/**
* Save changes to article.
* @param $request Request
* @return int the article ID
*/
function execute(&$request)
{
$articleDao =& DAORegistry::getDAO('ArticleDAO');
$article =& $this->article;
///////////////////////
///// UPDATE TEXTS/////
///////////////////////
$journal = Request::getJournal();
$articleTexts = $this->getData('articleTexts');
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if ($articleTexts[$localeKey]['articleTextId'] > 0) {
$articleText = $article->getArticleTextByLocale($localeKey);
$isExistingArticleText = true;
} else {
$articleText = new ArticleText();
$isExistingArticleText = false;
}
if ($articleText != null) {
$articleText->setArticleId($article->getId());
$articleText->setLocale($localeKey);
$articleText->setScientificTitle($articleTexts[$localeKey]['scientificTitle']);
$articleText->setPublicTitle($articleTexts[$localeKey]['publicTitle']);
$articleText->setDescription($articleTexts[$localeKey]['description']);
$articleText->setKeyInclusionCriteria($articleTexts[$localeKey]['keyInclusionCriteria']);
$articleText->setKeyExclusionCriteria($articleTexts[$localeKey]['keyExclusionCriteria']);
$articleText->setRecruitmentInfo($articleTexts[$localeKey]['recruitmentInfo']);
if ($isExistingArticleText == false) {
$article->addArticleText($articleText);
}
}
unset($articleText);
}
///////////////////////////////////////////
/////////// Update secondary IDs //////////
///////////////////////////////////////////
$secIds = $article->getArticleSecIds();
$secIdsData = $this->getData('articleSecIds');
//Remove secondary IDs
foreach ($secIds as $secId) {
$isPresent = false;
foreach ($secIdsData as $secIdData) {
if (!empty($secIdData['articleSecIdId'])) {
if ($secId->getId() == $secIdData['articleSecIdId']) {
$isPresent = true;
}
}
}
if (!$isPresent) {
$article->removeArticleSecId($secId->getId());
}
unset($secId);
}
foreach ($secIdsData as $secIdData) {
if (!empty($secIdData['type']) && !empty($secIdData['id'])) {
if (!empty($secIdData['articleSecIdId'])) {
// Update an existing sec id
$secId =& $article->getArticleSecId($secIdData['articleSecIdId']);
} else {
// Create a new sec id
$secId = new ArticleSecId();
}
if ($secId != null) {
$secId->setArticleId($article->getId());
$secId->setType($secIdData['type']);
$secId->setSecId($secIdData['id']);
$article->addArticleSecId($secId);
}
unset($secId);
}
}
///////////////////////////////////////////
////////// Update Article Details /////////
///////////////////////////////////////////
$articlelDetailsData = $this->getData('articleDetails');
if ($article->getArticleDetails()) {
$articleDetails = $article->getArticleDetails();
} else {
$articleDetails = new ArticleDetails();
}
$articleDetails->setArticleId($article->getId());
$articleDetails->setProtocolVersion($articlelDetailsData['protocolVersion']);
$articleDetails->setTherapeuticArea($articlelDetailsData['therapeuticArea'], $articlelDetailsData['otherTherapeuticArea']);
$articleDetails->setHealthCondDiseaseFromArray($articlelDetailsData['healthConds']);
$articleDetails->setMinAgeNum($articlelDetailsData['minAgeNum']);
$articleDetails->setMinAgeUnit($articlelDetailsData['minAgeUnit']);
$articleDetails->setMaxAgeNum($articlelDetailsData['maxAgeNum']);
$articleDetails->setMaxAgeUnit($articlelDetailsData['maxAgeUnit']);
$articleDetails->setSex($articlelDetailsData['sex']);
$articleDetails->setHealthy($articlelDetailsData['healthy']);
$articleDetails->setLocaleSampleSize($articlelDetailsData['localeSampleSize']);
$articleDetails->setMultinational($articlelDetailsData['multinational']);
$articleDetails->setIntSampleSizeFromArray($articlelDetailsData['intSampleSize']);
$articleDetails->setStartDate($articlelDetailsData['startDate']);
$articleDetails->setEndDate($articlelDetailsData['endDate']);
$articleDetails->setRecruitmentStatus($articlelDetailsData['recruitStatus']);
$articleDetails->setAdvertisingScheme($articlelDetailsData['adScheme']);
$articleDetails->setCompensationPolicy($articlelDetailsData['compensationPolicy']);
$article->setArticleDetails($articleDetails);
///////////////////////////////////////////
////////// Update Article Purposes ////////
///////////////////////////////////////////
$purposesData = $this->getData('purposes');
$purposes = $article->getArticlePurposes();
//Remove deleted article purposes
foreach ($purposes as $purpose) {
$isPresent = false;
foreach ($purposesData as $purposeData) {
if (!empty($purposeData['id'])) {
if ($purpose->getId() == $purposeData['id']) {
$isPresent = true;
}
}
}
if (!$isPresent) {
$article->removeArticlePurpose($purpose->getId());
}
unset($purpose);
}
foreach ($purposesData as $purposeData) {
if (!empty($purposeData['interventional'])) {
if (!empty($purposeData['id'])) {
// Update an existing purpose
$purpose =& $article->getArticlePurpose($purposeData['id']);
} else {
// Create a new article purpose
$purpose = new ArticlePurpose();
}
if ($purpose != null) {
$purpose->setArticleId($article->getId());
if ($purposeData['interventional'] == ARTICLE_PURPOSE_TYPE_OBS) {
$purpose->setType(ARTICLE_PURPOSE_TYPE_OBS);
} else {
$purpose->setType($purposeData['type']);
}
$purpose->setCTPhase($purposeData['ctPhase']);
$purpose->setAllocation($purposeData['allocation']);
$purpose->setMasking($purposeData['masking']);
$purpose->setControl($purposeData['control']);
$purpose->setAssignment($purposeData['assignment']);
$purpose->setEndpoint($purposeData['endpoint']);
$article->addArticlePurpose($purpose);
}
unset($purpose);
}
}
///////////////////////////////////////////
////////// Update Article Outcomes ////////
///////////////////////////////////////////
$primaryOutcomesData = $this->getData('primaryOutcomes');
$secondaryOutcomesData = $this->getData('secondaryOutcomes');
$articlelOutcomes = $article->getArticleOutcomes();
//Remove outcomes
foreach ($articlelOutcomes as $articlelOutcome) {
$isPresent = false;
foreach ($primaryOutcomesData as $primaryOutcomeData) {
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if (!empty($primaryOutcomeData[$localeKey]['primaryOutcomeId'])) {
if ($articlelOutcome[$localeKey]->getId() == $primaryOutcomeData[$localeKey]['primaryOutcomeId']) {
$isPresent = true;
}
}
}
}
foreach ($secondaryOutcomesData as $secondaryOutcomeData) {
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if (!empty($secondaryOutcomeData[$localeKey]['secondaryOutcomeId'])) {
if ($articlelOutcome[$localeKey]->getId() == $secondaryOutcomeData[$localeKey]['secondaryOutcomeId']) {
$isPresent = true;
}
}
}
}
if (!$isPresent) {
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if (!empty($articlelOutcome[$localeKey])) {
$article->removeArticleOutcome($articlelOutcome[$localeKey]->getId());
}
}
}
unset($articlelOutcome);
}
foreach ($primaryOutcomesData as $poKey => $primaryOutcomeData) {
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if (!empty($primaryOutcomeData[$localeKey]['name']) && !empty($primaryOutcomeData[$localeKey]['measurement']) && !empty($primaryOutcomeData[$localeKey]['timepoint'])) {
if (!empty($primaryOutcomeData[$localeKey]['primaryOutcomeId'])) {
$primaryOutcome = $article->getArticleOutcome($primaryOutcomeData[$localeKey]['primaryOutcomeId']);
} else {
$primaryOutcome = new ArticleOutcome();
}
if ($primaryOutcome != null) {
$primaryOutcome->setArticleId($article->getId());
$primaryOutcome->setName($primaryOutcomeData[$localeKey]['name']);
$primaryOutcome->setLocale($localeKey);
$primaryOutcome->setType(ARTICLE_OUTCOME_PRIMARY);
$primaryOutcome->setMeasurement($primaryOutcomeData[$localeKey]['measurement']);
$primaryOutcome->setTimepoint($primaryOutcomeData[$localeKey]['timepoint']);
$article->addArticleOutcome($primaryOutcome);
}
unset($primaryOutcome);
}
}
}
foreach ($secondaryOutcomesData as $poKey => $secondaryOutcomeData) {
foreach ($journal->getSupportedLocaleNames() as $localeKey => $localeValue) {
if (!empty($secondaryOutcomeData[$localeKey]['name']) && !empty($secondaryOutcomeData[$localeKey]['measurement']) && !empty($secondaryOutcomeData[$localeKey]['timepoint'])) {
if (!empty($secondaryOutcomeData[$localeKey]['secondaryOutcomeId'])) {
$secondaryOutcome = $article->getArticleOutcome($secondaryOutcomeData[$localeKey]['secondaryOutcomeId']);
} else {
$secondaryOutcome = new ArticleOutcome();
}
if ($secondaryOutcome != null) {
$secondaryOutcome->setArticleId($article->getId());
$secondaryOutcome->setName($secondaryOutcomeData[$localeKey]['name']);
$secondaryOutcome->setLocale($localeKey);
$secondaryOutcome->setType(ARTICLE_OUTCOME_SECONDARY);
$secondaryOutcome->setMeasurement($secondaryOutcomeData[$localeKey]['measurement']);
$secondaryOutcome->setTimepoint($secondaryOutcomeData[$localeKey]['timepoint']);
$article->addArticleOutcome($secondaryOutcome);
}
unset($secondaryOutcome);
}
}
}
//update step
if ($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 a article details object from a row.
* @param $row array
* @return ArticleDetails object
*/
function &_returnArticleDetailsFromRow(&$row)
{
$articleDetails = new ArticleDetails();
$articleDetails->setArticleId($row['article_id']);
$articleDetails->setProtocolVersion($row['protocol_version']);
$articleDetails->setTherapeuticArea($row['therapeutic_area']);
$articleDetails->setHealthCondDisease($row['healthcond_disease']);
$articleDetails->setMinAgeNum($row['min_age_num']);
$articleDetails->setMinAgeUnit($row['min_age_unit']);
$articleDetails->setMaxAgeNum($row['max_age_num']);
$articleDetails->setMaxAgeUnit($row['max_age_unit']);
$articleDetails->setSex($row['sex']);
$articleDetails->setHealthy($row['healthy']);
$articleDetails->setLocaleSampleSize($row['local_sample_size']);
$articleDetails->setMultinational($row['multinational']);
$articleDetails->setIntSampleSize($row['international_sample_size']);
if (isset($row['enrolment_start_date'])) {
$articleDetails->setStartDate(date("d-M-Y", strtotime($this->dateFromDB($row['enrolment_start_date']))));
}
if (isset($row['enrolment_end_date'])) {
$articleDetails->setEndDate(date("d-M-Y", strtotime($this->dateFromDB($row['enrolment_end_date']))));
}
$articleDetails->setRecruitmentStatus($row['recruitment_status']);
$articleDetails->setAdvertisingScheme($row['advertising_scheme']);
$articleDetails->setCROInvolved($row['cro']);
$articleDetails->setCompensationPolicy($row['compensation_policy']);
HookRegistry::call('ArticleDetailsDAO::_returnArticleDetailsFromRow', array(&$articleDetails, &$row));
return $articleDetails;
}