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Java implementation of openEHR OET Template Parser and Flattener
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/*
* component: "openEHR Java Reference Implementation"
* description: "Class TermMap"
* keywords: "oet-parser"
*
* author: "Rong Chen "
* copyright: "Copyright (c) 2009,2010 Cambio Healthcare Systems, Sweden"
* license: "See notice at bottom of class"
*
* file: "$URL$"
* revision: "$LastChangedRevision$"
* last_change: "$LastChangedDate$"
*/
package org.openehr.am.template;
import java.io.*;
import java.util.*;
import org.apache.commons.io.FileUtils;
import org.apache.log4j.Logger;
import org.openehr.rm.datatypes.text.CodePhrase;
/**
* An in-memory term serving component that can be used as alternative
* to full-blown terminology service. It can load from and write to text
* file using the following syntax for each line. The path item is optional
* and only required if different texts are needed for the same terminology
* and code combination.
*
* {terminology}::{code}::{text}[::{path}]
*
* @author rong.chen
*
*/
public class TermMap {
public TermMap() {
termMap = new TreeMap>>();
}
/**
* Loads an in-memory termMap by given file
*
* @param input
* @return
* @throws IOException
*/
public static TermMap load(String filename) throws IOException {
List lines = FileUtils.readLines(new File(filename), UTF8);
return fromLines(lines);
}
/**
* Loads an in-memory termMap by given inputStream
*
* @param input
* @return
* @throws IOException
*/
public static TermMap load(InputStream input) throws IOException {
BufferedReader reader = new BufferedReader(new InputStreamReader(input, UTF8));
String line = reader.readLine();
List lines = new ArrayList();
while(line != null) {
lines.add(line);
line = reader.readLine();
}
return fromLines(lines);
}
/**
* Parses given lines and loads a termMap
*
* @param lines
* @return
*/
static TermMap fromLines(List lines) {
TermMap termMap = new TermMap();
termMap.addAll(lines);
return termMap;
}
/**
* Adds all content from given inputStream
*
* @param input
* @throws Exception
*/
public void addAll(InputStream input) throws Exception {
BufferedReader reader = new BufferedReader(new InputStreamReader(input, UTF8));
String line = reader.readLine();
List lines = new ArrayList();
while(line != null) {
lines.add(line);
line = reader.readLine();
}
addAll(lines);
}
/**
* Adds all given lines into this termMap
*
* @param lines
*/
public void addAll(List lines) {
String text = null;
String terminology = null;
String code = null;
String path = null;
StringTokenizer tokens = null;
int totalTokens = 0;
for(String line : lines) {
tokens = new StringTokenizer(line, DELIMITER);
totalTokens = tokens.countTokens();
if(totalTokens != 3 && totalTokens != 4) {
log.debug("Wrong formatted line skipped: " + line);
continue;
}
terminology = tokens.nextToken();
code = tokens.nextToken();
text = tokens.nextToken();
if(totalTokens == 4) {
path = tokens.nextToken();
} else {
path = ""; // default for all paths
}
addTerm(terminology, code, text, path);
}
}
/**
* Clears all terms from this termMap
*
*/
public void clear() {
termMap.clear();
}
/**
* Adds a new term and its text into this termMap
*
* @param terminology
* @param code
* @param text
* @param path
*/
public void addTerm(String terminology, String code, String text,
String path) {
if(log.isDebugEnabled()) {
log.debug("adding term: " + terminology + DELIMITER + code +
DELIMITER + text + DELIMITER + path);
}
Map> terms = termMap.get(terminology);
if( terms == null) {
terms = new TreeMap>();
termMap.put(terminology, terms);
log.debug("new terminology: " + terminology + " added..");
}
Map paths = terms.get(code);
if( paths == null) {
paths = new TreeMap();
terms.put(code, paths);
}
paths.put(path, text);
}
/**
* Retrieves the text for given terminology and code
*
* @param terminology
* @param code
* @param path
* @return null if not found
*/
public String getText(String terminology, String code, String path) {
Map paths = null;
String text = null;
Map> terms = termMap.get(terminology);
if(terms != null) {
paths = terms.get(code);
if(paths != null) {
if(paths.size() == 1
&& "".equals(paths.keySet().iterator().next())) {
text = paths.get("");
} else {
text = paths.get(path);
// TODO temp fix if no direct match
if(text == null) {
for(Map.Entry entry : paths.entrySet()) {
if(path.endsWith(entry.getKey())) {
text = entry.getValue();
}
}
}
}
}
}
log.debug("Retrieved text '" + text + "' for [" + terminology + "::"
+ code + "] at path: " + path);
return text;
}
/**
* Retrieves the text for given code_prhase in syntax:
* {terminology}::{code}
*
* @param codePhrase
* @return
*/
public String getText(String codePhrase, String path) {
int i = codePhrase.indexOf(DELIMITER);
if(i <= 0 || i == codePhrase.length()) {
throw new IllegalArgumentException(
"wrong format, expected {terminology}::{code}");
}
String terminology = codePhrase.substring(0, i);
String code = codePhrase.substring(i + 2);
return getText(terminology, code, path);
}
/**
* Retrieves the text for given code_prhase
*
* @param codePhrase
* @return
*/
public String getText(CodePhrase codePhrase, String path) {
return getText(codePhrase.getTerminologyId().toString(),
codePhrase.getCodeString(), path);
}
/**
* Counts the total number of terminologies
*
* @return 0 if empty
*/
public int countTerminologies() {
return termMap.size();
}
/**
* Gets the internal representation of terms, mainly for testing purpose
*
* @return
*/
public Map>> getTermMap() {
return termMap;
}
/**
* Writes this termMap into external file using the following syntax:
* {terminology}::{code}::{text} for each line
*
* @param filename
* @throws IOException
*/
public void writeTermMap(String filename) throws IOException {
StringBuffer buf = new StringBuffer();
String terminology = null;
String code = null;
String text = null;
String path = null;
Map texts = null;
Map> terms = null;
for(Map.Entry>> entry : termMap.entrySet()) {
terminology = entry.getKey();
terms = entry.getValue();
for(Map.Entry> entry2 : terms.entrySet()) {
code = entry2.getKey();
texts = entry2.getValue();
for(Map.Entry entry3 : texts.entrySet()) {
path = entry3.getKey();
text = entry3.getValue();
buf.append(terminology);
buf.append(DELIMITER);
buf.append(code);
buf.append(DELIMITER);
buf.append(text);
buf.append(DELIMITER);
buf.append(path);
buf.append("\r\n");
}
}
}
FileUtils.writeStringToFile(new File(filename), buf.toString(), UTF8);
}
private static final String UTF8 = "UTF-8";
private static final String DELIMITER = "::";
private static final Logger log = Logger.getLogger(TermMap.class);
// in-memory representation as [terminology, [code, [path, text]]
private Map>> termMap;
}
/*
* ***** BEGIN LICENSE BLOCK ***** Version: MPL 1.1/GPL 2.0/LGPL 2.1
*
* The contents of this file are subject to the Mozilla Public License Version
* 1.1 (the 'License'); you may not use this file except in compliance with the
* License. You may obtain a copy of the License at http://www.mozilla.org/MPL/
*
* Software distributed under the License is distributed on an 'AS IS' basis,
* WITHOUT WARRANTY OF ANY KIND, either express or implied. See the License for
* the specific language governing rights and limitations under the License.
*
* The Original Code is TermMap.java
*
* The Initial Developer of the Original Code is Rong Chen. Portions created by
* the Initial Developer are Copyright (C) 2009-2010 the Initial Developer. All
* Rights Reserved.
*
* Contributor(s):
*
* Software distributed under the License is distributed on an 'AS IS' basis,
* WITHOUT WARRANTY OF ANY KIND, either express or implied. See the License for
* the specific language governing rights and limitations under the License.
*
* ***** END LICENSE BLOCK *****
*/ © 2015 - 2025 Weber Informatics LLC | Privacy Policy