/**
  * Save changes to submission.
  * @param $args array
  * @param $request PKPRequest
  * @return int the submission ID
  */
 function execute($args, $request)
 {
     parent::execute($args, $request);
     $submission = $this->submission;
     // Send author notification email
     import('classes.mail.ArticleMailTemplate');
     $mail = new ArticleMailTemplate($submission, 'SUBMISSION_ACK');
     $authorMail = new ArticleMailTemplate($submission, 'SUBMISSION_ACK_NOT_USER');
     $context = $request->getContext();
     $router = $request->getRouter();
     if ($mail->isEnabled()) {
         // submission ack emails should be from the contact.
         $mail->setFrom($this->context->getSetting('contactEmail'), $this->context->getSetting('contactName'));
         $authorMail->setFrom($this->context->getSetting('contactEmail'), $this->context->getSetting('contactName'));
         $user = $request->getUser();
         $primaryAuthor = $submission->getPrimaryAuthor();
         if (!isset($primaryAuthor)) {
             $authors = $submission->getAuthors();
             $primaryAuthor = $authors[0];
         }
         $mail->addRecipient($user->getEmail(), $user->getFullName());
         if ($user->getEmail() != $primaryAuthor->getEmail()) {
             $authorMail->addRecipient($primaryAuthor->getEmail(), $primaryAuthor->getFullName());
         }
         if ($context->getSetting('copySubmissionAckPrimaryContact')) {
             $authorMail->addBcc($context->getSetting('contactEmail'), $context->getSetting('contactName'));
         }
         if ($copyAddress = $context->getSetting('copySubmissionAckAddress')) {
             $authorMail->addBcc($copyAddress);
         }
         $assignedAuthors = $submission->getAuthors();
         foreach ($assignedAuthors as $author) {
             $authorEmail = $author->getEmail();
             // only add the author email if they have not already been added as the primary author
             // or user creating the submission.
             if ($authorEmail != $primaryAuthor->getEmail() && $authorEmail != $user->getEmail()) {
                 $authorMail->addRecipient($author->getEmail(), $author->getFullName());
             }
         }
         $mail->bccAssignedSubEditors($submission->getId(), WORKFLOW_STAGE_ID_SUBMISSION);
         $mail->assignParams(array('authorName' => $user->getFullName(), 'authorUsername' => $user->getUsername(), 'editorialContactSignature' => $context->getSetting('contactName'), 'submissionUrl' => $router->url($request, null, 'authorDashboard', 'submission', $submission->getId())));
         $authorMail->assignParams(array('submitterName' => $user->getFullName(), 'editorialContactSignature' => $context->getSetting('contactName')));
         $mail->send($request);
         $recipients = $authorMail->getRecipients();
         if (!empty($recipients)) {
             $authorMail->send($request);
         }
     }
     // Log submission.
     import('classes.log.SubmissionEventLogEntry');
     // Constants
     import('lib.pkp.classes.log.SubmissionLog');
     SubmissionLog::logEvent($request, $submission, SUBMISSION_LOG_SUBMISSION_SUBMIT, 'submission.event.submissionSubmitted');
     return $this->submissionId;
 }

 /**
  * Assigns a section editor to a submission.
  * @param $articleId int
  * @return boolean true iff ready for redirect
  */
 function assignEditor($articleId, $sectionEditorId, $isEditor = false, $send = false)
 {
     $editorSubmissionDao =& DAORegistry::getDAO('EditorSubmissionDAO');
     $editAssignmentDao =& DAORegistry::getDAO('EditAssignmentDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $user =& Request::getUser();
     $journal =& Request::getJournal();
     $editorSubmission =& $editorSubmissionDao->getEditorSubmission($articleId);
     $sectionEditor =& $userDao->getUser($sectionEditorId);
     if (!isset($sectionEditor)) {
         return true;
     }
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($editorSubmission, 'EDITOR_ASSIGN');
     if ($user->getId() === $sectionEditorId || !$email->isEnabled() || $send && !$email->hasErrors()) {
         HookRegistry::call('EditorAction::assignEditor', array(&$editorSubmission, &$sectionEditor, &$isEditor, &$email));
         if ($email->isEnabled() && $user->getId() !== $sectionEditorId) {
             $email->setAssoc(ARTICLE_EMAIL_EDITOR_ASSIGN, ARTICLE_EMAIL_TYPE_EDITOR, $sectionEditor->getId());
             $email->send();
         }
         $editAssignment = new EditAssignment();
         $editAssignment->setArticleId($articleId);
         $editAssignment->setCanEdit(1);
         $editAssignment->setCanReview(1);
         // Make the selected editor the new editor
         $editAssignment->setEditorId($sectionEditorId);
         $editAssignment->setDateNotified(Core::getCurrentDate());
         $editAssignment->setDateUnderway(null);
         $editAssignments =& $editorSubmission->getEditAssignments();
         array_push($editAssignments, $editAssignment);
         $editorSubmission->setEditAssignments($editAssignments);
         $editorSubmissionDao->updateEditorSubmission($editorSubmission);
         // Add log
         import('classes.article.log.ArticleLog');
         import('classes.article.log.ArticleEventLogEntry');
         ArticleLog::logEvent($articleId, ARTICLE_LOG_EDITOR_ASSIGN, ARTICLE_LOG_TYPE_EDITOR, $sectionEditorId, 'log.editor.editorAssigned', array('editorName' => $sectionEditor->getFullName(), 'articleId' => $articleId));
         return true;
     } else {
         if (!Request::getUserVar('continued')) {
             $email->addRecipient($sectionEditor->getEmail(), $sectionEditor->getFullName());
             $paramArray = array('editorialContactName' => $sectionEditor->getFullName(), 'editorUsername' => $sectionEditor->getUsername(), 'editorPassword' => $sectionEditor->getPassword(), 'editorialContactSignature' => $user->getContactSignature(), 'submissionUrl' => Request::url(null, $isEditor ? 'editor' : 'sectionEditor', 'submissionReview', $articleId), 'submissionEditingUrl' => Request::url(null, $isEditor ? 'editor' : 'sectionEditor', 'submissionReview', $articleId));
             $email->assignParams($paramArray);
         }
         $email->displayEditForm(Request::url(null, null, 'assignEditor', 'send'), array('articleId' => $articleId, 'editorId' => $sectionEditorId));
         return false;
     }
 }

 function sendReminder($reviewAssignment, $article, $journal)
 {
     $reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $reviewId = $reviewAssignment->getId();
     $reviewer =& $userDao->getUser($reviewAssignment->getReviewerId());
     if (!isset($reviewer)) {
         return false;
     }
     import('classes.mail.ArticleMailTemplate');
     $reviewerAccessKeysEnabled = $journal->getSetting('reviewerAccessKeysEnabled');
     $email = new ArticleMailTemplate($article, $reviewerAccessKeysEnabled ? 'REVIEW_REMIND_AUTO_ONECLICK' : 'REVIEW_REMIND_AUTO', $journal->getPrimaryLocale(), false, $journal, false, true);
     $email->setJournal($journal);
     $email->setReplyTo(null);
     $email->addRecipient($reviewer->getEmail(), $reviewer->getFullName());
     $email->setSubject($email->getSubject($journal->getPrimaryLocale()));
     $email->setBody($email->getBody($journal->getPrimaryLocale()));
     $urlParams = array();
     if ($reviewerAccessKeysEnabled) {
         import('lib.pkp.classes.security.AccessKeyManager');
         $accessKeyManager = new AccessKeyManager();
         // Key lifetime is the typical review period plus four weeks
         $keyLifetime = ($journal->getSetting('numWeeksPerReview') + 4) * 7;
         $urlParams['key'] = $accessKeyManager->createKey('ReviewerContext', $reviewer->getId(), $reviewId, $keyLifetime);
     }
     $submissionReviewUrl = Request::url($journal->getPath(), 'reviewer', 'submission', $reviewId, $urlParams);
     // Format the review due date
     $reviewDueDate = strtotime($reviewAssignment->getDateDue());
     $dateFormatShort = Config::getVar('general', 'date_format_short');
     if ($reviewDueDate === -1 || $reviewDueDate === false) {
         // Default to something human-readable if no date specified
         $reviewDueDate = '_____';
     } else {
         $reviewDueDate = strftime($dateFormatShort, $reviewDueDate);
     }
     $paramArray = array('reviewerName' => $reviewer->getFullName(), 'reviewerUsername' => $reviewer->getUsername(), 'journalUrl' => $journal->getUrl(), 'reviewerPassword' => $reviewer->getPassword(), 'reviewDueDate' => $reviewDueDate, 'weekLaterDate' => strftime(Config::getVar('general', 'date_format_short'), strtotime('+1 week')), 'editorialContactSignature' => $journal->getSetting('contactName') . "\n" . $journal->getLocalizedTitle(), 'passwordResetUrl' => Request::url($journal->getPath(), 'login', 'resetPassword', $reviewer->getUsername(), array('confirm' => Validation::generatePasswordResetHash($reviewer->getId()))), 'submissionReviewUrl' => $submissionReviewUrl);
     $email->assignParams($paramArray);
     $email->send();
     $reviewAssignment->setDateReminded(Core::getCurrentDate());
     $reviewAssignment->setReminderWasAutomatic(1);
     $reviewAssignmentDao->updateReviewAssignment($reviewAssignment);
 }

 /**
  * Save changes to article.
  */
 function execute()
 {
     $articleDao =& DAORegistry::getDAO('ArticleDAO');
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $journal = Request::getJournal();
     $user = Request::getUser();
     // Update article
     $article =& $this->article;
     if ($this->getData('commentsToEditor') != '') {
         $article->setCommentsToEditor($this->getData('commentsToEditor'));
     }
     $article->setDateSubmitted(Core::getCurrentDate());
     $article->setSubmissionProgress(0);
     $article->stampStatusModified();
     $articleDao->updateArticle($article);
     // Designate this as the review version by default.
     $authorSubmissionDao =& DAORegistry::getDAO('AuthorSubmissionDAO');
     $authorSubmission =& $authorSubmissionDao->getAuthorSubmission($article->getId());
     AuthorAction::designateReviewVersion($authorSubmission, true);
     unset($authorSubmission);
     $copyeditInitialSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_INITIAL', ASSOC_TYPE_ARTICLE, $article->getId());
     $copyeditAuthorSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_AUTHOR', ASSOC_TYPE_ARTICLE, $article->getId());
     $copyeditFinalSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_FINAL', ASSOC_TYPE_ARTICLE, $article->getId());
     $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, $article->getId());
     $layoutSignoff->setUserId(0);
     $signoffDao->updateObject($layoutSignoff);
     $proofAuthorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_AUTHOR', ASSOC_TYPE_ARTICLE, $article->getId());
     $proofProofreaderSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_PROOFREADER', ASSOC_TYPE_ARTICLE, $article->getId());
     $proofLayoutEditorSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_LAYOUT', ASSOC_TYPE_ARTICLE, $article->getId());
     $proofAuthorSignoff->setUserId($user->getId());
     $proofProofreaderSignoff->setUserId(0);
     $proofLayoutEditorSignoff->setUserId(0);
     $signoffDao->updateObject($proofAuthorSignoff);
     $signoffDao->updateObject($proofProofreaderSignoff);
     $signoffDao->updateObject($proofLayoutEditorSignoff);
     $sectionEditors = $this->assignEditors($article);
     $user =& Request::getUser();
     // Update search index
     import('classes.search.ArticleSearchIndex');
     ArticleSearchIndex::indexArticleMetadata($article);
     ArticleSearchIndex::indexArticleFiles($article);
     // Send author notification email
     import('classes.mail.ArticleMailTemplate');
     $mail = new ArticleMailTemplate($article, 'SUBMISSION_ACK', null, null, null, false);
     $mail->setFrom($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
     if ($mail->isEnabled()) {
         $mail->addRecipient($user->getEmail(), $user->getFullName());
         // If necessary, BCC the acknowledgement to someone.
         if ($journal->getSetting('copySubmissionAckPrimaryContact')) {
             $mail->addBcc($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
         }
         if ($journal->getSetting('copySubmissionAckSpecified')) {
             $copyAddress = $journal->getSetting('copySubmissionAckAddress');
             if (!empty($copyAddress)) {
                 $mail->addBcc($copyAddress);
             }
         }
         // Also BCC automatically assigned section editors
         foreach ($sectionEditors as $sectionEditorEntry) {
             $sectionEditor =& $sectionEditorEntry['user'];
             $mail->addBcc($sectionEditor->getEmail(), $sectionEditor->getFullName());
             unset($sectionEditor);
         }
         $mail->assignParams(array('authorName' => $user->getFullName(), 'authorUsername' => $user->getUsername(), 'editorialContactSignature' => $journal->getSetting('contactName') . "\n" . $journal->getLocalizedTitle(), 'submissionUrl' => Request::url(null, 'author', 'submission', $article->getId())));
         $mail->send();
     }
     import('classes.article.log.ArticleLog');
     import('classes.article.log.ArticleEventLogEntry');
     ArticleLog::logEvent($this->articleId, ARTICLE_LOG_ARTICLE_SUBMIT, ARTICLE_LOG_TYPE_AUTHOR, $user->getId(), 'log.author.submitted', array('submissionId' => $article->getId(), 'authorName' => $user->getFullName()));
     return $this->articleId;
 }

 /**
  * Hook registry function that is called when it's time to perform all automatic
  * deposits and notify the author of optional deposits.
  * @param $hookName string
  * @param $args array
  */
 function callbackAuthorDeposits($hookName, $args)
 {
     $sectionEditorSubmission =& $args[0];
     $request =& $this->getRequest();
     // Determine if the most recent decision was an "Accept"
     $decisions = $sectionEditorSubmission->getDecisions();
     $decisions = array_pop($decisions);
     // Rounds
     $decision = array_pop($decisions);
     $decisionConst = $decision ? $decision['decision'] : null;
     if ($decisionConst != SUBMISSION_EDITOR_DECISION_ACCEPT) {
         return false;
     }
     // The most recent decision was an "Accept"; perform auto deposits.
     $journal = $request->getJournal();
     $depositPoints = $this->getSetting($journal->getId(), 'depositPoints');
     import('classes.sword.OJSSwordDeposit');
     import('classes.notification.NotificationManager');
     $notificationManager = new NotificationManager();
     $sendDepositNotification = $this->getSetting($journal->getId(), 'allowAuthorSpecify') ? true : false;
     foreach ($depositPoints as $depositPoint) {
         $depositType = $depositPoint['type'];
         if ($depositType == SWORD_DEPOSIT_TYPE_OPTIONAL_SELECTION || $depositType == SWORD_DEPOSIT_TYPE_OPTIONAL_FIXED) {
             $sendDepositNotification = true;
         }
         if ($depositType != SWORD_DEPOSIT_TYPE_AUTOMATIC) {
             continue;
         }
         // For each automatic deposit point, perform a deposit.
         $deposit = new OJSSwordDeposit($sectionEditorSubmission);
         $deposit->setMetadata();
         $deposit->addEditorial();
         $deposit->createPackage();
         $deposit->deposit($depositPoint['url'], $depositPoint['username'], $depositPoint['password']);
         $deposit->cleanup();
         unset($deposit);
         $user = $request->getUser();
         $params = array('itemTitle' => $sectionEditorSubmission->getLocalizedTitle(), 'repositoryName' => $depositPoint['name']);
         $notificationManager->createTrivialNotification($user->getId(), NOTIFICATION_TYPE_SWORD_AUTO_DEPOSIT_COMPLETE, $params);
     }
     if ($sendDepositNotification) {
         $submittingUser = $sectionEditorSubmission->getUser();
         import('classes.mail.ArticleMailTemplate');
         $mail = new ArticleMailTemplate($sectionEditorSubmission, 'SWORD_DEPOSIT_NOTIFICATION', null, null, $journal, true, true);
         $mail->setReplyTo(null);
         $mail->addRecipient($submittingUser->getEmail(), $submittingUser->getFullName());
         $mail->assignParams(array('journalName' => $journal->getLocalizedName(), 'articleTitle' => $sectionEditorSubmission->getLocalizedTitle(), 'swordDepositUrl' => $request->url(null, 'sword', 'index', $sectionEditorSubmission->getId())));
         $mail->send($request);
     }
     return false;
 }

 /**
  * Blind CC the editor decision email to reviewers.
  * @param $article object
  * @param $send boolean
  * @return boolean true iff ready for redirect
  */
 function bccEditorDecisionCommentToReviewers($article, $send, $request)
 {
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($article, 'SUBMISSION_DECISION_REVIEWERS');
     if ($send && !$email->hasErrors()) {
         HookRegistry::call('SectionEditorAction::bccEditorDecisionCommentToReviewers', array(&$article, &$reviewAssignments, &$email));
         $email->send($request);
         return true;
     } else {
         if (!$request->getUserVar('continued')) {
             $userDao =& DAORegistry::getDAO('UserDAO');
             $reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
             $reviewAssignments =& $reviewAssignmentDao->getBySubmissionId($article->getId(), $article->getCurrentRound());
             $email->clearRecipients();
             foreach ($reviewAssignments as $reviewAssignment) {
                 if ($reviewAssignment->getDateCompleted() != null && !$reviewAssignment->getCancelled()) {
                     $reviewer =& $userDao->getUser($reviewAssignment->getReviewerId());
                     if (isset($reviewer)) {
                         $email->addBcc($reviewer->getEmail(), $reviewer->getFullName());
                     }
                 }
             }
             $commentsText = "";
             if ($article->getMostRecentEditorDecisionComment()) {
                 $comment = $article->getMostRecentEditorDecisionComment();
                 $commentsText = String::html2text($comment->getComments()) . "\n\n";
             }
             $user =& $request->getUser();
             $paramArray = array('comments' => $commentsText, 'editorialContactSignature' => $user->getContactSignature());
             $email->assignParams($paramArray);
         }
         $email->displayEditForm($request->url(null, null, 'bccEditorDecisionCommentToReviewers', 'send'), array('articleId' => $article->getId()));
         return false;
     }
 }

 /**
  * Email the comment.
  * @param $recipients array of recipients (email address => name)
  */
 function email($recipients)
 {
     $article = $this->article;
     $articleCommentDao =& DAORegistry::getDAO('ArticleCommentDAO');
     $journal =& Request::getJournal();
     import('mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($article, 'SUBMISSION_COMMENT');
     $email->setFrom($this->user->getEmail(), $this->user->getFullName());
     $commentText = $this->getData('comments');
     // Individually send an email to each of the recipients.
     foreach ($recipients as $emailAddress => $name) {
         $email->addRecipient($emailAddress, $name);
         $paramArray = array('name' => $name, 'commentName' => $this->user->getFullName(), 'comments' => $commentText);
         $email->sendWithParams($paramArray);
         $email->clearRecipients();
     }
 }

 /**
  * Email the comment.
  * @param $recipients array of recipients (email address => name)
  */
 function email($recipients)
 {
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($this->article, 'SUBMISSION_COMMENT');
     $journal =& Request::getJournal();
     if ($journal) {
         $email->setFrom($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
     }
     foreach ($recipients as $emailAddress => $name) {
         $email->addRecipient($emailAddress, $name);
         $email->setSubject(strip_tags($this->article->getLocalizedTitle()));
         $paramArray = array('name' => $name, 'commentName' => $this->user->getFullName(), 'comments' => String::html2text($this->getData('comments')));
         $email->assignParams($paramArray);
         $email->send();
         $email->clearRecipients();
     }
 }

 /**
  * Copyeditor completes final copyedit.
  * @param $copyeditorSubmission object
  * @param $send boolean
  * @param $request object
  */
 function completeFinalCopyedit($copyeditorSubmission, $send, $request)
 {
     $copyeditorSubmissionDao =& DAORegistry::getDAO('CopyeditorSubmissionDAO');
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $journal =& $request->getJournal();
     $finalSignoff = $signoffDao->build('SIGNOFF_COPYEDITING_FINAL', ASSOC_TYPE_ARTICLE, $copyeditorSubmission->getId());
     if ($finalSignoff->getDateCompleted() != null) {
         return true;
     }
     $user =& $request->getUser();
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($copyeditorSubmission, 'COPYEDIT_FINAL_COMPLETE');
     $editAssignments = $copyeditorSubmission->getEditAssignments();
     if (!$email->isEnabled() || $send && !$email->hasErrors()) {
         HookRegistry::call('CopyeditorAction::completeFinalCopyedit', array(&$copyeditorSubmission, &$editAssignments, &$email));
         if ($email->isEnabled()) {
             $email->send($request);
         }
         $finalSignoff->setDateCompleted(Core::getCurrentDate());
         $signoffDao->updateObject($finalSignoff);
         if ($copyEdFile = $copyeditorSubmission->getFileBySignoffType('SIGNOFF_COPYEDITING_FINAL')) {
             // Set initial layout version to final copyedit version
             $layoutSignoff = $signoffDao->build('SIGNOFF_LAYOUT', ASSOC_TYPE_ARTICLE, $copyeditorSubmission->getId());
             if (!$layoutSignoff->getFileId()) {
                 import('classes.file.ArticleFileManager');
                 $articleFileManager = new ArticleFileManager($copyeditorSubmission->getId());
                 if ($layoutFileId = $articleFileManager->copyToLayoutFile($copyEdFile->getFileId(), $copyEdFile->getRevision())) {
                     $layoutSignoff->setFileId($layoutFileId);
                     $signoffDao->updateObject($layoutSignoff);
                 }
             }
         }
         // Add log entry
         import('classes.article.log.ArticleLog');
         import('classes.article.log.ArticleEventLogEntry');
         ArticleLog::logEvent($request, $copyeditorSubmission, ARTICLE_LOG_COPYEDIT_FINAL, 'log.copyedit.finalEditComplete', array('copyeditorName' => $user->getFullName()));
         return true;
     } else {
         if (!$request->getUserVar('continued')) {
             $assignedSectionEditors = $email->toAssignedEditingSectionEditors($copyeditorSubmission->getId());
             $assignedEditors = $email->ccAssignedEditors($copyeditorSubmission->getId());
             if (empty($assignedSectionEditors) && empty($assignedEditors)) {
                 $email->addRecipient($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
                 $paramArray = array('editorialContactName' => $journal->getSetting('contactName'), 'copyeditorName' => $user->getFullName());
             } else {
                 $editorialContact = array_shift($assignedSectionEditors);
                 if (!$editorialContact) {
                     $editorialContact = array_shift($assignedEditors);
                 }
                 $paramArray = array('editorialContactName' => $editorialContact->getEditorFullName(), 'copyeditorName' => $user->getFullName());
             }
             $email->assignParams($paramArray);
         }
         $email->displayEditForm($request->url(null, 'copyeditor', 'completeFinalCopyedit', 'send'), array('articleId' => $copyeditorSubmission->getId()));
         return false;
     }
 }

 /**
  * Records the reviewer's submission recommendation.
  * @param $reviewId int
  * @param $recommendation int
  * @param $send boolean
  */
 function recordRecommendation(&$reviewAssignment, $recommendation, $send)
 {
     $reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
     $reviewerSubmissionDao =& DAORegistry::getDAO('ReviewerSubmissionDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $reviewId = $reviewAssignment->getReviewId();
     $reviewerSubmission =& $reviewerSubmissionDao->getReviewerSubmission($reviewId);
     // Check validity of selected recommendation
     $reviewerRecommendationOptions =& ReviewAssignment::getReviewerRecommendationOptions();
     if (!isset($reviewerRecommendationOptions[$recommendation])) {
         return true;
     }
     $reviewer =& $userDao->getUser($reviewAssignment->getReviewerId());
     if (!isset($reviewer)) {
         return true;
     }
     // Only record the reviewers recommendation if
     // no recommendation has previously been submitted.
     if ($reviewAssignment->getRecommendation() === null || $reviewAssignment->getRecommendation === '') {
         import('classes.mail.ArticleMailTemplate');
         $email = new ArticleMailTemplate($reviewerSubmission, null, 'REVIEW_COMPLETE');
         // Must explicitly set sender because we may be here on an access
         // key, in which case the user is not technically logged in
         $email->setFrom($reviewer->getEmail(), $reviewer->getFullName());
         if (!$email->isEnabled() || $send && !$email->hasErrors()) {
             HookRegistry::call('ReviewerAction::recordRecommendation', array(&$reviewerSubmission, &$email, $recommendation));
             if ($email->isEnabled()) {
                 $email->setAssoc(ARTICLE_EMAIL_REVIEW_COMPLETE, ARTICLE_EMAIL_TYPE_REVIEW, $reviewId);
                 $email->send();
             }
             $reviewAssignment->setRecommendation($recommendation);
             $reviewAssignment->setDateCompleted(Core::getCurrentDate());
             $reviewAssignment->stampModified();
             $reviewAssignmentDao->updateReviewAssignment($reviewAssignment);
             // Add log
             import('classes.article.log.ArticleLog');
             import('classes.article.log.ArticleEventLogEntry');
             $entry = new ArticleEventLogEntry();
             $entry->setArticleId($reviewerSubmission->getArticleId());
             $entry->setUserId($reviewer->getId());
             $entry->setDateLogged(Core::getCurrentDate());
             $entry->setEventType(ARTICLE_LOG_REVIEW_RECOMMENDATION);
             $entry->setLogLevel('N');
             $entry->setLogMessage('log.review.reviewRecommendationSet', array('reviewerName' => $reviewer->getFullName(), 'articleId' => $reviewerSubmission->getProposalId()));
             $entry->setAssocType(ARTICLE_LOG_TYPE_REVIEW);
             $entry->setAssocId($reviewAssignment->getId());
             ArticleLog::logEventEntry($reviewerSubmission->getArticleId(), $entry);
         } else {
             if (!Request::getUserVar('continued')) {
                 $assignedEditors = $email->ccAssignedEditors($reviewerSubmission->getArticleId());
                 $reviewingSectionEditors = $email->toAssignedReviewingSectionEditors($reviewerSubmission->getArticleId());
                 if (empty($assignedEditors) && empty($reviewingSectionEditors)) {
                     $journal =& Request::getJournal();
                     $email->addRecipient($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
                     $editorialContactName = $journal->getSetting('contactName');
                 } else {
                     if (!empty($reviewingSectionEditors)) {
                         $editorialContact = array_shift($reviewingSectionEditors);
                     } else {
                         $editorialContact = array_shift($assignedEditors);
                     }
                     // Modified by EL on February 17th 2013
                     // No edit assigment anymore
                     $editorialContactName = $editorialContact->getFullName();
                 }
                 $reviewerRecommendationOptions =& ReviewAssignment::getReviewerRecommendationOptions();
                 $email->assignParams(array('editorialContactName' => $editorialContactName, 'reviewerName' => $reviewer->getFullName(), 'articleTitle' => strip_tags($reviewerSubmission->getScientificTitle()), 'recommendation' => Locale::translate($reviewerRecommendationOptions[$recommendation])));
             }
             $email->displayEditForm(Request::url(null, 'reviewer', 'recordRecommendation'), array('reviewId' => $reviewId, 'recommendation' => $recommendation));
             return false;
         }
     }
     return true;
 }

 /**
  * Email editor decision comment.
  * @param $authorSubmission object
  * @param $send boolean
  * @param $request object
  */
 function emailEditorDecisionComment($authorSubmission, $send, $request)
 {
     $userDao =& DAORegistry::getDAO('UserDAO');
     $journal =& $request->getJournal();
     $user =& $request->getUser();
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($authorSubmission);
     $editAssignments = $authorSubmission->getEditAssignments();
     $editors = array();
     foreach ($editAssignments as $editAssignment) {
         array_push($editors, $userDao->getUser($editAssignment->getEditorId()));
     }
     if ($send && !$email->hasErrors()) {
         HookRegistry::call('AuthorAction::emailEditorDecisionComment', array(&$authorSubmission, &$email));
         $email->send($request);
         $articleCommentDao =& DAORegistry::getDAO('ArticleCommentDAO');
         $articleComment = new ArticleComment();
         $articleComment->setCommentType(COMMENT_TYPE_EDITOR_DECISION);
         $articleComment->setRoleId(ROLE_ID_AUTHOR);
         $articleComment->setArticleId($authorSubmission->getId());
         $articleComment->setAuthorId($authorSubmission->getUserId());
         $articleComment->setCommentTitle($email->getSubject());
         $articleComment->setComments($email->getBody());
         $articleComment->setDatePosted(Core::getCurrentDate());
         $articleComment->setViewable(true);
         $articleComment->setAssocId($authorSubmission->getId());
         $articleCommentDao->insertArticleComment($articleComment);
         return true;
     } else {
         if (!$request->getUserVar('continued')) {
             $email->setSubject($authorSubmission->getLocalizedTitle());
             if (!empty($editors)) {
                 foreach ($editors as $editor) {
                     $email->addRecipient($editor->getEmail(), $editor->getFullName());
                 }
             } else {
                 $email->addRecipient($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
             }
         }
         $email->displayEditForm(Request::url(null, null, 'emailEditorDecisionComment', 'send'), array('articleId' => $authorSubmission->getId()), 'submission/comment/editorDecisionEmail.tpl');
         return false;
     }
 }

 /**
  * Blind CC the reviews to reviewers.
  * @param $article object
  * @param $send boolean
  * @param $inhibitExistingEmail boolean
  * @return boolean true iff ready for redirect
  */
 function blindCcReviewsToReviewers($article, $send = false, $inhibitExistingEmail = false)
 {
     $commentDao =& DAORegistry::getDAO('ArticleCommentDAO');
     $reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $journal =& Request::getJournal();
     $comments =& $commentDao->getArticleComments($article->getId(), COMMENT_TYPE_EDITOR_DECISION);
     $reviewAssignments =& $reviewAssignmentDao->getBySubmissionId($article->getId(), $article->getCurrentRound());
     $commentsText = "";
     foreach ($comments as $comment) {
         $commentsText .= String::html2text($comment->getComments()) . "\n\n";
     }
     $user =& Request::getUser();
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($article, 'SUBMISSION_DECISION_REVIEWERS', null, null, null, true, true);
     if ($send && !$email->hasErrors() && !$inhibitExistingEmail) {
         HookRegistry::call('SectionEditorAction::blindCcReviewsToReviewers', array(&$article, &$reviewAssignments, &$email));
         $email->send();
         return true;
     } else {
         if ($inhibitExistingEmail || !Request::getUserVar('continued')) {
             $email->clearRecipients();
             foreach ($reviewAssignments as $reviewAssignment) {
                 if ($reviewAssignment->getDateCompleted() != null && !$reviewAssignment->getCancelled()) {
                     $reviewer =& $userDao->getUser($reviewAssignment->getReviewerId());
                     if (isset($reviewer)) {
                         $email->addBcc($reviewer->getEmail(), $reviewer->getFullName());
                     }
                 }
             }
             $paramArray = array('comments' => $commentsText, 'editorialContactSignature' => $user->getContactSignature());
             $email->assignParams($paramArray);
         }
         $email->displayEditForm(Request::url(null, null, 'blindCcReviewsToReviewers'), array('articleId' => $article->getId()));
         return false;
     }
 }

 /**
  * Marks layout assignment as completed.
  * @param $submission object
  * @param $send boolean
  */
 function completeLayoutEditing($submission, $send = false)
 {
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $userDao =& DAORegistry::getDAO('UserDAO');
     $journal =& Request::getJournal();
     $layoutSignoff = $signoffDao->build('SIGNOFF_LAYOUT', ASSOC_TYPE_ARTICLE, $submission->getArticleId());
     if ($layoutSignoff->getDateCompleted() != null) {
         return true;
     }
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($submission, 'LAYOUT_COMPLETE');
     $editAssignments =& $submission->getEditAssignments();
     if (empty($editAssignments)) {
         return;
     }
     if (!$email->isEnabled() || $send && !$email->hasErrors()) {
         HookRegistry::call('LayoutEditorAction::completeLayoutEditing', array(&$submission, &$editAssignments, &$email));
         if ($email->isEnabled()) {
             $email->setAssoc(ARTICLE_EMAIL_LAYOUT_NOTIFY_COMPLETE, ARTICLE_EMAIL_TYPE_LAYOUT, $layoutSignoff->getId());
             $email->send();
         }
         $layoutSignoff->setDateCompleted(Core::getCurrentDate());
         $signoffDao->updateObject($layoutSignoff);
         // Add log entry
         $user =& Request::getUser();
         import('classes.article.log.ArticleLog');
         import('classes.article.log.ArticleEventLogEntry');
         ArticleLog::logEvent($submission->getArticleId(), ARTICLE_LOG_LAYOUT_COMPLETE, ARTICLE_LOG_TYPE_LAYOUT, $user->getId(), 'log.layout.layoutEditComplete', array('editorName' => $user->getFullName(), 'articleId' => $submission->getArticleId()));
         return true;
     } else {
         $user =& Request::getUser();
         if (!Request::getUserVar('continued')) {
             $assignedSectionEditors = $email->toAssignedEditingSectionEditors($submission->getArticleId());
             $assignedEditors = $email->ccAssignedEditors($submission->getArticleId());
             if (empty($assignedSectionEditors) && empty($assignedEditors)) {
                 $email->addRecipient($journal->getSetting('contactEmail'), $journal->getSetting('contactName'));
                 $editorialContactName = $journal->getSetting('contactName');
             } else {
                 $editorialContact = array_shift($assignedSectionEditors);
                 if (!$editorialContact) {
                     $editorialContact = array_shift($assignedEditors);
                 }
                 $editorialContactName = $editorialContact->getEditorFullName();
             }
             $paramArray = array('editorialContactName' => $editorialContactName, 'layoutEditorName' => $user->getFullName());
             $email->assignParams($paramArray);
         }
         $email->displayEditForm(Request::url(null, 'layoutEditor', 'completeAssignment', 'send'), array('articleId' => $submission->getArticleId()));
         return false;
     }
 }

 /**
  * Proofread Emails
  * @param $articleId int
  * @param $mailType defined string - type of proofread mail being sent
  * @param $request object
  * @param $actionPath string - form action
  * @return true iff ready for a redirect
  */
 function proofreadEmail($articleId, $mailType, $request, $actionPath = '')
 {
     $signoffDao =& DAORegistry::getDAO('SignoffDAO');
     $sectionEditorSubmissionDao =& DAORegistry::getDAO('SectionEditorSubmissionDAO');
     $sectionEditorSubmission =& $sectionEditorSubmissionDao->getSectionEditorSubmission($articleId);
     $userDao =& DAORegistry::getDAO('UserDAO');
     $journal =& Request::getJournal();
     $user =& Request::getUser();
     $ccs = array();
     import('classes.mail.ArticleMailTemplate');
     $email = new ArticleMailTemplate($sectionEditorSubmission, $mailType);
     switch ($mailType) {
         case 'PROOFREAD_AUTHOR_REQUEST':
             $eventType = ARTICLE_EMAIL_PROOFREAD_NOTIFY_AUTHOR;
             $signoffType = 'SIGNOFF_PROOFREADING_AUTHOR';
             $setDateField = 'setDateNotified';
             $nullifyDateFields = array('setDateUnderway', 'setDateCompleted', 'setDateAcknowledged');
             $setUserId = $sectionEditorSubmission->getUserId();
             $receiver =& $userDao->getUser($setUserId);
             $setUserId = $receiver;
             if (!isset($receiver)) {
                 return true;
             }
             $receiverName = $receiver->getFullName();
             $receiverAddress = $receiver->getEmail();
             $email->ccAssignedEditingSectionEditors($sectionEditorSubmission->getId());
             $addParamArray = array('authorName' => $receiver->getFullName(), 'authorUsername' => $receiver->getUsername(), 'authorPassword' => $receiver->getPassword(), 'editorialContactSignature' => $user->getContactSignature(), 'submissionUrl' => Request::url(null, 'author', 'submissionEditing', $articleId));
             break;
         case 'PROOFREAD_AUTHOR_ACK':
             $eventType = ARTICLE_EMAIL_PROOFREAD_THANK_AUTHOR;
             $signoffType = 'SIGNOFF_PROOFREADING_AUTHOR';
             $setDateField = 'setDateAcknowledged';
             $receiver =& $userDao->getUser($sectionEditorSubmission->getUserId());
             if (!isset($receiver)) {
                 return true;
             }
             $receiverName = $receiver->getFullName();
             $receiverAddress = $receiver->getEmail();
             $email->ccAssignedEditingSectionEditors($sectionEditorSubmission->getId());
             $addParamArray = array('authorName' => $receiver->getFullName(), 'editorialContactSignature' => $user->getContactSignature());
             break;
         case 'PROOFREAD_AUTHOR_COMPLETE':
             $eventType = ARTICLE_EMAIL_PROOFREAD_NOTIFY_AUTHOR_COMPLETE;
             $signoffType = 'SIGNOFF_PROOFREADING_AUTHOR';
             $setDateField = 'setDateCompleted';
             $getDateField = 'getDateCompleted';
             $editAssignments =& $sectionEditorSubmission->getEditAssignments();
             $nextSignoff = $signoffDao->build('SIGNOFF_PROOFREADING_PROOFREADER', ASSOC_TYPE_ARTICLE, $articleId);
             if ($nextSignoff->getUserId() != 0) {
                 $setNextDateField = 'setDateNotified';
                 $proofreader =& $userDao->getUser($nextSignoff->getUserId());
                 $receiverName = $proofreader->getFullName();
                 $receiverAddress = $proofreader->getEmail();
                 $editorAdded = false;
                 foreach ($editAssignments as $editAssignment) {
                     if ($editAssignment->getIsEditor() || $editAssignment->getCanEdit()) {
                         $ccs[$editAssignment->getEditorEmail()] = $editAssignment->getEditorFullName();
                         $editorAdded = true;
                     }
                 }
                 if (!$editorAdded) {
                     $ccs[$journal->getSetting('contactEmail')] = $journal->getSetting('contactName');
                 }
             } else {
                 $editorAdded = false;
                 $assignmentIndex = 0;
                 foreach ($editAssignments as $editAssignment) {
                     if ($editAssignment->getIsEditor() || $editAssignment->getCanEdit()) {
                         if ($assignmentIndex++ == 0) {
                             $receiverName = $editAssignment->getEditorFullName();
                             $receiverAddress = $editAssignment->getEditorEmail();
                         } else {
                             $ccs[$editAssignment->getEditorEmail()] = $editAssignment->getEditorFullName();
                         }
                         $editorAdded = true;
                     }
                 }
                 if (!$editorAdded) {
                     $receiverAddress = $journal->getSetting('contactEmail');
                     $receiverName = $journal->getSetting('contactName');
                 }
             }
             $addParamArray = array('editorialContactName' => $receiverName, 'authorName' => $user->getFullName());
             break;
         case 'PROOFREAD_REQUEST':
             $eventType = ARTICLE_EMAIL_PROOFREAD_NOTIFY_PROOFREADER;
             $signoffType = 'SIGNOFF_PROOFREADING_PROOFREADER';
             $setDateField = 'setDateNotified';
             $nullifyDateFields = array('setDateUnderway', 'setDateCompleted', 'setDateAcknowledged');
             $receiver = $sectionEditorS