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dnet-hadoop/dhp-workflows/dhp-aggregation/src/main/java/eu/dnetlib/dhp/collection/worker/utils/XmlCleaner.java

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package eu.dnetlib.dhp.collection.worker.utils;
import java.util.HashMap;
import java.util.HashSet;
import java.util.Map;
import java.util.Set;
import java.util.regex.Pattern;
/** @author jochen, Andreas Czerniak */
public class XmlCleaner {
/** Pattern for numeric entities. */
private static Pattern validCharacterEntityPattern =
Pattern.compile("^&#x?\\d{2,4};"); // $NON-NLS-1$
// private static Pattern validCharacterEntityPattern = Pattern.compile("^&#?\\d{2,4};");
// //$NON-NLS-1$
// see https://www.w3.org/TR/REC-xml/#charsets , not only limited to 
private static Pattern invalidControlCharPattern = Pattern.compile("&#x?1[0-9a-fA-F];");
/**
* Pattern that negates the allowable XML 4 byte unicode characters. Valid are: #x9 | #xA | #xD
* | [#x20-#xD7FF] | [#xE000-#xFFFD] | [#x10000-#x10FFFF]
*/
private static Pattern invalidCharacterPattern =
Pattern.compile("[^\t\r\n\u0020-\uD7FF\uE000-\uFFFD]"); // $NON-NLS-1$
// Map entities to their unicode equivalent
private static Set<String> goodEntities = new HashSet<>();
private static Map<String, String> badEntities = new HashMap<>();
static {
// pre-defined XML entities
goodEntities.add("&quot;"); // $NON-NLS-1$ // quotation mark
goodEntities.add("&amp;"); // $NON-NLS-1$ // ampersand
goodEntities.add("&lt;"); // $NON-NLS-1$ // less-than sign
goodEntities.add("&gt;"); // $NON-NLS-1$ // greater-than sign
// control entities
// badEntities.put("&#11;", "");
badEntities.put("&#127;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#128;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#129;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#130;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#131;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#132;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#133;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#134;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#135;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#136;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#137;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#138;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#139;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#140;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#141;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#142;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#143;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#144;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#145;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#146;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#147;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#148;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#149;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#150;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#151;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#152;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#153;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#154;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#155;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#156;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#157;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#158;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
badEntities.put("&#159;", " "); // $NON-NLS-1$ //$NON-NLS-2$ // illegal HTML character
// misc entities
badEntities.put("&euro;", "\u20AC"); // $NON-NLS-1$ //$NON-NLS-2$ // euro
badEntities.put(
"&lsquo;", "\u2018"); // $NON-NLS-1$ //$NON-NLS-2$ // left single quotation mark
badEntities.put(
"&rsquo;", "\u2019"); // $NON-NLS-1$ //$NON-NLS-2$ // right single quotation mark
// Latin 1 entities
badEntities.put("&nbsp;", "\u00A0"); // $NON-NLS-1$ //$NON-NLS-2$ // no-break space
badEntities.put(
"&iexcl;", "\u00A1"); // $NON-NLS-1$ //$NON-NLS-2$ // inverted exclamation mark
badEntities.put("&cent;", "\u00A2"); // $NON-NLS-1$ //$NON-NLS-2$ // cent sign
badEntities.put("&pound;", "\u00A3"); // $NON-NLS-1$ //$NON-NLS-2$ // pound sign
badEntities.put("&curren;", "\u00A4"); // $NON-NLS-1$ //$NON-NLS-2$ // currency sign
badEntities.put("&yen;", "\u00A5"); // $NON-NLS-1$ //$NON-NLS-2$ // yen sign
badEntities.put("&brvbar;", "\u00A6"); // $NON-NLS-1$ //$NON-NLS-2$ // broken vertical bar
badEntities.put("&sect;", "\u00A7"); // $NON-NLS-1$ //$NON-NLS-2$ // section sign
badEntities.put("&uml;", "\u00A8"); // $NON-NLS-1$ //$NON-NLS-2$ // diaeresis
badEntities.put("&copy;", "\u00A9"); // $NON-NLS-1$ //$NON-NLS-2$ // copyright sign
badEntities.put(
"&ordf;", "\u00AA"); // $NON-NLS-1$ //$NON-NLS-2$ // feminine ordinal indicator
badEntities.put(
"&laquo;",
"\u00AB"); //$NON-NLS-1$ //$NON-NLS-2$ // left-pointing double angle quotation mark
badEntities.put("&not;", "\u00AC"); // $NON-NLS-1$ //$NON-NLS-2$ // not sign
badEntities.put("&shy;", "\u00AD"); // $NON-NLS-1$ //$NON-NLS-2$ // soft hyphen
badEntities.put("&reg;", "\u00AE"); // $NON-NLS-1$ //$NON-NLS-2$ // registered sign
badEntities.put("&macr;", "\u00AF"); // $NON-NLS-1$ //$NON-NLS-2$ // macron
badEntities.put("&deg;", "\u00B0"); // $NON-NLS-1$ //$NON-NLS-2$ // degree sign
badEntities.put("&plusmn;", "\u00B1"); // $NON-NLS-1$ //$NON-NLS-2$ // plus-minus sign
badEntities.put("&sup2;", "\u00B2"); // $NON-NLS-1$ //$NON-NLS-2$ // superscript two
badEntities.put("&sup3;", "\u00B3"); // $NON-NLS-1$ //$NON-NLS-2$ // superscript three
badEntities.put("&acute;", "\u00B4"); // $NON-NLS-1$ //$NON-NLS-2$ // acute accent
badEntities.put("&micro;", "\u00B5"); // $NON-NLS-1$ //$NON-NLS-2$ // micro sign
badEntities.put("&para;", "\u00B6"); // $NON-NLS-1$ //$NON-NLS-2$ // pilcrow sign
badEntities.put("&middot;", "\u00B7"); // $NON-NLS-1$ //$NON-NLS-2$ // middle dot
badEntities.put("&cedil;", "\u00B8"); // $NON-NLS-1$ //$NON-NLS-2$ // cedilla
badEntities.put("&sup1;", "\u00B9"); // $NON-NLS-1$ //$NON-NLS-2$ // superscript one
badEntities.put(
"&ordm;", "\u00BA"); // $NON-NLS-1$ //$NON-NLS-2$ // masculine ordinal indicator
badEntities.put(
"&raquo;",
"\u00BB"); //$NON-NLS-1$ //$NON-NLS-2$ // right-pointing double angle quotation mark
badEntities.put(
"&frac14;", "\u00BC"); // $NON-NLS-1$ //$NON-NLS-2$ // vulgar fraction one quarter
badEntities.put(
"&frac12;", "\u00BD"); // $NON-NLS-1$ //$NON-NLS-2$ // vulgar fraction one half
badEntities.put(
"&frac34;",
"\u00BE"); // $NON-NLS-1$ //$NON-NLS-2$ // vulgar fraction three quarters
badEntities.put(
"&iquest;", "\u00BF"); // $NON-NLS-1$ //$NON-NLS-2$ // inverted question mark
badEntities.put(
"&Agrave;",
"\u00C0"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with grave
badEntities.put(
"&Aacute;",
"\u00C1"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with acute
badEntities.put(
"&Acirc;",
"\u00C2"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with circumflex
badEntities.put(
"&Atilde;",
"\u00C3"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with tilde
badEntities.put(
"&Auml;",
"\u00C4"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with diaeresis
badEntities.put(
"&Aring;",
"\u00C5"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter A with ring above
badEntities.put(
"&AElig;", "\u00C6"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter AE
badEntities.put(
"&Ccedil;",
"\u00C7"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter C with cedilla
badEntities.put(
"&Egrave;",
"\u00C8"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter E with grave
badEntities.put(
"&Eacute;",
"\u00C9"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter E with acute
badEntities.put(
"&Ecirc;",
"\u00CA"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter E with circumflex
badEntities.put(
"&Euml;",
"\u00CB"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter E with diaeresis
badEntities.put(
"&Igrave;",
"\u00CC"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter I with grave
badEntities.put(
"&Iacute;",
"\u00CD"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter I with acute
badEntities.put(
"&Icirc;",
"\u00CE"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter I with circumflex
badEntities.put(
"&Iuml;",
"\u00CF"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter I with diaeresis
badEntities.put("&ETH;", "\u00D0"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter ETH
badEntities.put(
"&Ntilde;",
"\u00D1"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter N with tilde
badEntities.put(
"&Ograve;",
"\u00D2"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with grave
badEntities.put(
"&Oacute;",
"\u00D3"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with acute
badEntities.put(
"&Ocirc;",
"\u00D4"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with circumflex
badEntities.put(
"&Otilde;",
"\u00D5"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with tilde
badEntities.put(
"&Ouml;",
"\u00D6"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with diaeresis
badEntities.put("&times;", "\u00D7"); // $NON-NLS-1$ //$NON-NLS-2$ // multiplication sign
badEntities.put(
"&Oslash;",
"\u00D8"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter O with stroke
badEntities.put(
"&Ugrave;",
"\u00D9"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter U with grave
badEntities.put(
"&Uacute;",
"\u00DA"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter U with acute
badEntities.put(
"&Ucirc;",
"\u00DB"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter U with circumflex
badEntities.put(
"&Uuml;",
"\u00DC"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter U with diaeresis
badEntities.put(
"&Yacute;",
"\u00DD"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter Y with acute
badEntities.put(
"&THORN;", "\u00DE"); // $NON-NLS-1$ //$NON-NLS-2$ // latin capital letter THORN
badEntities.put(
"&szlig;", "\u00DF"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter sharp s
badEntities.put(
"&agrave;",
"\u00E0"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with grave
badEntities.put(
"&aacute;",
"\u00E1"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with acute
badEntities.put(
"&acirc;",
"\u00E2"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with circumflex
badEntities.put(
"&atilde;",
"\u00E3"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with tilde
badEntities.put(
"&auml;",
"\u00E4"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with diaeresis
badEntities.put(
"&aring;",
"\u00E5"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter a with ring above
badEntities.put("&aelig;", "\u00E6"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter ae
badEntities.put(
"&ccedil;",
"\u00E7"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter c with cedilla
badEntities.put(
"&egrave;",
"\u00E8"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter e with grave
badEntities.put(
"&eacute;",
"\u00E9"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter e with acute
badEntities.put(
"&ecirc;",
"\u00EA"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter e with circumflex
badEntities.put(
"&euml;",
"\u00EB"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter e with diaeresis
badEntities.put(
"&igrave;",
"\u00EC"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter i with grave
badEntities.put(
"&iacute;",
"\u00ED"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter i with acute
badEntities.put(
"&icirc;",
"\u00EE"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter i with circumflex
badEntities.put(
"&iuml;",
"\u00EF"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter i with diaeresis
badEntities.put("&eth;", "\u00F0"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter eth
badEntities.put(
"&ntilde;",
"\u00F1"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter n with tilde
badEntities.put(
"&ograve;",
"\u00F2"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with grave
badEntities.put(
"&oacute;",
"\u00F3"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with acute
badEntities.put(
"&ocirc;",
"\u00F4"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with circumflex
badEntities.put(
"&otilde;",
"\u00F5"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with tilde
badEntities.put(
"&ouml;",
"\u00F6"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with diaeresis
badEntities.put("&divide;", "\u00F7"); // $NON-NLS-1$ //$NON-NLS-2$ // division sign
badEntities.put(
"&oslash;",
"\u00F8"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter o with stroke
badEntities.put(
"&ugrave;",
"\u00F9"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter u with grave
badEntities.put(
"&uacute;",
"\u00FA"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter u with acute
badEntities.put(
"&ucirc;",
"\u00FB"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter u with circumflex
badEntities.put(
"&uuml;",
"\u00FC"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter u with diaeresis
badEntities.put(
"&yacute;",
"\u00FD"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter y with acute
badEntities.put(
"&thorn;", "\u00FE"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter thorn
badEntities.put(
"&yuml;",
"\u00FF"); // $NON-NLS-1$ //$NON-NLS-2$ // latin small letter y with diaeresis
}
/**
* For each entity in the input that is not allowed in XML, replace the entity with its unicode
* equivalent or remove it. For each instance of a bare {@literal &}, replace it with {@literal
* &amp;<br/> } XML only allows 4 entities: {@literal &amp;amp;}, {@literal &amp;quot;},
* {@literal &amp;lt;} and {@literal &amp;gt;}.
*
* @param broken the string to handle entities
* @return the string with entities appropriately fixed up
*/
public static String cleanAllEntities(final String broken) {
if (broken == null) {
return null;
}
String working = invalidControlCharPattern.matcher(broken).replaceAll("");
working = invalidCharacterPattern.matcher(working).replaceAll("");
int cleanfrom = 0;
while (true) {
int amp = working.indexOf('&', cleanfrom);
// If there are no more amps then we are done
if (amp == -1) {
break;
}
// Skip references of the kind &#ddd;
if (validCharacterEntityPattern.matcher(working.substring(amp)).find()) {
cleanfrom = working.indexOf(';', amp) + 1;
continue;
}
int i = amp + 1;
while (true) {
// if we are at the end of the string then just escape the '&';
if (i >= working.length()) {
return working.substring(0, amp)
+ "&amp;"
+ working.substring(amp + 1); // $NON-NLS-1$
}
// if we have come to a ; then we have an entity
// If it is something that xml can't handle then replace it.
final char c = working.charAt(i);
if (c == ';') {
final String entity = working.substring(amp, i + 1);
final String replace = handleEntity(entity);
working = working.substring(0, amp) + replace + working.substring(i + 1);
break;
}
// Did we end an entity without finding a closing ;
// Then treat it as an '&' that needs to be replaced with &amp;
if (!Character.isLetterOrDigit(c)) {
working =
working.substring(0, amp)
+ "&amp;"
+ working.substring(amp + 1); // $NON-NLS-1$
amp = i + 4; // account for the 4 extra characters
break;
}
i++;
}
cleanfrom = amp + 1;
}
if (Pattern.compile("<<").matcher(working).find()) {
working = working.replaceAll("<<", "&lt;&lt;");
}
if (Pattern.compile(">>").matcher(working).find()) {
working = working.replaceAll(">>", "&gt;&gt;");
}
return working;
}
/**
* Replace entity with its unicode equivalent, if it is not a valid XML entity. Otherwise strip
* it out. XML only allows 4 entities: &amp;amp;, &amp;quot;, &amp;lt; and &amp;gt;.
*
* @param entity the entity to be replaced
* @return the substitution for the entity, either itself, the unicode equivalent or an empty
* string.
*/
private static String handleEntity(final String entity) {
if (goodEntities.contains(entity)) {
return entity;
}
final String replace = badEntities.get(entity);
if (replace != null) {
return replace;
}
return replace != null ? replace : "";
}
}
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