setJournalId() public method

Set ID of journal.
public setJournalId ( $journalId )
$journalId int
 function handleArticleNode(&$journal, &$articleNode, &$issue, &$section, &$article, &$publishedArticle, &$errors, &$user, $isCommandLine, &$dependentItems)
 {
     $errors = array();
     $journalSupportedLocales = array_keys($journal->getSupportedLocaleNames());
     // => journal locales must be set up before
     $journalPrimaryLocale = $journal->getPrimaryLocale();
     $publishedArticleDao =& DAORegistry::getDAO('PublishedArticleDAO');
     $articleDao =& DAORegistry::getDAO('ArticleDAO');
     $article = new Article();
     $article->setLocale($journalPrimaryLocale);
     // FIXME in bug #5543
     $article->setJournalId($journal->getId());
     $article->setUserId($user->getId());
     $article->setSectionId($section->getId());
     $article->setStatus(STATUS_PUBLISHED);
     $article->setSubmissionProgress(0);
     $article->setDateSubmitted(Core::getCurrentDate());
     $article->stampStatusModified();
     $titleExists = false;
     for ($index = 0; $node = $articleNode->getChildByName('title', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleTitleLocaleUnsupported', array('articleTitle' => $node->getValue(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setTitle($node->getValue(), $locale);
         $titleExists = true;
     }
     if (!$titleExists || $article->getTitle($journalPrimaryLocale) == "") {
         $errors[] = array('plugins.importexport.native.import.error.articleTitleMissing', array('issueTitle' => $issue->getIssueIdentification(), 'sectionTitle' => $section->getLocalizedTitle()));
         return false;
     }
     for ($index = 0; $node = $articleNode->getChildByName('abstract', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleAbstractLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setAbstract($node->getValue(), $locale);
     }
     if ($indexingNode = $articleNode->getChildByName('indexing')) {
         for ($index = 0; $node = $indexingNode->getChildByName('discipline', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleDisciplineLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setDiscipline($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('type', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleTypeLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setType($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('subject', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleSubjectLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setSubject($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('subject_class', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleSubjectClassLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setSubjectClass($node->getValue(), $locale);
         }
         if ($coverageNode = $indexingNode->getChildByName('coverage')) {
             for ($index = 0; $node = $coverageNode->getChildByName('geographical', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageGeoLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageGeo($node->getValue(), $locale);
             }
             for ($index = 0; $node = $coverageNode->getChildByName('chronological', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageChronLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageChron($node->getValue(), $locale);
             }
             for ($index = 0; $node = $coverageNode->getChildByName('sample', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageSampleLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageSample($node->getValue(), $locale);
             }
         }
     }
     for ($index = 0; $node = $articleNode->getChildByName('sponsor', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleSponsorLocaleUnsupported', array('articleTitle' => $article->getLocalizedTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setSponsor($node->getValue(), $locale);
     }
     if ($node = $articleNode->getChildByName('pages')) {
         $article->setPages($node->getValue());
     }
     if ($language = $articleNode->getAttribute('language')) {
         $article->setLanguage($language);
     }
     /* --- Handle authors --- */
     $hasErrors = false;
     for ($index = 0; $node = $articleNode->getChildByName('author', $index); $index++) {
         if (!NativeImportDom::handleAuthorNode($journal, $node, $issue, $section, $article, $authorErrors)) {
             $errors = array_merge($errors, $authorErrors);
             $hasErrors = true;
         }
     }
     if ($hasErrors) {
         return false;
     }
     /* --- Handle covers --- */
     for ($index = 0; $node = $articleNode->getChildByName('cover', $index); $index++) {
         if (!NativeImportDom::handleArticleCoverNode($journal, $node, $article, $coverErrors, $isCommandLine)) {
             $errors = array_merge($errors, $coverErrors);
             $hasErrors = true;
         }
     }
     for ($index = 0; $node = $articleNode->getChildByName('id', $index); $index++) {
         switch ($node->getAttribute('type')) {
             case 'doi':
                 $article->setStoredDOI($node->getValue());
                 break;
         }
     }
     $articleDao->insertArticle($article);
     $dependentItems[] = array('article', $article);
     // Create submission mangement records
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $initialCopyeditSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_INITIAL', ASSOC_TYPE_ARTICLE, $article->getId());
     $initialCopyeditSignoff->setUserId(0);
     $signoffDao->updateObject($initialCopyeditSignoff);
     $authorCopyeditSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_AUTHOR', ASSOC_TYPE_ARTICLE, $article->getId());
     $authorCopyeditSignoff->setUserId(0);
     $signoffDao->updateObject($authorCopyeditSignoff);
     $finalCopyeditSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_FINAL', ASSOC_TYPE_ARTICLE, $article->getId());
     $finalCopyeditSignoff->setUserId(0);
     $signoffDao->updateObject($finalCopyeditSignoff);
     $layoutSignoff = $signoffDao->build('SIGNOFF_LAYOUT', ASSOC_TYPE_ARTICLE, $article->getId());
     $layoutSignoff->setUserId(0);
     $signoffDao->updateObject($layoutSignoff);
     $authorProofSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_AUTHOR', ASSOC_TYPE_ARTICLE, $article->getId());
     $authorProofSignoff->setUserId(0);
     $signoffDao->updateObject($authorProofSignoff);
     $proofreaderProofSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_PROOFREADER', ASSOC_TYPE_ARTICLE, $article->getId());
     $proofreaderProofSignoff->setUserId(0);
     $signoffDao->updateObject($proofreaderProofSignoff);
     $layoutProofSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_LAYOUT', ASSOC_TYPE_ARTICLE, $article->getId());
     $layoutProofSignoff->setUserId(0);
     $signoffDao->updateObject($layoutProofSignoff);
     // Log the import in the article event log.
     import('classes.article.log.ArticleLog');
     import('classes.article.log.ArticleEventLogEntry');
     ArticleLog::logEvent($article->getId(), ARTICLE_LOG_ARTICLE_IMPORT, ARTICLE_LOG_TYPE_DEFAULT, 0, 'log.imported', array('userName' => $user->getFullName(), 'articleId' => $article->getId()));
     // Insert published article entry.
     $publishedArticle = new PublishedArticle();
     $publishedArticle->setArticleId($article->getId());
     $publishedArticle->setIssueId($issue->getId());
     if ($node = $articleNode->getChildByName('date_published')) {
         $publishedDate = strtotime($node->getValue());
         if ($publishedDate === -1) {
             $errors[] = array('plugins.importexport.native.import.error.invalidDate', array('value' => $node->getValue()));
             return false;
         } else {
             $publishedArticle->setDatePublished($publishedDate);
         }
     }
     $node = $articleNode->getChildByName('open_access');
     $publishedArticle->setAccessStatus($node ? ARTICLE_ACCESS_OPEN : ARTICLE_ACCESS_ISSUE_DEFAULT);
     $publishedArticle->setSeq(REALLY_BIG_NUMBER);
     $publishedArticle->setViews(0);
     $publishedArticle->setPublicArticleId($articleNode->getAttribute('public_id'));
     $publishedArticle->setPubId($publishedArticleDao->insertPublishedArticle($publishedArticle));
     $publishedArticleDao->resequencePublishedArticles($section->getId(), $issue->getId());
     /* --- Galleys (html or otherwise handled simultaneously) --- */
     import('classes.file.ArticleFileManager');
     $articleFileManager = new ArticleFileManager($article->getId());
     /* --- Handle galleys --- */
     $hasErrors = false;
     $galleyCount = 0;
     for ($index = 0; $index < count($articleNode->children); $index++) {
         $node = $articleNode->children[$index];
         if ($node->getName() == 'htmlgalley') {
             $isHtml = true;
         } elseif ($node->getName() == 'galley') {
             $isHtml = false;
         } else {
             continue;
         }
         if (!NativeImportDom::handleGalleyNode($journal, $node, $issue, $section, $article, $galleyErrors, $isCommandLine, $isHtml, $galleyCount, $articleFileManager)) {
             $errors = array_merge($errors, $galleyErrors);
             $hasErrors = true;
         }
         $galleyCount++;
         unset($node);
     }
     if ($hasErrors) {
         return false;
     }
     /* --- Handle supplemental files --- */
     $hasErrors = false;
     for ($index = 0; $node = $articleNode->getChildByName('supplemental_file', $index); $index++) {
         if (!NativeImportDom::handleSuppFileNode($journal, $node, $issue, $section, $article, $suppFileErrors, $isCommandLine, $articleFileManager)) {
             $errors = array_merge($errors, $suppFileErrors);
             $hasErrors = true;
         }
     }
     if ($hasErrors) {
         return false;
     }
     // Index the inserted article.
     import('classes.search.ArticleSearchIndex');
     ArticleSearchIndex::indexArticleMetadata($article);
     ArticleSearchIndex::indexArticleFiles($article);
     return true;
 }
    function importArticles()
    {
        assert($this->xml->name == 'articles');
        $articleDAO =& DAORegistry::getDAO('ArticleDAO');
        $articles = $articleDAO->getArticlesByJournalId($this->journal->getId());
        $journalFileManager = new JournalFileManager($this->journal);
        $publicFileManager =& new PublicFileManager();
        $this->nextElement();
        while ($this->xml->name == 'article') {
            $articleXML = $this->getCurrentElementAsDom();
            $article = new Article();
            $article->setJournalId($this->journal->getId());
            $article->setUserId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $articleXML->userId));
            $article->setSectionId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_SECTION, (int) $articleXML->sectionId));
            $article->setLocale((string) $articleXML->locale);
            $article->setLanguage((string) $articleXML->language);
            $article->setCommentsToEditor((string) $articleXML->commentsToEditor);
            $article->setCitations((string) $articleXML->citations);
            $article->setDateSubmitted((string) $articleXML->dateSubmitted);
            $article->setDateStatusModified((string) $articleXML->dateStatusModified);
            $article->setLastModified((string) $articleXML->lastModified);
            $article->setStatus((int) $articleXML->status);
            $article->setSubmissionProgress((int) $articleXML->submissionProgress);
            $article->setCurrentRound((int) $articleXML->currentRound);
            $article->setPages((string) $articleXML->pages);
            $article->setFastTracked((int) $articleXML->fastTracked);
            $article->setHideAuthor((int) $articleXML->hideAuthor);
            $article->setCommentsStatus((int) $articleXML->commentsStatus);
            $articleDAO->insertArticle($article);
            $oldArticleId = (int) $articleXML->oldId;
            $this->restoreDataObjectSettings($articleDAO, $articleXML->settings, 'article_settings', 'article_id', $article->getId());
            $article =& $articleDAO->getArticle($article->getId());
            // Reload article with restored settings
            $covers = $article->getFileName(null);
            if ($covers) {
                foreach ($covers as $locale => $oldCoverFileName) {
                    $sourceFile = $this->publicFolderPath . '/' . $oldCoverFileName;
                    $extension = $publicFileManager->getExtension($oldCoverFileName);
                    $destFile = 'cover_issue_' . $article->getId() . "_{$locale}.{$extension}";
                    $publicFileManager->copyJournalFile($this->journal->getId(), $sourceFile, $destFile);
                    unlink($sourceFile);
                    $article->setFileName($destFile, $locale);
                    $articleDAO->updateArticle($article);
                }
            }
            $articleFileManager = new ArticleFileManager($article->getId());
            $authorDAO =& DAORegistry::getDAO('AuthorDAO');
            foreach ($articleXML->author as $authorXML) {
                $author = new Author();
                $author->setArticleId($article->getId());
                $author->setFirstName((string) $authorXML->firstName);
                $author->setMiddleName((string) $authorXML->middleName);
                $author->setLastName((string) $authorXML->lastName);
                $author->setSuffix((string) $authorXML->suffix);
                $author->setCountry((string) $authorXML->country);
                $author->setEmail((string) $authorXML->email);
                $author->setUrl((string) $authorXML->url);
                $author->setUserGroupId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_GROUP, (int) $authorXML->userGroupId));
                $author->setPrimaryContact((int) $authorXML->primaryContact);
                $author->setSequence((int) $authorXML->sequence);
                $authorDAO->insertAuthor($author);
                $this->restoreDataObjectSettings($authorDAO, $authorXML->settings, 'author_settings', 'author_id', $author->getId());
                unset($author);
            }
            $articleEmailLogDAO =& DAORegistry::getDAO('ArticleEmailLogDAO');
            $emailLogsXML = array();
            foreach ($articleXML->emailLogs->emailLog as $emailLogXML) {
                array_unshift($emailLogsXML, $emailLogXML);
            }
            foreach ($emailLogsXML as $emailLogXML) {
                $emailLog = new ArticleEmailLogEntry();
                $emailLog->setAssocType(ASSOC_TYPE_ARTICLE);
                $emailLog->setAssocId($article->getId());
                $emailLog->setSenderId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $emailLogXML->senderId));
                $emailLog->setDateSent((string) $emailLogXML->dateSent);
                $emailLog->setIPAddress((string) $emailLogXML->IPAddress);
                $emailLog->setEventType((int) $emailLogXML->eventType);
                $emailLog->setFrom((string) $emailLogXML->from);
                $emailLog->setRecipients((string) $emailLogXML->recipients);
                $emailLog->setCcs((string) $emailLogXML->ccs);
                $emailLog->setBccs((string) $emailLogXML->bccs);
                $emailLog->setSubject((string) $emailLogXML->subject);
                $emailLog->setBody((string) $emailLogXML->body);
                $articleEmailLogDAO->insertObject($emailLog);
                $this->idTranslationTable->register(INTERNAL_TRANSFER_OBJECT_ARTICLE_EMAIL_LOG, (int) $emailLogXML->oldId, $emailLog->getId());
            }
            $articleFileDAO =& DAORegistry::getDAO('ArticleFileDAO');
            foreach ($articleXML->articleFile as $articleFileXML) {
                try {
                    $articleFile = new ArticleFile();
                    $articleFile->setArticleId($article->getId());
                    $articleFile->setSourceFileId((int) $articleFileXML->sourceFileId);
                    $articleFile->setSourceRevision((int) $articleFileXML->sourceRevision);
                    $articleFile->setRevision((int) $articleFileXML->revision);
                    $articleFile->setFileName((string) $articleFileXML->fileName);
                    $articleFile->setFileType((string) $articleFileXML->fileType);
                    $articleFile->setFileSize((string) $articleFileXML->fileSize);
                    $articleFile->setOriginalFileName((string) $articleFileXML->originalFileName);
                    $articleFile->setFileStage((int) $articleFileXML->fileStage);
                    $articleFile->setAssocId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_EMAIL_LOG, (int) $articleFileXML->assocId));
                    $articleFile->setDateUploaded((string) $articleFileXML->dateUploaded);
                    $articleFile->setDateModified((string) $articleFileXML->dateModified);
                    $articleFile->setRound((int) $articleFileXML->round);
                    $articleFile->setViewable((int) $articleFileXML->viewable);
                    $articleFileDAO->insertArticleFile($articleFile);
                    $oldArticleFileId = (int) $articleFileXML->oldId;
                    $oldFileName = $articleFile->getFileName();
                    $stagePath = $articleFileManager->fileStageToPath($articleFile->getFileStage());
                    $fileInTransferPackage = $this->journalFolderPath . "/articles/{$oldArticleId}/{$stagePath}/{$oldFileName}";
                    $newFileName = $articleFileManager->generateFilename($articleFile, $articleFile->getFileStage(), $articleFile->getOriginalFileName());
                    $newFilePath = "/articles/" . $article->getId() . "/{$stagePath}/{$newFileName}";
                    $journalFileManager->copyFile($fileInTransferPackage, $journalFileManager->filesDir . $newFilePath);
                    unlink($fileInTransferPackage);
                    $articleFileDAO->updateArticleFile($articleFile);
                    $this->idTranslationTable->register(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, $oldArticleFileId, $articleFile->getFileId());
                } catch (Exception $e) {
                }
            }
            $articleFiles = $articleFileDAO->getArticleFilesByArticle($article->getId());
            foreach ($articleFiles as $articleFile) {
                try {
                    $articleFile->setSourceFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, $articleFile->getSourceFileId()));
                    $articleFileDAO->updateArticleFile($articleFile);
                } catch (Exception $e) {
                }
            }
            $suppFileDAO =& DAORegistry::getDAO('SuppFileDAO');
            foreach ($articleXML->suppFile as $suppFileXML) {
                $suppFile =& new SuppFile();
                $suppFile->setArticleId($article->getId());
                $suppFile->setRemoteURL((string) $suppFileXML->remoteURL);
                $suppFile->setFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $suppFileXML->fileId));
                $suppFile->setType((string) $suppFileXML->type);
                $suppFile->setDateCreated((string) $suppFileXML->dateCreated);
                $suppFile->setLanguage((string) $suppFileXML->language);
                $suppFile->setShowReviewers((int) $suppFileXML->showReviewers);
                $suppFile->setDateSubmitted((string) $suppFileXML->dateSubmitted);
                $suppFile->setSequence((int) $suppFileXML->sequence);
                $suppFileDAO->insertSuppFile($suppFile);
                $this->restoreDataObjectSettings($suppFileDAO, $suppFileXML->settings, 'article_supp_file_settings', 'supp_id', $suppFile->getId());
            }
            $articleCommentDAO =& DAORegistry::getDAO('ArticleCommentDAO');
            foreach ($articleXML->articleComment as $articleCommentXML) {
                $articleComment = new ArticleComment();
                $articleComment->setArticleId($article->getId());
                $articleComment->setAssocId($article->getId());
                $articleComment->setCommentType((int) $articleCommentXML->commentType);
                $articleComment->setRoleId((int) $articleCommentXML->roleId);
                $articleComment->setAuthorId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $articleCommentXML->authorId));
                $articleComment->setCommentTitle((string) $articleCommentXML->commentTitle);
                $articleComment->setComments((string) $articleCommentXML->comments);
                $articleComment->setDatePosted((string) $articleCommentXML->datePosted);
                $articleComment->setDateModified((string) $articleCommentXML->dateModified);
                $articleComment->setViewable((int) $articleCommentXML->viewable);
                $articleCommentDAO->insertArticleComment($articleComment);
            }
            $articleGalleyDAO =& DAORegistry::getDAO('ArticleGalleyDAO');
            foreach ($articleXML->articleGalley as $articleGalleyXML) {
                $articleGalley = null;
                if ($articleGalleyXML->htmlGalley == "1") {
                    $articleGalley = new ArticleHTMLGalley();
                } else {
                    $articleGalley = new ArticleGalley();
                }
                $articleGalley->setArticleId($article->getId());
                $articleGalley->setLocale((string) $articleGalleyXML->locale);
                $articleGalley->setFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleGalleyXML->fileId));
                $articleGalley->setLabel((string) $articleGalleyXML->label);
                $articleGalley->setSequence((int) $articleGalleyXML->sequence);
                $articleGalley->setRemoteURL((string) $articleGalleyXML->remoteURL);
                if ($articleGalley instanceof ArticleHTMLGalley) {
                    $articleGalley->setStyleFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleGalleyXML->styleFileId));
                }
                $articleGalleyDAO->insertGalley($articleGalley);
                if ($articleGalley instanceof ArticleHTMLGalley) {
                    foreach ($articleGalleyXML->htmlGalleyImage as $articleGalleyImageXML) {
                        $imageId = $this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleGalleyImageXML);
                        $articleGalleyDAO->insertGalleyImage($articleGalley->getId(), $imageId);
                    }
                }
                $this->restoreDataObjectSettings($articleGalleyDAO, $articleGalleyXML->settings, 'article_galley_settings', 'galley_id', $articleGalley->getId());
            }
            $noteDAO =& DAORegistry::getDAO('NoteDAO');
            foreach ($articleXML->articleNote as $articleNoteXML) {
                $articleNote = new Note();
                $articleNote->setUserId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $articleNoteXML->userId));
                $articleNote->setFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleNoteXML->fileId));
                $articleNote->setAssocType(ASSOC_TYPE_ARTICLE);
                $articleNote->setAssocId($article->getId());
                $articleNote->setDateCreated((string) $articleNoteXML->dateCreated);
                $articleNote->setDateModified((string) $articleNoteXML->dateModified);
                $articleNote->setContents((string) $articleNoteXML->contents);
                $articleNote->setTitle((string) $articleNoteXML->title);
                $noteDAO->insertObject($articleNote);
            }
            $editAssignmentDAO =& DAORegistry::getDAO('EditAssignmentDAO');
            foreach ($articleXML->editAssignment as $editAssignmentXML) {
                $editAssignment = new EditAssignment();
                $editAssignment->setArticleId($article->getId());
                $editAssignment->setEditorId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $editAssignmentXML->editorId));
                $editAssignment->setCanReview((int) $editAssignmentXML->canReview);
                $editAssignment->setCanEdit((int) $editAssignmentXML->canEdit);
                $editAssignment->setDateUnderway((string) $editAssignmentXML->dateUnderway);
                $editAssignment->setDateNotified((string) $editAssignmentXML->dateNotified);
                $editAssignmentDAO->insertEditAssignment($editAssignment);
            }
            $reviewAssignmentDAO =& DAORegistry::getDAO('ReviewAssignmentDAO');
            $reviewFormResponseDAO =& DAORegistry::getDAO('ReviewFormResponseDAO');
            foreach ($articleXML->reviewAssignment as $reviewAssignmentXML) {
                $reviewAssignment = new ReviewAssignment();
                $reviewAssignment->setSubmissionId($article->getId());
                $reviewAssignment->setReviewerId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $reviewAssignmentXML->reviewerId));
                try {
                    $reviewAssignment->setReviewerFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $reviewAssignmentXML->reviewerFileId));
                } catch (Exception $e) {
                    $this->logger->log("Arquivo do artigo {$oldArticleId} não encontrado. ID: " . (int) $reviewAssignmentXML->reviewerFileId . "\n");
                }
                $reviewAssignment->setReviewFormId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_REVIEW_FORM, (int) $reviewAssignmentXML->reviewFormId));
                $reviewAssignment->setReviewRoundId((int) $reviewAssignmentXML->reviewRoundId);
                $reviewAssignment->setStageId((int) $reviewAssignmentXML->stageId);
                $reviewAssignment->setReviewerFullName((string) $reviewAssignmentXML->reviewerFullName);
                $reviewAssignment->setCompetingInterests((string) $reviewAssignmentXML->competingInterests);
                $reviewAssignment->setRegretMessage((string) $reviewAssignmentXML->regretMessage);
                $reviewAssignment->setRecommendation((string) $reviewAssignmentXML->recommendation);
                $reviewAssignment->setDateAssigned((string) $reviewAssignmentXML->dateAssigned);
                $reviewAssignment->setDateNotified((string) $reviewAssignmentXML->dateNotified);
                $reviewAssignment->setDateConfirmed((string) $reviewAssignmentXML->dateConfirmed);
                $reviewAssignment->setDateCompleted((string) $reviewAssignmentXML->dateCompleted);
                $reviewAssignment->setDateAcknowledged((string) $reviewAssignmentXML->dateAcknowledged);
                $reviewAssignment->setDateDue((string) $reviewAssignmentXML->dateDue);
                $reviewAssignment->setDateResponseDue((string) $reviewAssignmentXML->dateResponseDue);
                $reviewAssignment->setLastModified((string) $reviewAssignmentXML->lastModified);
                $reviewAssignment->setDeclined((int) $reviewAssignmentXML->declined);
                $reviewAssignment->setReplaced((int) $reviewAssignmentXML->replaced);
                $reviewAssignment->setCancelled((int) $reviewAssignmentXML->cancelled);
                $reviewAssignment->setQuality((int) $reviewAssignmentXML->quality);
                $reviewAssignment->setDateRated((string) $reviewAssignmentXML->dateRated);
                $reviewAssignment->setDateReminded((string) $reviewAssignmentXML->dateReminded);
                $reviewAssignment->setReminderWasAutomatic((int) $reviewAssignmentXML->reminderWasAutomatic);
                $reviewAssignment->setRound((int) $reviewAssignmentXML->round);
                $reviewAssignment->setReviewRevision((int) $reviewAssignmentXML->reviewRevision);
                $reviewAssignment->setReviewMethod((int) $reviewAssignmentXML->reviewMethod);
                $reviewAssignment->setUnconsidered((int) $reviewAssignmentXML->unconsidered);
                $reviewAssignmentDAO->insertObject($reviewAssignment);
                foreach ($reviewAssignmentXML->formResponses->formResponse as $formResponseXML) {
                    $reviewFormResponseDAO->update('INSERT INTO review_form_responses
							(review_form_element_id, review_id, response_type, response_value)
							VALUES
							(?, ?, ?, ?)', array($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_REVIEW_FORM_ELEMENT, (int) $formResponseXML->reviewFormElementId), $reviewAssignment->getId(), (string) $formResponseXML->responseType, (string) $formResponseXML->responseValue));
                }
            }
            $signoffDAO =& DAORegistry::getDAO('SignoffDAO');
            foreach ($articleXML->signoff as $signoffXML) {
                $signoff = new Signoff();
                $signoff->setAssocType(ASSOC_TYPE_ARTICLE);
                $signoff->setAssocId($article->getId());
                $signoff->setUserId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $signoffXML->userId));
                $signoff->setFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $signoffXML->fileId));
                $signoff->setUserGroupId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_GROUP, (int) $signoffXML->userGroupId));
                $signoff->setSymbolic((string) $signoffXML->symbolic);
                $signoff->setFileRevision((int) $signoffXML->fileRevision);
                $signoff->setDateUnderway((string) $signoffXML->dateUnderway);
                $signoff->setDateNotified((string) $signoffXML->dateNotified);
                $signoff->setDateCompleted((string) $signoffXML->dateCompleted);
                $signoff->setDateAcknowledged((string) $signoffXML->dateAcknowledged);
                $signoffDAO->insertObject($signoff);
            }
            $editorSubmissionDAO =& DAORegistry::getDAO('EditorSubmissionDAO');
            foreach ($articleXML->editDecisions as $editDecisionXML) {
                $editDecisions =& $editorSubmissionDAO->update('INSERT INTO edit_decisions (article_id, round, editor_id, decision, date_decided) values (?, ?, ?, ?, ?)', array($article->getId(), (string) $editDecisionXML->round, $this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $editDecisionXML->editorId), (string) $editDecisionXML->decision, (string) $editDecisionXML->dateDecided));
            }
            $publishedArticleDAO =& DAORegistry::getDAO('PublishedArticleDAO');
            if (isset($articleXML->publishedArticle)) {
                $publishedArticleXML = $articleXML->publishedArticle;
                $publishedArticle = new PublishedArticle();
                $publishedArticle->setId($article->getId());
                $publishedArticle->setIssueId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ISSUE, (int) $publishedArticleXML->issueId));
                $publishedArticle->setDatePublished((string) $publishedArticleXML->datePublished);
                $publishedArticle->setSeq((int) $publishedArticleXML->seq);
                $publishedArticle->setAccessStatus((int) $publishedArticleXML->accessStatus);
                $publishedArticleDAO->insertPublishedArticle($publishedArticle);
            }
            $articleEventLogDAO =& DAORegistry::getDAO('ArticleEventLogDAO');
            $eventLogsXML =& iterator_to_array($articleXML->eventLogs->eventLog);
            $eventLogsXML = array();
            foreach ($articleXML->eventLogs->eventLog as $eventLogXML) {
                array_unshift($eventLogsXML, $eventLogXML);
            }
            foreach ($eventLogsXML as $eventLogXML) {
                $eventLog = new ArticleEventLogEntry();
                $eventLog->setAssocType(ASSOC_TYPE_ARTICLE);
                $eventLog->setAssocId($article->getId());
                $eventLog->setUserId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_USER, (int) $eventLogXML->userId));
                $eventLog->setDateLogged((string) $eventLogXML->dateLogged);
                $eventLog->setIPAddress((string) $eventLogXML->IPAddress);
                $eventLog->setEventType((int) $eventLogXML->eventType);
                $eventLog->setMessage((string) $eventLogXML->message);
                $eventLog->setIsTranslated((int) $eventLogXML->isTranslated);
                $articleEventLogDAO->insertObject($eventLog);
                $this->restoreDataObjectSettings($articleEventLogDAO, $eventLogXML->settings, 'event_log_settings', 'log_id', $eventLog->getId());
            }
            try {
                $article->setSubmissionFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleXML->submissionFileId));
            } catch (Exception $e) {
            }
            try {
                $article->setRevisedFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleXML->revisedFileId));
            } catch (Exception $e) {
            }
            try {
                $article->setReviewFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleXML->reviewFileId));
            } catch (Exception $e) {
            }
            try {
                $article->setEditorFileId($this->idTranslationTable->resolve(INTERNAL_TRANSFER_OBJECT_ARTICLE_FILE, (int) $articleXML->editorFileId));
            } catch (Exception $e) {
            }
            $articleDAO->updateArticle($article);
            $this->nextElement();
        }
    }
 /**
  * Save settings.
  */
 function execute($editArticleId)
 {
     $this->editArticleID = $editArticleId;
     $articleDao =& DAORegistry::getDAO('ArticleDAO');
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $sectionEditorSubmissionDao =& DAORegistry::getDAO('SectionEditorSubmissionDAO');
     $application =& PKPApplication::getApplication();
     $request =& $application->getRequest();
     $user =& $request->getUser();
     $router =& $request->getRouter();
     $journal =& $router->getContext($request);
     $article = new Article();
     $article->setLocale($journal->getPrimaryLocale());
     // FIXME in bug #5543
     $article->setUserId($user->getId());
     $article->setJournalId($journal->getId());
     $article->setSectionId($this->getData('sectionId'));
     $article->setLanguage(String::substr($journal->getPrimaryLocale(), 0, 2));
     $article->setTitle($this->getData('title'), null);
     // Localized
     //add Original Journal to Abstract
     $orig_journal = $this->getData('originalJournal');
     $abstr = $this->getData('abstract');
     foreach (array_keys($abstr) as $abs_key) {
         $abstr[$abs_key] .= '  <p id="originalPub"> ' . $orig_journal . ' </p> ';
         //		$abstr[$abs_key] .=  '  <p id="originalPub"> ' . $orig_journal[$abs_key]. ' </p> ';
         //OriginalJournal in EditPlugin only a string and not an array...
         $this->setData('abstract', $abstr);
     }
     $article->setAbstract($this->getData('abstract'), null);
     // Localized
     $article->setDiscipline($this->getData('discipline'), null);
     // Localized
     $article->setSubjectClass($this->getData('subjectClass'), null);
     // Localized
     $article->setSubject($this->getData('subject'), null);
     // Localized
     $article->setCoverageGeo($this->getData('coverageGeo'), null);
     // Localized
     $article->setCoverageChron($this->getData('coverageChron'), null);
     // Localized
     $article->setCoverageSample($this->getData('coverageSample'), null);
     // Localized
     $article->setType($this->getData('type'), null);
     // Localized
     $article->setSponsor($this->getData('sponsor'), null);
     // Localized
     $article->setCitations($this->getData('citations'));
     $article->setPages($this->getData('pages'));
     // Set some default values so the ArticleDAO doesn't complain when adding this article
     $article->setDateSubmitted(Core::getCurrentDate());
     $article->setStatus(STATUS_PUBLISHED);
     $article->setSubmissionProgress(0);
     $article->stampStatusModified();
     $article->setCurrentRound(1);
     $article->setFastTracked(1);
     $article->setHideAuthor(0);
     $article->setCommentsStatus(0);
     // As article has an ID already set it
     $article->setId($this->editArticleID);
     $articleId = $this->editArticleID;
     //delete prior Authors to prevent from double saving the same authors
     $authorDao =& DAORegistry::getDAO('AuthorDAO');
     $authorDao->deleteAuthorsByArticle($articleId);
     // Add authors
     $authors = $this->getData('authors');
     for ($i = 0, $count = count($authors); $i < $count; $i++) {
         if ($authors[$i]['authorId'] > 0) {
             // Update an existing author
             $author =& $article->getAuthor($authors[$i]['authorId']);
             $isExistingAuthor = true;
         } else {
             // Create a new author
             $author = new Author();
             $isExistingAuthor = false;
         }
         if ($author != null) {
             $author->setSubmissionId($articleId);
             $author->setFirstName($authors[$i]['firstName']);
             $author->setMiddleName($authors[$i]['middleName']);
             $author->setLastName($authors[$i]['lastName']);
             if (array_key_exists('affiliation', $authors[$i])) {
                 $author->setAffiliation($authors[$i]['affiliation'], null);
             }
             $author->setCountry($authors[$i]['country']);
             $author->setEmail($authors[$i]['email']);
             $author->setUrl($authors[$i]['url']);
             if (array_key_exists('competingInterests', $authors[$i])) {
                 $author->setCompetingInterests($authors[$i]['competingInterests'], null);
             }
             $author->setBiography($authors[$i]['biography'], null);
             $author->setPrimaryContact($this->getData('primaryContact') == $i ? 1 : 0);
             $author->setSequence($authors[$i]['seq']);
             if ($isExistingAuthor == false) {
                 $article->addAuthor($author);
             }
         }
     }
     // Check whether the user gave a handle and create a handleSubmissionFile in case
     $submissionHandle = $this->getData('submissionHandle');
     $handleSubmissionFileId;
     $handleCheck = FALSE;
     //import FileManager before creating files because otherwise naming of the copied files failes
     import('classes.file.ArticleFileManager');
     foreach (array_keys($submissionHandle) as $locale) {
         if (!empty($submissionHandle[$locale])) {
             $this->deleteOldFile("submission/original", $articleId);
             // $this->deleteOldFile("submission/copyedit", $articleId);
             $handleCheck = TRUE;
             $handleSubmissionId = $this->createHandleTXTFile($submissionHandle[$locale], $articleId, 'submission');
             $handleSubmissionPDFId = $this->createHandlePDF($submissionHandle[$locale], $articleId, 'submission');
             //Add the handle submission files as galley
             $this->setGalley($articleId, $handleSubmissionPDFId, $locale, 'application/pdf');
         }
         if ($handleCheck == TRUE) {
             if ($locale == $journal->getPrimaryLocale()) {
                 $article->setSubmissionFileId($handleSubmissionPDFId);
                 $article->SetReviewFileId($handleSubmissionPDFId);
             }
             // Update file search index
             import('classes.search.ArticleSearchIndex');
             if (isset($galley)) {
                 ArticleSearchIndex::updateFileIndex($galley->getArticleId(), ARTICLE_SEARCH_GALLEY_FILE, $galley->getFileId());
             }
         }
     }
     // Add the submission files as galleys
     import('classes.file.TemporaryFileManager');
     import('classes.file.ArticleFileManager');
     $tempFileIds = $this->getData('tempFileId');
     $temporaryFileManager = new TemporaryFileManager();
     $articleFileManager = new ArticleFileManager($articleId);
     $tempFileCheck = FALSE;
     foreach (array_keys($tempFileIds) as $locale) {
         $temporaryFile = $temporaryFileManager->getFile($tempFileIds[$locale], $user->getId());
         $fileId = null;
         if ($temporaryFile) {
             $this->deleteOldFile("submission/original", $articleId);
             $this->deleteOldFile("submission/copyedit", $articleId);
             $tempFileCheck = TRUE;
             $fileId = $articleFileManager->temporaryFileToArticleFile($temporaryFile, ARTICLE_FILE_SUBMISSION);
             $fileType = $temporaryFile->getFileType();
             $this->setGalley($articleId, $fileId, $locale, $fileType);
             // $galley =& $this->setGalley($articleId, $fileId, $locale, $fileType);
         }
         if ($tempFileCheck == TRUE) {
             if ($locale == $journal->getPrimaryLocale()) {
                 $article->setSubmissionFileId($fileId);
                 $article->SetReviewFileId($fileId);
             }
             // Update file search index
             import('classes.search.ArticleSearchIndex');
             if (isset($galley)) {
                 ArticleSearchIndex::updateFileIndex($galley->getArticleId(), ARTICLE_SEARCH_GALLEY_FILE, $galley->getFileId());
             }
         }
     }
     //Check whether the user gave a handle and create handleSupplFile in case
     $supplHandle = $this->getData('supplHandle');
     $handleSuppFileId = null;
     foreach (array_keys($supplHandle) as $locale) {
         if (!empty($supplHandle[$locale])) {
             $this->deleteOldFile("supp", $articleId);
             $handleSuppFileId = $this->createHandleTXTFile($supplHandle[$locale], $articleId, 'supplementary');
             $handleSupplPDFFileID = $this->createHandlePDF($submissionHandle[$locale], $articleId, 'supplementary');
         }
     }
     //Add uploaded Supplementary file
     $tempSupplFileIds = $this->getData('tempSupplFileId');
     foreach (array_keys($tempSupplFileIds) as $locale) {
         $temporaryFile = $temporaryFileManager->getFile($tempSupplFileIds[$locale], $user->getId());
         $fileId = null;
         if ($temporaryFile) {
             $this->deleteOldFile("supp", $articleId);
             $fileId = $articleFileManager->temporaryFileToArticleFile($temporaryFile, ARTICLE_FILE_SUPP);
             $fileType = $temporaryFile->getFileType();
         }
     }
     // Designate this as the review version by default.
     /*$authorSubmissionDao =& DAORegistry::getDAO('AuthorSubmissionDAO');
     		$authorSubmission =& $authorSubmissionDao->getAuthorSubmission($articleId);
     		import('classes.submission.author.AuthorAction');
     		AuthorAction::designateReviewVersion($authorSubmission, true);
     */
     // Accept the submission
     /*$sectionEditorSubmission =& $sectionEditorSubmissionDao->getSectionEditorSubmission($articleId);
     		$articleFileManager = new ArticleFileManager($articleId);
     		$sectionEditorSubmission->setReviewFile($articleFileManager->getFile($article->getSubmissionFileId()));
     		import('classes.submission.sectionEditor.SectionEditorAction');
     		SectionEditorAction::recordDecision($sectionEditorSubmission, SUBMISSION_EDITOR_DECISION_ACCEPT);
     */
     // Create signoff infrastructure
     $copyeditInitialSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_INITIAL', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditAuthorSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_AUTHOR', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditFinalSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_FINAL', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditInitialSignoff->setUserId(0);
     $copyeditAuthorSignoff->setUserId($user->getId());
     $copyeditFinalSignoff->setUserId(0);
     $signoffDao->updateObject($copyeditInitialSignoff);
     $signoffDao->updateObject($copyeditAuthorSignoff);
     $signoffDao->updateObject($copyeditFinalSignoff);
     $layoutSignoff = $signoffDao->build('SIGNOFF_LAYOUT', ASSOC_TYPE_ARTICLE, $articleId);
     $layoutSignoff->setUserId(0);
     $signoffDao->updateObject($layoutSignoff);
     $proofAuthorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_AUTHOR', ASSOC_TYPE_ARTICLE, $articleId);
     $proofProofreaderSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_PROOFREADER', ASSOC_TYPE_ARTICLE, $articleId);
     $proofLayoutEditorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_LAYOUT', ASSOC_TYPE_ARTICLE, $articleId);
     $proofAuthorSignoff->setUserId($user->getId());
     $proofProofreaderSignoff->setUserId(0);
     $proofLayoutEditorSignoff->setUserId(0);
     $signoffDao->updateObject($proofAuthorSignoff);
     $signoffDao->updateObject($proofProofreaderSignoff);
     $signoffDao->updateObject($proofLayoutEditorSignoff);
     import('classes.author.form.submit.AuthorSubmitForm');
     AuthorSubmitForm::assignEditors($article);
     $articleDao->updateArticle($article);
     // Add to end of editing queue
     import('classes.submission.editor.EditorAction');
     if (isset($galley)) {
         EditorAction::expediteSubmission($article);
     }
     // As the article already has an issue, just get it from database
     $issueDao =& DAORegistry::getDAO('IssueDAO');
     $issue =& $issueDao->getIssueByArticleId($this->editArticleID);
     $issueId = $issue->getIssueId();
     //$this->scheduleForPublication($articleId, $issueId);
     // Index article.
     import('classes.search.ArticleSearchIndex');
     ArticleSearchIndex::indexArticleMetadata($article);
     // Import the references list.
     $citationDao =& DAORegistry::getDAO('CitationDAO');
     $rawCitationList = $article->getCitations();
     $citationDao->importCitations($request, ASSOC_TYPE_ARTICLE, $articleId, $rawCitationList);
 }
 /**
  * Save settings.
  */
 function execute()
 {
     $articleDao =& DAORegistry::getDAO('ArticleDAO');
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $sectionEditorSubmissionDao =& DAORegistry::getDAO('SectionEditorSubmissionDAO');
     $application =& PKPApplication::getApplication();
     $request =& $application->getRequest();
     $user =& $request->getUser();
     $router =& $request->getRouter();
     $journal =& $router->getContext($request);
     $article = new Article();
     $article->setLocale($journal->getPrimaryLocale());
     // FIXME in bug #5543
     $article->setUserId($user->getId());
     $article->setJournalId($journal->getId());
     $article->setSectionId($this->getData('sectionId'));
     $article->setLanguage(String::substr($journal->getPrimaryLocale(), 0, 2));
     $article->setTitle($this->getData('title'), null);
     // Localized
     $article->setAbstract($this->getData('abstract'), null);
     // Localized
     $article->setDiscipline($this->getData('discipline'), null);
     // Localized
     $article->setSubjectClass($this->getData('subjectClass'), null);
     // Localized
     $article->setSubject($this->getData('subject'), null);
     // Localized
     $article->setCoverageGeo($this->getData('coverageGeo'), null);
     // Localized
     $article->setCoverageChron($this->getData('coverageChron'), null);
     // Localized
     $article->setCoverageSample($this->getData('coverageSample'), null);
     // Localized
     $article->setType($this->getData('type'), null);
     // Localized
     $article->setSponsor($this->getData('sponsor'), null);
     // Localized
     $article->setCitations($this->getData('citations'));
     $article->setPages($this->getData('pages'));
     // Set some default values so the ArticleDAO doesn't complain when adding this article
     $article->setDateSubmitted(Core::getCurrentDate());
     $article->setStatus(STATUS_PUBLISHED);
     $article->setSubmissionProgress(0);
     $article->stampStatusModified();
     $article->setCurrentRound(1);
     $article->setFastTracked(1);
     $article->setHideAuthor(0);
     $article->setCommentsStatus(0);
     // Insert the article to get it's ID
     $articleDao->insertArticle($article);
     $articleId = $article->getId();
     // Add authors
     $authors = $this->getData('authors');
     for ($i = 0, $count = count($authors); $i < $count; $i++) {
         if ($authors[$i]['authorId'] > 0) {
             // Update an existing author
             $author =& $article->getAuthor($authors[$i]['authorId']);
             $isExistingAuthor = true;
         } else {
             // Create a new author
             $author = new Author();
             $isExistingAuthor = false;
         }
         if ($author != null) {
             $author->setSubmissionId($articleId);
             $author->setFirstName($authors[$i]['firstName']);
             $author->setMiddleName($authors[$i]['middleName']);
             $author->setLastName($authors[$i]['lastName']);
             if (array_key_exists('affiliation', $authors[$i])) {
                 $author->setAffiliation($authors[$i]['affiliation'], null);
             }
             $author->setCountry($authors[$i]['country']);
             $author->setEmail($authors[$i]['email']);
             $author->setUrl($authors[$i]['url']);
             if (array_key_exists('competingInterests', $authors[$i])) {
                 $author->setCompetingInterests($authors[$i]['competingInterests'], null);
             }
             $author->setBiography($authors[$i]['biography'], null);
             $author->setPrimaryContact($this->getData('primaryContact') == $i ? 1 : 0);
             $author->setSequence($authors[$i]['seq']);
             if ($isExistingAuthor == false) {
                 $article->addAuthor($author);
             }
         }
     }
     // Add the submission files as galleys
     import('classes.file.TemporaryFileManager');
     import('classes.file.ArticleFileManager');
     $tempFileIds = $this->getData('tempFileId');
     $temporaryFileManager = new TemporaryFileManager();
     $articleFileManager = new ArticleFileManager($articleId);
     foreach (array_keys($tempFileIds) as $locale) {
         $temporaryFile = $temporaryFileManager->getFile($tempFileIds[$locale], $user->getId());
         $fileId = null;
         if ($temporaryFile) {
             $fileId = $articleFileManager->temporaryFileToArticleFile($temporaryFile, ARTICLE_FILE_SUBMISSION);
             $fileType = $temporaryFile->getFileType();
             if (strstr($fileType, 'html')) {
                 import('classes.article.ArticleHTMLGalley');
                 $galley = new ArticleHTMLGalley();
             } else {
                 import('classes.article.ArticleGalley');
                 $galley = new ArticleGalley();
             }
             $galley->setArticleId($articleId);
             $galley->setFileId($fileId);
             $galley->setLocale($locale);
             if ($galley->isHTMLGalley()) {
                 $galley->setLabel('HTML');
             } else {
                 if (strstr($fileType, 'pdf')) {
                     $galley->setLabel('PDF');
                 } else {
                     if (strstr($fileType, 'postscript')) {
                         $galley->setLabel('Postscript');
                     } else {
                         if (strstr($fileType, 'xml')) {
                             $galley->setLabel('XML');
                         } else {
                             $galley->setLabel(__('common.untitled'));
                         }
                     }
                 }
             }
             $galleyDao =& DAORegistry::getDAO('ArticleGalleyDAO');
             $galleyDao->insertGalley($galley);
         }
         if ($locale == $journal->getPrimaryLocale()) {
             $article->setSubmissionFileId($fileId);
             $article->SetReviewFileId($fileId);
         }
         // Update file search index
         import('classes.search.ArticleSearchIndex');
         if (isset($galley)) {
             ArticleSearchIndex::updateFileIndex($galley->getArticleId(), ARTICLE_SEARCH_GALLEY_FILE, $galley->getFileId());
         }
     }
     // Designate this as the review version by default.
     $authorSubmissionDao =& DAORegistry::getDAO('AuthorSubmissionDAO');
     $authorSubmission =& $authorSubmissionDao->getAuthorSubmission($articleId);
     import('classes.submission.author.AuthorAction');
     AuthorAction::designateReviewVersion($authorSubmission, true);
     // Accept the submission
     $sectionEditorSubmission =& $sectionEditorSubmissionDao->getSectionEditorSubmission($articleId);
     $articleFileManager = new ArticleFileManager($articleId);
     $sectionEditorSubmission->setReviewFile($articleFileManager->getFile($article->getSubmissionFileId()));
     import('classes.submission.sectionEditor.SectionEditorAction');
     SectionEditorAction::recordDecision($sectionEditorSubmission, SUBMISSION_EDITOR_DECISION_ACCEPT);
     // Create signoff infrastructure
     $copyeditInitialSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_INITIAL', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditAuthorSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_AUTHOR', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditFinalSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_FINAL', ASSOC_TYPE_ARTICLE, $articleId);
     $copyeditInitialSignoff->setUserId(0);
     $copyeditAuthorSignoff->setUserId($user->getId());
     $copyeditFinalSignoff->setUserId(0);
     $signoffDao->updateObject($copyeditInitialSignoff);
     $signoffDao->updateObject($copyeditAuthorSignoff);
     $signoffDao->updateObject($copyeditFinalSignoff);
     $layoutSignoff = $signoffDao->build('SIGNOFF_LAYOUT', ASSOC_TYPE_ARTICLE, $articleId);
     $layoutSignoff->setUserId(0);
     $signoffDao->updateObject($layoutSignoff);
     $proofAuthorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_AUTHOR', ASSOC_TYPE_ARTICLE, $articleId);
     $proofProofreaderSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_PROOFREADER', ASSOC_TYPE_ARTICLE, $articleId);
     $proofLayoutEditorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_LAYOUT', ASSOC_TYPE_ARTICLE, $articleId);
     $proofAuthorSignoff->setUserId($user->getId());
     $proofProofreaderSignoff->setUserId(0);
     $proofLayoutEditorSignoff->setUserId(0);
     $signoffDao->updateObject($proofAuthorSignoff);
     $signoffDao->updateObject($proofProofreaderSignoff);
     $signoffDao->updateObject($proofLayoutEditorSignoff);
     import('classes.author.form.submit.AuthorSubmitForm');
     AuthorSubmitForm::assignEditors($article);
     $articleDao->updateArticle($article);
     // Add to end of editing queue
     import('classes.submission.editor.EditorAction');
     if (isset($galley)) {
         EditorAction::expediteSubmission($article);
     }
     if ($this->getData('destination') == "issue") {
         // Add to an existing issue
         $issueId = $this->getData('issueId');
         $this->scheduleForPublication($articleId, $issueId);
     }
     // Index article.
     import('classes.search.ArticleSearchIndex');
     ArticleSearchIndex::indexArticleMetadata($article);
     // Import the references list.
     $citationDao =& DAORegistry::getDAO('CitationDAO');
     $rawCitationList = $article->getCitations();
     $citationDao->importCitations($request, ASSOC_TYPE_ARTICLE, $articleId, $rawCitationList);
 }
Example #5
0
 function handleArticleNode(&$journal, &$articleNode, &$issue, &$section, &$article, &$publishedArticle, &$errors, &$user, $isCommandLine, &$dependentItems)
 {
     $errors = array();
     $journalSupportedLocales = array_keys($journal->getSupportedLocaleNames());
     // => journal locales must be set up before
     $journalPrimaryLocale = $journal->getPrimaryLocale();
     $publishedArticleDao =& DAORegistry::getDAO('PublishedArticleDAO');
     $articleDao =& DAORegistry::getDAO('ArticleDAO');
     $article = new Article();
     $article->setJournalId($journal->getJournalId());
     $article->setUserId($user->getUserId());
     $article->setSectionId($section->getSectionId());
     $article->setStatus(STATUS_PUBLISHED);
     $article->setSubmissionProgress(0);
     $article->setDateSubmitted(Core::getCurrentDate());
     $article->stampStatusModified();
     $titleExists = false;
     for ($index = 0; $node = $articleNode->getChildByName('title', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleTitleLocaleUnsupported', array('articleTitle' => $node->getValue(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setTitle($node->getValue(), $locale);
         $titleExists = true;
     }
     if (!$titleExists || $article->getTitle($journalPrimaryLocale) == "") {
         $errors[] = array('plugins.importexport.native.import.error.articleTitleMissing', array('issueTitle' => $issue->getIssueIdentification(), 'sectionTitle' => $section->getSectionTitle()));
         return false;
     }
     for ($index = 0; $node = $articleNode->getChildByName('abstract', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleAbstractLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setAbstract($node->getValue(), $locale);
     }
     if ($indexingNode = $articleNode->getChildByName('indexing')) {
         for ($index = 0; $node = $indexingNode->getChildByName('discipline', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleDisciplineLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setDiscipline($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('type', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleTypeLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setType($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('subject', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleSubjectLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setSubject($node->getValue(), $locale);
         }
         for ($index = 0; $node = $indexingNode->getChildByName('subject_class', $index); $index++) {
             $locale = $node->getAttribute('locale');
             if ($locale == '') {
                 $locale = $journalPrimaryLocale;
             } elseif (!in_array($locale, $journalSupportedLocales)) {
                 $errors[] = array('plugins.importexport.native.import.error.articleSubjectClassLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                 return false;
             }
             $article->setSubjectClass($node->getValue(), $locale);
         }
         if ($coverageNode = $indexingNode->getChildByName('coverage')) {
             for ($index = 0; $node = $coverageNode->getChildByName('geographical', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageGeoLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageGeo($node->getValue(), $locale);
             }
             for ($index = 0; $node = $coverageNode->getChildByName('chronological', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageChronLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageChron($node->getValue(), $locale);
             }
             for ($index = 0; $node = $coverageNode->getChildByName('sample', $index); $index++) {
                 $locale = $node->getAttribute('locale');
                 if ($locale == '') {
                     $locale = $journalPrimaryLocale;
                 } elseif (!in_array($locale, $journalSupportedLocales)) {
                     $errors[] = array('plugins.importexport.native.import.error.articleCoverageSampleLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
                     return false;
                 }
                 $article->setCoverageSample($node->getValue(), $locale);
             }
         }
     }
     for ($index = 0; $node = $articleNode->getChildByName('sponsor', $index); $index++) {
         $locale = $node->getAttribute('locale');
         if ($locale == '') {
             $locale = $journalPrimaryLocale;
         } elseif (!in_array($locale, $journalSupportedLocales)) {
             $errors[] = array('plugins.importexport.native.import.error.articleSponsorLocaleUnsupported', array('articleTitle' => $article->getArticleTitle(), 'issueTitle' => $issue->getIssueIdentification(), 'locale' => $locale));
             return false;
         }
         $article->setSponsor($node->getValue(), $locale);
     }
     if ($node = $articleNode->getChildByName('pages')) {
         $article->setPages($node->getValue());
     }
     if ($language = $articleNode->getAttribute('language')) {
         $article->setLanguage($language);
     }
     /* --- Handle authors --- */
     $hasErrors = false;
     for ($index = 0; $node = $articleNode->getChildByName('author', $index); $index++) {
         if (!NativeImportDom::handleAuthorNode($journal, $node, $issue, $section, $article, $authorErrors)) {
             $errors = array_merge($errors, $authorErrors);
             $hasErrors = true;
         }
     }
     if ($hasErrors) {
         return false;
     }
     $articleDao->insertArticle($article);
     $dependentItems[] = array('article', $article);
     // Create submission mangement records
     $copyeditorSubmissionDao =& DAORegistry::getDAO('CopyeditorSubmissionDAO');
     $copyeditorSubmission =& new CopyeditorSubmission();
     $copyeditorSubmission->setArticleId($article->getArticleId());
     $copyeditorSubmission->setCopyeditorId(0);
     $copyeditorSubmissionDao->insertCopyeditorSubmission($copyeditorSubmission);
     $layoutDao =& DAORegistry::getDAO('LayoutAssignmentDAO');
     $layoutAssignment =& new LayoutAssignment();
     $layoutAssignment->setArticleId($article->getArticleId());
     $layoutAssignment->setEditorId(0);
     $layoutAssignment->setDateAcknowledged(Core::getCurrentDate());
     // Make sure that imported articles go directly into the Archive. FIXME?
     $layoutDao->insertLayoutAssignment($layoutAssignment);
     $proofAssignmentDao =& DAORegistry::getDAO('ProofAssignmentDAO');
     $proofAssignment =& new ProofAssignment();
     $proofAssignment->setArticleId($article->getArticleId());
     $proofAssignment->setProofreaderId(0);
     $proofAssignmentDao->insertProofAssignment($proofAssignment);
     // Log the import in the article event log.
     import('article.log.ArticleLog');
     import('article.log.ArticleEventLogEntry');
     ArticleLog::logEvent($article->getArticleId(), ARTICLE_LOG_ARTICLE_IMPORT, ARTICLE_LOG_TYPE_DEFAULT, 0, 'log.imported', array('userName' => $user->getFullName(), 'articleId' => $article->getArticleId()));
     // Insert published article entry.
     $publishedArticle =& new PublishedArticle();
     $publishedArticle->setArticleId($article->getArticleId());
     $publishedArticle->setIssueId($issue->getIssueId());
     if ($node = $articleNode->getChildByName('date_published')) {
         $publishedDate = strtotime($node->getValue());
         if ($publishedDate === -1) {
             $errors[] = array('plugins.importexport.native.import.error.invalidDate', array('value' => $node->getValue()));
             return false;
         } else {
             $publishedArticle->setDatePublished($publishedDate);
         }
     }
     $node = $articleNode->getChildByName('open_access');
     $publishedArticle->setAccessStatus($node ? 1 : 0);
     $publishedArticle->setSeq(REALLY_BIG_NUMBER);
     $publishedArticle->setViews(0);
     $publishedArticle->setPublicArticleId($articleNode->getAttribute('public_id'));
     $publishedArticle->setPubId($publishedArticleDao->insertPublishedArticle($publishedArticle));
     $publishedArticleDao->resequencePublishedArticles($section->getSectionId(), $issue->getIssueId());
     /* --- Galleys (html or otherwise handled simultaneously) --- */
     import('file.ArticleFileManager');
     $articleFileManager =& new ArticleFileManager($article->getArticleId());
     /* --- Handle galleys --- */
     $hasErrors = false;
     $galleyCount = 0;
     for ($index = 0; $index < count($articleNode->children); $index++) {
         $node =& $articleNode->children[$index];
         if ($node->getName() == 'htmlgalley') {
             $isHtml = true;
         } elseif ($node->getName() == 'galley') {
             $isHtml = false;
         } else {
             continue;
         }
         if (!NativeImportDom::handleGalleyNode($journal, $node, $issue, $section, $article, $galleyErrors, $isCommandLine, $isHtml, $galleyCount, $articleFileManager)) {
             $errors = array_merge($errors, $galleyErrors);
             $hasErrors = true;
         }
         $galleyCount++;
     }
     if ($hasErrors) {
         return false;
     }
     /* --- Handle supplemental files --- */
     $hasErrors = false;
     for ($index = 0; $node = $articleNode->getChildByName('supplemental_file', $index); $index++) {
         if (!NativeImportDom::handleSuppFileNode($journal, $node, $issue, $section, $article, $suppFileErrors, $isCommandLine, $articleFileManager)) {
             $errors = array_merge($errors, $suppFileErrors);
             $hasErrors = true;
         }
     }
     if ($hasErrors) {
         return false;
     }
     // Index the inserted article.
     import('search.ArticleSearchIndex');
     ArticleSearchIndex::indexArticleMetadata($article);
     ArticleSearchIndex::indexArticleFiles($article);
     return true;
 }