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Add Project Affiliations Menu to Menu Bar #9405

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Add Project Affiliations Menu to Menu Bar #9405

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15a2984
project affiliations
NadaElmasry Oct 11, 2024
a2e8cd3
project affiliations
NadaElmasry Oct 11, 2024
6c1b627
Merge branch 'aces:main' into project-affiliations
NadaElmasry Oct 11, 2024
8fad8a2
adjust changes to only change project properties and fix linter issues
NadaElmasry Oct 21, 2024
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166 changes: 101 additions & 65 deletions php/libraries/User.class.inc
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Original file line number Diff line number Diff line change
Expand Up @@ -55,33 +55,35 @@ class User extends UserPermissions implements
{
$obj = new User;

// right off, set the username
// Set the username
$obj->userInfo['UserID'] = $username;

// get the user's permissions
// Get the user's permissions
if ($obj->select($username) === false) {
// If user selection fails, return an AnonymousUser instance
$obj = new \LORIS\AnonymousUser();
return $obj;
};
}

// create DB object
// Create DB object
$DB = \NDB_Factory::singleton()->database();

// get user data from database
// Fetch user data from the 'users' table
$query = "SELECT * FROM users WHERE UserID = :UID";

$row = $DB->pselectRow($query, ['UID' => $username]);
$row = $DB->pselectRow($query, ['UID' => $username]);

if (is_null($row)) {
// If no user is found, return an AnonymousUser instance
$obj = new \LORIS\AnonymousUser();
return $obj;
}

//Change 'language_preference' to number rather than a string
// Convert 'language_preference' from string to integer
$row['language_preference'] = (int)$row['language_preference'];

// get user sites
$user_centerID_query = $DB->pselect(
// ------------------- Extract User Sites -------------------
// Fetch user's centers and their names from 'user_psc_rel' and 'psc' tables
$user_centerID_query = $DB->pselect(
"
SELECT
upr.CenterID,
Expand All @@ -92,70 +94,96 @@ class User extends UserPermissions implements
psc
ON (upr.CenterID = psc.CenterID)
WHERE
upr.UserID= :UID
upr.UserID = :UID
",
['UID' => $row['ID']]
);

$user_cid = [];
$sitenames = [];
$user_cid = []; // Array to store CenterID objects
$sitenames = []; // Array to store site names

foreach ($user_centerID_query as $key=>$val) {
// Convert string representation of ID to int
$user_cid[$key] = \CenterID::singleton($val['CenterID']);
$sitenames[] = $val['Name'];
}

$row['Sites'] = implode(';', $sitenames);

$user_pid = $DB->pselectCol(
"SELECT ProjectID FROM user_project_rel upr WHERE upr.UserId=:uid",
['uid' => $row['ID']]
// ------------------- Extract User Projects -------------------

$user_projects_query = $DB->pselect(
"
SELECT upr.ProjectID, p.Name
FROM user_project_rel upr
LEFT JOIN Project p ON (upr.ProjectID = p.ProjectID)
WHERE upr.UserID = :UID
",
['UID' => $row['ID']]
);
foreach ($user_pid as $k=>$pid) {
$user_pid[$k] = ProjectID::singleton(intval($pid));

$user_pid = []; // Array to store ProjectID objects
$project_names = []; // Array to store project names

foreach ($user_projects_query as $key => $val) {
// Convert ProjectID to ProjectID object, ensuring it's a string
$user_pid[$key] = \ProjectID::singleton($val['ProjectID']);
$project_names[] = $val['Name'];
}

// Get examiner information
// Assign ProjectIDs and concatenated project names to userInfo
$row['ProjectIDs'] = $user_pid;
$row['Projects'] = implode(';', $project_names);

// ------------------- Extract Examiner Information -------------------
$examiner_check = $DB->pselect(
"SELECT e.full_name,
epr.centerID,
e.radiologist,
epr.active,
epr.pending_approval
FROM examiners e
JOIN examiners_psc_rel epr ON (e.examinerID=epr.examinerID)
WHERE e.userID=:uid
AND (epr.active='Y'
OR (epr.active='N' AND epr.pending_approval='Y')
)",
FROM examiners e
JOIN examiners_psc_rel epr ON (e.examinerID = epr.examinerID)
WHERE e.userID = :uid
AND (epr.active = 'Y'
OR (epr.active = 'N' AND epr.pending_approval = 'Y'))
",
[
"uid" => $row['ID'],
]
);

$examiner_info =[];
if (!empty($examiner_check) && !is_null($examiner_check)) {
$examiner_info = [];

if (!empty($examiner_check)&& !is_null($examiner_check)) {
foreach ($examiner_check as $val) {
if ($val['active'] == 'Y') {
// Store pending approval status if examiner is active
$examiner_info['pending'] = $val['pending_approval'];
}
$examiner_info[$val['centerID']] =[
/*
Store examiner's centerID with active status and radiologist flag,
ensuring centerID is a string
*/
$examiner_info[(string)$val['centerID']] = [
$val['active'],
$val['radiologist'],
];
}
}
// store user data in object property

// Assign examiner information, CenterIDs, and ProjectIDs to userInfo
$row['examiner'] = $examiner_info;
$row['CenterIDs'] = $user_cid;
$row['ProjectIDs'] = $user_pid;
$obj->userInfo = $row;

return $obj;
}


/**
* Singleton method. Retrieve the user passed as parameter, but only
* 1 instance.
* one instance exists.
*
* @param string|null $username Identifies the user
*
Expand All @@ -172,7 +200,6 @@ class User extends UserPermissions implements
return $instance;
}


/**
* Inserts data into the `users` table.
*
Expand All @@ -187,9 +214,8 @@ class User extends UserPermissions implements
\NDB_Factory::singleton()->database()->insert('users', $set);
}


/**
* Updates a user
* Updates a user in the `users` table.
*
* @param array $set The array formatted for use in a Database call
*
Expand All @@ -212,7 +238,7 @@ class User extends UserPermissions implements
* @param string $var Name of variable to get
*
* @note Call without any arguments to get the entire user data array
* @return array<array|string>|string
* @return array<array|string>|string|null
* @access public
* @throws LorisException
*/
Expand All @@ -222,18 +248,16 @@ class User extends UserPermissions implements
return $this->userInfo;
} elseif ($var === 'CenterID') {
throw new \LorisException(
"The function getData('CenterID')
is deprecated and is replaced
with getData('CenterIDs')"
"The function getData('CenterID') is deprecated and is
replaced with getData('CenterIDs')"
);
} elseif ($var === 'Site') {
throw new \LorisException(
"The function getData('Site')
is deprecated and is replaced
with getData('Sites')"
"The function getData('Site') is deprecated and is
replaced with getData('Sites')"
);
} else {
return $this->userInfo[$var];
return $this->userInfo[$var] ?? null;
}
}

Expand Down Expand Up @@ -282,41 +306,55 @@ class User extends UserPermissions implements
}

/**
* Returns an array of sites a user belongs to.
* Get the user's sites' names.
*
* @return array
*/
function getSiteNames(): array
{
/* The original query to fetch userInfo in the factory() function CONCAT
* CONCATs the site names together in a string using semi-colons.
* Therefore this string must be split and returned as an array.
/* The original query in the factory() function CONCATs the site names
* together in a string using semi-colons. Therefore, this string must
* be split and returned as an array.
*/
return explode(';', $this->userInfo['Sites']);
return explode(';', $this->userInfo['Sites'] ?? '');
}

/**
* Get the user's sites' ID numbers
* Get the user's project names.
*
* @return array
*/
public function getProjectNames(): array
{
$projects = $this->userInfo['Projects'] ?? '';
if ($projects === '') {
return [];
}
return explode(';', $projects);
}

/**
* Get the user's sites' ID numbers.
*
* @return CenterID[]
*/
function getCenterIDs(): array
{
return $this->userInfo['CenterIDs'];
return $this->userInfo['CenterIDs'] ?? [];
}

/**
* Get the user's projects' ID numbers
* Get the user's projects' ID numbers.
*
* @return ProjectID[]
*/
function getProjectIDs(): array
{
return $this->userInfo['ProjectIDs'];
return $this->userInfo['ProjectIDs'] ?? [];
}

/**
* Get the user's projects
* Get the user's projects.
*
* @return Project[]
*/
Expand All @@ -329,26 +367,25 @@ class User extends UserPermissions implements
}

/**
* Get the user's language preference
* Get the user's language preference.
*
* @return ?int
* @return ?int|null
*/
function getLanguagePreference(): ?int
{
return $this->userInfo['language_preference'];
return $this->userInfo['language_preference'] ?? null;
}


/**
* Returns all sites where Examiner is active
* Returns all sites where Examiner is active.
*
* @return array
*/
function getExaminerSites(): array
{
$site_list = $this->userInfo['examiner'];
unset($site_list['pending']);
ksort($site_list);
$site_list = $this->userInfo['examiner'] ?? [];
unset($site_list['pending']); // Remove 'pending' status if exists
ksort($site_list); // Sort sites by centerID
return $site_list;
}

Expand All @@ -368,12 +405,11 @@ class User extends UserPermissions implements
}

/**
* Returns all user's sites in associative
* array (CenterID => CenterName)
* Returns all user's sites in an associative array (CenterID => CenterName).
*
* @return array
*/
function getSiteNamesList(): array
public function getSiteNamesList(): array
{
$sites = [];
foreach ($this->getSites() as $site) {
Expand All @@ -382,7 +418,6 @@ class User extends UserPermissions implements
return $sites;
}


/**
* Returns all user's sites that are StudySites
*
Expand Down Expand Up @@ -421,6 +456,7 @@ class User extends UserPermissions implements
return false;
}


/**
* Checks that the user's email is valid
*
Expand Down Expand Up @@ -637,4 +673,4 @@ class User extends UserPermissions implements
{
return $this->userInfo['Pending_approval'] == 'Y';
}
}
}
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