/**
* Save changes to article.
* @param $request Request
* @return int the article ID
*/
function execute(&$request)
{
$articleDao =& DAORegistry::getDAO('ArticleDAO');
$articleDetailsDao =& DAORegistry::getDAO('ArticleDetailsDAO');
$institutionDao =& DAORegistry::getDAO('InstitutionDAO');
import('classes.journal.Institution');
$article =& $this->article;
$fundingSourcesData = $this->getData('fundingSources');
$fundingSources = $article->getArticleFundingSources();
$primarySponsorData = $this->getData('primarySponsor');
$secondarySponsorsData = $this->getData('secondarySponsors');
$secondarySponsors = $article->getArticleSecondarySponsors();
$details = $article->getArticleDetails();
$CROsData = $this->getData('CROs');
$CROs = $article->getArticleCROs();
$newInstitutions = array();
// Remove deleted funding sources
foreach ($fundingSources as $fundingSource) {
$isPresent = false;
foreach ($fundingSourcesData as $fundingSourceData) {
if (!empty($fundingSourceData['id'])) {
if ($fundingSource->getId() == $fundingSourceData['id']) {
$isPresent = true;
}
}
}
if (!$isPresent) {
$article->removeArticleFundingSource($fundingSource->getId());
}
unset($isPresent);
unset($fundingSource);
}
// Update / Insert funding sources
foreach ($fundingSourcesData as $fundingSourceData) {
if (isset($fundingSourceData['id'])) {
$articleSource = $article->getArticleFundingSource($fundingSourceData['id']);
} else {
$articleSource = new ArticleSponsor();
}
$articleSource->setArticleId($article->getId());
$articleSource->setType(ARTICLE_SPONSOR_TYPE_FUNDING);
if ($fundingSourceData['institutionId'] == 'OTHER') {
$institution = new Institution();
$institution->setInstitutionName($fundingSourceData['name']);
$institution->setInstitutionAcronym($fundingSourceData['acronym']);
$institution->setInstitutionType($fundingSourceData['type']);
$institution->setInstitutionInternational($fundingSourceData['location']);
if ($fundingSourceData['location'] == INSTITUTION_NATIONAL) {
$institution->setInstitutionLocation($fundingSourceData['locationCountry']);
} elseif ($fundingSourceData['location'] == INSTITUTION_INTERNATIONAL) {
$institution->setInstitutionLocation($fundingSourceData['locationInternational']);
}
$institutionId = $institutionDao->insertInstitution($institution);
$articleSource->setInstitutionId($institutionId);
$fundingSourceData['institutionId'] = $institutionId;
array_push($newInstitutions, $fundingSourceData);
unset($institution);
} else {
$articleSource->setInstitutionId($fundingSourceData['institutionId']);
}
$article->addArticleFundingSource($articleSource);
unset($articleSource);
}
if (isset($primarySponsorData['id'])) {
$primarySponsor = $article->getArticlePrimarySponsor();
} else {
$primarySponsor = new ArticleSponsor();
}
$primarySponsor->setArticleId($article->getId());
$primarySponsor->setType(ARTICLE_SPONSOR_TYPE_PRIMARY);
if ($primarySponsorData['institutionId'] == 'OTHER') {
$found = false;
foreach ($newInstitutions as $newInstitution) {
if ($newInstitution['name'] == $primarySponsorData['name'] || $newInstitution['acronym'] == $primarySponsorData['acronym']) {
$found = $newInstitution['institutionId'];
}
}
if (!$found) {
$institution = new Institution();
$institution->setInstitutionName($primarySponsorData['name']);
$institution->setInstitutionAcronym($primarySponsorData['acronym']);
$institution->setInstitutionType($primarySponsorData['type']);
$institution->setInstitutionInternational($primarySponsorData['location']);
if ($primarySponsorData['location'] == INSTITUTION_NATIONAL) {
$institution->setInstitutionLocation($primarySponsorData['locationCountry']);
} elseif ($primarySponsorData['location'] == INSTITUTION_INTERNATIONAL) {
$institution->setInstitutionLocation($primarySponsorData['locationInternational']);
}
$institutionId = $institutionDao->insertInstitution($institution);
$primarySponsor->setInstitutionId($institutionId);
$primarySponsorData['institutionId'] = $institutionId;
array_push($newInstitutions, $primarySponsorData);
unset($institution);
} else {
$primarySponsor->setInstitutionId($found);
}
} else {
$primarySponsor->setInstitutionId($primarySponsorData['institutionId']);
}
$article->setArticlePrimarySponsor($primarySponsor);
// Remove deleted secondary sponsors
foreach ($secondarySponsors as $secondarySponsor) {
$isPresent = false;
foreach ($secondarySponsorsData as $secondarySponsorData) {
if (!empty($secondarySponsorData['id'])) {
if ($secondarySponsor->getId() == $secondarySponsorData['id']) {
$isPresent = true;
}
}
}
if (!$isPresent) {
$article->removeArticleSecondarySponsor($secondarySponsor->getId());
}
unset($isPresent);
unset($secondarySponsor);
}
// Update / Insert secondary sponsors
foreach ($secondarySponsorsData as $secondarySponsorData) {
if (isset($secondarySponsorData['id'])) {
$secondarySponsor = $article->getArticleSecondarySponsor($secondarySponsorData['id']);
} else {
$secondarySponsor = new ArticleSponsor();
}
$secondarySponsor->setArticleId($article->getId());
$secondarySponsor->setType(ARTICLE_SPONSOR_TYPE_SECONDARY);
if ($secondarySponsorData['ssInstitutionId'] == 'OTHER') {
$found = false;
foreach ($newInstitutions as $newInstitution) {
if ($newInstitution['name'] == $secondarySponsorData['ssName'] || $newInstitution['acronym'] == $secondarySponsorData['ssAcronym']) {
$found = $newInstitution['institutionId'];
}
}
if (!$found) {
$institution = new Institution();
$institution->setInstitutionName($secondarySponsorData['ssName']);
$institution->setInstitutionAcronym($secondarySponsorData['ssAcronym']);
$institution->setInstitutionType($secondarySponsorData['ssType']);
$institution->setInstitutionInternational($secondarySponsorData['ssLocation']);
if ($secondarySponsorData['ssLocation'] == INSTITUTION_NATIONAL) {
$institution->setInstitutionLocation($secondarySponsorData['ssLocationCountry']);
} elseif ($secondarySponsorData['ssLocation'] == INSTITUTION_INTERNATIONAL) {
$institution->setInstitutionLocation($secondarySponsorData['ssLocationInternational']);
}
$institutionId = $institutionDao->insertInstitution($institution);
$secondarySponsor->setInstitutionId($institutionId);
$primarySponsorData['institutionId'] = $institutionId;
array_push($newInstitutions, array('institutionId' => $institutionId, 'name' => $secondarySponsorData['ssName'], 'acronym' => $secondarySponsorData['ssAcronym']));
unset($institution);
} else {
$secondarySponsor->setInstitutionId($found);
}
} else {
$secondarySponsor->setInstitutionId($secondarySponsorData['ssInstitutionId']);
}
$article->addArticleSecondarySponsor($secondarySponsor);
unset($secondarySponsor);
}
$details->setCROInvolved($this->getData('croInvolved'));
$articleDetailsDao->updateArticleDetails($details);
// Remove deleted CROs
foreach ($CROs as $CRO) {
$isPresent = false;
foreach ($CROsData as $CROData) {
if (!empty($CROData['id'])) {
if ($CRO->getId() == $CROData['id']) {
$isPresent = true;
}
}
}
if (!$isPresent) {
$article->removeArticleCRO($CRO->getId());
}
unset($isPresent);
unset($CRO);
}
// Update / Insert CROs
if ($details->getCROInvolved() == ARTICLE_DETAIL_YES) {
foreach ($CROsData as $CROData) {
if (isset($CROData['id'])) {
$CRO = $article->getArticleCRO($CROData['id']);
} else {
$CRO = new ArticleCRO();
}
$CRO->setArticleId($article->getId());
$CRO->setName($CROData['croName']);
$CRO->setInternational($CROData['croLocation']);
if ($CROData['croLocation'] == CRO_NATIONAL) {
$CRO->setLocation($CROData['croLocationCountry']);
} elseif ($CROData['croLocation'] == CRO_INTERNATIONAL) {
$CRO->setLocation($CROData['croLocationInternational']);
}
$CRO->setCity($CROData['city']);
$CRO->setAddress($CROData['address']);
$CRO->setPrimaryPhone($CROData['primaryPhone']);
$CRO->setSecondaryPhone($CROData['secondaryPhone']);
$CRO->setFax($CROData['fax']);
$CRO->setEmail($CROData['email']);
$article->addArticleCRO($CRO);
unset($CRO);
}
}
//update step
if ($article->getSubmissionProgress() <= $this->step) {
$article->stampStatusModified();
$article->setSubmissionProgress($this->step + 1);
} elseif ($article->getSubmissionProgress() == 9) {
$article->setSubmissionProgress(8);
}
parent::execute();
// Save the article
$articleDao->updateArticle($article);
return $this->articleId;
}
/**
* Internal function to return an articleCRO object from a row.
* @param $row array
* @return articleCRO ArticleCRO
*/
function &_returnArticleCROFromRow(&$row)
{
$articleCRO = new ArticleCRO();
$articleCRO->setId($row['article_cro_id']);
$articleCRO->setArticleId($row['article_id']);
$articleCRO->setName($row['name']);
$articleCRO->setInternational($row['international']);
$articleCRO->setLocation($row['region_country']);
$articleCRO->setCity($row['city']);
$articleCRO->setAddress($row['address']);
$articleCRO->setPrimaryPhone($row['primary_phone']);
$articleCRO->setSecondaryPhone($row['secondary_phone']);
$articleCRO->setFax($row['fax']);
$articleCRO->setEmail($row['email']);
HookRegistry::call('ArticleCRODAO::_returnArticleCROFromRow', array(&$articleCRO, &$row));
return $articleCRO;
}