function _cacheMiss(&$cache, $id)
{
$allCodelistItems =& Registry::get('all' . $this->getListName() . 'CodelistItems', true, null);
if ($allCodelistItems === null) {
// Add a locale load to the debug notes.
$notes =& Registry::get('system.debug.notes');
$locale = $cache->cacheId;
if ($locale == null) {
$locale = AppLocale::getLocale();
}
$filename = $this->getFilename($locale);
$notes[] = array('debug.notes.codelistItemListLoad', array('filename' => $filename));
// Reload locale registry file
$xmlDao = new XMLDAO();
$listName = $this->getListName();
// i.e., 'List30'
import('lib.pkp.classes.codelist.ONIXParserDOMHandler');
$handler = new ONIXParserDOMHandler($listName);
import('lib.pkp.classes.xslt.XSLTransformer');
import('lib.pkp.classes.file.FileManager');
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$fileManager = new FileManager();
// Ensure that the temporary file dir exists
$tmpDir = $temporaryFileManager->getBasePath();
if (!file_exists($tmpDir)) {
mkdir($tmpDir);
}
$tmpName = tempnam($tmpDir, 'ONX');
$xslTransformer = new XSLTransformer();
$xslTransformer->setParameters(array('listName' => $listName));
$xslTransformer->setRegisterPHPFunctions(true);
$xslFile = 'lib/pkp/xml/onixFilter.xsl';
$filteredXml = $xslTransformer->transform($filename, XSL_TRANSFORMER_DOCTYPE_FILE, $xslFile, XSL_TRANSFORMER_DOCTYPE_FILE, XSL_TRANSFORMER_DOCTYPE_STRING);
if (!$filteredXml) {
assert(false);
}
$data = null;
if (is_writeable($tmpName)) {
$fp = fopen($tmpName, 'wb');
fwrite($fp, $filteredXml);
fclose($fp);
$data = $xmlDao->parseWithHandler($tmpName, $handler);
$fileManager->deleteFile($tmpName);
} else {
fatalError('misconfigured directory permissions on: ' . $tmpDir);
}
// Build array with ($charKey => array(stuff))
if (isset($data[$listName])) {
foreach ($data[$listName] as $code => $codelistData) {
$allCodelistItems[$code] = $codelistData;
}
}
if (is_array($allCodelistItems)) {
asort($allCodelistItems);
}
$cache->setEntireCache($allCodelistItems);
}
return null;
}
/**
* Upload a new cover image file.
* @param $args array
* @param $request PKPRequest
* @return JSONMessage JSON object
*/
function uploadCoverImage($args, $request)
{
$user = $request->getUser();
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId());
if ($temporaryFile) {
$json = new JSONMessage(true);
$json->setAdditionalAttributes(array('temporaryFileId' => $temporaryFile->getId()));
return $json;
} else {
return new JSONMessage(false, __('common.uploadFailed'));
}
}
/**
* Create a new temporary file from a paper file.
* @param $paperFile object
* @param $userId int
* @return object The new TemporaryFile or false on failure
*/
function paperToTemporaryFile($paperFile, $userId)
{
// Get the file extension, then rename the file.
$fileExtension = $this->parseFileExtension($paperFile->getFileName());
if (!$this->fileExists($this->filesDir, 'dir')) {
// Try to create destination directory
$this->mkdirtree($this->filesDir);
}
$newFileName = basename(tempnam($this->filesDir, $fileExtension));
if (!$newFileName) {
return false;
}
if (copy($paperFile->getFilePath(), $this->filesDir . $newFileName)) {
$temporaryFileDao =& DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = new TemporaryFile();
$temporaryFile->setUserId($userId);
$temporaryFile->setFileName($newFileName);
$temporaryFile->setFileType($paperFile->getFileType());
$temporaryFile->setFileSize($paperFile->getFileSize());
$temporaryFile->setOriginalFileName(TemporaryFileManager::truncateFileName($paperFile->getOriginalFileName(), 127));
$temporaryFile->setDateUploaded(Core::getCurrentDate());
$temporaryFileDao->insertTemporaryFile($temporaryFile);
return $temporaryFile;
} else {
return false;
}
}
function display(&$args, $request)
{
parent::display($args, $request);
$templateMgr =& TemplateManager::getManager();
$journal =& $request->getJournal();
switch (array_shift($args)) {
case 'export':
@set_time_limit(0);
$errors = array();
$success = $this->handleExport($journal, $errors);
if ($success === false) {
return $errors;
}
break;
case 'import':
AppLocale::requireComponents(LOCALE_COMPONENT_OJS_EDITOR, LOCALE_COMPONENT_OJS_AUTHOR);
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
if ($existingFileId = $request->getUserVar('temporaryFileId')) {
// The user has just entered more context. Fetch an existing file.
$temporaryFile = $temporaryFileManager->getFile($existingFileId, $user->getId());
} else {
$user = Request::getUser();
$temporaryFile = $temporaryFileManager->handleUpload('importFile', $user->getId());
}
if (!$temporaryFile) {
$templateMgr->assign('error', 'plugins.importexport.fullJournal.error.uploadFailed');
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
@set_time_limit(0);
$errors = array();
if ($this->handleImport($temporaryFile->getFilePath(), $errors)) {
return $templateMgr->display($this->getTemplatePath() . 'importSuccess.tpl');
} else {
$templateMgr->assign_by_ref('errors', $errors);
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
break;
default:
$this->setBreadcrumbs();
$templateMgr->display($this->getTemplatePath() . 'index.tpl');
}
}
/**
* Save the new library file
* @param $userId int The current user ID (for validation purposes)
*/
function execute($userId)
{
// Fetch the temporary file storing the uploaded library file
$temporaryFileDao =& DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile =& $temporaryFileDao->getTemporaryFile($this->getData('temporaryFileId'), $userId);
$libraryFileDao =& DAORegistry::getDAO('LibraryFileDAO');
$libraryFileManager = new LibraryFileManager($this->pressId);
// Convert the temporary file to a library file and store
$libraryFile =& $libraryFileManager->copyFromTemporaryFile($temporaryFile);
assert($libraryFile);
$libraryFile->setPressId($this->pressId);
$libraryFile->setName($this->getData('libraryFileName'), null);
// Localized
$libraryFile->setType($this->fileType);
$libraryFileDao->insertObject($libraryFile);
// Clean up the temporary file
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFileManager->deleteFile($this->getData('temporaryFileId'), $userId);
}
/**
* Save the new library file.
* @param $userId int The current user ID (for validation purposes).
* @return $fileId int The new library file id.
*/
function execute($userId)
{
// Fetch the temporary file storing the uploaded library file
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = $temporaryFileDao->getTemporaryFile($this->getData('temporaryFileId'), $userId);
$libraryFileDao = DAORegistry::getDAO('LibraryFileDAO');
$libraryFileManager = new LibraryFileManager($this->contextId);
// Convert the temporary file to a library file and store
$libraryFile = $libraryFileManager->copyFromTemporaryFile($temporaryFile, $this->getData('fileType'));
assert(isset($libraryFile));
$libraryFile->setContextId($this->contextId);
$libraryFile->setName($this->getData('libraryFileName'), null);
// Localized
$libraryFile->setType($this->getData('fileType'));
$fileId = $libraryFileDao->insertObject($libraryFile);
// Clean up the temporary file
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFileManager->deleteFile($this->getData('temporaryFileId'), $userId);
return $fileId;
}
/**
* Save the metadata and store the catalog data for this published
* monograph.
*/
function execute($request)
{
parent::execute();
$monograph = $this->getMonograph();
$monographDao = DAORegistry::getDAO('MonographDAO');
$publishedMonographDao = DAORegistry::getDAO('PublishedMonographDAO');
$publishedMonograph = $publishedMonographDao->getById($monograph->getId(), null, false);
/* @var $publishedMonograph PublishedMonograph */
$isExistingEntry = $publishedMonograph ? true : false;
if (!$publishedMonograph) {
$publishedMonograph = $publishedMonographDao->newDataObject();
$publishedMonograph->setId($monograph->getId());
}
// Populate the published monograph with the cataloging metadata
$publishedMonograph->setAudience($this->getData('audience'));
$publishedMonograph->setAudienceRangeQualifier($this->getData('audienceRangeQualifier'));
$publishedMonograph->setAudienceRangeFrom($this->getData('audienceRangeFrom'));
$publishedMonograph->setAudienceRangeTo($this->getData('audienceRangeTo'));
$publishedMonograph->setAudienceRangeExact($this->getData('audienceRangeExact'));
// If a cover image was uploaded, deal with it.
if ($temporaryFileId = $this->getData('temporaryFileId')) {
// Fetch the temporary file storing the uploaded library file
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = $temporaryFileDao->getTemporaryFile($temporaryFileId, $this->_userId);
$temporaryFilePath = $temporaryFile->getFilePath();
import('classes.file.SimpleMonographFileManager');
$simpleMonographFileManager = new SimpleMonographFileManager($monograph->getPressId(), $publishedMonograph->getId());
$basePath = $simpleMonographFileManager->getBasePath();
// Delete the old file if it exists
$oldSetting = $publishedMonograph->getCoverImage();
if ($oldSetting) {
$simpleMonographFileManager->deleteFile($basePath . $oldSetting['thumbnailName']);
$simpleMonographFileManager->deleteFile($basePath . $oldSetting['catalogName']);
$simpleMonographFileManager->deleteFile($basePath . $oldSetting['name']);
}
// The following variables were fetched in validation
assert($this->_sizeArray && $this->_imageExtension);
// Load the cover image for surrogate production
$cover = null;
// Scrutinizer
switch ($this->_imageExtension) {
case '.jpg':
$cover = imagecreatefromjpeg($temporaryFilePath);
break;
case '.png':
$cover = imagecreatefrompng($temporaryFilePath);
break;
case '.gif':
$cover = imagecreatefromgif($temporaryFilePath);
break;
}
assert(isset($cover));
// Copy the new file over (involves creating the appropriate subdirectory too)
$filename = 'cover' . $this->_imageExtension;
$simpleMonographFileManager->copyFile($temporaryFile->getFilePath(), $basePath . $filename);
// Generate surrogate images (thumbnail and catalog image)
$press = $request->getPress();
$coverThumbnailsMaxWidth = $press->getSetting('coverThumbnailsMaxWidth');
$coverThumbnailsMaxHeight = $press->getSetting('coverThumbnailsMaxHeight');
$thumbnailImageInfo = $this->_buildSurrogateImage($cover, $basePath, SUBMISSION_IMAGE_TYPE_THUMBNAIL, $coverThumbnailsMaxWidth, $coverThumbnailsMaxHeight);
$catalogImageInfo = $this->_buildSurrogateImage($cover, $basePath, SUBMISSION_IMAGE_TYPE_CATALOG);
// Clean up
imagedestroy($cover);
$publishedMonograph->setCoverImage(array('name' => $filename, 'width' => $this->_sizeArray[0], 'height' => $this->_sizeArray[1], 'thumbnailName' => $thumbnailImageInfo['filename'], 'thumbnailWidth' => $thumbnailImageInfo['width'], 'thumbnailHeight' => $thumbnailImageInfo['height'], 'catalogName' => $catalogImageInfo['filename'], 'catalogWidth' => $catalogImageInfo['width'], 'catalogHeight' => $catalogImageInfo['height'], 'uploadName' => $temporaryFile->getOriginalFileName(), 'dateUploaded' => Core::getCurrentDate()));
// Clean up the temporary file
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFileManager->deleteFile($temporaryFileId, $this->_userId);
}
if ($this->getData('attachPermissions')) {
$monograph->setCopyrightYear($this->getData('copyrightYear'));
$monograph->setCopyrightHolder($this->getData('copyrightHolder'), null);
// Localized
$monograph->setLicenseURL($this->getData('licenseURL'));
} else {
$monograph->setCopyrightYear(null);
$monograph->setCopyrightHolder(null, null);
$monograph->setLicenseURL(null);
}
$monographDao->updateObject($monograph);
// Update the modified fields or insert new.
if ($isExistingEntry) {
$publishedMonographDao->updateObject($publishedMonograph);
} else {
$publishedMonographDao->insertObject($publishedMonograph);
}
import('classes.publicationFormat.PublicationFormatTombstoneManager');
$publicationFormatTombstoneMgr = new PublicationFormatTombstoneManager();
$publicationFormatDao = DAORegistry::getDAO('PublicationFormatDAO');
$publicationFormatFactory = $publicationFormatDao->getBySubmissionId($monograph->getId());
$publicationFormats = $publicationFormatFactory->toAssociativeArray();
$notificationMgr = new NotificationManager();
if ($this->getData('confirm')) {
// Update the monograph status.
$monograph->setStatus(STATUS_PUBLISHED);
$monographDao->updateObject($monograph);
$publishedMonograph->setDatePublished(Core::getCurrentDate());
$publishedMonographDao->updateObject($publishedMonograph);
$notificationMgr->updateNotification($request, array(NOTIFICATION_TYPE_APPROVE_SUBMISSION), null, ASSOC_TYPE_MONOGRAPH, $publishedMonograph->getId());
// Remove publication format tombstones.
$publicationFormatTombstoneMgr->deleteTombstonesByPublicationFormats($publicationFormats);
// Update the search index for this published monograph.
import('classes.search.MonographSearchIndex');
MonographSearchIndex::indexMonographMetadata($monograph);
// Log the publication event.
import('lib.pkp.classes.log.SubmissionLog');
SubmissionLog::logEvent($request, $monograph, SUBMISSION_LOG_METADATA_PUBLISH, 'submission.event.metadataPublished');
} else {
if ($isExistingEntry) {
// Update the monograph status.
$monograph->setStatus(STATUS_QUEUED);
$monographDao->updateObject($monograph);
// Unpublish monograph.
$publishedMonograph->setDatePublished(null);
$publishedMonographDao->updateObject($publishedMonograph);
$notificationMgr->updateNotification($request, array(NOTIFICATION_TYPE_APPROVE_SUBMISSION), null, ASSOC_TYPE_MONOGRAPH, $publishedMonograph->getId());
// Create tombstones for each publication format.
$publicationFormatTombstoneMgr->insertTombstonesByPublicationFormats($publicationFormats, $request->getContext());
// Log the unpublication event.
import('lib.pkp.classes.log.SubmissionLog');
SubmissionLog::logEvent($request, $monograph, SUBMISSION_LOG_METADATA_UNPUBLISH, 'submission.event.metadataUnpublished');
}
}
}
/**
* 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);
}
/**
* Display the plugin.
* @param $args array
* @param $request PKPRequest
*/
function display($args, $request)
{
$templateMgr = TemplateManager::getManager($request);
$context = $request->getContext();
parent::display($args, $request);
$templateMgr->assign('plugin', $this);
switch (array_shift($args)) {
case 'index':
case '':
$templateMgr->display($this->getTemplatePath() . 'index.tpl');
break;
case 'uploadImportXML':
$user = $request->getUser();
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId());
if ($temporaryFile) {
$json = new JSONMessage(true);
$json->setAdditionalAttributes(array('temporaryFileId' => $temporaryFile->getId()));
} else {
$json = new JSONMessage(false, __('common.uploadFailed'));
}
return $json->getString();
case 'importBounce':
$json = new JSONMessage(true);
$json->setEvent('addTab', array('title' => __('plugins.importexport.users.results'), 'url' => $request->url(null, null, null, array('plugin', $this->getName(), 'import'), array('temporaryFileId' => $request->getUserVar('temporaryFileId')))));
return $json->getString();
case 'import':
$temporaryFileId = $request->getUserVar('temporaryFileId');
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$user = $request->getUser();
$temporaryFile = $temporaryFileDao->getTemporaryFile($temporaryFileId, $user->getId());
if (!$temporaryFile) {
$json = new JSONMessage(true, __('plugins.importexport.users.uploadFile'));
return $json->getString();
}
$temporaryFilePath = $temporaryFile->getFilePath();
$users = $this->importUsers(file_get_contents($temporaryFilePath), $context, $user);
$templateMgr->assign('users', $users);
$json = new JSONMessage(true, $templateMgr->fetch($this->getTemplatePath() . 'results.tpl'));
return $json->getString();
case 'export':
$exportXml = $this->exportUsers((array) $request->getUserVar('selectedUsers'), $request->getContext(), $request->getUser());
header('Content-type: application/xml');
echo $exportXml;
break;
case 'exportAllUsers':
$exportXml = $this->exportAllUsers($request->getContext(), $request->getUser());
header('Content-type: application/xml');
echo $exportXml;
break;
default:
$dispatcher = $request->getDispatcher();
$dispatcher->handle404();
}
}
/**
* Save settings.
*/
function execute($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);
}
/**
* Handle a child of the revision element
* @param $node DOMElement
* @param $submission Submission
* @param $submissionFile SubmissionFile
* @return string Filename for new file
*/
function handleRevisionChildElement($node, $submission, $submissionFile)
{
$deployment = $this->getDeployment();
$context = $deployment->getContext();
switch ($node->tagName) {
case 'id':
$this->parseIdentifier($node, $submissionFile);
break;
case 'name':
$locale = $node->getAttribute('locale');
if (empty($locale)) {
$locale = $context->getPrimaryLocale();
}
$submissionFile->setName($node->textContent, $locale);
break;
case 'href':
$submissionFile->setFileType($node->getAttribute('mime_type'));
// Allow wrappers to handle URLs
return $node->getAttribute('src');
break;
case 'embed':
$submissionFile->setFileType($node->getAttribute('mime_type'));
if (($e = $node->getAttribute('encoding')) != 'base64') {
fatalError('Unknown encoding "' . $e . '"!');
}
$temporaryFileManager = new TemporaryFileManager();
$temporaryFilename = tempnam($temporaryFileManager->getBasePath(), 'embed');
file_put_contents($temporaryFilename, base64_decode($node->textContent));
return $temporaryFilename;
break;
}
}
/**
* Handle a child of the revision element
* @param $node DOMElement
* @param $submission Submission
* @param $submissionFile SubmissionFile
* @return string Filename for new file
*/
function handleRevisionChildElement($node, $submission, $submissionFile)
{
switch ($node->tagName) {
case 'name':
$submissionFile->setName($node->textContent, $node->getAttribute('locale'));
break;
case 'remote':
$submissionFile->setFileType($node->getAttribute('mime_type'));
$src = $node->getAttribute('src');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFilename = tempnam($temporaryFileManager->getBasePath(), 'remote');
$temporaryFileManager->copyFile($src, $temporaryFilename);
return $temporaryFilename;
break;
case 'href':
$submissionFile->setFileType($node->getAttribute('mime_type'));
// Allow wrappers to handle URLs
return $node->getAttribute('src');
break;
case 'embed':
$submissionFile->setFileType($node->getAttribute('mime_type'));
if (($e = $node->getAttribute('encoding')) != 'base64') {
fatalError('Unknown encoding "' . $e . '"!');
}
$temporaryFileManager = new TemporaryFileManager();
$temporaryFilename = tempnam($temporaryFileManager->getBasePath(), 'embed');
file_put_contents($temporaryFilename, base64_decode($node->textContent));
return $temporaryFilename;
break;
}
}
/**
* Execute import/export tasks using the command-line interface.
* @param $args Parameters to the plugin
*/
function executeCLI($scriptName, &$args)
{
AppLocale::requireComponents(LOCALE_COMPONENT_APP_COMMON);
$filename = array_shift($args);
$username = array_shift($args);
if (!$filename || !$username) {
$this->usage($scriptName);
exit;
}
if (!file_exists($filename)) {
echo __('plugins.importexport.csv.fileDoesNotExist', array('filename' => $filename)) . "\n";
exit;
}
$data = file($filename);
if (is_array($data) && count($data) > 0) {
$userDao = DAORegistry::getDAO('UserDAO');
$user = $userDao->getByUsername($username);
if (!$user) {
echo __('plugins.importexport.csv.unknownUser', array('username' => $username)) . "\n";
exit;
}
$submissionDao = Application::getSubmissionDAO();
$authorDao = DAORegistry::getDAO('AuthorDAO');
$pressDao = Application::getContextDAO();
$userGroupDao = DAORegistry::getDAO('UserGroupDAO');
$seriesDao = DAORegistry::getDAO('SeriesDAO');
$publicationFormatDao = DAORegistry::getDAO('PublicationFormatDAO');
$submissionFileDao = DAORegistry::getDAO('SubmissionFileDAO');
import('lib.pkp.classes.submission.SubmissionFile');
// constants.
$genreDao = DAORegistry::getDAO('GenreDAO');
$publicationDateDao = DAORegistry::getDAO('PublicationDateDAO');
foreach ($data as $csvLine) {
// Format is:
// Press Path, Author string, title, series path, year, is_edited_volume, locale, URL to PDF, doi (optional)
list($pressPath, $authorString, $title, $seriesPath, $year, $isEditedVolume, $locale, $pdfUrl, $doi) = preg_split('/\\t/', $csvLine);
$press = $pressDao->getByPath($pressPath);
if ($press) {
$supportedLocales = $press->getSupportedSubmissionLocales();
if (!is_array($supportedLocales) || count($supportedLocales) < 1) {
$supportedLocales = array($press->getPrimaryLocale());
}
$authorGroup = $userGroupDao->getDefaultByRoleId($press->getId(), ROLE_ID_AUTHOR);
// we need a Genre for the files. Assume a key of MANUSCRIPT as a default.
$genre = $genreDao->getByKey('MANUSCRIPT', $press->getId());
if (!$genre) {
echo __('plugins.importexport.csv.noGenre') . "\n";
exit;
}
if (!$authorGroup) {
echo __('plugins.importexport.csv.noAuthorGroup', array('press' => $pressPath)) . "\n";
continue;
}
if (in_array($locale, $supportedLocales)) {
$submission = $submissionDao->newDataObject();
$submission->setContextId($press->getId());
$submission->setUserId($user->getId());
$submission->stampStatusModified();
$submission->setStatus(STATUS_PUBLISHED);
$submission->setWorkType($isEditedVolume == 1 ? WORK_TYPE_EDITED_VOLUME : WORK_TYPE_AUTHORED_WORK);
$submission->setCopyrightNotice($press->getLocalizedSetting('copyrightNotice'), $locale);
$submission->setLocale($locale);
$series = $seriesDao->getByPath($seriesPath, $press->getId());
if ($series) {
$submission->setSeriesId($series->getId());
} else {
echo __('plugins.importexport.csv.noSeries', array('seriesPath' => $seriesPath)) . "\n";
}
$submissionId = $submissionDao->insertObject($submission);
$contactEmail = $press->getContactEmail();
$authorString = trim($authorString, '"');
// remove double quotes if present.
$authors = preg_split('/,\\s*/', $authorString);
$firstAuthor = true;
foreach ($authors as $authorString) {
// Examine the author string. Best case is: First1 Last1 <*****@*****.**>, First2 Last2 <*****@*****.**>, etc
// But default to press email address based on press path if not present.
$firstName = $lastName = $emailAddress = null;
$authorString = trim($authorString);
// whitespace.
if (preg_match('/^(\\w+)(\\s+\\w+)?\\s*(<([^>]+)>)?$/', $authorString, $matches)) {
$firstName = $matches[1];
// Mandatory
if (count($matches) > 2) {
$lastName = $matches[2];
}
if (count($matches) == 5) {
$emailAddress = $matches[4];
} else {
$emailAddress = $contactEmail;
}
}
$author = $authorDao->newDataObject();
$author->setSubmissionId($submissionId);
$author->setUserGroupId($authorGroup->getId());
$author->setFirstName($firstName);
$author->setLastName($lastName);
$author->setEmail($emailAddress);
if ($firstAuthor) {
$author->setPrimaryContact(1);
$firstAuthor = false;
}
$authorDao->insertObject($author);
}
// Authors done.
$submission->setTitle($title, $locale);
$submissionDao->updateObject($submission);
// Submission is done. Create a publication format for it.
$publicationFormat = $publicationFormatDao->newDataObject();
$publicationFormat->setPhysicalFormat(false);
$publicationFormat->setIsApproved(true);
$publicationFormat->setIsAvailable(true);
$publicationFormat->setSubmissionId($submissionId);
$publicationFormat->setProductAvailabilityCode('20');
// ONIX code for Available.
$publicationFormat->setEntryKey('DA');
// ONIX code for Digital
$publicationFormat->setData('name', 'PDF', $submission->getLocale());
$publicationFormat->setSequence(REALLY_BIG_NUMBER);
$publicationFormatId = $publicationFormatDao->insertObject($publicationFormat);
if ($doi) {
$publicationFormat->setStoredPubId('doi', $doi);
}
$publicationFormatDao->updateObject($publicationFormat);
// Create a publication format date for this publication format.
$publicationDate = $publicationDateDao->newDataObject();
$publicationDate->setDateFormat('05');
// List55, YYYY
$publicationDate->setRole('01');
// List163, Publication Date
$publicationDate->setDate($year);
$publicationDate->setPublicationFormatId($publicationFormatId);
$publicationDateDao->insertObject($publicationDate);
// Submission File.
import('lib.pkp.classes.file.TemporaryFileManager');
import('lib.pkp.classes.file.FileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFilename = tempnam($temporaryFileManager->getBasePath(), 'remote');
$temporaryFileManager->copyFile($pdfUrl, $temporaryFilename);
$submissionFile = $submissionFileDao->newDataObjectByGenreId($genre->getId());
$submissionFile->setSubmissionId($submissionId);
$submissionFile->setGenreId($genre->getId());
$submissionFile->setFileStage(SUBMISSION_FILE_PROOF);
$submissionFile->setDateUploaded(Core::getCurrentDate());
$submissionFile->setDateModified(Core::getCurrentDate());
$submissionFile->setAssocType(ASSOC_TYPE_REPRESENTATION);
$submissionFile->setAssocId($publicationFormatId);
$submissionFile->setFileType('application/pdf');
// Assume open access, no price.
$submissionFile->setDirectSalesPrice(0);
$submissionFile->setSalesType('openAccess');
$submissionFileDao->insertObject($submissionFile, $temporaryFilename);
$fileManager = new FileManager();
$fileManager->deleteFile($temporaryFilename);
echo __('plugins.importexport.csv.import.submission', array('title' => $title)) . "\n";
} else {
echo __('plugins.importexport.csv.unknownLocale', array('locale' => $locale)) . "\n";
}
} else {
echo __('plugins.importexport.csv.unknownPress', array('pressPath' => $pressPath)) . "\n";
}
}
}
}
/**
* Output PDF generated from the XML/XSL/FO source to browser
* This function performs any necessary filtering, like image URL replacement.
* @return string
*/
function viewFileContents()
{
import('lib.pkp.classes.file.FileManager');
$fileManager = new FileManager();
$pdfFileName = CacheManager::getFileCachePath() . DIRECTORY_SEPARATOR . 'fc-xsltGalley-' . str_replace($fileManager->parseFileExtension($this->getFileName()), 'pdf', $this->getFileName());
// if file does not exist or is outdated, regenerate it from FO
if (!$fileManager->fileExists($pdfFileName) || filemtime($pdfFileName) < filemtime($this->getFilePath())) {
// render XML into XSL-FO
$cache =& $this->_getXSLTCache($this->getFileName() . '-' . $this->getId());
$contents = $cache->getContents();
if ($contents == "") {
return false;
}
// if for some reason the XSLT failed, show original file
// Replace image references
$images =& $this->getImageFiles();
if ($images !== null) {
// TODO: this should "smart replace" the file path ($this->getFilePath()) in the XSL-FO
// in lieu of requiring XSL parameters, and transparently for FO that are hardcoded
foreach ($images as $image) {
$contents = preg_replace('/src\\s*=\\s*"([^"]*)' . preg_quote($image->getOriginalFileName()) . '([^"]*)"/i', 'src="${1}' . dirname($this->getFilePath()) . DIRECTORY_SEPARATOR . $image->getFileName() . '$2"', $contents);
}
}
// Replace supplementary file references
$this->suppFileDao =& DAORegistry::getDAO('SuppFileDAO');
$suppFiles = $this->suppFileDao->getSuppFilesByArticle($this->getArticleId());
if ($suppFiles) {
$journal =& Request::getJournal();
foreach ($suppFiles as $supp) {
$suppUrl = Request::url(null, 'article', 'downloadSuppFile', array($this->getArticleId(), $supp->getBestSuppFileId($journal)));
$contents = preg_replace('/external-destination\\s*=\\s*"([^"]*)' . preg_quote($supp->getOriginalFileName()) . '([^"]*)"/i', 'external-destination="' . $suppUrl . '"', $contents);
}
}
// create temporary FO file and write the contents
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$tempFoName = $temporaryFileManager->filesDir . $this->getFileName() . '-' . $this->getId() . '.fo';
$temporaryFileManager->writeFile($tempFoName, $contents);
// perform %fo and %pdf replacements for fully-qualified shell command
$journal =& Request::getJournal();
$xmlGalleyPlugin =& PluginRegistry::getPlugin('generic', $this->parentPluginName);
$fopCommand = str_replace(array('%fo', '%pdf'), array($tempFoName, $pdfFileName), $xmlGalleyPlugin->getSetting($journal->getId(), 'externalFOP'));
// check for safe mode and escape the shell command
if (!ini_get('safe_mode')) {
$fopCommand = escapeshellcmd($fopCommand);
}
// run the shell command and get the results
exec($fopCommand . ' 2>&1', $contents, $status);
// if there is an error, spit out the shell results to aid debugging
if ($status != false) {
if ($contents != '') {
echo implode("\n", $contents);
$cache->flush();
// clear the XSL cache in case it's a FO error
return true;
} else {
return false;
}
}
// clear the temporary FO file
$fileManager->deleteFile($tempFoName);
}
// use FileManager to send file to browser
$fileManager->downloadFile($pdfFileName, $this->getFileType(), true);
return true;
}
/**
* Display the plugin.
* @param $args array
* @param $request PKPRequest
*/
function display($args, $request)
{
$templateMgr = TemplateManager::getManager($request);
$press = $request->getPress();
parent::display($args, $request);
$templateMgr->assign('plugin', $this);
switch (array_shift($args)) {
case 'index':
case '':
$templateMgr->display($this->getTemplatePath() . 'index.tpl');
break;
case 'uploadImportXML':
$user = $request->getUser();
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId());
if ($temporaryFile) {
$json = new JSONMessage(true);
$json->setAdditionalAttributes(array('temporaryFileId' => $temporaryFile->getId()));
} else {
$json = new JSONMessage(false, __('common.uploadFailed'));
}
return $json->getString();
case 'importBounce':
$json = new JSONMessage(true);
$json->setEvent('addTab', array('title' => __('plugins.importexport.native.results'), 'url' => $request->url(null, null, null, array('plugin', $this->getName(), 'import'), array('temporaryFileId' => $request->getUserVar('temporaryFileId')))));
return $json->getString();
case 'import':
AppLocale::requireComponents(LOCALE_COMPONENT_PKP_SUBMISSION);
$temporaryFileId = $request->getUserVar('temporaryFileId');
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$user = $request->getUser();
$temporaryFile = $temporaryFileDao->getTemporaryFile($temporaryFileId, $user->getId());
if (!$temporaryFile) {
$json = new JSONMessage(true, __('plugins.inportexport.native.uploadFile'));
return $json->getString();
}
$temporaryFilePath = $temporaryFile->getFilePath();
$deployment = new NativeImportExportDeployment($press, $user);
libxml_use_internal_errors(true);
$submissions = $this->importSubmissions(file_get_contents($temporaryFilePath), $deployment);
$templateMgr->assign('submissions', $submissions);
$validationErrors = array_filter(libxml_get_errors(), create_function('$a', 'return $a->level == LIBXML_ERR_ERROR || $a->level == LIBXML_ERR_FATAL;'));
$templateMgr->assign('validationErrors', $validationErrors);
libxml_clear_errors();
// Are there any submissions import errors
$processedSubmissionsIds = $deployment->getProcessedObjectsIds(ASSOC_TYPE_SUBMISSION);
if (!empty($processedSubmissionsIds)) {
$submissionsErrors = array_filter($processedSubmissionsIds, create_function('$a', 'return !empty($a);'));
if (!empty($submissionsErrors)) {
$templateMgr->assign('submissionsErrors', $processedSubmissionsIds);
}
}
// If there are any submissions or validataion errors
// delete imported submissions.
if (!empty($submissionsErrors) || !empty($validationErrors)) {
// remove all imported sumissions
$deployment->removeImportedObjects(ASSOC_TYPE_SUBMISSION);
}
// Display the results
$json = new JSONMessage(true, $templateMgr->fetch($this->getTemplatePath() . 'results.tpl'));
return $json->getString();
case 'export':
$exportXml = $this->exportSubmissions((array) $request->getUserVar('selectedSubmissions'), $request->getContext(), $request->getUser());
import('lib.pkp.classes.file.FileManager');
$fileManager = new FileManager();
$exportFileName = $this->getExportFileName($this->getExportPath(), 'monographs', $press, '.xml');
$fileManager->writeFile($exportFileName, $exportXml);
$fileManager->downloadFile($exportFileName);
$fileManager->deleteFile($exportFileName);
break;
default:
$dispatcher = $request->getDispatcher();
$dispatcher->handle404();
}
}
/**
* Save series.
* @param $args array
* @param $request PKPRequest
*/
function execute($args, $request)
{
$seriesDao = DAORegistry::getDAO('SeriesDAO');
$press = $request->getPress();
// Get or create the series object
if ($this->getSeriesId()) {
$series = $seriesDao->getById($this->getSeriesId(), $press->getId());
} else {
$series = $seriesDao->newDataObject();
$series->setPressId($press->getId());
}
// Populate/update the series object from the form
$series->setPath($this->getData('path'));
$series->setFeatured($this->getData('featured'));
$series->setTitle($this->getData('title'), null);
// Localized
$series->setDescription($this->getData('description'), null);
// Localized
$series->setPrefix($this->getData('prefix'), null);
// Localized
$series->setSubtitle($this->getData('subtitle'), null);
// Localized
$series->setEditorRestricted($this->getData('restricted'));
$series->setOnlineISSN($this->getData('onlineIssn'));
$series->setPrintISSN($this->getData('printIssn'));
$series->setSortOption($this->getData('sortOption'));
// Insert or update the series in the DB
if ($this->getSeriesId()) {
$seriesDao->updateObject($series);
} else {
$this->setSeriesId($seriesDao->insertObject($series));
}
// Handle the image upload if there was one.
if ($temporaryFileId = $this->getData('temporaryFileId')) {
// Fetch the temporary file storing the uploaded library file
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = $temporaryFileDao->getTemporaryFile($temporaryFileId, $this->_userId);
$temporaryFilePath = $temporaryFile->getFilePath();
import('lib.pkp.classes.file.ContextFileManager');
$pressFileManager = new ContextFileManager($press->getId());
$basePath = $pressFileManager->getBasePath() . '/series/';
// Delete the old file if it exists
$oldSetting = $series->getImage();
if ($oldSetting) {
$pressFileManager->deleteFile($basePath . $oldSetting['thumbnailName']);
$pressFileManager->deleteFile($basePath . $oldSetting['name']);
}
// The following variables were fetched in validation
assert($this->_sizeArray && $this->_imageExtension);
// Generate the surrogate image.
switch ($this->_imageExtension) {
case '.jpg':
$image = imagecreatefromjpeg($temporaryFilePath);
break;
case '.png':
$image = imagecreatefrompng($temporaryFilePath);
break;
case '.gif':
$image = imagecreatefromgif($temporaryFilePath);
break;
default:
$image = null;
// Suppress warn
}
assert($image);
$coverThumbnailsMaxWidth = $press->getSetting('coverThumbnailsMaxWidth');
$coverThumbnailsMaxHeight = $press->getSetting('coverThumbnailsMaxHeight');
$thumbnailFilename = $series->getId() . '-series-thumbnail' . $this->_imageExtension;
$xRatio = min(1, $coverThumbnailsMaxWidth / $this->_sizeArray[0]);
$yRatio = min(1, $coverThumbnailsMaxHeight / $this->_sizeArray[1]);
$ratio = min($xRatio, $yRatio);
$thumbnailWidth = round($ratio * $this->_sizeArray[0]);
$thumbnailHeight = round($ratio * $this->_sizeArray[1]);
$thumbnail = imagecreatetruecolor($thumbnailWidth, $thumbnailHeight);
imagecopyresampled($thumbnail, $image, 0, 0, 0, 0, $thumbnailWidth, $thumbnailHeight, $this->_sizeArray[0], $this->_sizeArray[1]);
// Copy the new file over
$filename = $series->getId() . '-series' . $this->_imageExtension;
$pressFileManager->copyFile($temporaryFile->getFilePath(), $basePath . $filename);
switch ($this->_imageExtension) {
case '.jpg':
imagejpeg($thumbnail, $basePath . $thumbnailFilename);
break;
case '.png':
imagepng($thumbnail, $basePath . $thumbnailFilename);
break;
case '.gif':
imagegif($thumbnail, $basePath . $thumbnailFilename);
break;
}
imagedestroy($thumbnail);
imagedestroy($image);
$series->setImage(array('name' => $filename, 'width' => $this->_sizeArray[0], 'height' => $this->_sizeArray[1], 'thumbnailName' => $thumbnailFilename, 'thumbnailWidth' => $thumbnailWidth, 'thumbnailHeight' => $thumbnailHeight, 'uploadName' => $temporaryFile->getOriginalFileName(), 'dateUploaded' => Core::getCurrentDate()));
// Clean up the temporary file
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFileManager->deleteFile($temporaryFileId, $this->_userId);
}
// Update series object to store image information.
$seriesDao->updateObject($series);
import('lib.pkp.classes.controllers.listbuilder.ListbuilderHandler');
// Save the series editor associations.
ListbuilderHandler::unpack($request, $this->getData('subEditors'), array(&$this, 'deleteSubEditorEntry'), array(&$this, 'insertSubEditorEntry'), array(&$this, 'updateSubEditorEntry'));
// Save the category associations.
ListbuilderHandler::unpack($request, $this->getData('categories'), array(&$this, 'deleteCategoryEntry'), array(&$this, 'insertCategoryEntry'), array(&$this, 'updateCategoryEntry'));
return true;
}
/**
* Upload a plugin file.
* @param $args array
* @param $request PKPRequest
* @return JSONMessage JSON object
*/
function uploadPluginFile($args, $request)
{
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$user = $request->getUser();
// Return the temporary file id.
if ($temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId())) {
$json = new JSONMessage(true);
$json->setAdditionalAttributes(array('temporaryFileId' => $temporaryFile->getId()));
return $json;
} else {
return new JSONMessage(false, __('manager.plugins.uploadError'));
}
}
/**
* @see Form::execute()
*/
function execute($request)
{
$categoryId = $this->getCategoryId();
$categoryDao = DAORegistry::getDAO('CategoryDAO');
// Get a category object to edit or create
if ($categoryId == null) {
$category = $categoryDao->newDataObject();
$category->setPressId($this->getPressId());
} else {
$category = $categoryDao->getById($categoryId, $this->getPressId());
}
// Set the editable properties of the category object
$category->setTitle($this->getData('name'), null);
// Localized
$category->setDescription($this->getData('description'), null);
// Localized
$category->setParentId($this->getData('parentId'));
$category->setPath($this->getData('path'));
$category->setSortOption($this->getData('sortOption'));
// Update or insert the category object
if ($categoryId == null) {
$category->setId($categoryDao->insertObject($category));
} else {
$category->setSequence(REALLY_BIG_NUMBER);
$categoryDao->updateObject($category);
$categoryDao->resequenceCategories($this->getPressId());
}
// Handle the image upload if there was one.
if ($temporaryFileId = $this->getData('temporaryFileId')) {
// Fetch the temporary file storing the uploaded library file
$temporaryFileDao = DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = $temporaryFileDao->getTemporaryFile($temporaryFileId, $this->_userId);
$temporaryFilePath = $temporaryFile->getFilePath();
import('lib.pkp.classes.file.ContextFileManager');
$pressFileManager = new ContextFileManager($this->getPressId());
$basePath = $pressFileManager->getBasePath() . '/categories/';
// Delete the old file if it exists
$oldSetting = $category->getImage();
if ($oldSetting) {
$pressFileManager->deleteFile($basePath . $oldSetting['thumbnailName']);
$pressFileManager->deleteFile($basePath . $oldSetting['name']);
}
// The following variables were fetched in validation
assert($this->_sizeArray && $this->_imageExtension);
// Generate the surrogate images.
switch ($this->_imageExtension) {
case '.jpg':
$image = imagecreatefromjpeg($temporaryFilePath);
break;
case '.png':
$image = imagecreatefrompng($temporaryFilePath);
break;
case '.gif':
$image = imagecreatefromgif($temporaryFilePath);
break;
default:
$image = null;
// Suppress warn
}
assert($image);
$press = $request->getPress();
$coverThumbnailsMaxWidth = $press->getSetting('coverThumbnailsMaxWidth');
$coverThumbnailsMaxHeight = $press->getSetting('coverThumbnailsMaxHeight');
$thumbnailFilename = $category->getId() . '-category-thumbnail' . $this->_imageExtension;
$xRatio = min(1, $coverThumbnailsMaxWidth / $this->_sizeArray[0]);
$yRatio = min(1, $coverThumbnailsMaxHeight / $this->_sizeArray[1]);
$ratio = min($xRatio, $yRatio);
$thumbnailWidth = round($ratio * $this->_sizeArray[0]);
$thumbnailHeight = round($ratio * $this->_sizeArray[1]);
$thumbnail = imagecreatetruecolor($thumbnailWidth, $thumbnailHeight);
imagecopyresampled($thumbnail, $image, 0, 0, 0, 0, $thumbnailWidth, $thumbnailHeight, $this->_sizeArray[0], $this->_sizeArray[1]);
// Copy the new file over
$filename = $category->getId() . '-category' . $this->_imageExtension;
$pressFileManager->copyFile($temporaryFile->getFilePath(), $basePath . $filename);
switch ($this->_imageExtension) {
case '.jpg':
imagejpeg($thumbnail, $basePath . $thumbnailFilename);
break;
case '.png':
imagepng($thumbnail, $basePath . $thumbnailFilename);
break;
case '.gif':
imagegif($thumbnail, $basePath . $thumbnailFilename);
break;
}
imagedestroy($thumbnail);
imagedestroy($image);
$category->setImage(array('name' => $filename, 'width' => $this->_sizeArray[0], 'height' => $this->_sizeArray[1], 'thumbnailName' => $thumbnailFilename, 'thumbnailWidth' => $thumbnailWidth, 'thumbnailHeight' => $thumbnailHeight, 'uploadName' => $temporaryFile->getOriginalFileName(), 'dateUploaded' => Core::getCurrentDate()));
// Clean up the temporary file
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFileManager->deleteFile($temporaryFileId, $this->_userId);
}
// Update category object to store image information.
$categoryDao->updateObject($category);
return $category;
}
/**
* Decompress uploaded plugin and install in the correct plugin directory.
* $param function string type of operation to perform after upload ('upgrade' or 'install')
*/
function uploadPlugin($function)
{
$templateMgr =& TemplateManager::getManager();
$this->setupTemplate(true);
$templateMgr->assign('error', false);
$templateMgr->assign('uploaded', false);
$templateMgr->assign('path', $function);
$templateMgr->assign('pageHierarchy', PluginManagementHandler::setBreadcrumbs(true));
if (Request::getUserVar('uploadPlugin')) {
import('file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$user =& Request::getUser();
if ($temporaryFile = $temporaryFileManager->handleUpload('newPlugin', $user->getId())) {
// tar archive basename must equal plugin directory name, and plugin files must be in root directory
$pluginName = basename($temporaryFile->getOriginalFileName(), '.tar.gz');
$pluginDir = dirname($temporaryFile->getFilePath());
exec('tar -xzf ' . escapeshellarg($temporaryFile->getFilePath()) . ' -C ' . escapeshellarg($pluginDir));
if ($function == 'install') {
PluginManagementHandler::installPlugin($pluginDir . DIRECTORY_SEPARATOR . $pluginName, $templateMgr);
} else {
if ($function == 'upgrade') {
PluginManagementHandler::upgradePlugin($pluginDir . DIRECTORY_SEPARATOR . $pluginName, $templateMgr);
}
}
} else {
$templateMgr->assign('error', true);
$templateMgr->assign('message', 'manager.plugins.uploadError');
}
} else {
if (Request::getUserVar('installPlugin')) {
if (Request::getUserVar('pluginUploadLocation') == '') {
$templateMgr->assign('error', true);
$templateMgr->assign('message', 'manager.plugins.fileSelectError');
}
}
}
$templateMgr->display('manager/plugins/managePlugins.tpl');
}
/**
* Email editor decision comment
* @param $sectionEditorSubmission object
* @param $send boolean
*/
function emailEditorDecisionComment($sectionEditorSubmission, $send)
{
$userDao =& DAORegistry::getDAO('UserDAO');
$articleCommentDao =& DAORegistry::getDAO('ArticleCommentDAO');
$sectionEditorSubmissionDao =& DAORegistry::getDAO('SectionEditorSubmissionDAO');
$journal =& Request::getJournal();
$user =& Request::getUser();
import('classes.mail.ArticleMailTemplate');
$decisionTemplateMap = array(SUBMISSION_SECTION_DECISION_APPROVED => 'SECTION_DECISION_APPROVED', SUBMISSION_SECTION_DECISION_RESUBMIT => 'SECTION_DECISION_RESUBMIT', SUBMISSION_SECTION_DECISION_INCOMPLETE => 'SECTION_DECISION_INCOMPLETE', SUBMISSION_SECTION_DECISION_DECLINED => 'SECTION_DECISION_DECLINE', SUBMISSION_SECTION_DECISION_EXEMPTED => 'SECTION_DECISION_EXEMPT');
$decision = $sectionEditorSubmission->getLastSectionDecision();
if ($decision->getDecision() == SUBMISSION_SECTION_DECISION_APPROVED && $decision->getReviewType() == REVIEW_TYPE_FR) {
$email = new ArticleMailTemplate($sectionEditorSubmission, null, 'SECTION_DECISION_FR_APPROVED');
} elseif ($decision->getDecision() == SUBMISSION_SECTION_DECISION_EXEMPTED && $decision->getComments() == null) {
return true;
} else {
$email = new ArticleMailTemplate($sectionEditorSubmission, null, isset($decisionTemplateMap[$decision->getDecision()]) ? $decisionTemplateMap[$decision->getDecision()] : null);
}
$copyeditor = $sectionEditorSubmission->getUserBySignoffType('SIGNOFF_COPYEDITING_INITIAL');
if ($send && !$email->hasErrors()) {
HookRegistry::call('SectionEditorAction::emailEditorDecisionComment', array(&$sectionEditorSubmission, &$send));
$email->send();
$articleComment = new ArticleComment();
$articleComment->setCommentType(COMMENT_TYPE_SECTION_DECISION);
$articleComment->setRoleId(Validation::isEditor() ? ROLE_ID_EDITOR : ROLE_ID_SECTION_EDITOR);
$articleComment->setArticleId($sectionEditorSubmission->getArticleId());
$articleComment->setAuthorId($user->getUserId());
$articleComment->setCommentTitle($email->getSubject());
$articleComment->setComments($email->getBody());
$articleComment->setDatePosted(Core::getCurrentDate());
$articleComment->setViewable(true);
$articleComment->setAssocId($sectionEditorSubmission->getArticleId());
$articleCommentDao->insertArticleComment($articleComment);
return true;
} else {
if (!Request::getUserVar('continued')) {
$authorUser =& $userDao->getUser($sectionEditorSubmission->getUserId());
$authorEmail = $authorUser->getEmail();
$email->assignParams(array('editorialContactSignature' => $user->getContactSignature(), 'authorName' => $authorUser->getFullName(), 'urlOngoing' => Request::url(null, 'author', 'index', 'ongoingResearches'), 'urlDrafts' => Request::url(null, 'author', 'index', 'proposalsToSubmit'), 'url' => Request::url(null, 'author', 'submissionReview', $sectionEditorSubmission->getArticleId()), 'reviewType' => Locale::translate($decision->getReviewTypeKey()), 'journalTitle' => $journal->getLocalizedTitle()));
$email->addRecipient($authorEmail, $authorUser->getFullName());
if ($journal->getSetting('notifyAllAuthorsOnDecision')) {
foreach ($sectionEditorSubmission->getAuthors() as $author) {
if ($author->getEmail() != $authorEmail) {
$email->addCc($author->getEmail(), $author->getFullName());
}
}
}
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$decisionFiles =& $decision->getDecisionFiles();
foreach ($decisionFiles as $file) {
if ($file) {
$temporaryFile = $temporaryFileManager->articleToTemporaryFile($file, $user->getId());
$email->addPersistAttachment($temporaryFile);
}
}
} elseif (Request::getUserVar('importPeerReviews')) {
$reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
$reviewAssignments =& $reviewAssignmentDao->getByDecisionId($sectionEditorSubmission->getLastSectionDecisionId());
$reviewIndexes =& $reviewAssignmentDao->getReviewIndexesForDecision($sectionEditorSubmission->getLastSectionDecisionId());
$body = '';
foreach ($reviewAssignments as $reviewAssignment) {
// If the reviewer has completed the assignment, then import the review.
if ($reviewAssignment->getDateCompleted() != null && !$reviewAssignment->getCancelled()) {
// Get the comments associated with this review assignment
$articleComments =& $articleCommentDao->getArticleComments($sectionEditorSubmission->getArticleId(), COMMENT_TYPE_PEER_REVIEW, $reviewAssignment->getId());
if ($articleComments) {
$body .= "------------------------------------------------------\n";
$body .= Locale::translate('submission.comments.importPeerReviews.reviewerLetter', array('reviewerLetter' => chr(ord('A') + $reviewIndexes[$reviewAssignment->getId()]))) . "\n";
if (is_array($articleComments)) {
foreach ($articleComments as $comment) {
// If the comment is viewable by the author, then add the comment.
if ($comment->getViewable()) {
$body .= String::html2text($comment->getComments()) . "\n\n";
}
}
}
$body .= "------------------------------------------------------\n\n";
}
if ($reviewFormId = $reviewAssignment->getReviewFormId()) {
$reviewId = $reviewAssignment->getId();
$reviewFormResponseDao =& DAORegistry::getDAO('ReviewFormResponseDAO');
$reviewFormElementDao =& DAORegistry::getDAO('ReviewFormElementDAO');
$reviewFormElements =& $reviewFormElementDao->getReviewFormElements($reviewFormId);
if (!$articleComments) {
$body .= "------------------------------------------------------\n";
$body .= Locale::translate('submission.comments.importPeerReviews.reviewerLetter', array('reviewerLetter' => chr(ord('A') + $reviewIndexes[$reviewAssignment->getId()]))) . "\n\n";
}
foreach ($reviewFormElements as $reviewFormElement) {
if ($reviewFormElement->getIncluded()) {
$body .= String::html2text($reviewFormElement->getLocalizedQuestion()) . ": \n";
$reviewFormResponse = $reviewFormResponseDao->getReviewFormResponse($reviewId, $reviewFormElement->getId());
if ($reviewFormResponse) {
$possibleResponses = $reviewFormElement->getLocalizedPossibleResponses();
if (in_array($reviewFormElement->getElementType(), $reviewFormElement->getMultipleResponsesElementTypes())) {
if ($reviewFormElement->getElementType() == REVIEW_FORM_ELEMENT_TYPE_CHECKBOXES) {
foreach ($reviewFormResponse->getValue() as $value) {
$body .= "\t" . String::html2text($possibleResponses[$value - 1]['content']) . "\n";
}
} else {
$body .= "\t" . String::html2text($possibleResponses[$reviewFormResponse->getValue() - 1]['content']) . "\n";
}
$body .= "\n";
} else {
$body .= "\t" . String::html2text($reviewFormResponse->getValue()) . "\n\n";
}
}
}
}
$body .= "------------------------------------------------------\n\n";
}
}
}
$oldBody = $email->getBody();
if (!empty($oldBody)) {
$oldBody .= "\n";
}
$email->setBody($oldBody . $body);
}
$email->displayEditForm(Request::url(null, null, 'emailEditorDecisionComment', 'send'), array('articleId' => $sectionEditorSubmission->getArticleId()), 'submission/comment/editorDecisionEmail.tpl', array('isAnEditor' => true));
return false;
}
}
function display(&$args)
{
$templateMgr =& TemplateManager::getManager();
$request =& $this->getRequest();
parent::display($args);
$conference =& $request->getConference();
$schedConf =& $request->getSchedConf();
switch (array_shift($args)) {
case 'exportPaper':
$paperIds = array(array_shift($args));
$result = array_shift(PaperSearch::formatResults($paperIds));
$this->exportPaper($schedConf, $result['track'], $result['publishedPaper']);
break;
case 'exportPapers':
$paperIds = $request->getUserVar('paperId');
if (!isset($paperIds)) {
$paperIds = array();
}
$results =& PaperSearch::formatResults($paperIds);
$this->exportPapers($results);
break;
case 'papers':
// Display a list of papers for export
$this->setBreadcrumbs(array(), true);
$publishedPaperDao = DAORegistry::getDAO('PublishedPaperDAO');
$rangeInfo = Handler::getRangeInfo($request, 'papers');
$paperIds = $publishedPaperDao->getPublishedPaperIdsAlphabetizedBySchedConf($conference->getId(), $schedConf->getId());
$totalPapers = count($paperIds);
if ($rangeInfo->isValid()) {
$paperIds = array_slice($paperIds, $rangeInfo->getCount() * ($rangeInfo->getPage() - 1), $rangeInfo->getCount());
}
import('lib.pkp.classes.core.VirtualArrayIterator');
$iterator = new VirtualArrayIterator(PaperSearch::formatResults($paperIds), $totalPapers, $rangeInfo->getPage(), $rangeInfo->getCount());
$templateMgr->assign_by_ref('papers', $iterator);
$templateMgr->display($this->getTemplatePath() . 'papers.tpl');
break;
case 'import':
import('classes.file.TemporaryFileManager');
$trackDao = DAORegistry::getDAO('TrackDAO');
$user =& $request->getUser();
$temporaryFileManager = new TemporaryFileManager();
if ($existingFileId = $request->getUserVar('temporaryFileId')) {
// The user has just entered more context. Fetch an existing file.
$temporaryFile = $temporaryFileManager->getFile($existingFileId, $user->getId());
} else {
$temporaryFile = $temporaryFileManager->handleUpload('importFile', $user->getId());
}
$context = array('conference' => $conference, 'schedConf' => $schedConf, 'user' => $user);
if ($trackId = $request->getUserVar('trackId')) {
$context['track'] = $trackDao->getTrack($trackId);
}
if (!$temporaryFile) {
$templateMgr->assign('error', 'plugins.importexport.native.error.uploadFailed');
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
$doc =& $this->getDocument($temporaryFile->getFilePath());
if (substr($this->getRootNodeName($doc), 0, 5) === 'paper') {
// Ensure the user has supplied enough valid information to
// import papers within an appropriate context. If not,
// prompt them for the.
if (!isset($context['track'])) {
AppLocale::requireComponents(LOCALE_COMPONENT_APP_AUTHOR);
$templateMgr->assign('trackOptions', array('0' => __('author.submit.selectTrack')) + $trackDao->getTrackTitles($schedConf->getId(), false));
$templateMgr->assign('temporaryFileId', $temporaryFile->getId());
return $templateMgr->display($this->getTemplatePath() . 'paperContext.tpl');
}
}
@set_time_limit(0);
if ($this->handleImport($context, $doc, $errors, $papers, false)) {
$templateMgr->assign_by_ref('papers', $papers);
return $templateMgr->display($this->getTemplatePath() . 'importSuccess.tpl');
} else {
$templateMgr->assign_by_ref('errors', $errors);
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
break;
default:
$this->setBreadcrumbs();
$templateMgr->display($this->getTemplatePath() . 'index.tpl');
}
}
/**
* Notifies a reviewer about a review assignment.
* @param $sectionEditorSubmission object
* @param $reviewId int
* @param $send boolean
* @param $request object
* @return boolean true iff ready for redirect
*/
function notifyReviewer($sectionEditorSubmission, $reviewId, $send, $request)
{
$sectionEditorSubmissionDao =& DAORegistry::getDAO('SectionEditorSubmissionDAO');
$reviewAssignmentDao =& DAORegistry::getDAO('ReviewAssignmentDAO');
$userDao =& DAORegistry::getDAO('UserDAO');
$journal =& $request->getJournal();
$user =& $request->getUser();
$reviewAssignment =& $reviewAssignmentDao->getById($reviewId);
$isEmailBasedReview = $journal->getSetting('mailSubmissionsToReviewers') == 1 ? true : false;
$reviewerAccessKeysEnabled = $journal->getSetting('reviewerAccessKeysEnabled');
// If we're using access keys, disable the address fields
// for this message. (Prevents security issue: section editor
// could CC or BCC someone else, or change the reviewer address,
// in order to get the access key.)
$preventAddressChanges = $reviewerAccessKeysEnabled;
import('classes.mail.ArticleMailTemplate');
// Determine which email template to use based on journal settings and current round
switch (true) {
case $isEmailBasedReview && $reviewAssignment->getRound() == 1:
$emailTemplate = 'REVIEW_REQUEST_ATTACHED';
break;
case $isEmailBasedReview && $reviewAssignment->getRound() > 1:
$emailTemplate = 'REVIEW_REQUEST_ATTACHED_SUBSEQUENT';
break;
case $reviewerAccessKeysEnabled && $reviewAssignment->getRound() == 1:
$emailTemplate = 'REVIEW_REQUEST_ONECLICK';
break;
case $reviewerAccessKeysEnabled && $reviewAssignment->getRound() > 1:
$emailTemplate = 'REVIEW_REQUEST_ONECLICK_SUBSEQUENT';
break;
case $reviewAssignment->getRound() == 1:
$emailTemplate = 'REVIEW_REQUEST';
break;
case $reviewAssignment->getRound() > 1:
$emailTemplate = 'REVIEW_REQUEST_SUBSEQUENT';
break;
}
$email = new ArticleMailTemplate($sectionEditorSubmission, $emailTemplate, null, $isEmailBasedReview ? true : null);
if ($preventAddressChanges) {
$email->setAddressFieldsEnabled(false);
}
if ($reviewAssignment->getSubmissionId() == $sectionEditorSubmission->getId() && $reviewAssignment->getReviewFileId()) {
$reviewer =& $userDao->getUser($reviewAssignment->getReviewerId());
if (!isset($reviewer)) {
return true;
}
if (!$email->isEnabled() || $send && !$email->hasErrors()) {
HookRegistry::call('SectionEditorAction::notifyReviewer', array(&$sectionEditorSubmission, &$reviewAssignment, &$email));
if ($email->isEnabled()) {
if ($reviewerAccessKeysEnabled) {
import('lib.pkp.classes.security.AccessKeyManager');
import('pages.reviewer.ReviewerHandler');
$accessKeyManager = new AccessKeyManager();
// Key lifetime is the typical review period plus four weeks
$keyLifetime = ($journal->getSetting('numWeeksPerReview') + 4) * 7;
$email->addPrivateParam('ACCESS_KEY', $accessKeyManager->createKey('ReviewerContext', $reviewer->getId(), $reviewId, $keyLifetime));
}
if ($preventAddressChanges) {
// Ensure that this messages goes to the reviewer, and the reviewer ONLY.
$email->clearAllRecipients();
$email->addRecipient($reviewer->getEmail(), $reviewer->getFullName());
}
$email->send($request);
}
$reviewAssignment->setDateNotified(Core::getCurrentDate());
$reviewAssignment->setCancelled(0);
$reviewAssignment->stampModified();
$reviewAssignmentDao->updateReviewAssignment($reviewAssignment);
return true;
} else {
if (!$request->getUserVar('continued') || $preventAddressChanges) {
$email->addRecipient($reviewer->getEmail(), $reviewer->getFullName());
}
if (!$request->getUserVar('continued')) {
$weekLaterDate = strftime(Config::getVar('general', 'date_format_short'), strtotime('+1 week'));
if ($reviewAssignment->getDateDue() != null) {
$reviewDueDate = strftime(Config::getVar('general', 'date_format_short'), strtotime($reviewAssignment->getDateDue()));
} else {
$numWeeks = max((int) $journal->getSetting('numWeeksPerReview'), 2);
$reviewDueDate = strftime(Config::getVar('general', 'date_format_short'), strtotime('+' . $numWeeks . ' week'));
}
$submissionUrl = $request->url(null, 'reviewer', 'submission', $reviewId, $reviewerAccessKeysEnabled ? array('key' => 'ACCESS_KEY') : array());
$paramArray = array('reviewerName' => $reviewer->getFullName(), 'weekLaterDate' => $weekLaterDate, 'reviewDueDate' => $reviewDueDate, 'reviewerUsername' => $reviewer->getUsername(), 'reviewerPassword' => $reviewer->getPassword(), 'editorialContactSignature' => $user->getContactSignature(), 'reviewGuidelines' => String::html2text($journal->getLocalizedSetting('reviewGuidelines')), 'submissionReviewUrl' => $submissionUrl, 'abstractTermIfEnabled' => $sectionEditorSubmission->getLocalizedAbstract() == '' ? '' : __('article.abstract'), 'passwordResetUrl' => $request->url(null, 'login', 'resetPassword', $reviewer->getUsername(), array('confirm' => Validation::generatePasswordResetHash($reviewer->getId()))));
$email->assignParams($paramArray);
if ($isEmailBasedReview) {
// An email-based review process was selected. Attach
// the current review version.
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$reviewVersion =& $sectionEditorSubmission->getReviewFile();
if ($reviewVersion) {
$temporaryFile = $temporaryFileManager->articleToTemporaryFile($reviewVersion, $user->getId());
$email->addPersistAttachment($temporaryFile);
}
}
}
$email->displayEditForm($request->url(null, null, 'notifyReviewer'), array('reviewId' => $reviewId, 'articleId' => $sectionEditorSubmission->getId()));
return false;
}
}
return true;
}
/**
* Upload a new library file.
* @param $args array
* @param $request PKPRequest
* @return string
*/
function uploadFile($args, &$request)
{
$router =& $request->getRouter();
$context = $request->getContext();
$user =& $request->getUser();
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId());
if ($temporaryFile) {
$json = new JSON(true);
$json->setAdditionalAttributes(array('temporaryFileId' => $temporaryFile->getId()));
} else {
$json = new JSON(false, Locale::translate('common.uploadFailed'));
}
return $json->getString();
}
/**
* Decompress uploaded plugin and install in the correct plugin directory.
* @param $function string type of operation to perform after upload ('upgrade' or 'install')
* @param $category string the category of the uploaded plugin (upgrade only)
* @param $plugin string the name of the uploaded plugin (upgrade only)
*/
function uploadPlugin($function, $category = null, $plugin = null)
{
$this->validate();
$templateMgr =& TemplateManager::getManager();
$this->setupTemplate(true);
$templateMgr->assign('error', false);
$templateMgr->assign('uploaded', false);
$templateMgr->assign('path', $function);
$errorMsg = '';
if (Request::getUserVar('uploadPlugin')) {
import('classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$user =& Request::getUser();
} else {
$errorMsg = 'manager.plugins.fileSelectError';
}
if (empty($errorMsg)) {
if ($temporaryFile = $temporaryFileManager->handleUpload('newPlugin', $user->getId())) {
// tar archive basename (less potential version number) must equal plugin directory name
// and plugin files must be in a directory named after the plug-in.
$matches = array();
String::regexp_match_get('/^[a-zA-Z0-9]+/', basename($temporaryFile->getOriginalFileName(), '.tar.gz'), $matches);
$pluginName = array_pop($matches);
// Create random dirname to avoid symlink attacks.
$pluginDir = dirname($temporaryFile->getFilePath()) . DIRECTORY_SEPARATOR . $pluginName . substr(md5(mt_rand()), 0, 10);
mkdir($pluginDir);
} else {
$errorMsg = 'manager.plugins.uploadError';
}
}
if (empty($errorMsg)) {
// Test whether the tar binary is available for the export to work
$tarBinary = Config::getVar('cli', 'tar');
if (!empty($tarBinary) && file_exists($tarBinary)) {
exec($tarBinary . ' -xzf ' . escapeshellarg($temporaryFile->getFilePath()) . ' -C ' . escapeshellarg($pluginDir));
} else {
$errorMsg = 'manager.plugins.tarCommandNotFound';
}
}
if (empty($errorMsg)) {
// We should now find a directory named after the
// plug-in within the extracted archive.
$pluginDir .= DIRECTORY_SEPARATOR . $pluginName;
if (is_dir($pluginDir)) {
if ($function == 'install') {
$this->installPlugin($pluginDir, $templateMgr);
} else {
if ($function == 'upgrade') {
$this->upgradePlugin($pluginDir, $templateMgr, $category, $plugin);
}
}
} else {
$errorMsg = 'manager.plugins.invalidPluginArchive';
}
}
if (!empty($errorMsg)) {
$templateMgr->assign('error', true);
$templateMgr->assign('message', $errorMsg);
}
$templateMgr->display('manager/plugins/managePlugins.tpl');
}
function display(&$args, $request)
{
$templateMgr =& TemplateManager::getManager();
parent::display($args, $request);
$issueDao =& DAORegistry::getDAO('IssueDAO');
$journal =& $request->getJournal();
switch (array_shift($args)) {
case 'exportIssues':
$issueIds = $request->getUserVar('issueId');
if (!isset($issueIds)) {
$issueIds = array();
}
$issues = array();
foreach ($issueIds as $issueId) {
$issue =& $issueDao->getIssueById($issueId, $journal->getId());
if (!$issue) {
$request->redirect();
}
$issues[] =& $issue;
unset($issue);
}
$this->exportIssues($journal, $issues);
break;
case 'exportIssue':
$issueId = array_shift($args);
$issue =& $issueDao->getIssueById($issueId, $journal->getId());
if (!$issue) {
$request->redirect();
}
$this->exportIssue($journal, $issue);
break;
case 'exportArticle':
$articleIds = array(array_shift($args));
$result = array_shift(ArticleSearch::formatResults($articleIds));
$this->exportArticle($journal, $result['issue'], $result['section'], $result['publishedArticle']);
break;
case 'exportArticles':
$articleIds = $request->getUserVar('articleId');
if (!isset($articleIds)) {
$articleIds = array();
}
$results =& ArticleSearch::formatResults($articleIds);
$this->exportArticles($results);
break;
case 'issues':
// Display a list of issues for export
$this->setBreadcrumbs(array(), true);
AppLocale::requireComponents(LOCALE_COMPONENT_OJS_EDITOR);
$issueDao =& DAORegistry::getDAO('IssueDAO');
$issues =& $issueDao->getIssues($journal->getId(), Handler::getRangeInfo('issues'));
$templateMgr->assign_by_ref('issues', $issues);
$templateMgr->display($this->getTemplatePath() . 'issues.tpl');
break;
case 'articles':
// Display a list of articles for export
$this->setBreadcrumbs(array(), true);
$publishedArticleDao =& DAORegistry::getDAO('PublishedArticleDAO');
$rangeInfo = Handler::getRangeInfo('articles');
$articleIds = $publishedArticleDao->getPublishedArticleIdsAlphabetizedByJournal($journal->getId(), false);
$totalArticles = count($articleIds);
if ($rangeInfo->isValid()) {
$articleIds = array_slice($articleIds, $rangeInfo->getCount() * ($rangeInfo->getPage() - 1), $rangeInfo->getCount());
}
import('lib.pkp.classes.core.VirtualArrayIterator');
$iterator = new VirtualArrayIterator(ArticleSearch::formatResults($articleIds), $totalArticles, $rangeInfo->getPage(), $rangeInfo->getCount());
$templateMgr->assign_by_ref('articles', $iterator);
$templateMgr->display($this->getTemplatePath() . 'articles.tpl');
break;
case 'import':
AppLocale::requireComponents(LOCALE_COMPONENT_OJS_EDITOR, LOCALE_COMPONENT_OJS_AUTHOR);
import('classes.file.TemporaryFileManager');
$issueDao =& DAORegistry::getDAO('IssueDAO');
$sectionDao =& DAORegistry::getDAO('SectionDAO');
$user =& $request->getUser();
$temporaryFileManager = new TemporaryFileManager();
if ($existingFileId = $request->getUserVar('temporaryFileId')) {
// The user has just entered more context. Fetch an existing file.
$temporaryFile = $temporaryFileManager->getFile($existingFileId, $user->getId());
} else {
$temporaryFile = $temporaryFileManager->handleUpload('importFile', $user->getId());
}
$context = array('journal' => $journal, 'user' => $user);
if ($sectionId = $request->getUserVar('sectionId')) {
$context['section'] = $sectionDao->getSection($sectionId);
}
if ($issueId = $request->getUserVar('issueId')) {
$context['issue'] = $issueDao->getIssueById($issueId, $journal->getId());
}
if (!$temporaryFile) {
$templateMgr->assign('error', 'plugins.importexport.native.error.uploadFailed');
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
$doc =& $this->getDocument($temporaryFile->getFilePath());
if (substr($this->getRootNodeName($doc), 0, 7) === 'article') {
// Ensure the user has supplied enough valid information to
// import articles within an appropriate context. If not,
// prompt them for the.
if (!isset($context['issue']) || !isset($context['section'])) {
$issues =& $issueDao->getIssues($journal->getId(), Handler::getRangeInfo('issues'));
$templateMgr->assign_by_ref('issues', $issues);
$templateMgr->assign('sectionOptions', array('0' => __('author.submit.selectSection')) + $sectionDao->getSectionTitles($journal->getId(), false));
$templateMgr->assign('temporaryFileId', $temporaryFile->getId());
return $templateMgr->display($this->getTemplatePath() . 'articleContext.tpl');
}
}
@set_time_limit(0);
if ($this->handleImport($context, $doc, $errors, $issues, $articles, false)) {
$templateMgr->assign_by_ref('issues', $issues);
$templateMgr->assign_by_ref('articles', $articles);
return $templateMgr->display($this->getTemplatePath() . 'importSuccess.tpl');
} else {
$templateMgr->assign_by_ref('errors', $errors);
return $templateMgr->display($this->getTemplatePath() . 'importError.tpl');
}
break;
default:
$this->setBreadcrumbs();
$templateMgr->display($this->getTemplatePath() . 'index.tpl');
}
}
/**
* Upload the file and add it to the database.
* @param $fileName string index into the $_FILES array
* @param $userId int
* @return object The new TemporaryFile or false on failure
*/
function handleUpload($fileName, $userId)
{
// Get the file extension, then rename the file.
$fileExtension = $this->parseFileExtension($this->getUploadedFileName($fileName));
if (!$this->fileExists($this->filesDir, 'dir')) {
// Try to create destination directory
$this->mkdirtree($this->filesDir);
}
$newFileName = basename(tempnam($this->filesDir, $fileExtension));
if (!$newFileName) {
return false;
}
if ($this->uploadFile($fileName, $this->filesDir . $newFileName)) {
$temporaryFileDao =& DAORegistry::getDAO('TemporaryFileDAO');
$temporaryFile = new TemporaryFile();
$temporaryFile->setUserId($userId);
$temporaryFile->setFileName($newFileName);
$temporaryFile->setFileType(String::mime_content_type($this->filesDir . $newFileName));
$temporaryFile->setFileSize($_FILES[$fileName]['size']);
$temporaryFile->setOriginalFileName(TemporaryFileManager::truncateFileName($_FILES[$fileName]['name'], 127));
$temporaryFile->setDateUploaded(Core::getCurrentDate());
$temporaryFileDao->insertTemporaryFile($temporaryFile);
return $temporaryFile;
} else {
return false;
}
}
/**
* Delete all attachments associated with this message.
* Called from send().
* @param $userId int
*/
function _clearAttachments($userId)
{
import('file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$persistAttachments = Request::getUserVar('persistAttachments');
if (is_array($persistAttachments)) {
foreach ($persistAttachments as $fileId) {
$temporaryFile = $temporaryFileManager->getFile($fileId, $userId);
if (!empty($temporaryFile)) {
$temporaryFileManager->deleteFile($temporaryFile->getId(), $userId);
}
}
}
}
/**
* @see ImportExportPlugin::display()
*/
function display(&$args, $request)
{
$templateMgr = TemplateManager::getManager($request);
parent::display($args, $request);
$issueDao = DAORegistry::getDAO('IssueDAO');
$journal = $request->getJournal();
switch (array_shift($args)) {
case 'exportIssues':
$issueIds = $request->getUserVar('issueId');
if (!isset($issueIds)) {
$issueIds = array();
}
$issues = array();
foreach ($issueIds as $issueId) {
$issue = $issueDao->getById($issueId, $journal->getId());
if (!$issue) {
$request->redirect();
}
$issues[] = $issue;
}
$this->exportPubIdsForIssues($journal, $issues);
break;
case 'exportIssue':
$issueId = array_shift($args);
$issue = $issueDao->getById($issueId, $journal->getId());
if (!$issue) {
$request->redirect();
}
$issues = array($issue);
$this->exportPubIdsForIssues($journal, $issues);
break;
case 'selectIssue':
// Display a list of issues for export
AppLocale::requireComponents(array(LOCALE_COMPONENT_APP_EDITOR));
$issueDao = DAORegistry::getDAO('IssueDAO');
$issues = $issueDao->getIssues($journal->getId(), Handler::getRangeInfo($this->getRequest(), 'issues'));
$templateMgr->assign('issues', $issues);
$templateMgr->display($this->getTemplatePath() . 'selectIssue.tpl');
break;
case 'import':
import('lib.pkp.classes.file.TemporaryFileManager');
$user = $request->getUser();
$temporaryFileManager = new TemporaryFileManager();
if ($existingFileId = $request->getUserVar('temporaryFileId')) {
// The user has just entered more context. Fetch an existing file.
$temporaryFile = $temporaryFileManager->getFile($existingFileId, $user->getId());
} else {
$temporaryFile = $temporaryFileManager->handleUpload('importFile', $user->getId());
}
if (!$temporaryFile) {
$templateMgr->assign('error', 'plugins.importexport.pubIds.import.error.uploadFailed');
return $templateMgr->display($this->getTemplatePath() . 'importResults.tpl');
}
$context = array('journal' => $journal);
$doc =& $this->getDocument($temporaryFile->getFilePath());
@set_time_limit(0);
$this->handleImport($context, $doc, $errors, $pubIds, false);
$templateMgr->assign('errors', $errors);
$templateMgr->assign('pubIds', $pubIds);
return $templateMgr->display($this->getTemplatePath() . 'importResults.tpl');
break;
default:
$templateMgr->display($this->getTemplatePath() . 'importExportIndex.tpl');
}
}
/**
* Save settings.
*/
function execute()
{
$articleDao = DAORegistry::getDAO('ArticleDAO');
$signoffDao = DAORegistry::getDAO('SignoffDAO');
$sectionEditorSubmissionDao = DAORegistry::getDAO('SectionEditorSubmissionDAO');
$application = PKPApplication::getApplication();
$request = $this->request;
$user = $request->getUser();
$router = $request->getRouter();
$journal = $router->getContext($request);
$article = $articleDao->newDataObject();
$article->setLocale($journal->getPrimaryLocale());
// FIXME in bug #5543
$article->setUserId($user->getId());
$article->setJournalId($journal->getId());
$article->setSectionId($this->getData('sectionId'));
$article->setLanguage($this->getData('language'));
$article->setTitle($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
$articleDao->insertObject($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 =& $authorDao->getAuthor($authors[$i]['authorId'], $articleId);
$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) {
$authorDao = DAORegistry::getDAO('AuthorDAO');
/* @var $authorDao AuthorDAO */
$authorDao->insertObject($author);
}
}
}
// Add the submission files as galleys
import('lib.pkp.classes.file.TemporaryFileManager');
import('classes.file.ArticleFileManager');
$tempFileIds = $this->getData('tempFileId');
$temporaryFileManager = new TemporaryFileManager();
$articleFileManager = new ArticleFileManager($articleId);
$designatedPrimary = false;
foreach (array_keys($tempFileIds) as $locale) {
$temporaryFile = $temporaryFileManager->getFile($tempFileIds[$locale], $user->getId());
$fileId = null;
if ($temporaryFile) {
$fileId = $articleFileManager->temporaryFileToArticleFile($temporaryFile, SUBMISSION_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 (!$designatedPrimary) {
$article->setSubmissionFileId($fileId);
if ($locale == $journal->getPrimaryLocale()) {
// Used to make sure that *some* file
// is designated Review Version, but
// preferrably the primary locale.
$designatedPrimary = true;
}
}
}
// Update file search index
import('classes.search.ArticleSearchIndex');
$articleSearchIndex = new ArticleSearchIndex();
if (isset($galley)) {
$articleSearchIndex->articleFileChanged($galley->getArticleId(), SUBMISSION_SEARCH_GALLEY_FILE, $galley->getFileId());
}
$articleSearchIndex->articleChangesFinished();
}
// 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);
import('classes.submission.sectionEditor.SectionEditorAction');
assert(false);
// FIXME: $decisionLabels missing from call below.
SectionEditorAction::recordDecision($this->request, $sectionEditorSubmission, SUBMISSION_EDITOR_DECISION_ACCEPT);
import('classes.author.form.submit.AuthorSubmitForm');
AuthorSubmitForm::assignEditors($article);
$articleDao->updateObject($article);
// Add to end of editing queue
import('classes.submission.editor.EditorAction');
if (isset($galley)) {
EditorAction::expediteSubmission($article, $this->request);
}
if ($this->getData('destination') == "issue") {
// Add to an existing issue
$issueId = $this->getData('issueId');
$this->scheduleForPublication($articleId, $issueId);
}
// Import the references list.
$citationDao = DAORegistry::getDAO('CitationDAO');
$rawCitationList = $article->getCitations();
$citationDao->importCitations($request, ASSOC_TYPE_ARTICLE, $articleId, $rawCitationList);
// Index article.
import('classes.search.ArticleSearchIndex');
$articleSearchIndex = new ArticleSearchIndex();
$articleSearchIndex->articleMetadataChanged($article);
$articleSearchIndex->articleChangesFinished();
}
/**
* Upload a temporary file.
* @param $request Request
*/
function uploadFile($request)
{
$user = $request->getUser();
import('lib.pkp.classes.file.TemporaryFileManager');
$temporaryFileManager = new TemporaryFileManager();
$temporaryFile = $temporaryFileManager->handleUpload('uploadedFile', $user->getId());
if ($temporaryFile) {
return $temporaryFile->getId();
}
return false;
}
