/**
  * @covers OpenUrlNlmCitationSchemaCrosswalkFilter
  * @covers OpenUrlCrosswalkFilter
  */
 public function testExecute()
 {
     $openUrlDescription = $this->getTestOpenUrlDescription();
     $nlmDescription = $this->getTestNlmDescription();
     // Properties that are not part of the OpenURL
     // description must be removed from the NLM description
     // before we compare the two.
     self::assertTrue($nlmDescription->removeStatement('person-group[@person-group-type="editor"]'));
     self::assertTrue($nlmDescription->removeStatement('source', 'de_DE'));
     self::assertTrue($nlmDescription->removeStatement('article-title', 'de_DE'));
     self::assertTrue($nlmDescription->removeStatement('publisher-loc'));
     self::assertTrue($nlmDescription->removeStatement('publisher-name'));
     self::assertTrue($nlmDescription->removeStatement('pub-id[@pub-id-type="doi"]'));
     self::assertTrue($nlmDescription->removeStatement('pub-id[@pub-id-type="pmid"]'));
     self::assertTrue($nlmDescription->removeStatement('uri'));
     self::assertTrue($nlmDescription->removeStatement('comment'));
     self::assertTrue($nlmDescription->removeStatement('annotation'));
     $filter = new OpenUrlNlmCitationSchemaCrosswalkFilter();
     self::assertEquals($nlmDescription, $filter->execute($openUrlDescription));
 }
 /**
  * @see Filter::process()
  * @param $citationString string
  * @return MetadataDescription
  */
 function &process($citationString)
 {
     $nullVar = null;
     // Check the availability of perl
     $perlCommand = Config::getVar('cli', 'perl');
     if (empty($perlCommand) || !file_exists($perlCommand)) {
         return $nullVar;
     }
     // Convert to ASCII - Paracite doesn't handle UTF-8 well
     $citationString = String::utf8_to_ascii($citationString);
     // Call the paracite parser
     $wrapperScript = dirname(__FILE__) . DIRECTORY_SEPARATOR . 'paracite.pl';
     $paraciteCommand = $perlCommand . ' ' . escapeshellarg($wrapperScript) . ' ' . $this->getCitationModule() . ' ' . escapeshellarg($citationString);
     $xmlResult = shell_exec($paraciteCommand);
     if (empty($xmlResult)) {
         return $nullVar;
     }
     if (Config::getVar('i18n', 'charset_normalization') == 'On' && !String::utf8_compliant($xmlResult)) {
         $xmlResult = String::utf8_normalize($xmlResult);
     }
     // Create a temporary DOM document
     $resultDOM = new DOMDocument();
     $resultDOM->recover = true;
     $resultDOM->loadXML($xmlResult);
     // Extract the parser results as an array
     $xmlHelper = new XMLHelper();
     $metadata = $xmlHelper->xmlToArray($resultDOM->documentElement);
     // We have to merge subtitle and title as neither OpenURL
     // nor NLM can handle subtitles.
     if (isset($metadata['subtitle'])) {
         $metadata['title'] .= '. ' . $metadata['subtitle'];
         unset($metadata['subtitle']);
     }
     // Break up the authors field
     if (isset($metadata['authors'])) {
         $metadata['authors'] = String::trimPunctuation($metadata['authors']);
         $metadata['authors'] = String::iterativeExplode(array(':', ';'), $metadata['authors']);
     }
     // Convert pages to integers
     foreach (array('spage', 'epage') as $pageProperty) {
         if (isset($metadata[$pageProperty])) {
             $metadata[$pageProperty] = (int) $metadata[$pageProperty];
         }
     }
     // Convert titles to title case
     foreach (array('title', 'chapter', 'publication') as $titleProperty) {
         if (isset($metadata[$titleProperty])) {
             $metadata[$titleProperty] = String::titleCase($metadata[$titleProperty]);
         }
     }
     // Map ParaCite results to OpenURL - null means
     // throw the value away.
     $metadataMapping = array('genre' => 'genre', '_class' => null, 'any' => null, 'authors' => 'au', 'aufirst' => 'aufirst', 'aufull' => null, 'auinit' => 'auinit', 'aulast' => 'aulast', 'atitle' => 'atitle', 'cappublication' => null, 'captitle' => null, 'date' => 'date', 'epage' => 'epage', 'featureID' => null, 'id' => null, 'issue' => 'issue', 'jnl_epos' => null, 'jnl_spos' => null, 'match' => null, 'marked' => null, 'num_of_fig' => null, 'pages' => 'pages', 'publisher' => 'pub', 'publoc' => 'place', 'ref' => null, 'rest_text' => null, 'spage' => 'spage', 'targetURL' => 'url', 'text' => null, 'ucpublication' => null, 'uctitle' => null, 'volume' => 'volume', 'year' => 'date');
     // Ignore 'year' if 'date' is set
     if (isset($metadata['date'])) {
         $metadataMapping['year'] = null;
     }
     // Set default genre
     if (empty($metadata['genre'])) {
         $metadata['genre'] = OPENURL_GENRE_ARTICLE;
     }
     // Handle title, chapter and publication depending on
     // the (inferred) genre. Also instantiate the target schema.
     switch ($metadata['genre']) {
         case OPENURL_GENRE_BOOK:
         case OPENURL_GENRE_BOOKITEM:
         case OPENURL_GENRE_REPORT:
         case OPENURL_GENRE_DOCUMENT:
             $metadataMapping += array('publication' => 'btitle', 'chapter' => 'atitle');
             if (isset($metadata['title'])) {
                 if (!isset($metadata['publication'])) {
                     $metadata['publication'] = $metadata['title'];
                 } elseif (!isset($metadata['chapter'])) {
                     $metadata['chapter'] = $metadata['title'];
                 }
                 unset($metadata['title']);
             }
             $openUrlSchemaName = 'lib.pkp.classes.metadata.openurl.OpenUrlBookSchema';
             $openUrlSchemaClass = 'OpenUrlBookSchema';
             break;
         case OPENURL_GENRE_ARTICLE:
         case OPENURL_GENRE_JOURNAL:
         case OPENURL_GENRE_ISSUE:
         case OPENURL_GENRE_CONFERENCE:
         case OPENURL_GENRE_PROCEEDING:
         case OPENURL_GENRE_PREPRINT:
         default:
             $metadataMapping += array('publication' => 'jtitle');
             if (isset($metadata['title'])) {
                 if (!isset($metadata['publication'])) {
                     $metadata['publication'] = $metadata['title'];
                 } elseif (!isset($metadata['atitle'])) {
                     $metadata['atitle'] = $metadata['title'];
                 }
                 unset($metadata['title']);
             }
             $openUrlSchemaName = 'lib.pkp.classes.metadata.openurl.OpenUrlJournalSchema';
             $openUrlSchemaClass = 'OpenUrlJournalSchema';
             break;
     }
     // Instantiate an OpenURL description
     $openUrlDescription = new MetadataDescription($openUrlSchemaName, ASSOC_TYPE_CITATION);
     $openUrlSchema = new $openUrlSchemaClass();
     // Map the ParaCite result to OpenURL
     foreach ($metadata as $paraciteElementName => $paraciteValue) {
         if (!empty($paraciteValue)) {
             // Trim punctuation
             if (is_string($paraciteValue)) {
                 $paraciteValue = String::trimPunctuation($paraciteValue);
             }
             // Transfer the value to the OpenURL result array
             assert(array_key_exists($paraciteElementName, $metadataMapping));
             $openUrlPropertyName = $metadataMapping[$paraciteElementName];
             if (!is_null($openUrlPropertyName) && $openUrlSchema->hasProperty($openUrlPropertyName)) {
                 if (is_array($paraciteValue)) {
                     foreach ($paraciteValue as $singleValue) {
                         $success = $openUrlDescription->addStatement($openUrlPropertyName, $singleValue);
                         assert($success);
                     }
                 } else {
                     $success = $openUrlDescription->addStatement($openUrlPropertyName, $paraciteValue);
                     assert($success);
                 }
             }
         }
     }
     // Crosswalk to NLM
     $crosswalkFilter = new OpenUrlNlmCitationSchemaCrosswalkFilter();
     $nlmDescription =& $crosswalkFilter->execute($openUrlDescription);
     assert(is_a($nlmDescription, 'MetadataDescription'));
     // Add 'rest_text' as NLM comment (if given)
     if (isset($metadata['rest_text'])) {
         $nlmDescription->addStatement('comment', String::trimPunctuation($metadata['rest_text']));
     }
     // Set display name and sequence id in the meta-data description
     // to the corresponding values from the filter. This is important
     // so that we later know which result came from which filter.
     $nlmDescription->setDisplayName($this->getDisplayName());
     $nlmDescription->setSeq($this->getSeq());
     return $nlmDescription;
 }