parseInt(value);
  }
}