diff --git a/Dockerfile b/Dockerfile index af83013..b506a23 100755 --- a/Dockerfile +++ b/Dockerfile @@ -14,6 +14,7 @@ RUN apt-get update && apt-get install -y \ # PHP Extensions RUN docker-php-ext-install pdo_mysql mbstring exif pcntl bcmath gd +RUN chown -R www-data:www-data /var/www/storage /var/www/bootstrap/cache # Install Composer COPY --from=composer:latest /usr/bin/composer /usr/bin/composer diff --git a/dashboard/.gitignore b/dashboard/.gitignore index 51f70fb..6e5e7ec 100644 --- a/dashboard/.gitignore +++ b/dashboard/.gitignore @@ -25,4 +25,3 @@ Homestead.json Homestead.yaml Thumbs.db -/case_lab_resultss.sql diff --git a/dashboard/app/Http/Controllers/Auth/AuthenticatedSessionController.php b/dashboard/app/Http/Controllers/Auth/AuthenticatedSessionController.php new file mode 100644 index 0000000..c2f8e06 --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/AuthenticatedSessionController.php @@ -0,0 +1,67 @@ +authenticate(); + + $request->session()->regenerate(); + if (!Auth::user()->is_active) { + + Auth::logout(); + + return back()->withErrors([ + 'email' => 'Account is disabled.', + ]); + + } + Auth::user()->update([ + 'last_login_at' => now() + ]); + activity_log( + 'login', + 'User logged in' + ); + + return redirect()->intended(route('dashboard', absolute: false)); + } + + /** + * Destroy an authenticated session. + */ + public function destroy(Request $request): RedirectResponse + { + Auth::guard('web')->logout(); + + $request->session()->invalidate(); + + $request->session()->regenerateToken(); + activity_log( + 'logout', + 'User logged out' + ); + + return redirect('/'); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/ConfirmablePasswordController.php b/dashboard/app/Http/Controllers/Auth/ConfirmablePasswordController.php new file mode 100644 index 0000000..712394a --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/ConfirmablePasswordController.php @@ -0,0 +1,40 @@ +validate([ + 'email' => $request->user()->email, + 'password' => $request->password, + ])) { + throw ValidationException::withMessages([ + 'password' => __('auth.password'), + ]); + } + + $request->session()->put('auth.password_confirmed_at', time()); + + return redirect()->intended(route('dashboard', absolute: false)); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/EmailVerificationNotificationController.php b/dashboard/app/Http/Controllers/Auth/EmailVerificationNotificationController.php new file mode 100644 index 0000000..f64fa9b --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/EmailVerificationNotificationController.php @@ -0,0 +1,24 @@ +user()->hasVerifiedEmail()) { + return redirect()->intended(route('dashboard', absolute: false)); + } + + $request->user()->sendEmailVerificationNotification(); + + return back()->with('status', 'verification-link-sent'); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/EmailVerificationPromptController.php b/dashboard/app/Http/Controllers/Auth/EmailVerificationPromptController.php new file mode 100644 index 0000000..ee3cb6f --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/EmailVerificationPromptController.php @@ -0,0 +1,21 @@ +user()->hasVerifiedEmail() + ? redirect()->intended(route('dashboard', absolute: false)) + : view('auth.verify-email'); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/NewPasswordController.php b/dashboard/app/Http/Controllers/Auth/NewPasswordController.php new file mode 100644 index 0000000..fc16e14 --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/NewPasswordController.php @@ -0,0 +1,63 @@ + $request]); + } + + /** + * Handle an incoming new password request. + * + * @throws ValidationException + */ + public function store(Request $request): RedirectResponse + { + $request->validate([ + 'token' => ['required'], + 'email' => ['required', 'email'], + 'password' => ['required', 'confirmed', Rules\Password::defaults()], + ]); + + // Here we will attempt to reset the user's password. If it is successful we + // will update the password on an actual user model and persist it to the + // database. Otherwise we will parse the error and return the response. + $status = Password::reset( + $request->only('email', 'password', 'password_confirmation', 'token'), + function (User $user) use ($request) { + $user->forceFill([ + 'password' => Hash::make($request->password), + 'remember_token' => Str::random(60), + ])->save(); + + event(new PasswordReset($user)); + } + ); + + // If the password was successfully reset, we will redirect the user back to + // the application's home authenticated view. If there is an error we can + // redirect them back to where they came from with their error message. + return $status == Password::PASSWORD_RESET + ? redirect()->route('login')->with('status', __($status)) + : back()->withInput($request->only('email')) + ->withErrors(['email' => __($status)]); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/PasswordController.php b/dashboard/app/Http/Controllers/Auth/PasswordController.php new file mode 100644 index 0000000..6916409 --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/PasswordController.php @@ -0,0 +1,29 @@ +validateWithBag('updatePassword', [ + 'current_password' => ['required', 'current_password'], + 'password' => ['required', Password::defaults(), 'confirmed'], + ]); + + $request->user()->update([ + 'password' => Hash::make($validated['password']), + ]); + + return back()->with('status', 'password-updated'); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/PasswordResetLinkController.php b/dashboard/app/Http/Controllers/Auth/PasswordResetLinkController.php new file mode 100644 index 0000000..1bc9c11 --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/PasswordResetLinkController.php @@ -0,0 +1,45 @@ +validate([ + 'email' => ['required', 'email'], + ]); + + // We will send the password reset link to this user. Once we have attempted + // to send the link, we will examine the response then see the message we + // need to show to the user. Finally, we'll send out a proper response. + $status = Password::sendResetLink( + $request->only('email') + ); + + return $status == Password::RESET_LINK_SENT + ? back()->with('status', __($status)) + : back()->withInput($request->only('email')) + ->withErrors(['email' => __($status)]); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/RegisteredUserController.php b/dashboard/app/Http/Controllers/Auth/RegisteredUserController.php new file mode 100644 index 0000000..44a3930 --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/RegisteredUserController.php @@ -0,0 +1,51 @@ +validate([ + 'name' => ['required', 'string', 'max:255'], + 'email' => ['required', 'string', 'lowercase', 'email', 'max:255', 'unique:'.User::class], + 'password' => ['required', 'confirmed', Rules\Password::defaults()], + ]); + + $user = User::create([ + 'name' => $request->name, + 'email' => $request->email, + 'password' => Hash::make($request->password), + ]); + + event(new Registered($user)); + + Auth::login($user); + + return redirect(route('dashboard', absolute: false)); + } +} diff --git a/dashboard/app/Http/Controllers/Auth/VerifyEmailController.php b/dashboard/app/Http/Controllers/Auth/VerifyEmailController.php new file mode 100644 index 0000000..784765e --- /dev/null +++ b/dashboard/app/Http/Controllers/Auth/VerifyEmailController.php @@ -0,0 +1,27 @@ +user()->hasVerifiedEmail()) { + return redirect()->intended(route('dashboard', absolute: false).'?verified=1'); + } + + if ($request->user()->markEmailAsVerified()) { + event(new Verified($request->user())); + } + + return redirect()->intended(route('dashboard', absolute: false).'?verified=1'); + } +} diff --git a/dashboard/app/Http/Controllers/ProfileController.php b/dashboard/app/Http/Controllers/ProfileController.php new file mode 100644 index 0000000..a48eb8d --- /dev/null +++ b/dashboard/app/Http/Controllers/ProfileController.php @@ -0,0 +1,60 @@ + $request->user(), + ]); + } + + /** + * Update the user's profile information. + */ + public function update(ProfileUpdateRequest $request): RedirectResponse + { + $request->user()->fill($request->validated()); + + if ($request->user()->isDirty('email')) { + $request->user()->email_verified_at = null; + } + + $request->user()->save(); + + return Redirect::route('profile.edit')->with('status', 'profile-updated'); + } + + /** + * Delete the user's account. + */ + public function destroy(Request $request): RedirectResponse + { + $request->validateWithBag('userDeletion', [ + 'password' => ['required', 'current_password'], + ]); + + $user = $request->user(); + + Auth::logout(); + + $user->delete(); + + $request->session()->invalidate(); + $request->session()->regenerateToken(); + + return Redirect::to('/'); + } +} diff --git a/dashboard/app/Http/Middleware/RoleMiddleware.php b/dashboard/app/Http/Middleware/RoleMiddleware.php new file mode 100644 index 0000000..bf16075 --- /dev/null +++ b/dashboard/app/Http/Middleware/RoleMiddleware.php @@ -0,0 +1,28 @@ +check()) { + return redirect('/login'); + } + + if (auth()->user()->role !== $role) { + abort(403); + } + + return $next($request); + } +} \ No newline at end of file diff --git a/dashboard/app/Http/Requests/Auth/LoginRequest.php b/dashboard/app/Http/Requests/Auth/LoginRequest.php new file mode 100644 index 0000000..711e0a1 --- /dev/null +++ b/dashboard/app/Http/Requests/Auth/LoginRequest.php @@ -0,0 +1,86 @@ +|string> + */ + public function rules(): array + { + return [ + 'email' => ['required', 'string', 'email'], + 'password' => ['required', 'string'], + ]; + } + + /** + * Attempt to authenticate the request's credentials. + * + * @throws ValidationException + */ + public function authenticate(): void + { + $this->ensureIsNotRateLimited(); + + if (! Auth::attempt($this->only('email', 'password'), $this->boolean('remember'))) { + RateLimiter::hit($this->throttleKey()); + + throw ValidationException::withMessages([ + 'email' => trans('auth.failed'), + ]); + } + + RateLimiter::clear($this->throttleKey()); + } + + /** + * Ensure the login request is not rate limited. + * + * @throws ValidationException + */ + public function ensureIsNotRateLimited(): void + { + if (! RateLimiter::tooManyAttempts($this->throttleKey(), 5)) { + return; + } + + event(new Lockout($this)); + + $seconds = RateLimiter::availableIn($this->throttleKey()); + + throw ValidationException::withMessages([ + 'email' => trans('auth.throttle', [ + 'seconds' => $seconds, + 'minutes' => ceil($seconds / 60), + ]), + ]); + } + + /** + * Get the rate limiting throttle key for the request. + */ + public function throttleKey(): string + { + return Str::transliterate(Str::lower($this->string('email')).'|'.$this->ip()); + } +} diff --git a/dashboard/app/Http/Requests/ProfileUpdateRequest.php b/dashboard/app/Http/Requests/ProfileUpdateRequest.php new file mode 100644 index 0000000..e2202dd --- /dev/null +++ b/dashboard/app/Http/Requests/ProfileUpdateRequest.php @@ -0,0 +1,31 @@ +|string> + */ + public function rules(): array + { + return [ + 'name' => ['required', 'string', 'max:255'], + 'email' => [ + 'required', + 'string', + 'lowercase', + 'email', + 'max:255', + Rule::unique(User::class)->ignore($this->user()->id), + ], + ]; + } +} diff --git a/dashboard/app/Models/ActivityLog.php b/dashboard/app/Models/ActivityLog.php new file mode 100644 index 0000000..5c8461b --- /dev/null +++ b/dashboard/app/Models/ActivityLog.php @@ -0,0 +1,18 @@ +where('surveillance_cases.surveillance_id', $surveillanceId) + ->where( + 'surveillance_cases.surveillance_id', + $surveillanceId + ) ->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) { + $q->whereRaw( - "(year_data > ? OR (year_data = ? AND week_data >= ?))", + "(year_data > ? + OR ( + year_data = ? + AND week_data >= ? + ) + )", [$startYear, $startYear, $startWeek] ) + ->whereRaw( - "(year_data < ? OR (year_data = ? AND week_data <= ?))", + "(year_data < ? + OR ( + year_data = ? + AND week_data <= ? + ) + )", [$endYear, $endYear, $endWeek] ); }) - ->where(function ($q) { - $q->whereNotNull('case_lab_results.pathogen_name') - ->orWhereRaw("LOWER(case_lab_results.indicator) LIKE '%serum%'"); - }) + ->where('case_lab_results.is_positive', 1) + + ->whereNotNull('case_lab_results.pathogen_name') + ->selectRaw(" - surveillance_cases.year_data as year, - surveillance_cases.week_data as period, - CASE - WHEN LOWER(case_lab_results.pathogen_name) LIKE '%influenza%' - THEN 'Influenza' - ELSE case_lab_results.pathogen_name - END as pathogen, + surveillance_cases.year_data as year, + surveillance_cases.week_data as period, - CASE - WHEN LOWER(case_lab_results.indicator) LIKE '%serum%' THEN 'Serum' - ELSE 'PCR' - END as test_type, - COUNT(case_lab_results.id) as total_tests, - COUNT(DISTINCT surveillance_cases.lab_code) as total_tested, + case_lab_results.pathogen_name as pathogen, + case_lab_results.subtype, - COUNT(CASE - WHEN case_lab_results.is_positive = 1 - THEN surveillance_cases.lab_code - END) as total_positive - ") + CASE + + WHEN LOWER(case_lab_results.pathogen_name) + LIKE '%influenza%' + + OR LOWER(case_lab_results.pathogen_name) + LIKE '%covid%' + + OR LOWER(case_lab_results.pathogen_name) + LIKE '%sars-cov%' + + THEN 'section_1' + + WHEN LOWER(case_lab_results.indicator) + LIKE '%serum%' + + THEN 'section_3' + + ELSE 'section_2' + + END as afi_section, + + COUNT(DISTINCT surveillance_cases.lab_code) + as total_positive + + ") ->groupBy( 'surveillance_cases.year_data', 'surveillance_cases.week_data', 'pathogen', - 'test_type' + 'subtype', + 'afi_section' ) + ->orderBy('surveillance_cases.year_data') ->orderBy('surveillance_cases.week_data') - ->get() - ->map(function ($r) { + ->get(); + + return [ + + 'section_1' => $rows + ->where('afi_section', 'section_1') + ->values(), + + 'section_2' => $rows + ->where('afi_section', 'section_2') + ->values(), + + 'section_3' => $rows + ->where('afi_section', 'section_3') + ->values() + + ]; + } + + public function afiCaseTrend( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ) { + + /* + |-------------------------------------------------------------------------- + | TOTAL CASES BY SECTION + |-------------------------------------------------------------------------- + | + | Count DISTINCT lab_code PER SECTION + | + | section_1 = Influenza / Covid + | section_2 = PCR + | section_3 = Serum + | + */ + + $totalCases = CaseLabResult::join( + 'surveillance_cases', + 'case_lab_results.lab_code', + '=', + 'surveillance_cases.lab_code' + ) + + ->where( + 'surveillance_cases.surveillance_id', + $surveillanceId + ) + + ->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) { + + $q->whereRaw( + "(year_data > ? + OR ( + year_data = ? + AND week_data >= ? + ) + )", + [$startYear, $startYear, $startWeek] + ) + + ->whereRaw( + "(year_data < ? + OR ( + year_data = ? + AND week_data <= ? + ) + )", + [$endYear, $endYear, $endWeek] + ); + }) + + ->selectRaw(" + + surveillance_cases.year_data as year, + surveillance_cases.week_data as period, + + CASE + + WHEN LOWER(case_lab_results.indicator) + LIKE '%influenza%' + + OR LOWER(case_lab_results.indicator) + LIKE '%covid%' + + THEN 'section_1' + + WHEN LOWER(case_lab_results.indicator) + LIKE '%serum%' + + THEN 'section_3' + + ELSE 'section_2' + + END as afi_section, + + COUNT(DISTINCT case_lab_results.lab_code) + as total_cases + + ") + + ->groupBy( + 'surveillance_cases.year_data', + 'surveillance_cases.week_data', + 'afi_section' + ) + + ->get() + + ->keyBy( + fn($r) => + $r->year . + '-' . + $r->period . + '-' . + $r->afi_section + ); + + /* + |-------------------------------------------------------------------------- + | POSITIVE RESULTS + |-------------------------------------------------------------------------- + */ + + $rows = CaseLabResult::join( + 'surveillance_cases', + 'case_lab_results.lab_code', + '=', + 'surveillance_cases.lab_code' + ) + + ->where( + 'surveillance_cases.surveillance_id', + $surveillanceId + ) + + ->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) { + + $q->whereRaw( + "(year_data > ? + OR ( + year_data = ? + AND week_data >= ? + ) + )", + [$startYear, $startYear, $startWeek] + ) + + ->whereRaw( + "(year_data < ? + OR ( + year_data = ? + AND week_data <= ? + ) + )", + [$endYear, $endYear, $endWeek] + ); + }) + + ->where('case_lab_results.is_positive', 1) + + ->whereNotNull('case_lab_results.pathogen_name') + + ->selectRaw(" + + surveillance_cases.year_data as year, + surveillance_cases.week_data as period, + + CASE + + WHEN LOWER(case_lab_results.pathogen_name) + LIKE '%influenza%' + THEN 'Influenza' + + ELSE case_lab_results.pathogen_name + + END as pathogen, + + case_lab_results.subtype, + + CASE + + WHEN LOWER(case_lab_results.indicator) + LIKE '%influenza%' + + OR LOWER(case_lab_results.indicator) + LIKE '%covid%' + + THEN 'section_1' + + WHEN LOWER(case_lab_results.indicator) + LIKE '%serum%' + + THEN 'section_3' + + ELSE 'section_2' + + END as afi_section, + + COUNT(DISTINCT case_lab_results.lab_code) + as total_positive + + ") + + ->groupBy( + 'surveillance_cases.year_data', + 'surveillance_cases.week_data', + 'pathogen', + 'subtype', + 'afi_section' + ) + + ->orderBy('surveillance_cases.year_data') + + ->orderBy('surveillance_cases.week_data') + + ->get() + + ->map(function ($r) use ($totalCases) { + + $key = + $r->year . + '-' . + $r->period . + '-' . + $r->afi_section; + + $r->total_cases = + $totalCases[$key]->total_cases ?? 0; + + $r->positivity_rate = + $r->total_cases > 0 + + ? round( + ($r->total_positive / $r->total_cases) * 100, + 1 + ) - $r->positivity_rate = $r->total_tested > 0 - ? round(($r->total_positive / $r->total_tested) * 100, 1) : 0; return $r; }); + + return [ + + 'section_1' => $rows + ->where('afi_section', 'section_1') + ->values(), + + 'section_2' => $rows + ->where('afi_section', 'section_2') + ->values(), + + 'section_3' => $rows + ->where('afi_section', 'section_3') + ->values() + + ]; } public function programSummaryFast($surveillanceId, $year = null, $week = null, $dateFrom = null, $dateTo = null) { $query = SurveillanceCase::leftJoin( - 'case_lab_results', + 'case_lab_results', 'surveillance_cases.lab_code', '=', 'case_lab_results.lab_code' @@ -309,90 +597,7 @@ class DashboardService |-------------------------------------------------------------------------- */ - public function programDashboardData($surveillanceId, $startYear, $startWeek, $endYear, $endWeek) - { - return [ - - 'summary' => $this->programSummary( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - 'trend' => $this->trendSingleProgram( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - 'pathogen_distribution' => $this->pathogenDistribution( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - 'age_distribution' => $this->ageDistribution( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - 'sex_distribution' => $this->sexDistribution( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - 'afi_trend' => $this->afiTrend( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - 'province_distribution' => $this->provinceProgram( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - 'virus_trend' => $this->virusTrend( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - 'subtype_distribution' => $this->subtypeDistribution( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - 'sentinel_sites' => $this->sentinelSites( - $surveillanceId, - $startYear, - $startWeek, - $endYear, - $endWeek - ), - - ]; - - } @@ -610,7 +815,7 @@ class DashboardService ->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) { $q->whereRaw( "(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?", - [ + [ $startYear * 100 + $startWeek, $endYear * 100 + $endWeek ] @@ -881,13 +1086,13 @@ class DashboardService }) ->where('case_lab_results.is_positive', 1) + ->where('case_lab_results.indicator', 'Influenza') ->selectRaw(" - COALESCE(NULLIF(case_lab_results.subtype, ''), 'Unsubtyped') as subtype, + case_lab_results.subtype as subtype, COUNT(DISTINCT case_lab_results.lab_code) as total ") - ->where('case_lab_results.subtype', '!=', 'Positive') ->groupBy('subtype') ->orderByDesc('total') @@ -1053,4 +1258,105 @@ class DashboardService ->get(); } + + public function programDashboardData($surveillanceId, $startYear, $startWeek, $endYear, $endWeek) + { + + return [ + + 'total_tested' => $this->totalTested( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'summary' => $this->programSummary( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'trend' => $this->trendSingleProgram( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'pathogen_distribution' => $this->pathogenDistribution( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'age_distribution' => $this->ageDistribution( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'sex_distribution' => $this->sexDistribution( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + // 'afi_trend' => $this->afiTrend( + // $surveillanceId, + // $startYear, + // $startWeek, + // $endYear, + // $endWeek + // ), + 'afi_case_trend' => $this->afiCaseTrend( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + 'province_distribution' => $this->provinceProgram( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + 'virus_trend' => $this->virusTrend( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + 'subtype_distribution' => $this->subtypeDistribution( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + 'sentinel_sites' => $this->sentinelSites( + $surveillanceId, + $startYear, + $startWeek, + $endYear, + $endWeek + ), + + ]; + + } + } diff --git a/dashboard/app/View/Components/AppLayout.php b/dashboard/app/View/Components/AppLayout.php new file mode 100644 index 0000000..de0d46f --- /dev/null +++ b/dashboard/app/View/Components/AppLayout.php @@ -0,0 +1,17 @@ + auth()->id(), + 'action' => $action, + 'description' => $description, + 'ip_address' => request()->ip(), + 'user_agent' => request()->userAgent(), + ]); + } + +} \ No newline at end of file diff --git a/dashboard/bootstrap/app.php b/dashboard/bootstrap/app.php index c3928c5..9f5e292 100644 --- a/dashboard/bootstrap/app.php +++ b/dashboard/bootstrap/app.php @@ -6,13 +6,15 @@ use Illuminate\Foundation\Configuration\Middleware; return Application::configure(basePath: dirname(__DIR__)) ->withRouting( - web: __DIR__.'/../routes/web.php', - api: __DIR__.'/../routes/api.php', - commands: __DIR__.'/../routes/console.php', + web: __DIR__ . '/../routes/web.php', + api: __DIR__ . '/../routes/api.php', + commands: __DIR__ . '/../routes/console.php', health: '/up', ) ->withMiddleware(function (Middleware $middleware): void { - // + $middleware->alias([ + 'role' => \App\Http\Middleware\RoleMiddleware::class, + ]); }) ->withExceptions(function (Exceptions $exceptions): void { // diff --git a/dashboard/composer.json b/dashboard/composer.json index 52a3a8a..63645a1 100644 --- a/dashboard/composer.json +++ b/dashboard/composer.json @@ -3,7 +3,10 @@ "name": "laravel/laravel", "type": "project", "description": "The skeleton application for the Laravel framework.", - "keywords": ["laravel", "framework"], + "keywords": [ + "laravel", + "framework" + ], "license": "MIT", "require": { "php": "^8.2", @@ -12,6 +15,7 @@ }, "require-dev": { "fakerphp/faker": "^1.23", + "laravel/breeze": "^2.4", "laravel/pail": "^1.2.2", "laravel/pint": "^1.24", "laravel/sail": "^1.41", @@ -24,7 +28,10 @@ "App\\": "app/", "Database\\Factories\\": "database/factories/", "Database\\Seeders\\": "database/seeders/" - } + }, + "files": [ + "app/helpers.php" + ] }, "autoload-dev": { "psr-4": { @@ -83,4 +90,4 @@ }, "minimum-stability": "stable", "prefer-stable": true -} +} \ No newline at end of file diff --git a/dashboard/composer.lock b/dashboard/composer.lock index 7ba63ad..23b4e2e 100644 --- a/dashboard/composer.lock +++ b/dashboard/composer.lock @@ -4,7 +4,7 @@ "Read more about it at https://getcomposer.org/doc/01-basic-usage.md#installing-dependencies", "This file is @generated automatically" ], - "content-hash": "c514d8f7b9fc5970bdd94287905ef584", + "content-hash": "18c3a10710e6e4641721ddfbd649de8d", "packages": [ { "name": "brick/math", @@ -6195,6 +6195,67 @@ }, "time": "2025-04-30T06:54:44+00:00" }, + { + "name": "laravel/breeze", + "version": "v2.4.1", + "source": { + "type": "git", + "url": "https://github.com/laravel/breeze.git", + "reference": "28cefeaf6af20177ddf5cc7b93e87e4ad79d533f" + }, + "dist": { + "type": "zip", + "url": "https://api.github.com/repos/laravel/breeze/zipball/28cefeaf6af20177ddf5cc7b93e87e4ad79d533f", + "reference": "28cefeaf6af20177ddf5cc7b93e87e4ad79d533f", + "shasum": "" + }, + "require": { + "illuminate/console": "^11.0|^12.0|^13.0", + "illuminate/filesystem": "^11.0|^12.0|^13.0", + "illuminate/support": "^11.0|^12.0|^13.0", + "illuminate/validation": "^11.0|^12.0|^13.0", + "php": "^8.2.0", + "symfony/console": "^7.0|^8.0" + }, + "require-dev": { + "laravel/framework": "^11.0|^12.0|^13.0", + "orchestra/testbench-core": "^9.0|^10.0|^11.0", + "phpstan/phpstan": "^2.0" + }, + "type": "library", + "extra": { + "laravel": { + "providers": [ + "Laravel\\Breeze\\BreezeServiceProvider" + ] + } + }, + "autoload": { + "psr-4": { + "Laravel\\Breeze\\": "src/" + } + }, + "notification-url": "https://packagist.org/downloads/", + "license": [ + "MIT" + ], + "authors": [ + { + "name": "Taylor Otwell", + "email": "taylor@laravel.com" + } + ], + "description": "Minimal Laravel authentication scaffolding with Blade and Tailwind.", + "keywords": [ + "auth", + "laravel" + ], + "support": { + "issues": "https://github.com/laravel/breeze/issues", + "source": "https://github.com/laravel/breeze" + }, + "time": "2026-03-10T19:59:01+00:00" + }, { "name": "laravel/pail", "version": "v1.2.6", diff --git a/dashboard/config/app.php b/dashboard/config/app.php index 6851d50..a647034 100644 --- a/dashboard/config/app.php +++ b/dashboard/config/app.php @@ -16,12 +16,12 @@ return [ 'name' => env('APP_NAME', 'Laravel'), 'lookback_days' => [ - 'SARI' => 150, - 'ILI' => 150, - 'LBM' => 150, - 'AFI' => 150, - 'NDS' => 150, - 'SEQ' => 150 + 'SARI' => 30, + 'ILI' => 30, + 'LBM' => 30, + 'AFI' => 30, + 'NDS' => 30, + 'SEQ' => 30 ], /* diff --git a/dashboard/package-lock.json b/dashboard/package-lock.json new file mode 100644 index 0000000..51277f3 --- /dev/null +++ b/dashboard/package-lock.json @@ -0,0 +1,3253 @@ +{ + "name": "www", + "lockfileVersion": 3, + "requires": true, + "packages": { + "": 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a/dashboard/package.json b/dashboard/package.json index 7686b29..2ea7e1d 100644 --- a/dashboard/package.json +++ b/dashboard/package.json @@ -7,11 +7,15 @@ "dev": "vite" }, "devDependencies": { + "@tailwindcss/forms": "^0.5.2", "@tailwindcss/vite": "^4.0.0", + "alpinejs": "^3.4.2", + "autoprefixer": "^10.4.2", "axios": "^1.11.0", "concurrently": "^9.0.1", "laravel-vite-plugin": "^2.0.0", - "tailwindcss": "^4.0.0", + "postcss": "^8.4.31", + "tailwindcss": "^3.1.0", "vite": "^7.0.7" } } diff --git a/dashboard/postcss.config.js b/dashboard/postcss.config.js new file mode 100644 index 0000000..49c0612 --- /dev/null +++ b/dashboard/postcss.config.js @@ -0,0 +1,6 @@ +export default { + plugins: { + tailwindcss: {}, + autoprefixer: {}, + }, +}; diff --git a/dashboard/public/js/dashboard/charts.js b/dashboard/public/js/dashboard/charts.js index 760e7fc..2ce449a 100644 --- a/dashboard/public/js/dashboard/charts.js +++ b/dashboard/public/js/dashboard/charts.js @@ -35,7 +35,10 @@ Chart.register({ const { ctx, chartArea } = chart; const data = chart.data.datasets[0].data; - const total = data.reduce((a, b) => a + b, 0); + const total = + chart.$totalTested || + chart.$afiTotalCases || + data.reduce((a, b) => a + b, 0); if (!chartArea) return; @@ -59,10 +62,11 @@ Chart.register({ } }); Chart.register(ChartDataLabels); +Chart.defaults.devicePixelRatio = 2; const charts = {}; -function buildStackedChart(canvasId, labels, datasets) { +function buildStackedChart(canvasId, labels, data) { const ctx = document.getElementById(canvasId); if (!ctx) return; @@ -77,8 +81,13 @@ function buildStackedChart(canvasId, labels, datasets) { data: { labels: labels, - datasets: datasets, - + datasets: data.map(ds => ({ + ...ds, + borderWidth: 1, + barPercentage: 0.9, + categoryPercentage: 0.8, + maxBarThickness: 60 + })) }, plugins: [ChartDataLabels], @@ -228,7 +237,9 @@ function buildChart(id, type, labels, data) { if (ctx.chart.$noData) return ''; const data = ctx.chart.data.datasets[0].data; - const total = data.reduce((a, b) => a + b, 0); + const total = + ctx.chart.$totalTested || + data.reduce((a, b) => a + b, 0); if (!total) return ''; @@ -242,12 +253,12 @@ function buildChart(id, type, labels, data) { x: { beginAtZero: true, grid: { - display: false + display: false } }, y: { grid: { - color: '#f3f4f6' + color: '#f3f4f6' } } }; @@ -264,6 +275,7 @@ function buildChart(id, type, labels, data) { } charts[id] = new Chart(ctx, { + type: type, data: { labels: labels, @@ -278,6 +290,7 @@ function buildChart(id, type, labels, data) { }, options: options }); + charts[id].$totalTested = 0; } function buildMixedTrendChart(canvasId, labels, samples, lines) { @@ -305,8 +318,10 @@ function buildMixedTrendChart(canvasId, labels, samples, lines) { type: 'bar', label: 'Total Cases', data: samples, - backgroundColor: '#0B8F3C', - yAxisID: 'y' + backgroundColor: '#d34646', + maxBarThickness: 60, + yAxisID: 'y', + }); charts[canvasId] = new Chart(ctx, { diff --git a/dashboard/public/js/dashboard/export.js b/dashboard/public/js/dashboard/export.js index 765fbeb..ac63c2d 100644 --- a/dashboard/public/js/dashboard/export.js +++ b/dashboard/public/js/dashboard/export.js @@ -59,20 +59,25 @@ function closeChartSelector() { function formatChartName(id) { const map = { - trendChart: "Case Trend & Positivity", + trendChart: "Case Trend", pathogenChart: "Pathogen Distribution", provinceMap: "Geographic Distribution", ageChart: "Age Distribution", sexChart: "Sex Distribution", subtypeChart: "Influenza Subtypes", - sentinelChart: "Sentinel Site Distribution" + sentinelChart: "Sentinel Site Distribution", + sequencingTotalChart: "Sequencing Total", + covidLineageFrequency: "Covid Lineage Frequency", + influenzaSubtypeDistribution: "Influenza Subtype Frequency", + covidDistributedByAgeGroup: "Covid Cases by Age", + influenzaSubtypeFrequency: "Influenza Cases by Age", + }; return map[id] || id; } async function exportSelectedCharts() { - console.log("Exporting selected charts..."); const { jsPDF } = window.jspdf; const pdf = new jsPDF("l", "mm", "a4"); @@ -186,16 +191,23 @@ async function exportSelectedCharts() { } else { const canvas = item.chart.canvas; - const tempCanvas = document.createElement("canvas"); - tempCanvas.width = canvas.width; - tempCanvas.height = canvas.height; + const scale = 4; + + const tempCanvas = document.createElement("canvas"); + + tempCanvas.width = canvas.width * scale; + tempCanvas.height = canvas.height * scale; + + const ctx = tempCanvas.getContext("2d"); + + ctx.scale(scale, scale); - const ctx = tempCanvas.getContext("2d", { willReadFrequently: true }); ctx.fillStyle = "#ffffff"; ctx.fillRect(0, 0, canvas.width, canvas.height); + ctx.drawImage(canvas, 0, 0); - img = tempCanvas.toDataURL("image/png"); + img = tempCanvas.toDataURL("image/jpeg", 0.95); const ratio = canvas.height / canvas.width; @@ -209,7 +221,7 @@ async function exportSelectedCharts() { } const x = cardX + (cardWidth - width) / 2; - const contentTopOffset = 14; + const contentTopOffset = 14; const availableHeight = cardHeight - contentTopOffset; const y = cardY + contentTopOffset + (availableHeight - height) / 2; @@ -234,7 +246,6 @@ function prepareMapForExport() { } async function exportFullDashboard() { - console.log("Exporting full charts..."); const el = document.querySelector(".content-area"); const mapEl = document.getElementById("provinceMap"); @@ -254,9 +265,10 @@ async function exportFullDashboard() { await new Promise(resolve => setTimeout(resolve, 800)); const canvas = await html2canvas(el, { - scale: 3, + scale: 4, useCORS: true, - scrollY: -window.scrollY + scrollY: -window.scrollY, + backgroundColor: "#ffffff" }); if (mapEl && originalMapHTML !== null) { @@ -264,10 +276,15 @@ async function exportFullDashboard() { map.invalidateSize(); } - const img = canvas.toDataURL("image/png"); + const img = canvas.toDataURL("image/jpeg", 0.95); const { jsPDF } = window.jspdf; - const pdf = new jsPDF("l", "mm", "a4"); + const pdf = new jsPDF({ + orientation: "landscape", + unit: "mm", + format: "a4", + compress: true + }); const pageWidth = 297; const pageHeight = 210; @@ -283,7 +300,7 @@ async function exportFullDashboard() { const x = (pageWidth - imgWidth) / 2; const y = (pageHeight - imgHeight) / 2; - pdf.addImage(img, "PNG", x, y, imgWidth, imgHeight); + pdf.addImage(img, "JPEG", x, y, imgWidth, imgHeight); pdf.save("full_dashboard.pdf"); closeChartSelector(); @@ -308,7 +325,7 @@ async function getMapImage() { const ctx = canvas.getContext("2d"); ctx.scale(3, 3); - + ctx.fillStyle = "#ffffff"; ctx.fillRect(0, 0, width, height); @@ -345,6 +362,28 @@ async function getMapImage() { map.eachLayer(layer => { if (!layer.toGeoJSON) return; + if (layer instanceof L.CircleMarker) { + + const latlng = layer.getLatLng(); + + const point = projection.latLngToPoint(latlng, zoom); + + minX = Math.min(minX, point.x); + maxX = Math.max(maxX, point.x); + minY = Math.min(minY, point.y); + maxY = Math.max(maxY, point.y); + + projectedRings.push({ + type: "circle", + x: point.x, + y: point.y, + radius: layer.getRadius(), + fillColor: layer.options.fillColor || "#000", + strokeColor: layer.options.color || "#000" + }); + + return; + } const geo = layer.toGeoJSON(); @@ -353,7 +392,10 @@ async function getMapImage() { : [geo]; features.forEach(f => { - if (!f.geometry) return; + if ( + !f.geometry || + !f.geometry.coordinates + ) return; const coords = f.geometry.coordinates; @@ -362,9 +404,26 @@ async function getMapImage() { : [coords]; polygons.forEach(poly => { + + if (!Array.isArray(poly)) return; + poly.forEach(ring => { - const projected = ring.map(([lng, lat]) => { + if ( + !Array.isArray(ring) || + !Array.isArray(ring[0]) + ) { + return; + } + + const projected = ring.map(coord => { + + if (!Array.isArray(coord) || coord.length < 2) { + return null; + } + + const [lng, lat] = coord; + const latlng = L.latLng(lat, lng); const point = projection.latLngToPoint(latlng, zoom); @@ -374,12 +433,15 @@ async function getMapImage() { maxY = Math.max(maxY, point.y); return [point.x, point.y]; - }); + }).filter(Boolean); + + if (!projected.length) return; projectedRings.push({ points: projected, - properties: f.properties + properties: f.properties || {} }); + }); }); }); @@ -394,15 +456,51 @@ async function getMapImage() { const offsetX = (width - (maxX - minX) * scale) / 2; const offsetY = (height - (maxY - minY) * scale) / 2; - projectedRings.forEach(({ points, properties }) => { + projectedRings.forEach(item => { + + // ------------------------- + // Draw circle markers + // ------------------------- + if (item.type === "circle") { + + const drawX = (item.x - minX) * scale + offsetX; + const drawY = (item.y - minY) * scale + offsetY; + + ctx.beginPath(); + + ctx.arc( + drawX, + drawY, + item.radius, + 0, + Math.PI * 2 + ); + + ctx.fillStyle = item.fillColor; + ctx.fill(); + + ctx.strokeStyle = item.strokeColor; + ctx.lineWidth = 2; + ctx.stroke(); + + return; + } + + // ------------------------- + // Draw polygons + // ------------------------- + const { points, properties } = item; + ctx.beginPath(); points.forEach(([x, y], i) => { + const drawX = (x - minX) * scale + offsetX; const drawY = (y - minY) * scale + offsetY; if (i === 0) ctx.moveTo(drawX, drawY); else ctx.lineTo(drawX, drawY); + }); ctx.closePath(); diff --git a/dashboard/public/js/globals.js b/dashboard/public/js/globals.js new file mode 100644 index 0000000..6996409 --- /dev/null +++ b/dashboard/public/js/globals.js @@ -0,0 +1,59 @@ +export const COLORS = [ + + '#2563eb', // blue + '#10b981', // emerald + '#f59e0b', // amber + '#ef4444', // red + '#8b5cf6', // violet + '#14b8a6', // teal + '#f97316', // orange + '#84cc16', // lime + '#e11dba', // fuchsia + '#f6f63b', // yellow + + '#0ea5e9', // sky + '#22c55e', // green + '#a855f7', // purple + '#ec4899', // pink + '#06b6d4', // cyan + '#65a30d', // olive + '#dc2626', // dark red + '#1d4ed8', // strong blue + '#7c3aed', // deep violet + '#059669', // dark emerald + '#c2410c', // burnt orange + '#be123c', // rose + '#4338ca', // indigo + '#0f766e', // dark teal + '#9333ea', // bright purple + '#15803d', // forest green + '#ea580c', // deep orange + '#0284c7', // ocean blue + '#ca8a04', // mustard + '#db2777' // magenta +]; +export const SUBTYPE_COLORS = { + 'A/H1N1pdm': '#f0d401', + 'A/H3N2': '#00ffff', + 'A/H9N2': '#2563eb', + 'A/H5N1': '#dc2626', + 'A/Unsubtypable': '#f455d7', + 'B/Yam': '#9333ea', + 'B/Vic': '#086037', + 'B/Unsubtypable': '#66ff00', + 'B/Victoria': '#9333ea', + 'H1N1pdm': '#f0d401', + 'H3N2': '#00ffff', + 'H9N2': '#2563eb', + 'J.2.4': '#8c6060', + 'K': '#55f49a', +}; + +export const SURVEILLANCE_COLORS = { + 'LBM': '#f0d401', + 'ILI': '#2563eb', + 'SARI': '#dc2626', + 'NDS': '#9333ea', + 'AFI': '#086037', + 'SEQ': '#66ff00' +}; \ No newline at end of file diff --git a/dashboard/public/js/overview.js b/dashboard/public/js/overview.js index de2445b..f2f9005 100644 --- a/dashboard/public/js/overview.js +++ b/dashboard/public/js/overview.js @@ -1,9 +1,14 @@ +import { COLORS, SUBTYPE_COLORS, SURVEILLANCE_COLORS } from "./globals.js"; + let trendChart; let influenzaSubtypeChart; let covidDistributedByAgeChart; let covidLineageFrequencyChart; let influenzaSubtypeFrequencyChart; let map; +let subtypeLayers = {}; +let hiddenSubtypes = new Set(); + /* |-------------------------------------------------------------------------- @@ -84,33 +89,59 @@ function loadTrend(periodType, startYear, startWeek, endYear, endWeek) { .then(data => { if (trendChart) trendChart.destroy(); + const totalYears = endYear - startYear; + const useYearlyView = totalYears >= 5; - const labelsSet = new Set(); + // const labelsSet = new Set(); - Object.values(data).forEach(program => { - program.forEach(row => { - labelsSet.add(`${row.year}-${row.period}`); + // Object.values(data).forEach(program => { + // program.forEach(row => { + // labelsSet.add(`${row.year}-${row.period}`); + // }); + // }); + + // const labels = Array.from(labelsSet).sort((a, b) => { + + // const [yearA, weekA] = a.split('-').map(Number); + // const [yearB, weekB] = b.split('-').map(Number); + + // if (yearA !== yearB) return yearA - yearB; + // return weekA - weekB; + + // }); + let labels = []; + + if (useYearlyView) { + + labels = [...new Set( + Object.values(data) + .flat() + .map(row => row.year) + )].sort((a, b) => a - b); + + } else { + + const labelsSet = new Set(); + + Object.values(data).forEach(program => { + program.forEach(row => { + labelsSet.add(`${row.year}-${row.period}`); + }); }); - }); - const labels = Array.from(labelsSet).sort((a, b) => { + labels = Array.from(labelsSet).sort((a, b) => { - const [yearA, weekA] = a.split('-').map(Number); - const [yearB, weekB] = b.split('-').map(Number); + const [yearA, weekA] = a.split('-').map(Number); + const [yearB, weekB] = b.split('-').map(Number); - if (yearA !== yearB) return yearA - yearB; - return weekA - weekB; + if (yearA !== yearB) return yearA - yearB; - }); + return weekA - weekB; + + }); + + } - const colors = { - SARI: '#2563eb', - ILI: '#10b981', - LBM: '#9333ea', - AFI: '#fc5741', - NDS: '#d59d01', - SEQ: '#9ca3af' - }; const datasets = []; @@ -120,31 +151,58 @@ function loadTrend(periodType, startYear, startWeek, endYear, endWeek) { if (!allowedPrograms.includes(code)) return; + // const values = labels.map(label => { + // const found = data[code].find(row => `${row.year}-${row.period}` === label); + // return found ? found.total : 0; + // }); const values = labels.map(label => { - const found = data[code].find(row => `${row.year}-${row.period}` === label); + + if (useYearlyView) { + + return data[code] + .filter(row => row.year == label) + .reduce((sum, row) => sum + row.total, 0); + + } + + const found = data[code].find( + row => `${row.year}-${row.period}` === label + ); + return found ? found.total : 0; + }); datasets.push({ label: code, data: values, - borderColor: colors[code], - backgroundColor: colors[code], + borderColor: SURVEILLANCE_COLORS[code], + backgroundColor: SURVEILLANCE_COLORS[code], borderWidth: 3, pointRadius: 4, + maxBarThickness: 50, fill: false, tension: 0.3 }); }); - const displayLabels = labels.map(l => { - const [year, week] = l.split('-'); - return `W${String(week).padStart(2, '0')}`; - }); + + + // const displayLabels = labels.map(l => { + // const [year, week] = l.split('-'); + // return `${year}-W${String(week).padStart(2, '0')}`; + // }); + + const displayLabels = useYearlyView + ? labels + : labels.map(l => { + const [year, week] = l.split('-'); + return `${year}-W${String(week).padStart(2, '0')}`; + }); trendChart = new Chart(document.getElementById('trendChart'), { - + type: 'line', data: { labels: displayLabels, @@ -152,6 +210,8 @@ function loadTrend(periodType, startYear, startWeek, endYear, endWeek) { }, options: { responsive: true, + maintainAspectRatio: false, + plugins: { legend: { position: 'bottom' }, datalabels: { @@ -165,15 +225,14 @@ function loadTrend(periodType, startYear, startWeek, endYear, endWeek) { scales: { y: { beginAtZero: true, - ticks: { - stepSize: 1 - }, + title: { display: true, text: 'Number of Cases' }, }, x: { + grid: { display: false }, @@ -189,7 +248,6 @@ function loadTrend(periodType, startYear, startWeek, endYear, endWeek) { }); } - function loadInfluenzaSubtypeDistribution(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/influenza-subtype-distribution?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) @@ -199,40 +257,48 @@ function loadInfluenzaSubtypeDistribution(periodType, startYear, startWeek, endY let displayLabels = data.map(item => item.subtype); let dataset = data.map(item => item.total); - const colors = [ - 'rgba(177,111,243,0.94)' - ]; - + // const colors = displayLabels.map( + // label => SUBTYPE_COLORS[label] || '#9ca3af' + // ); if (influenzaSubtypeChart) influenzaSubtypeChart.destroy(); influenzaSubtypeChart = new Chart(document.getElementById('influenzaSubtypeDistribution'), { - type: 'bar', // you can change to 'pie', 'doughnut', etc. + type: 'bar', data: { labels: displayLabels, datasets: [{ data: dataset, - backgroundColor: colors, + backgroundColor: displayLabels.map( + label => SUBTYPE_COLORS[label] || '#9ca3af' + ), }] }, options: { + layout: { + padding: { + top: 20, + right: 30, + bottom: 20 + } + }, + indexAxis: 'y', responsive: true, + maintainAspectRatio: false, plugins: { legend: { display: false, - position:'right' + position: 'right' }, datalabels: { - color: '#ffffff', - backgroundColor: 'rgba(68,76,68,0.31)', + color: '#000000', borderRadius: 6, z: 1000, padding: { top: 6, bottom: 6, - left: 10, - right: 10 }, + font: { weight: 'bold', size: 12 @@ -240,8 +306,9 @@ function loadInfluenzaSubtypeDistribution(periodType, startYear, startWeek, endY formatter: (value) => value, anchor: 'end', align: 'end', - offset: 10, - clamp: false + offset: 4, + clamp: true, + clip: false } }, scales: { @@ -260,7 +327,7 @@ function loadInfluenzaSubtypeDistribution(periodType, startYear, startWeek, endY display: true, text: 'Influenza Subtypes' }, - grid:{ + grid: { display: false } } @@ -272,7 +339,6 @@ function loadInfluenzaSubtypeDistribution(periodType, startYear, startWeek, endY }); } - function loadCovidDistributedByAgeGroup(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/covid-distributed-by-age-group?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) @@ -282,31 +348,35 @@ function loadCovidDistributedByAgeGroup(periodType, startYear, startWeek, endYea let displayLabels = data.map(item => item.age_group); let dataset = data.map(item => item.total); - const colors = [ - '#84cc16' - ]; if (covidDistributedByAgeChart) covidDistributedByAgeChart.destroy(); covidDistributedByAgeChart = new Chart(document.getElementById('covidDistributedByAgeGroup'), { - type: 'bar', // you can change to 'pie', 'doughnut', etc. + type: 'bar', data: { labels: displayLabels, datasets: [{ label: 'Total Covid-19 Detected', data: dataset, - backgroundColor: colors, + backgroundColor: COLORS, + maxBarThickness: 50 }] }, options: { + layout: { + padding: { + top: 50, + bottom: 10, + } + }, responsive: true, + maintainAspectRatio: false, plugins: { legend: { display: false, - position:'bottom' + position: 'bottom' }, datalabels: { - color: '#fff', - backgroundColor: 'rgba(68,76,68,0.7)', + color: '#000', borderRadius: 6, z: 1000, padding: { @@ -322,8 +392,9 @@ function loadCovidDistributedByAgeGroup(periodType, startYear, startWeek, endYea formatter: (value) => value, anchor: 'end', align: 'end', - offset: 10, - clamp: false + offset: 4, + clamp: true, + clip: false } }, scales: { @@ -334,7 +405,7 @@ function loadCovidDistributedByAgeGroup(periodType, startYear, startWeek, endYea display: true, text: 'Patient Age Group' }, - grid:{ + grid: { display: false } }, @@ -353,49 +424,79 @@ function loadCovidDistributedByAgeGroup(periodType, startYear, startWeek, endYea }); } - function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/covid-lineage-frequency?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) .then(res => res.json()) .then(data => { - // Extract unique weeks (X-axis) - const weeks = [...new Set(data.map(item => item.week))].sort(); + // const weeks = [...new Set(data.map(item => item.week))].sort(); + const totalYears = endYear - startYear; + const useYearlyView = totalYears >= 5; - // Extract unique lineages + let periods; + + if (useYearlyView) { + + periods = [...new Set( + data.map(item => item.week.split('-')[0]) + )].sort((a, b) => a - b); + + } else { + + periods = [...new Set( + data.map(item => item.week) + )].sort(); + + } const lineages = [...new Set(data.map(item => item.lineage))]; - // Color palette - const colors = [ - '#84cc16','#22c55e','#06b6d4','#3b82f6', - '#6366f1','#a855f7','#ec4899','#ef4444', - '#f97316','#eab308' - ]; - // Build datasets + const datasets = lineages.map((lineage, index) => { - const lineageData = weeks.map(week => { + // const lineageData = weeks.map(week => { + // const found = data.find( + // item => item.week === week && item.lineage === lineage + // ); + // return found ? found.total : 0; + // }); + + const lineageData = periods.map(period => { + + if (useYearlyView) { + + return data + .filter(item => + item.week.split('-')[0] == period && + item.lineage === lineage + ) + .reduce((sum, item) => sum + item.total, 0); + + } + const found = data.find( - item => item.week === week && item.lineage === lineage + item => + item.week === period && + item.lineage === lineage ); + return found ? found.total : 0; + }); return { label: lineage, data: lineageData, - fill: true, // area fill - tension: 0.4, // smooth curve - borderColor: 'transparent', // hide the line + fill: true, + tension: 0.4, + // borderColor: 'transparent', borderWidth: 0, - pointRadius: 0, // hide points + pointRadius: 0, backgroundColor: hexToRGBA(colors[index % colors.length], 0.3), stack: 'total' }; }); - // Destroy previous chart if exists if (covidLineageFrequencyChart) covidLineageFrequencyChart.destroy(); const ctx = document.getElementById('covidLineageFrequency').getContext('2d'); @@ -403,7 +504,7 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en covidLineageFrequencyChart = new Chart(ctx, { type: 'line', data: { - labels: weeks, + labels: periods, datasets: datasets }, options: { @@ -415,24 +516,21 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en }, plugins: { legend: { - display: false // hide default legend + display: false }, tooltip: { mode: 'index', intersect: false }, datalabels: { - display: false // hide labels + display: false } }, scales: { x: { stacked: true, - title: { - display: true, - text: 'Week' - }, - grid:{ + + grid: { display: false } }, @@ -453,8 +551,7 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en // Custom right-side scrollable legend // ------------------------- const legendContainer = document.getElementById('legendContainer'); - legendContainer.innerHTML = ''; // clear old legend - + legendContainer.innerHTML = ''; datasets.forEach((dataset, index) => { const item = document.createElement('div'); item.style.display = 'flex'; @@ -470,17 +567,13 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en item.addEventListener('click', () => { const meta = covidLineageFrequencyChart.getDatasetMeta(index); - // If the clicked dataset is already the only visible one, show all const allHidden = datasets.every((d, i) => covidLineageFrequencyChart.getDatasetMeta(i).hidden || i === index); if (!allHidden) { - // Hide all datasets datasets.forEach((d, i) => { covidLineageFrequencyChart.getDatasetMeta(i).hidden = true; }); - // Show only clicked meta.hidden = false; } else { - // Show all datasets datasets.forEach((d, i) => { covidLineageFrequencyChart.getDatasetMeta(i).hidden = false; }); @@ -488,7 +581,6 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en covidLineageFrequencyChart.update(); - // Update legend opacity Array.from(legendContainer.children).forEach((child, i) => { const metaItem = covidLineageFrequencyChart.getDatasetMeta(i); child.style.opacity = metaItem.hidden ? 0.5 : 1; @@ -498,170 +590,271 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en legendContainer.appendChild(item); }); - // Scrollable CSS (in case legend is long) legendContainer.style.maxHeight = '375px'; legendContainer.style.overflowY = 'auto'; legendContainer.style.padding = '8px'; legendContainer.style.borderRadius = '0px'; }); } - function loadInfluenzaSubtypeFrequency(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/influenza-relative-frequency?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) .then(res => res.json()) .then(data => { - // Extract unique weeks (X-axis) - const weeks = [...new Set(data.map(item => item.week))].sort(); + const totalYears = endYear - startYear; + const useYearlyView = totalYears >= 5; - const colors = [ - '#84cc16','#22c55e','#06b6d4','#3b82f6', - '#6366f1','#a855f7','#ec4899','#ef4444', - '#f97316','#eab308' - ]; + let periods; + + if (useYearlyView) { + + periods = [...new Set( + data.map(item => item.week.split('-')[0]) + )].sort((a, b) => a - b); + + } else { + + periods = [...new Set( + data.map(item => item.week) + )].sort(); + + } + + const lineages = [...new Set( + data.map(item => item.lineage) + )]; + + const lineageColors = lineages.map( + label => SUBTYPE_COLORS[label] || '#9ca3af' + ); - // Extract unique lineages - const lineages = [...new Set(data.map(item => item.lineage))]; - // Build datasets const datasets = lineages.map((lineage, index) => { - const lineageData = weeks.map(week => { + + const lineageData = periods.map(period => { + + if (useYearlyView) { + + return data + .filter(item => + item.week.split('-')[0] == period && + item.lineage === lineage + ) + .reduce((sum, item) => sum + item.total, 0); + + } + const found = data.find( - item => item.week === week && item.lineage === lineage + item => + item.week === period && + item.lineage === lineage ); + return found ? found.total : 0; + }); return { label: lineage, data: lineageData, - fill: true, // area fill - tension: 0.4, // smooth curve - borderColor: 'transparent', // hide the line + fill: true, + tension: 0.4, borderWidth: 0, - pointRadius: 0, // hide points - backgroundColor: hexToRGBA(colors[index % colors.length], 0.3), + pointRadius: 0, + backgroundColor: hexToRGBA( + lineageColors[index % lineageColors.length], + 0.6 + ), stack: 'total' }; + }); - // Destroy previous chart if exists - if (influenzaSubtypeFrequencyChart) influenzaSubtypeFrequencyChart.destroy(); + if (influenzaSubtypeFrequencyChart) { + influenzaSubtypeFrequencyChart.destroy(); + } - const ctx = document.getElementById('influenzaSubtypeFrequency').getContext('2d'); + const ctx = document + .getElementById('influenzaSubtypeFrequency') + .getContext('2d'); influenzaSubtypeFrequencyChart = new Chart(ctx, { + type: 'line', + data: { - labels: weeks, + labels: periods, datasets: datasets }, + options: { + responsive: true, maintainAspectRatio: false, + interaction: { mode: 'index', intersect: false }, + plugins: { + legend: { - display: false // hide default legend + display: false }, + tooltip: { mode: 'index', intersect: false }, + datalabels: { - display: false // hide labels + display: false } + }, + scales: { + x: { + stacked: true, - title: { - display: true, - text: 'Week' - }, - grid:{ + + + + grid: { display: false } + }, + y: { + stacked: true, + beginAtZero: true, + title: { display: true, text: 'Relative Frequency' - }, + } + } + } + } + }); - const legendContainer = document.getElementById('legendContainerInfluenzaSubtypeFrequency'); - legendContainer.innerHTML = ''; // clear old legend + charts['influenzaSubtypeFrequency'] = + influenzaSubtypeFrequencyChart; + + /* + |-------------------------------------------------------------------------- + | CUSTOM LEGEND + |-------------------------------------------------------------------------- + */ + + const legendContainer = + document.getElementById( + 'legendContainerInfluenzaSubtypeFrequency' + ); + + legendContainer.innerHTML = ''; datasets.forEach((dataset, index) => { + const item = document.createElement('div'); + item.style.display = 'flex'; item.style.alignItems = 'center'; item.style.marginBottom = '4px'; item.style.fontSize = '11px'; item.style.cursor = 'pointer'; + item.innerHTML = ` - + ${dataset.label} `; item.addEventListener('click', () => { - const meta = influenzaSubtypeFrequencyChart.getDatasetMeta(index); - // If the clicked dataset is already the only visible one, show all - const allHidden = datasets.every((d, i) => influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden || i === index); + const meta = + influenzaSubtypeFrequencyChart + .getDatasetMeta(index); + + const allHidden = datasets.every( + (d, i) => + influenzaSubtypeFrequencyChart + .getDatasetMeta(i).hidden || + i === index + ); + if (!allHidden) { - // Hide all datasets + datasets.forEach((d, i) => { - influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = true; + + influenzaSubtypeFrequencyChart + .getDatasetMeta(i) + .hidden = true; + }); - // Show only clicked + meta.hidden = false; + } else { - // Show all datasets + datasets.forEach((d, i) => { - influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = false; + + influenzaSubtypeFrequencyChart + .getDatasetMeta(i) + .hidden = false; + }); + } influenzaSubtypeFrequencyChart.update(); - // Update legend opacity - Array.from(legendContainer.children).forEach((child, i) => { - const metaItem = influenzaSubtypeFrequencyChart.getDatasetMeta(i); - child.style.opacity = metaItem.hidden ? 0.5 : 1; - }); + Array.from(legendContainer.children) + .forEach((child, i) => { + + const metaItem = + influenzaSubtypeFrequencyChart + .getDatasetMeta(i); + + child.style.opacity = + metaItem.hidden ? 0.5 : 1; + + }); + }); legendContainer.appendChild(item); + }); - // Scrollable CSS (in case legend is long) legendContainer.style.maxHeight = '375px'; legendContainer.style.overflowY = 'auto'; legendContainer.style.padding = '8px'; legendContainer.style.borderRadius = '0px'; - }); -} -// ------------------------- -// Helper to convert hex to rgba -// ------------------------- + }); + +} function hexToRGBA(hex, alpha) { const r = parseInt(hex.slice(1, 3), 16); const g = parseInt(hex.slice(3, 5), 16); const b = parseInt(hex.slice(5, 7), 16); return `rgba(${r}, ${g}, ${b}, ${alpha})`; } - function updateAlerts() { if (!window._summaryData || !window._provinceData) return; @@ -675,9 +868,7 @@ function generateAlerts(data) { const alerts = []; - // ------------------------- - // 1. Program-level alerts - // ------------------------- + const summary = data.summary || {}; const programs = [ @@ -741,17 +932,13 @@ function generateAlerts(data) { function createAlert(type, message, priority) { return { type, message, priority }; } - function buildAlerts(summaryData, provinceData) { const alerts = []; - // ------------------------- - // 1. Program alerts - // ------------------------- + summaryData.forEach(item => { - // 🔴 High activity if (item.current_total >= 80) { alerts.push(createAlert( 'high', @@ -871,24 +1058,6 @@ function renderAlerts(alerts) { `).join(''); } - - -/* -|-------------------------------------------------------------------------- -| Province Map Helpers -|-------------------------------------------------------------------------- -*/ -function getPositivityColor(p) { - if (p == 'A/H1N1pdm') return "#2563eb"; - if (p == 'A/H3N2') return "#11de9d"; - if (p == 'B/Yam') return "#9333ea"; - if (p == 'B/Vic') return "#1021b9"; - if (p == 'A/H9N2') return "#b91081"; - if (p == 'A/H5N1') return "#ad850d"; - if (p == 'A/Unsubtypable') return "#047393"; - if (p == 'B/Unsubtypable') return "#890512"; - return "#9ca3af"; -} function normalizeProvince(name, validSet) { if (!name || !validSet) return null; @@ -924,144 +1093,356 @@ function getRadius(total) { const r = Math.sqrt(total); return Math.max(4, Math.min(r * 2, 22)); } + +function getPositivityColor(subtype) { + return SUBTYPE_COLORS[subtype] || "#9ca3af"; +} +const getColorByPathogen = name => + SUBTYPE_COLORS[name] || '#9ca3af'; + function addPositivityLegend() { - const legend = L.control({ position: "bottomleft" }); + const legend = L.control({ + position: "bottomleft" + }); legend.onAdd = function () { - const div = L.DomUtil.create("div", "map-legend"); + const div = L.DomUtil.create( + "div", + "map-legend" + ); + const items = Object.keys(subtypeLayers) + .filter(subtype => { + + const layer = subtypeLayers[subtype]; + + return layer && + layer.getLayers().length > 0; + + }); div.innerHTML = ` -
-
Influenza Subtypes
-
A/H1N1pdm
-
A/H3N2
-
A/H9N2
-
A/H5N1
-
A/Unsubtypable
-
B/Yam
-
B/Vic
-
B/Unsubtypable
+
+ +
+ Influenza Subtypes +
+ + ${items.map(item => ` + +
+ + + + + ${item} + + +
+ + `).join('')} +
`; + setTimeout(() => { + + div.querySelectorAll('.legend-item') + .forEach(el => { + + el.addEventListener('click', () => { + + const subtype = + el.dataset.subtype; + + const layer = + subtypeLayers[subtype]; + + if (!layer) return; + + if (hiddenSubtypes.has(subtype)) { + + hiddenSubtypes.delete(subtype); + + map.addLayer(layer); + + el.style.opacity = 1; + + } else { + + hiddenSubtypes.add(subtype); + + map.removeLayer(layer); + + el.style.opacity = 0.35; + + } + + }); + + }); + + }, 0); + return div; }; legend.addTo(map); -} -/* -|-------------------------------------------------------------------------- -| Province Map -|-------------------------------------------------------------------------- -*/ -function loadProvinceMap(startYear, startWeek, endYear, endWeek) { +} +function loadProvinceMap( + startYear, + startWeek, + endYear, + endWeek +) { if (map) map.remove(); - map = L.map('provinceMap').setView([12.7, 104.9], 7); - addPositivityLegend(); + subtypeLayers = {}; + hiddenSubtypes = new Set(); - L.tileLayer('https://{s}.tile.openstreetmap.org/{z}/{x}/{y}.png', { - attribution: '© OpenStreetMap' - }).addTo(map); + map = L.map('provinceMap') + .setView([12.7, 104.9], 7); + + + + L.tileLayer( + 'https://{s}.tile.openstreetmap.org/{z}/{x}/{y}.png', + { + attribution: '© OpenStreetMap' + } + ).addTo(map); Promise.all([ - fetch('/geo/cambodia_provinces.geojson').then(r => r.json()), - fetch(`/api/dashboard/province-circles?start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`).then(r => r.json()) + + fetch('/geo/cambodia_provinces.geojson') + .then(r => r.json()), + + fetch( + `/api/dashboard/province-circles?start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}` + ).then(r => r.json()) + ]) .then(([geojson, data]) => { + window._provinceData = data; + updateAlerts(); const validProvinces = new Set( - geojson.features.map(f => f.properties.ADM1_EN) + geojson.features.map( + f => f.properties.ADM1_EN + ) ); + Object.keys(SUBTYPE_COLORS) + .forEach(subtype => { + + subtypeLayers[subtype] = + L.layerGroup().addTo(map); + + }); + + L.geoJSON(geojson, { + style: { - fillOpacity: 0, - color: '#ccc', - weight: 1, - interactive: false + fillOpacity: 0.05, + fillColor: '#2563eb', + color: '#bbb', + weight: 1 }, - onEachFeature: function (feature, layer) { + onEachFeature: function ( + feature, + layer + ) { - const province = feature.properties.ADM1_EN; - const center = layer.getBounds().getCenter(); + const province = + feature.properties.ADM1_EN; + + const center = + layer.getBounds().getCenter(); const rows = data.filter(d => { - const name = normalizeProvince(d.patient_province, validProvinces); + + const name = + normalizeProvince( + d.patient_province, + validProvinces + ); + return name === province; + }); if (!rows.length) return; + const tooltipHTML = ` +
- const pathogens = [...new Set(rows.map(r => r.pathogen_name))]; +
+ ${province} +
- const spacing = 0.15; - rows.forEach(row => { + ${rows.map(r => ` - const index = pathogens.indexOf(row.pathogen_name); - const offset = (index - (pathogens.length - 1) / 2) * spacing; +
- const lat = center.lat; - const lng = center.lng + offset; + + ${r.pathogen_name} + + + ${r.total} + - L.circleMarker([lat, lng], { - radius: getRadius(row.total), - fillColor: getColorByPathogen(row.pathogen_name), // 👈 new function - color: getPositivityColor(row.pathogen_nam), - weight: 2, - fillOpacity: 0.9 - }) - .bindTooltip(` - ${province}
- ${row.pathogen_name}
- Total Detected: ${row.total}
- `) - .addTo(map); +
+ + `).join('')} + +
+ `; + layer.bindTooltip( + tooltipHTML, + { + sticky: true, + direction: 'top' + } + ); + layer.on({ + + mouseover: function (e) { + + e.target.setStyle({ + fillOpacity: 0.15, + weight: 2, + color: '#666' + }); + + }, + + mouseout: function (e) { + + e.target.setStyle({ + fillOpacity: 0.05, + weight: 1, + color: '#bbb' + }); + + } }); + const pathogens = [ + ...new Set( + rows.map( + r => r.pathogen_name + ) + ) + ]; + + const spacing = 0.12; + + rows.forEach(row => { + + const index = + pathogens.indexOf(row.pathogen_name); + + const cols = 3; + + const col = index % cols; + const rowIndex = Math.floor(index / cols); + + const xOffset = + (col - (cols - 1) / 2) * spacing; + + const yOffset = + rowIndex * spacing; + + const lat = + center.lat + yOffset; + + const lng = + center.lng + xOffset; + + const marker = L.circleMarker( + [lat, lng], + { + radius: getRadius(row.total), + fillColor: getColorByPathogen( + row.pathogen_name + ), + fillOpacity: 0.85, + stroke: false + } + ); + + if (subtypeLayers[row.pathogen_name]) { + marker.addTo( + subtypeLayers[ + row.pathogen_name + ] + ); + + } + + }); + } }).addTo(map); + addPositivityLegend(); }); } -function getColorByPathogen(name) { - const colors = { - "A/H1N1pdm": "#ff0200", - "A/H3N2": "#11de9d", - "B/Yam": "#9333ea", - "B/Vic" : "#086037", - "A/H9N2": "#b91081", - "A/H5N1": "#ad850d", - "A/Unsubtypable": "#047393", - "B/Unsubtypable": "#890512" - }; - - return colors[name] || "#000000"; // fallback color -} - - -/* -|-------------------------------------------------------------------------- -| Initialize Dashboard -|-------------------------------------------------------------------------- -*/ document.addEventListener("DOMContentLoaded", () => { loadSummary(); - + new DashboardFilter((startYear, startWeek, endYear, endWeek) => { loadTrend('week', startYear, startWeek, endYear, endWeek); @@ -1070,53 +1451,80 @@ document.addEventListener("DOMContentLoaded", () => { loadInfluenzaSubtypeFrequency('week', startYear, startWeek, endYear, endWeek); loadCovidLineageFrequency('week', startYear, startWeek, endYear, endWeek); loadProvinceMap(startYear, startWeek, endYear, endWeek); + const elements = document.querySelectorAll(".report-period"); + elements.forEach(el => { - el.textContent = 'Week ' + startWeek + ' of '+startYear+' to ' + 'Week ' + endWeek + ' of ' + endYear + el.textContent = + 'Week ' + startWeek + ' of ' + startYear + + ' to Week ' + endWeek + ' of ' + endYear; }); + }); -}); - - -document.addEventListener("DOMContentLoaded", function () { let currentSlide = 0; + const slides = document.querySelectorAll('.slide'); const nextBtn = document.querySelector('.next-btn'); const prevBtn = document.querySelector('.prev-btn'); function showSlide(index) { + slides.forEach((slide, i) => { + slide.classList.remove('active', 'prev'); if (i === index) { + slide.classList.add('active'); + + setTimeout(() => { + + if (typeof map !== 'undefined' && map) { + map.invalidateSize(); + } + + }, 300); + } else if (i === index - 1) { + slide.classList.add('prev'); + } + }); + } function nextSlide() { + currentSlide = (currentSlide + 1) % slides.length; showSlide(currentSlide); + } function prevSlide() { - currentSlide = (currentSlide - 1 + slides.length) % slides.length; + + currentSlide = + (currentSlide - 1 + slides.length) % slides.length; + showSlide(currentSlide); + } - // Button events - nextBtn.addEventListener('click', nextSlide); - prevBtn.addEventListener('click', prevSlide); + if (nextBtn) { + nextBtn.addEventListener('click', nextSlide); + } + + if (prevBtn) { + prevBtn.addEventListener('click', prevSlide); + } + + const slideInterval = 2 * (15 * 1000); - // Auto slide every 1 minute - let slideInterval = 2 * (60 * 1000); setInterval(nextSlide, slideInterval); - // Init showSlide(currentSlide); }); diff --git a/dashboard/public/js/program.js b/dashboard/public/js/program.js index 65aba9a..a3eabab 100644 --- a/dashboard/public/js/program.js +++ b/dashboard/public/js/program.js @@ -1,5 +1,7 @@ +import { COLORS, SUBTYPE_COLORS } from "./globals.js"; const standardPrograms = ['SARI', 'ILI', 'LBM', 'AFI', 'NDS']; const programCode = (window.PROGRAM_CODE || '').trim().toUpperCase(); + let map; document.addEventListener("DOMContentLoaded", () => { @@ -7,206 +9,55 @@ document.addEventListener("DOMContentLoaded", () => { if (!standardPrograms.includes(programCode)) return; new DashboardFilter((startYear, startWeek, endYear, endWeek) => { - const elements = document.querySelectorAll(".report-period"); - elements.forEach(el => { - el.textContent = 'Week ' + startWeek + ' of ' + startYear + ' to ' + 'Week ' + endWeek + ' of ' + endYear - }); - fetch(`/api/dashboard/program?surveillance_id=${window.SURVEILLANCE_ID}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) + document.querySelectorAll(".report-period") + .forEach(el => { + el.textContent = + `Week ${startWeek} of ${startYear} to Week ${endWeek} of ${endYear}`; + }); + + fetch( + `/api/dashboard/program?surveillance_id=${window.SURVEILLANCE_ID}` + + `&start_year=${startYear}&start_week=${startWeek}` + + `&end_year=${endYear}&end_week=${endWeek}` + ) .then(res => res.json()) - .then(programCode === 'AFI' ? renderAFIDashboard : renderDashboard) + .then(programCode === 'AFI' + ? renderAFIDashboard + : renderDashboard + ) .catch(err => console.error("Dashboard API error:", err)); }); - }); -function normalizeProvince(name, validSet) { - if (!name || !validSet) return null; +function buildDistributionChart( + id, + type, + rows, + labelKey, + valueKey = 'total', + colorResolver = null +) { - const clean = str => - str.toLowerCase().replace(/\s+/g, ''); + const labels = rows.map(r => r[labelKey]); + buildChart( + id, + type, + labels, + rows.map(r => r[valueKey]) + ); - const raw = name.trim(); + if (!charts[id]) return; - const map = { - "kepville": "Kep", - "sihanoukville": "Preah Sihanouk", - "sihanoukvillecity": "Preah Sihanouk", - "krongpailin": "Pailin", - "mondulkiri": "Mondulkiri", - "odormeanchey": "Oddar Meanchey", - "tbongkhmom": "Tboung Khmum", - "tboungkhmum": "Tboung Khmum", - "rattanakiri": "Ratanak Kiri" - }; + charts[id].data.datasets[0].backgroundColor = labels.map( + (label, index) => + colorResolver + ? colorResolver(label, index) + : COLORS[index % COLORS.length] + ); - const key = clean(raw); - - if (map[key] && validSet.has(map[key])) { - return map[key]; - } - - const match = [...validSet].find(p => clean(p) === key); - - return match || null; -} - -function renderAFIDashboard(data) { - const pathogenRows = (data.pathogen_distribution || []) - .sort((a, b) => b.total - a.total); - const colors = [ - '#2563eb', '#10b981', '#f59e0b', '#ef4444', - '#8b5cf6', '#14b8a6', '#f97316', '#84cc16', '#e11dba', '#f6f63b' - ]; - - const rows = data.afi_trend || []; - - const pcr = rows.filter(r => r.test_type === 'PCR'); - const serum = rows.filter(r => r.test_type === 'Serum'); - - renderAFITrend(pcr, 'trendChart', colors); - //renderAFITrend(serum, 'pathogenChart', colors); - - renderSummary(data.summary); - renderProvinceHeatmap(data.province_distribution); - renderDemographics(data); - renderPathogenChart(data.pathogen_distribution || []); - renderSentinel(data.sentinel_sites || []); - renderSubtypeChart(data.subtype_distribution || []); - - - charts['ageChart'].data.datasets[0].backgroundColor = colors; - charts['ageChart'].update(); - charts['sexChart'].data.datasets[0].backgroundColor = colors; - charts['sexChart'].update(); - charts['sentinelChart'].data.datasets[0].backgroundColor = colors; - charts['sentinelChart'].update(); - charts['subtypeChart'].data.datasets[0].backgroundColor = colors; - charts['subtypeChart'].update(); - charts['pathogenChart'].data.datasets[0].backgroundColor = colors; - charts['pathogenChart'].update(); -} -function renderProvinceHeatmap(rows) { - window.latestProvinceData = rows; - - if (map) map.remove(); - - map = L.map('provinceMap').setView([12.7, 104.9], 7); - - L.tileLayer('https://{s}.tile.openstreetmap.org/{z}/{x}/{y}.png', { - attribution: '© OpenStreetMap contributors' - }).addTo(map); - - addProvinceLegend(); - - fetch('/geo/cambodia_provinces.geojson') - .then(r => r.json()) - .then(geo => { - - const validProvinces = new Set( - geo.features.map(f => f.properties.ADM1_EN) - ); - window.validProvinces = validProvinces; - const totals = {}; - - rows.forEach(r => { - - const province = normalizeProvince(r.patient_province, validProvinces); - if (!province) return; - - if (!totals[province]) { - totals[province] = { total: 0, positive: 0 }; - } - - totals[province].total += Number(r.total); - totals[province].positive += Number(r.positive); - - }); - - function getColor(value) { - if (value > 50) return "#b91c1c"; - if (value >= 10) return "#ef4444"; - if (value > 0) return "#fecaca"; - return "#f3f4f600"; - } - - window.provinceLayer = L.geoJSON(geo, { - style: feature => { - - const province = feature.properties.ADM1_EN; - const value = totals[province]?.total || 0; - - return { - color: "#444", - weight: 1.5, - fillColor: getColor(value), - fillOpacity: 0.8 - }; - }, - onEachFeature: (feature, layer) => { - - const province = feature.properties.ADM1_EN; - const total = totals[province]?.total || 0; - const positive = totals[province]?.positive || 0; - - const percent = total - ? ((positive / total) * 100).toFixed(1) - : 0; - - layer.bindTooltip(` - ${province}
- Total: ${total}
- Positivity: ${percent}% - `); - } - }).addTo(map); - - }); -} -function addProvinceLegend() { - - const legend = L.control({ position: "bottomright" }); - - legend.onAdd = function () { - - const div = L.DomUtil.create("div", "map-legend"); - - div.innerHTML = ` -
-
Cases
- -
- - > 50 -
- -
- - 10 – 50 -
- -
- - 1 – 9 -
- -
- - 0 -
-
- `; - - return div; - }; - - legend.addTo(map); + charts[id].update(); } function renderTrend(valueId, changeId, current, previous, suffix = '') { @@ -239,29 +90,628 @@ function renderTrend(valueId, changeId, current, previous, suffix = '') { changeEl.className = "text-muted"; } } -function renderProgramTrend(rows) { +function getSubtypeColor(label, index = 0) { - rows = rows || []; + const specialColors = { + 'A/H5N1': '#dc2626' + }; - const labels = rows.map(r => `W${r.period}`); - const samples = rows.map(r => r.total_samples || 0); - const fluRate = rows.map(r => r.influenza_rate || 0); - const covidRate = rows.map(r => r.covid_rate || 0); + return specialColors[label] + || COLORS[index % COLORS.length]; +} +function renderSummary(summary = {}) { - const lines = [ - { label: 'Influenza %', data: fluRate, color: '#fa2929' }, - { label: 'COVID-19 %', data: covidRate, color: '#1976D2' } + const mappings = [ + ['totalCases', 'casesChange', summary.cases], + ['influenzaRate', 'influenzaChange', summary.influenza_rate, '%'], + ['covidRate', 'covidChange', summary.covid_rate, '%'], + ['hospitalRate', 'hospitalChange', summary.hospital_rate, '%'], + ['icuRate', 'icuChange', summary.icu_rate, '%'], + ['positivityRate', 'positivityChange', summary.positivity_rate, '%'] ]; - // ✅ ONLY NDS gets EV + Mpox + mappings.forEach(([valueId, changeId, data = {}, suffix = '']) => { + renderTrend( + valueId, + changeId, + data.current || 0, + data.previous || 0, + suffix + ); + }); +} +function renderDashboard(data = {}) { + + renderProgramTrend(data.trend || []); + renderSummary(data.summary); + renderProvinceHeatmap(data.province_distribution || []); + + buildDistributionChart( + 'pathogenChart', + 'doughnut', + (data.pathogen_distribution || []) + .sort((a, b) => b.total - a.total), + 'pathogen' + ); + + buildDistributionChart( + 'ageChart', + 'doughnut', + data.age_distribution || [], + 'age_group' + ); + + buildDistributionChart( + 'sexChart', + 'bar', + data.sex_distribution || [], + 'patient_sex' + ); + + buildDistributionChart( + 'subtypeChart', + 'bar', + data.subtype_distribution || [], + 'subtype', + 'total', + getSubtypeColor + ); + + buildDistributionChart( + 'sentinelChart', + 'pie', + data.sentinel_sites || [], + 'name' + ); + + +} +function renderAFIDashboard(data = {}) { + + const trend = data.afi_trend || {}; + const positivity = data.afi_case_trend || {}; + + renderAFITrend( + data.afi_case_trend.section_1, + 'afiSection1Trend', + COLORS, + 'trend' + ); + + renderAFITrend( + data.afi_case_trend.section_2, + 'afiSection2Trend', + COLORS, + 'trend' + ); + + renderAFITrend( + data.afi_case_trend.section_3, + 'afiSection3Trend', + COLORS, + 'trend' + ); + + // DOUGHNUTS + renderAFITrend( + data.afi_case_trend.section_1, + 'afiPcrChart', + COLORS, + 'donut' + ); + + renderAFITrend( + data.afi_case_trend.section_2, + 'afiMultiplexChart', + COLORS, + 'donut' + ); + + renderAFITrend( + data.afi_case_trend.section_3, + 'afiElisaChart', + COLORS, + 'donut' + ); + + + renderSummary(data.summary); + renderProvinceHeatmap(data.province_distribution); + renderDemographics(data); + renderPathogenChart(data.pathogen_distribution || []); + renderSentinel(data.sentinel_sites || []); + renderSubtypeChart(data.subtype_distribution || []); +} +function normalizeProvince(name, validSet) { + + if (!name || !validSet) return null; + + const clean = str => + str.toLowerCase().replace(/\s+/g, ''); + + const raw = name.trim(); + + const provinceMap = { + "kepville": "Kep", + "sihanoukville": "Preah Sihanouk", + "sihanoukvillecity": "Preah Sihanouk", + "krongpailin": "Pailin", + "mondulkiri": "Mondulkiri", + "odormeanchey": "Oddar Meanchey", + "tbongkhmom": "Tboung Khmum", + "tboungkhmum": "Tboung Khmum", + "rattanakiri": "Ratanak Kiri" + }; + + const key = clean(raw); + + if (provinceMap[key] && validSet.has(provinceMap[key])) { + return provinceMap[key]; + } + + const match = [...validSet] + .find(p => clean(p) === key); + + return match || null; +} +function renderProvinceHeatmap(rows = []) { + + window.latestProvinceData = rows; + + if (map) { + map.remove(); + } + + map = L.map('provinceMap') + .setView([12.7, 104.9], 7); + + L.tileLayer( + 'https://{s}.tile.openstreetmap.org/{z}/{x}/{y}.png', + { + attribution: '© OpenStreetMap contributors' + } + ).addTo(map); + + addProvinceLegend(); + + fetch('/geo/cambodia_provinces.geojson') + .then(r => r.json()) + .then(geo => { + + const validProvinces = new Set( + geo.features.map(f => f.properties.ADM1_EN) + ); + + window.validProvinces = validProvinces; + + const totals = {}; + + rows.forEach(r => { + + const province = normalizeProvince( + r.patient_province, + validProvinces + ); + + if (!province) return; + + totals[province] ??= { + total: 0, + positive: 0 + }; + + totals[province].total += Number(r.total || 0); + totals[province].positive += Number(r.positive || 0); + + }); + + const getColor = value => { + + if (value > 50) return "#b91c1c"; + if (value >= 10) return "#ef4444"; + if (value > 0) return "#fecaca"; + + return "#f3f4f600"; + }; + + window.provinceLayer = L.geoJSON(geo, { + + style: feature => { + + const province = + feature.properties.ADM1_EN; + + const value = + totals[province]?.total || 0; + + return { + color: "#444", + weight: 1.5, + fillColor: getColor(value), + fillOpacity: 0.8 + }; + }, + + onEachFeature: (feature, layer) => { + + const province = + feature.properties.ADM1_EN; + + const total = + totals[province]?.total || 0; + + const positive = + totals[province]?.positive || 0; + + const percent = total + ? ((positive / total) * 100).toFixed(1) + : 0; + + layer.bindTooltip(` + ${province}
+ Total: ${total}
+ Positivity: ${percent}% + `); + + } + + }).addTo(map); + + }); + +} +function addProvinceLegend() { + + const legend = L.control({ + position: "bottomright" + }); + + legend.onAdd = function () { + + const div = L.DomUtil.create( + "div", + "map-legend" + ); + + div.innerHTML = ` +
+ +
+ Cases +
+ +
+ + > 50 +
+ +
+ + 10 – 50 +
+ +
+ + 1 – 9 +
+ +
+ + 0 +
+ +
+ `; + + return div; + }; + + legend.addTo(map); +} +function renderProgramTrend(rows = []) { + + if (!rows.length) { + + buildMixedTrendChart( + 'trendChart', + [], + [], + [] + ); + + return; + } + + /* + |-------------------------------------------------------------------------- + | YEARLY VIEW + |-------------------------------------------------------------------------- + */ + + const years = [...new Set( + rows.map(r => Number(r.year)) + )]; + + const totalYears = + Math.max(...years) - Math.min(...years); + + const useYearlyView = + totalYears >= 5; + + /* + |-------------------------------------------------------------------------- + | LABELS + |-------------------------------------------------------------------------- + */ + + let labels; + + if (useYearlyView) { + + labels = [...new Set( + rows.map(r => String(r.year)) + )].sort(); + + } else { + + labels = [...new Set( + rows.map(r => + `${r.year}-W${r.period}` + ) + )].sort((a, b) => { + + const [yearA, weekA] = + a.split('-W').map(Number); + + const [yearB, weekB] = + b.split('-W').map(Number); + + if (yearA !== yearB) { + return yearA - yearB; + } + + return weekA - weekB; + + }); + + } + + /* + |-------------------------------------------------------------------------- + | TOTAL SAMPLES + |-------------------------------------------------------------------------- + */ + + const samples = labels.map(label => { + + if (useYearlyView) { + + return rows + .filter(r => + String(r.year) === label + ) + .reduce( + (sum, r) => + sum + Number(r.total_samples || 0), + 0 + ); + + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.total_samples || 0; + + }); + + /* + |-------------------------------------------------------------------------- + | LINES + |-------------------------------------------------------------------------- + */ + + const lines = [ + + { + label: 'Influenza %', + + data: labels.map(label => { + + if (useYearlyView) { + + const filtered = rows.filter(r => + String(r.year) === label + ); + + const total = + filtered.reduce( + (sum, r) => + sum + Number(r.influenza_rate || 0), + 0 + ); + + return filtered.length + ? total / filtered.length + : 0; + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.influenza_rate || 0; + + }), + + color: '#1976D2' + }, + + { + label: 'COVID-19 %', + + data: labels.map(label => { + + if (useYearlyView) { + + const filtered = rows.filter(r => + String(r.year) === label + ); + + const total = + filtered.reduce( + (sum, r) => + sum + Number(r.covid_rate || 0), + 0 + ); + + return filtered.length + ? total / filtered.length + : 0; + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.covid_rate || 0; + + }), + + color: '#10b981' + } + + ]; + + /* + |-------------------------------------------------------------------------- + | NDS EXTRA LINES + |-------------------------------------------------------------------------- + */ + if (programCode === 'NDS') { - const evRate = rows.map(r => r.ev_rate || 0); - const mpoxRate = rows.map(r => r.mpox_rate || 0); lines.push( - { label: 'EV %', data: evRate, color: '#f59e0b' }, - { label: 'Mpox %', data: mpoxRate, color: '#8b5cf6' } + + { + label: 'EV %', + + data: labels.map(label => { + + if (useYearlyView) { + + const filtered = rows.filter(r => + String(r.year) === label + ); + + const total = + filtered.reduce( + (sum, r) => + sum + Number(r.ev_rate || 0), + 0 + ); + + return filtered.length + ? total / filtered.length + : 0; + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.ev_rate || 0; + + }), + + color: '#f59e0b' + }, + + { + label: 'Mpox %', + + data: labels.map(label => { + + if (useYearlyView) { + + const filtered = rows.filter(r => + String(r.year) === label + ); + + const total = + filtered.reduce( + (sum, r) => + sum + Number(r.mpox_rate || 0), + 0 + ); + + return filtered.length + ? total / filtered.length + : 0; + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.mpox_rate || 0; + + }), + + color: '#8b5cf6' + } + ); + } buildMixedTrendChart( @@ -270,206 +720,306 @@ function renderProgramTrend(rows) { samples, lines ); -} -function renderSummary(summary) { - - summary = summary || {}; - - const cases = summary.cases || {}; - const hospital = summary.hospital_rate || {}; - const icu = summary.icu_rate || {}; - const positivity = summary.positivity_rate || {}; - - renderTrend( - "totalCases", - "casesChange", - cases.current || 0, - cases.previous || 0 - ); - renderTrend( - "influenzaRate", - "influenzaChange", - summary.influenza_rate.current, - summary.influenza_rate.previous, - "%" - ); - - renderTrend( - "covidRate", - "covidChange", - summary.covid_rate.current, - summary.covid_rate.previous, - "%" - ); - - renderTrend( - "hospitalRate", - "hospitalChange", - hospital.current || 0, - hospital.previous || 0, - "%" - ); - - renderTrend( - "icuRate", - "icuChange", - icu.current || 0, - icu.previous || 0, - "%" - ); - - renderTrend( - "positivityRate", - "positivityChange", - positivity.current || 0, - positivity.previous || 0, - "%" - ); -} -function renderDashboard(data) { - - data = data || {}; - let virusRows = data.virus_trend || []; - if (!virusRows.length) { - virusRows = [ - { period: '', influenza: 0, covid: 0, total_samples: 0 } - ]; - } - renderProgramTrend(data.trend || []); - renderSummary(data.summary || {}); - renderProvinceHeatmap(data.province_distribution || []); - - - const pathogenRows = (data.pathogen_distribution || []) - .sort((a, b) => b.total - a.total); - const colors = [ - '#2563eb', '#10b981', '#f59e0b', '#ef4444', - '#8b5cf6', '#14b8a6', '#f97316', '#84cc16', '#e11dba', '#f6f63b' - ]; - - buildChart( - 'pathogenChart', - 'doughnut', - pathogenRows.map(r => r.pathogen), - pathogenRows.map(r => r.total) - ); - charts['pathogenChart'].data.datasets[0].backgroundColor = colors; - charts['pathogenChart'].update(); - - buildChart( - 'ageChart', - 'doughnut', - (data.age_distribution || []).map(r => r.age_group), - (data.age_distribution || []).map(r => r.total) - ); - charts['ageChart'].data.datasets[0].backgroundColor = colors; - charts['ageChart'].update(); - - buildChart( - 'sexChart', - 'bar', - (data.sex_distribution || []).map(r => r.patient_sex), - (data.sex_distribution || []).map(r => r.total) - ); - charts['sexChart'].data.datasets[0].backgroundColor = colors; - charts['sexChart'].update(); - - buildChart( - 'subtypeChart', - 'bar', - (data.subtype_distribution || []).map(r => r.subtype), - (data.subtype_distribution || []).map(r => r.total) - ); - charts['subtypeChart'].data.datasets[0].backgroundColor = colors; - charts['subtypeChart'].update(); - buildChart( - 'sentinelChart', - 'pie', - (data.sentinel_sites || []).map(r => r.name), - (data.sentinel_sites || []).map(r => r.total) - ); - charts['sentinelChart'].data.datasets[0].backgroundColor = colors; - charts['sentinelChart'].update(); } +function renderAFITrend( + rows = [], + canvasId, + COLORS, + type = 'trend' +) { + /* + |-------------------------------------------------------------------------- + | EMPTY + |-------------------------------------------------------------------------- + */ -//AFI -function renderAFITrend(rows, canvasId, colors) { + if (!rows.length) { + + if (type === 'donut') { + + buildDistributionChart( + canvasId, + 'doughnut', + [], + 'pathogen', + 'total' + ); + + } else { + + buildMixedTrendChart( + canvasId, + [], + [], + [] + ); + + } - if (!rows || !rows.length) { - buildStackedChart(canvasId, [], []); return; } - const cleanRows = rows.filter(r => r.pathogen); + /* + |-------------------------------------------------------------------------- + | DONUT + |-------------------------------------------------------------------------- + */ - const keyFn = r => `${r.year}-${r.period}`; + if (type === 'donut') { + + const grouped = {}; + + rows.forEach(r => { + + const pathogen = + r.pathogen || 'Unknown'; + + grouped[pathogen] ??= 0; + + grouped[pathogen] += + Number(r.total_positive || 0); + + }); + + const donutRows = + + Object.entries(grouped) + + .map(([pathogen, total]) => ({ + pathogen, + total + })); + + buildDistributionChart( + canvasId, + 'doughnut', + donutRows, + 'pathogen', + 'total' + ); + + if (charts[canvasId]) { + + const totalCases = rows.reduce( + (sum, r) => + sum + Number(r.total_cases || 0), + 0 + ); + + charts[canvasId].$afiTotalCases = + totalCases; + + charts[canvasId].update(); + + } + + return; + } + + /* + |-------------------------------------------------------------------------- + | YEARLY VIEW + |-------------------------------------------------------------------------- + */ + + const years = [...new Set( + rows.map(r => Number(r.year)) + )]; + + const totalYears = + Math.max(...years) - Math.min(...years); + + const useYearlyView = + totalYears >= 5; + + /* + |-------------------------------------------------------------------------- + | LABELS + |-------------------------------------------------------------------------- + */ + + let labels; + + if (useYearlyView) { + + labels = [...new Set( + rows.map(r => String(r.year)) + )].sort(); + + } else { + + labels = [...new Set( + rows.map(r => + `${r.year}-W${r.period}` + ) + )].sort((a, b) => { + + const [yearA, weekA] = + a.split('-W').map(Number); + + const [yearB, weekB] = + b.split('-W').map(Number); + + if (yearA !== yearB) { + return yearA - yearB; + } + + return weekA - weekB; + + }); + + } + + /* + |-------------------------------------------------------------------------- + | TOTAL CASES + |-------------------------------------------------------------------------- + */ + + const totalCases = labels.map(label => { + + if (useYearlyView) { + + return rows + .filter(r => + String(r.year) === label + ) + .reduce( + (sum, r) => + sum + Number(r.total_cases || 0), + 0 + ); + + } + + const row = rows.find(r => + `${r.year}-W${r.period}` === label + ); + + return row?.total_cases || 0; - const map = {}; - cleanRows.forEach(r => { - const key = keyFn(r); - if (!map[key]) map[key] = {}; - map[key][r.pathogen] = Number(r.total_tests || r.total || 0); }); - const keys = Object.keys(map).sort((a, b) => { - const [y1, w1] = a.split('-').map(Number); - const [y2, w2] = b.split('-').map(Number); - return y1 !== y2 ? y1 - y2 : w1 - w2; - }); + /* + |-------------------------------------------------------------------------- + | PATHOGENS + |-------------------------------------------------------------------------- + */ - const labels = keys.map(k => `W${k.split('-')[1]}`); + const pathogens = [ - const pathogens = [...new Set(cleanRows.map(r => r.pathogen))]; + ...new Set( + rows.map(r => r.pathogen) + ) - const datasets = pathogens.map((p, i) => ({ - label: p, - data: keys.map(k => map[k][p] || 0), - backgroundColor: colors[i % colors.length] - })); + ]; + + /* + |-------------------------------------------------------------------------- + | LINES + |-------------------------------------------------------------------------- + */ + + const lines = pathogens.map( + (pathogen, i) => ({ + + label: `${pathogen} %`, + + data: labels.map(label => { + + if (useYearlyView) { + + const filtered = rows.filter(r => + String(r.year) === label && + r.pathogen === pathogen + ); + + const total = + filtered.reduce( + (sum, r) => + sum + Number(r.positivity_rate || 0), + 0 + ); + + return filtered.length + ? total / filtered.length + : 0; + + } + + const row = rows.find(r => + + `${r.year}-W${r.period}` + === label + + && r.pathogen === pathogen + + ); + + return row?.positivity_rate || 0; + + }), + + color: + COLORS[ + i % COLORS.length + ] + + }) + ); + + buildMixedTrendChart( + canvasId, + labels, + totalCases, + lines + ); - buildStackedChart(canvasId, labels, datasets); } - -function renderPathogenChart(rows) { - buildChart( +function renderPathogenChart(rows = []) { + buildDistributionChart( 'pathogenChart', 'doughnut', - rows.map(r => r.pathogen), - rows.map(r => r.total) + rows, + 'pathogen' ); } -function renderSentinel(rows) { - buildChart( +function renderSentinel(rows = []) { + buildDistributionChart( 'sentinelChart', 'pie', - rows.map(r => r.name), - rows.map(r => r.total) + rows, + 'name' ); } -function renderDemographics(data) { - buildChart( - 'ageChart', - 'doughnut', - (data.age_distribution || []).map(r => r.age_group), - (data.age_distribution || []).map(r => r.total) - ); +function renderSubtypeChart(rows = []) { - buildChart( - 'sexChart', - 'bar', - (data.sex_distribution || []).map(r => r.patient_sex), - (data.sex_distribution || []).map(r => r.total) - ); -} -function renderSubtypeChart(rows) { - buildChart( + console.log('renderSubtypeChart'); + + buildDistributionChart( 'subtypeChart', 'bar', - rows.map(r => r.subtype), - rows.map(r => r.total) + rows, + 'subtype', + 'total', + getSubtypeColor ); } +function renderDemographics(data = {}) { + buildDistributionChart( + 'ageChart', + 'doughnut', + data.age_distribution || [], + 'age_group' + ); + buildDistributionChart( + 'sexChart', + 'bar', + data.sex_distribution || [], + 'patient_sex' + ); +} \ No newline at end of file diff --git a/dashboard/public/js/sequencing.js b/dashboard/public/js/sequencing.js index daac952..f440a6e 100644 --- a/dashboard/public/js/sequencing.js +++ b/dashboard/public/js/sequencing.js @@ -1,18 +1,18 @@ -let sequencingChart; +import { COLORS, SUBTYPE_COLORS } from "./globals.js"; + +let sequencingTotalChart; let covidLineageFrequencyChart; let influenzaSubtypeFrequencyChart; + document.addEventListener("DOMContentLoaded", () => { - //const canvas = document.getElementById('sequencingChart'); - //if (!canvas) return; + new DashboardFilter((startYear, startWeek, endYear, endWeek) => { fetch(`/api/dashboard/sequencing?surveillance_id=${window.SURVEILLANCE_ID}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) .then(res => res.json()) .then(data => { - //renderSequencingChart(data.trend || []); - renderSequencingCountChart(data.trend || []); - renderSequencingPieChart(data.distribution || []); + renderSequencingTotalChart(data.trend || []); }); @@ -21,7 +21,7 @@ document.addEventListener("DOMContentLoaded", () => { const elements = document.querySelectorAll(".report-period"); elements.forEach(el => { - el.textContent = 'Week ' + startWeek + ' of '+startYear+' to ' + 'Week ' + endWeek + ' of ' + endYear + el.textContent = 'Week ' + startWeek + ' of ' + startYear + ' to ' + 'Week ' + endWeek + ' of ' + endYear }); }); @@ -30,92 +30,14 @@ document.addEventListener("DOMContentLoaded", () => { }); -function renderSequencingCountChart(rows) { - const ctx = document.getElementById('sequencingCountChart'); - - Chart.getChart('sequencingCountChart')?.destroy(); - - rows = processTopSubtypes(rows); - - const weeks = [...new Set(rows.map(r => r.period))]; - const subtypes = [...new Set(rows.map(r => r.subtype))]; - - const colors = [ - '#2563eb', '#10b981', '#f59e0b', '#ef4444', - '#8b5cf6', '#14b8a6', '#f97316', '#84cc16' - ]; - - const datasets = subtypes.map((sub, i) => ({ - label: sub, - data: weeks.map(w => { - const found = rows.find(r => r.period === w && r.subtype === sub); - return found ? found.total : 0; - }), - backgroundColor: hexToRGBA(colors[i % colors.length], 0.3)// colors[i % colors.length] - })); - - new Chart(ctx, { - type: 'bar', - data: { - labels: weeks.map(w => `W${w}`), - datasets - }, - options: { - maintainAspectRatio: false, - scales: { - x: { stacked: true }, - y: { stacked: true } - }, - plugins: { - legend: { - display: true, - position: 'bottom', - align: 'center' - }, - datalabels: { - display: true - } - } - - } - }); -} -function renderSequencingPieChart(rows) { - - const ctx = document.getElementById('sequencingPieChart'); - - Chart.getChart('sequencingPieChart')?.destroy(); - - const top = rows.slice(0, 8); - - const labels = top.map(r => r.subtype); - const values = top.map(r => r.total); - - new Chart(ctx, { - type: 'doughnut', - data: { - labels, - datasets: [{ - data: values - }] - }, - options: { - maintainAspectRatio: false, - plugins: { - legend: { - position: 'bottom' - }, - } - - } - }); -} function renderSequencingTotalChart(rows) { - const ctx = document.getElementById('sequencingTotalChart'); + const ctx = document.getElementById('sequencingTotalChart')?.getContext('2d'); + if (!ctx) return; - Chart.getChart('sequencingTotalChart')?.destroy(); + if (sequencingTotalChart) sequencingTotalChart.destroy(); + const totals = {}; @@ -126,10 +48,10 @@ function renderSequencingTotalChart(rows) { const weeks = Object.keys(totals); const values = Object.values(totals); - new Chart(ctx, { + sequencingTotalChart = new Chart(ctx, { type: 'bar', data: { - labels: weeks.map(w => `W${w}`), + labels: weeks.map(w => `${w}`), datasets: [{ label: 'Total Samples', data: values, @@ -148,116 +70,9 @@ function renderSequencingTotalChart(rows) { } }); + charts['sequencingTotalChart'] = sequencingTotalChart; } -function processTopSubtypes(rows) { - const totals = {}; - - rows.forEach(r => { - totals[r.subtype] = (totals[r.subtype] || 0) + Number(r.total); - }); - - const sorted = Object.entries(totals) - .sort((a, b) => b[1] - a[1]); - - const top = sorted.slice(0, 8).map(([k]) => k); - - return rows.map(r => { - if (!top.includes(r.subtype)) { - return { ...r, subtype: 'Others' }; - } - return r; - }); -} -function renderSequencingChart(rows) { - - rows = processTopSubtypes(rows); - - const ctx = document.getElementById('sequencingChart'); - - if (sequencingChart) { - sequencingChart.destroy(); - } - - const colors = [ - '#2563eb', '#10b981', '#f59e0b', '#ef4444', - '#8b5cf6', '#14b8a6', '#f97316', '#84cc16', - '#6b7280' - ]; - - const aggregated = {}; - - rows.forEach(r => { - const key = `${r.period}_${r.subtype}`; - if (!aggregated[key]) { - aggregated[key] = { ...r }; - } else { - aggregated[key].total += Number(r.total); - } - }); - - console.log('aggregated', aggregated) - - const cleanRows = Object.values(aggregated); - - const weeks = [...new Set(cleanRows.map(r => r.period))]; - const subtypes = [...new Set(cleanRows.map(r => r.subtype))] - .sort((a, b) => { - const sum = s => cleanRows - .filter(r => r.subtype === s) - .reduce((t, r) => t + r.total, 0); - return sum(b) - sum(a); - }); - - const datasets = subtypes.map((sub, i) => { - return { - label: sub, - data: weeks.map(w => { - const weekRows = cleanRows.filter(r => r.period === w); - const total = weekRows.reduce((s, r) => s + Number(r.total), 0); - - const found = weekRows.find(r => r.subtype === sub); - return total ? ((found?.total || 0) / total) * 100 : 0; - }), - fill: true, - tension: 0.3, - backgroundColor: colors[i % colors.length], - borderColor: colors[i % colors.length] - }; - }); - - sequencingChart = new Chart(ctx, { - type: 'line', - data: { - labels: weeks.map(w => `W${w}`), - datasets: datasets - }, - options: { - responsive: true, - maintainAspectRatio: false, - plugins: { - legend: { - display: true, - position: 'bottom', - align: 'center' - }, - datalabels: { - display: false - } - }, - scales: { - x: { stacked: true }, - y: { - stacked: true, - max: 100, - ticks: { - callback: v => v + '%' - } - } - } - } - }); -} @@ -267,49 +82,79 @@ function hexToRGBA(hex, alpha) { const b = parseInt(hex.slice(5, 7), 16); return `rgba(${r}, ${g}, ${b}, ${alpha})`; } - function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/covid-lineage-frequency?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) .then(res => res.json()) .then(data => { - // Extract unique weeks (X-axis) - const weeks = [...new Set(data.map(item => item.week))].sort(); + // const weeks = [...new Set(data.map(item => item.week))].sort(); + const totalYears = endYear - startYear; + const useYearlyView = totalYears >= 5; - // Extract unique lineages + let periods; + + if (useYearlyView) { + + periods = [...new Set( + data.map(item => item.week.split('-')[0]) + )].sort((a, b) => a - b); + + } else { + + periods = [...new Set( + data.map(item => item.week) + )].sort(); + + } const lineages = [...new Set(data.map(item => item.lineage))]; - // Color palette - const colors = [ - '#84cc16','#22c55e','#06b6d4','#3b82f6', - '#6366f1','#a855f7','#ec4899','#ef4444', - '#f97316','#eab308' - ]; - // Build datasets + const datasets = lineages.map((lineage, index) => { - const lineageData = weeks.map(week => { + // const lineageData = weeks.map(week => { + // const found = data.find( + // item => item.week === week && item.lineage === lineage + // ); + // return found ? found.total : 0; + // }); + + const lineageData = periods.map(period => { + + if (useYearlyView) { + + return data + .filter(item => + item.week.split('-')[0] == period && + item.lineage === lineage + ) + .reduce((sum, item) => sum + item.total, 0); + + } + const found = data.find( - item => item.week === week && item.lineage === lineage + item => + item.week === period && + item.lineage === lineage ); + return found ? found.total : 0; + }); return { label: lineage, data: lineageData, - fill: true, // area fill - tension: 0.4, // smooth curve - borderColor: 'transparent', // hide the line + fill: true, + tension: 0.4, + // borderColor: 'transparent', borderWidth: 0, - pointRadius: 0, // hide points - backgroundColor: hexToRGBA(colors[index % colors.length], 0.3), + pointRadius: 0, + backgroundColor: hexToRGBA(COLORS[index % COLORS.length], 0.3), stack: 'total' }; }); - // Destroy previous chart if exists if (covidLineageFrequencyChart) covidLineageFrequencyChart.destroy(); const ctx = document.getElementById('covidLineageFrequency').getContext('2d'); @@ -317,7 +162,7 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en covidLineageFrequencyChart = new Chart(ctx, { type: 'line', data: { - labels: weeks, + labels: periods, datasets: datasets }, options: { @@ -329,24 +174,21 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en }, plugins: { legend: { - display: false // hide default legend + display: false }, tooltip: { mode: 'index', intersect: false }, datalabels: { - display: false // hide labels + display: false } }, scales: { x: { stacked: true, - title: { - display: true, - text: 'Week' - }, - grid:{ + + grid: { display: false } }, @@ -361,13 +203,13 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en } } }); + charts['covidLineageFrequency'] = covidLineageFrequencyChart; // ------------------------- // Custom right-side scrollable legend // ------------------------- const legendContainer = document.getElementById('legendContainer'); - legendContainer.innerHTML = ''; // clear old legend - + legendContainer.innerHTML = ''; datasets.forEach((dataset, index) => { const item = document.createElement('div'); item.style.display = 'flex'; @@ -383,17 +225,13 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en item.addEventListener('click', () => { const meta = covidLineageFrequencyChart.getDatasetMeta(index); - // If the clicked dataset is already the only visible one, show all const allHidden = datasets.every((d, i) => covidLineageFrequencyChart.getDatasetMeta(i).hidden || i === index); if (!allHidden) { - // Hide all datasets datasets.forEach((d, i) => { covidLineageFrequencyChart.getDatasetMeta(i).hidden = true; }); - // Show only clicked meta.hidden = false; } else { - // Show all datasets datasets.forEach((d, i) => { covidLineageFrequencyChart.getDatasetMeta(i).hidden = false; }); @@ -401,7 +239,6 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en covidLineageFrequencyChart.update(); - // Update legend opacity Array.from(legendContainer.children).forEach((child, i) => { const metaItem = covidLineageFrequencyChart.getDatasetMeta(i); child.style.opacity = metaItem.hidden ? 0.5 : 1; @@ -411,156 +248,531 @@ function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, en legendContainer.appendChild(item); }); - // Scrollable CSS (in case legend is long) legendContainer.style.maxHeight = '375px'; legendContainer.style.overflowY = 'auto'; legendContainer.style.padding = '8px'; legendContainer.style.borderRadius = '0px'; }); } - function loadInfluenzaSubtypeFrequency(periodType, startYear, startWeek, endYear, endWeek) { fetch(`/api/dashboard/influenza-relative-frequency-sequencing?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) .then(res => res.json()) .then(data => { - // Extract unique weeks (X-axis) - const weeks = [...new Set(data.map(item => item.week))].sort(); + const totalYears = endYear - startYear; + const useYearlyView = totalYears >= 5; - const colors = [ - '#84cc16','#22c55e','#06b6d4','#3b82f6', - '#6366f1','#a855f7','#ec4899','#ef4444', - '#f97316','#eab308' - ]; + let periods; + + if (useYearlyView) { + + periods = [...new Set( + data.map(item => item.week.split('-')[0]) + )].sort((a, b) => a - b); + + } else { + + periods = [...new Set( + data.map(item => item.week) + )].sort(); + + } + + const lineages = [...new Set( + data.map(item => item.lineage) + )]; + + const lineageColors = lineages.map( + label => SUBTYPE_COLORS[label] || '#9ca3af' + ); - // Extract unique lineages - const lineages = [...new Set(data.map(item => item.lineage))]; - // Build datasets const datasets = lineages.map((lineage, index) => { - const lineageData = weeks.map(week => { + + const lineageData = periods.map(period => { + + if (useYearlyView) { + + return data + .filter(item => + item.week.split('-')[0] == period && + item.lineage === lineage + ) + .reduce((sum, item) => sum + item.total, 0); + + } + const found = data.find( - item => item.week === week && item.lineage === lineage + item => + item.week === period && + item.lineage === lineage ); + return found ? found.total : 0; + }); return { label: lineage, data: lineageData, - fill: true, // area fill - tension: 0.4, // smooth curve - borderColor: 'transparent', // hide the line + fill: true, + tension: 0.4, borderWidth: 0, - pointRadius: 0, // hide points - backgroundColor: hexToRGBA(colors[(index*2) % colors.length], 0.8), + pointRadius: 0, + backgroundColor: hexToRGBA( + lineageColors[index % lineageColors.length], + 0.6 + ), stack: 'total' }; + }); - // Destroy previous chart if exists - if (influenzaSubtypeFrequencyChart) influenzaSubtypeFrequencyChart.destroy(); + if (influenzaSubtypeFrequencyChart) { + influenzaSubtypeFrequencyChart.destroy(); + } - const ctx = document.getElementById('influenzaSubtypeFrequency').getContext('2d'); + const ctx = document + .getElementById('influenzaSubtypeFrequency') + .getContext('2d'); influenzaSubtypeFrequencyChart = new Chart(ctx, { + type: 'line', + data: { - labels: weeks, + labels: periods, datasets: datasets }, + options: { + responsive: true, maintainAspectRatio: false, + interaction: { mode: 'index', intersect: false }, + plugins: { + legend: { - display: false // hide default legend + display: false }, + tooltip: { mode: 'index', intersect: false }, + datalabels: { - display: false // hide labels + display: false } + }, + scales: { + x: { + stacked: true, - title: { - display: true, - text: 'Week' - }, - grid:{ + + + + grid: { display: false } + }, + y: { + stacked: true, + beginAtZero: true, + title: { display: true, text: 'Relative Frequency' - }, + } + } + } + } + }); - const legendContainer = document.getElementById('legendContainerInfluenzaSubtypeFrequency'); - legendContainer.innerHTML = ''; // clear old legend + charts['influenzaSubtypeFrequency'] = + influenzaSubtypeFrequencyChart; + + /* + |-------------------------------------------------------------------------- + | CUSTOM LEGEND + |-------------------------------------------------------------------------- + */ + + const legendContainer = + document.getElementById( + 'legendContainerInfluenzaSubtypeFrequency' + ); + + legendContainer.innerHTML = ''; datasets.forEach((dataset, index) => { + const item = document.createElement('div'); + item.style.display = 'flex'; item.style.alignItems = 'center'; item.style.marginBottom = '4px'; item.style.fontSize = '11px'; item.style.cursor = 'pointer'; + item.innerHTML = ` - + ${dataset.label} `; item.addEventListener('click', () => { - const meta = influenzaSubtypeFrequencyChart.getDatasetMeta(index); - // If the clicked dataset is already the only visible one, show all - const allHidden = datasets.every((d, i) => influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden || i === index); + const meta = + influenzaSubtypeFrequencyChart + .getDatasetMeta(index); + + const allHidden = datasets.every( + (d, i) => + influenzaSubtypeFrequencyChart + .getDatasetMeta(i).hidden || + i === index + ); + if (!allHidden) { - // Hide all datasets + datasets.forEach((d, i) => { - influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = true; + + influenzaSubtypeFrequencyChart + .getDatasetMeta(i) + .hidden = true; + }); - // Show only clicked + meta.hidden = false; + } else { - // Show all datasets + datasets.forEach((d, i) => { - influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = false; + + influenzaSubtypeFrequencyChart + .getDatasetMeta(i) + .hidden = false; + }); + } influenzaSubtypeFrequencyChart.update(); - // Update legend opacity - Array.from(legendContainer.children).forEach((child, i) => { - const metaItem = influenzaSubtypeFrequencyChart.getDatasetMeta(i); - child.style.opacity = metaItem.hidden ? 0.5 : 1; - }); + Array.from(legendContainer.children) + .forEach((child, i) => { + + const metaItem = + influenzaSubtypeFrequencyChart + .getDatasetMeta(i); + + child.style.opacity = + metaItem.hidden ? 0.5 : 1; + + }); + }); legendContainer.appendChild(item); + }); - // Scrollable CSS (in case legend is long) legendContainer.style.maxHeight = '375px'; legendContainer.style.overflowY = 'auto'; legendContainer.style.padding = '8px'; legendContainer.style.borderRadius = '0px'; + }); + } +// function loadCovidLineageFrequency(periodType, startYear, startWeek, endYear, endWeek) { + +// fetch(`/api/dashboard/covid-lineage-frequency?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) +// .then(res => res.json()) +// .then(data => { + +// const weeks = [...new Set(data.map(item => item.week))].sort(); + +// const lineages = [...new Set(data.map(item => item.lineage))]; + + + +// const datasets = lineages.map((lineage, index) => { +// const lineageData = weeks.map(week => { +// const found = data.find( +// item => item.week === week && item.lineage === lineage +// ); +// return found ? found.total : 0; +// }); + +// return { +// label: lineage, +// data: lineageData, +// fill: true, +// tension: 0.4, +// borderColor: 'transparent', +// borderWidth: 0, +// pointRadius: 0, +// backgroundColor: hexToRGBA(colors[index % colors.length], 0.3), +// stack: 'total' +// }; +// }); + +// if (covidLineageFrequencyChart) covidLineageFrequencyChart.destroy(); + +// const ctx = document.getElementById('covidLineageFrequency').getContext('2d'); +// if (!ctx) return; +// covidLineageFrequencyChart = new Chart(ctx, { +// type: 'line', +// data: { +// labels: weeks, +// datasets: datasets +// }, +// options: { +// responsive: true, +// maintainAspectRatio: false, +// interaction: { +// mode: 'index', +// intersect: false +// }, +// plugins: { +// legend: { +// display: false // hide default legend +// }, +// tooltip: { +// mode: 'index', +// intersect: false +// }, +// datalabels: { +// display: false // hide labels +// } +// }, +// scales: { +// x: { +// stacked: true, +// title: { +// display: true, +// text: 'Week' +// }, +// grid: { +// display: false +// } +// }, +// y: { +// stacked: true, +// beginAtZero: true, +// title: { +// display: true, +// text: 'Relative Frequency' +// }, +// } +// } +// } +// }); +// charts['covidLineageFrequencyChart'] = covidLineageFrequencyChart; + +// // ------------------------- +// // Custom right-side scrollable legend +// // ------------------------- +// const legendContainer = document.getElementById('legendContainer'); +// legendContainer.innerHTML = ''; + +// datasets.forEach((dataset, index) => { +// const item = document.createElement('div'); +// item.style.display = 'flex'; +// item.style.alignItems = 'center'; +// item.style.marginBottom = '4px'; +// item.style.fontSize = '11px'; +// item.style.cursor = 'pointer'; +// item.innerHTML = ` +// +// ${dataset.label} +// `; + +// item.addEventListener('click', () => { +// const meta = covidLineageFrequencyChart.getDatasetMeta(index); + +// const allHidden = datasets.every((d, i) => covidLineageFrequencyChart.getDatasetMeta(i).hidden || i === index); +// if (!allHidden) { +// datasets.forEach((d, i) => { +// covidLineageFrequencyChart.getDatasetMeta(i).hidden = true; +// }); +// meta.hidden = false; +// } else { +// datasets.forEach((d, i) => { +// covidLineageFrequencyChart.getDatasetMeta(i).hidden = false; +// }); +// } + +// covidLineageFrequencyChart.update(); + +// Array.from(legendContainer.children).forEach((child, i) => { +// const metaItem = covidLineageFrequencyChart.getDatasetMeta(i); +// child.style.opacity = metaItem.hidden ? 0.5 : 1; +// }); +// }); + +// legendContainer.appendChild(item); +// }); + +// legendContainer.style.maxHeight = '375px'; +// legendContainer.style.overflowY = 'auto'; +// legendContainer.style.padding = '8px'; +// legendContainer.style.borderRadius = '0px'; +// }); +// } + +// function loadInfluenzaSubtypeFrequency(periodType, startYear, startWeek, endYear, endWeek) { + +// fetch(`/api/dashboard/influenza-relative-frequency-sequencing?period_type=${periodType}&start_year=${startYear}&start_week=${startWeek}&end_year=${endYear}&end_week=${endWeek}`) +// .then(res => res.json()) +// .then(data => { + +// const weeks = [...new Set(data.map(item => item.week))].sort(); + + + +// const lineages = [...new Set(data.map(item => item.lineage))]; +// const datasets = lineages.map((lineage, index) => { +// const lineageData = weeks.map(week => { +// const found = data.find( +// item => item.week === week && item.lineage === lineage +// ); +// return found ? found.total : 0; +// }); + +// return { +// label: lineage, +// data: lineageData, +// fill: true, +// tension: 0.4, +// borderColor: 'transparent', +// borderWidth: 0, +// pointRadius: 0, +// backgroundColor: hexToRGBA(colors[(index * 2) % colors.length], 0.8), +// stack: 'total' +// }; +// }); + +// if (influenzaSubtypeFrequencyChart) influenzaSubtypeFrequencyChart.destroy(); + +// const ctx = document.getElementById('influenzaSubtypeFrequency').getContext('2d'); +// if (!ctx) return; +// influenzaSubtypeFrequencyChart = new Chart(ctx, { +// type: 'line', +// data: { +// labels: weeks, +// datasets: datasets +// }, +// options: { +// responsive: true, +// maintainAspectRatio: false, +// interaction: { +// mode: 'index', +// intersect: false +// }, +// plugins: { +// legend: { +// display: false +// }, +// tooltip: { +// mode: 'index', +// intersect: false +// }, +// datalabels: { +// display: false +// } +// }, +// scales: { +// x: { +// stacked: true, +// title: { +// display: true, +// text: 'Week' +// }, +// grid: { +// display: false +// } +// }, +// y: { +// stacked: true, +// beginAtZero: true, +// title: { +// display: true, +// text: 'Relative Frequency' +// }, +// } +// } +// } +// }); +// charts['influenzaSubtypeFrequencyChart'] = influenzaSubtypeFrequencyChart; + +// const legendContainer = document.getElementById('legendContainerInfluenzaSubtypeFrequency'); +// legendContainer.innerHTML = ''; + +// datasets.forEach((dataset, index) => { +// const item = document.createElement('div'); +// item.style.display = 'flex'; +// item.style.alignItems = 'center'; +// item.style.marginBottom = '4px'; +// item.style.fontSize = '11px'; +// item.style.cursor = 'pointer'; +// item.innerHTML = ` +// +// ${dataset.label} +// `; + +// item.addEventListener('click', () => { +// const meta = influenzaSubtypeFrequencyChart.getDatasetMeta(index); + +// const allHidden = datasets.every((d, i) => influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden || i === index); +// if (!allHidden) { +// datasets.forEach((d, i) => { +// influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = true; +// }); +// meta.hidden = false; +// } else { +// datasets.forEach((d, i) => { +// influenzaSubtypeFrequencyChart.getDatasetMeta(i).hidden = false; +// }); +// } + +// influenzaSubtypeFrequencyChart.update(); + +// Array.from(legendContainer.children).forEach((child, i) => { +// const metaItem = influenzaSubtypeFrequencyChart.getDatasetMeta(i); +// child.style.opacity = metaItem.hidden ? 0.5 : 1; +// }); +// }); + +// legendContainer.appendChild(item); +// }); + +// legendContainer.style.maxHeight = '375px'; +// legendContainer.style.overflowY = 'auto'; +// legendContainer.style.padding = '8px'; +// legendContainer.style.borderRadius = '0px'; +// }); +// } \ No newline at end of file diff --git a/dashboard/resources/css/app.css b/dashboard/resources/css/app.css index 3e6abea..b5c61c9 100644 --- a/dashboard/resources/css/app.css +++ b/dashboard/resources/css/app.css @@ -1,11 +1,3 @@ -@import 'tailwindcss'; - -@source '../../vendor/laravel/framework/src/Illuminate/Pagination/resources/views/*.blade.php'; -@source '../../storage/framework/views/*.php'; -@source '../**/*.blade.php'; -@source '../**/*.js'; - -@theme { - --font-sans: 'Instrument Sans', ui-sans-serif, system-ui, sans-serif, 'Apple Color Emoji', 'Segoe UI Emoji', - 'Segoe UI Symbol', 'Noto Color Emoji'; -} +@tailwind base; +@tailwind components; +@tailwind utilities; diff --git a/dashboard/resources/js/app.js b/dashboard/resources/js/app.js index e59d6a0..a8093be 100644 --- a/dashboard/resources/js/app.js +++ b/dashboard/resources/js/app.js @@ -1 +1,7 @@ import './bootstrap'; + +import Alpine from 'alpinejs'; + +window.Alpine = Alpine; + +Alpine.start(); diff --git a/dashboard/resources/views/auth/confirm-password.blade.php b/dashboard/resources/views/auth/confirm-password.blade.php new file mode 100644 index 0000000..3cbbe08 --- /dev/null +++ b/dashboard/resources/views/auth/confirm-password.blade.php @@ -0,0 +1,27 @@ + +
+ {{ __('This is a secure area of the application. Please confirm your password before continuing.') }} +
+ +
+ @csrf + + +
+ + + + + +
+ +
+ + {{ __('Confirm') }} + +
+
+ diff --git a/dashboard/resources/views/auth/forgot-password.blade.php b/dashboard/resources/views/auth/forgot-password.blade.php new file mode 100644 index 0000000..3c70788 --- /dev/null +++ b/dashboard/resources/views/auth/forgot-password.blade.php @@ -0,0 +1,25 @@ + +
+ {{ __('Forgot your password? No problem. Just let us know your email address and we will email you a password reset link that will allow you to choose a new one.') }} +
+ + + + +
+ @csrf + + +
+ + + +
+ +
+ + {{ __('Email Password Reset Link') }} + +
+
+ diff --git a/dashboard/resources/views/auth/login.blade.php b/dashboard/resources/views/auth/login.blade.php new file mode 100644 index 0000000..80e1b39 --- /dev/null +++ b/dashboard/resources/views/auth/login.blade.php @@ -0,0 +1,47 @@ + + + + +
+ @csrf + + +
+ + + +
+ + +
+ + + + + +
+ + +
+ +
+ +
+ @if (Route::has('password.request')) + + {{ __('Forgot your password?') }} + + @endif + + + {{ __('Log in') }} + +
+
+ diff --git a/dashboard/resources/views/auth/register.blade.php b/dashboard/resources/views/auth/register.blade.php new file mode 100644 index 0000000..d4b3d58 --- /dev/null +++ b/dashboard/resources/views/auth/register.blade.php @@ -0,0 +1,52 @@ + +
+ @csrf + + +
+ + + +
+ + +
+ + + +
+ + +
+ + + + + +
+ + +
+ + + + + +
+ +
+ + {{ __('Already registered?') }} + + + + {{ __('Register') }} + +
+
+ diff --git a/dashboard/resources/views/auth/reset-password.blade.php b/dashboard/resources/views/auth/reset-password.blade.php new file mode 100644 index 0000000..a6494cc --- /dev/null +++ b/dashboard/resources/views/auth/reset-password.blade.php @@ -0,0 +1,39 @@ + +
+ @csrf + + + + + +
+ + + +
+ + +
+ + + +
+ + +
+ + + + + +
+ +
+ + {{ __('Reset Password') }} + +
+
+ diff --git a/dashboard/resources/views/auth/verify-email.blade.php b/dashboard/resources/views/auth/verify-email.blade.php new file mode 100644 index 0000000..4e4222f --- /dev/null +++ b/dashboard/resources/views/auth/verify-email.blade.php @@ -0,0 +1,31 @@ + +
+ {{ __('Thanks for signing up! Before getting started, could you verify your email address by clicking on the link we just emailed to you? If you didn\'t receive the email, we will gladly send you another.') }} +
+ + @if (session('status') == 'verification-link-sent') +
+ {{ __('A new verification link has been sent to the email address you provided during registration.') }} +
+ @endif + +
+
+ @csrf + +
+ + {{ __('Resend Verification Email') }} + +
+
+ +
+ @csrf + + +
+
+ diff --git a/dashboard/resources/views/components/application-logo.blade.php b/dashboard/resources/views/components/application-logo.blade.php new file mode 100644 index 0000000..46579cf --- /dev/null +++ b/dashboard/resources/views/components/application-logo.blade.php @@ -0,0 +1,3 @@ + + + diff --git a/dashboard/resources/views/components/auth-session-status.blade.php b/dashboard/resources/views/components/auth-session-status.blade.php new file mode 100644 index 0000000..a39bc7d --- /dev/null +++ b/dashboard/resources/views/components/auth-session-status.blade.php @@ -0,0 +1,7 @@ +@props(['status']) + +@if ($status) +
merge(['class' => 'font-medium text-sm text-green-600 dark:text-green-400']) }}> + {{ $status }} +
+@endif diff --git a/dashboard/resources/views/components/danger-button.blade.php b/dashboard/resources/views/components/danger-button.blade.php new file mode 100644 index 0000000..d7417b2 --- /dev/null +++ b/dashboard/resources/views/components/danger-button.blade.php @@ -0,0 +1,3 @@ + diff --git a/dashboard/resources/views/components/dropdown-link.blade.php b/dashboard/resources/views/components/dropdown-link.blade.php new file mode 100644 index 0000000..6d5279d --- /dev/null +++ b/dashboard/resources/views/components/dropdown-link.blade.php @@ -0,0 +1 @@ +merge(['class' => 'block w-full px-4 py-2 text-start text-sm leading-5 text-gray-700 dark:text-gray-300 hover:bg-gray-100 dark:hover:bg-gray-800 focus:outline-none focus:bg-gray-100 dark:focus:bg-gray-800 transition duration-150 ease-in-out']) }}>{{ $slot }} diff --git a/dashboard/resources/views/components/dropdown.blade.php b/dashboard/resources/views/components/dropdown.blade.php new file mode 100644 index 0000000..e4106a4 --- /dev/null +++ b/dashboard/resources/views/components/dropdown.blade.php @@ -0,0 +1,35 @@ +@props(['align' => 'right', 'width' => '48', 'contentClasses' => 'py-1 bg-white dark:bg-gray-700']) + +@php +$alignmentClasses = match ($align) { + 'left' => 'ltr:origin-top-left rtl:origin-top-right start-0', + 'top' => 'origin-top', + default => 'ltr:origin-top-right rtl:origin-top-left end-0', +}; + +$width = match ($width) { + '48' => 'w-48', + default => $width, +}; +@endphp + +
+
+ {{ $trigger }} +
+ + +
diff --git a/dashboard/resources/views/components/input-error.blade.php b/dashboard/resources/views/components/input-error.blade.php new file mode 100644 index 0000000..ad95f6b --- /dev/null +++ b/dashboard/resources/views/components/input-error.blade.php @@ -0,0 +1,9 @@ +@props(['messages']) + +@if ($messages) + +@endif diff --git a/dashboard/resources/views/components/input-label.blade.php b/dashboard/resources/views/components/input-label.blade.php new file mode 100644 index 0000000..e93b059 --- /dev/null +++ b/dashboard/resources/views/components/input-label.blade.php @@ -0,0 +1,5 @@ +@props(['value']) + + diff --git a/dashboard/resources/views/components/modal.blade.php b/dashboard/resources/views/components/modal.blade.php new file mode 100644 index 0000000..384662a --- /dev/null +++ b/dashboard/resources/views/components/modal.blade.php @@ -0,0 +1,78 @@ +@props([ + 'name', + 'show' => false, + 'maxWidth' => '2xl' +]) + +@php +$maxWidth = [ + 'sm' => 'sm:max-w-sm', + 'md' => 'sm:max-w-md', + 'lg' => 'sm:max-w-lg', + 'xl' => 'sm:max-w-xl', + '2xl' => 'sm:max-w-2xl', +][$maxWidth]; +@endphp + +
+
+
+
+ +
+ {{ $slot }} +
+
diff --git a/dashboard/resources/views/components/nav-link.blade.php b/dashboard/resources/views/components/nav-link.blade.php new file mode 100644 index 0000000..37bad55 --- /dev/null +++ b/dashboard/resources/views/components/nav-link.blade.php @@ -0,0 +1,11 @@ +@props(['active']) + +@php +$classes = ($active ?? false) + ? 'inline-flex items-center px-1 pt-1 border-b-2 border-indigo-400 dark:border-indigo-600 text-sm font-medium leading-5 text-gray-900 dark:text-gray-100 focus:outline-none focus:border-indigo-700 transition duration-150 ease-in-out' + : 'inline-flex items-center px-1 pt-1 border-b-2 border-transparent text-sm font-medium leading-5 text-gray-500 dark:text-gray-400 hover:text-gray-700 dark:hover:text-gray-300 hover:border-gray-300 dark:hover:border-gray-700 focus:outline-none focus:text-gray-700 dark:focus:text-gray-300 focus:border-gray-300 dark:focus:border-gray-700 transition duration-150 ease-in-out'; +@endphp + +merge(['class' => $classes]) }}> + {{ $slot }} + diff --git a/dashboard/resources/views/components/primary-button.blade.php b/dashboard/resources/views/components/primary-button.blade.php new file mode 100644 index 0000000..99bf389 --- /dev/null +++ b/dashboard/resources/views/components/primary-button.blade.php @@ -0,0 +1,3 @@ + diff --git a/dashboard/resources/views/components/responsive-nav-link.blade.php b/dashboard/resources/views/components/responsive-nav-link.blade.php new file mode 100644 index 0000000..98b55d1 --- /dev/null +++ b/dashboard/resources/views/components/responsive-nav-link.blade.php @@ -0,0 +1,11 @@ +@props(['active']) + +@php +$classes = ($active ?? false) + ? 'block w-full ps-3 pe-4 py-2 border-l-4 border-indigo-400 dark:border-indigo-600 text-start text-base font-medium text-indigo-700 dark:text-indigo-300 bg-indigo-50 dark:bg-indigo-900/50 focus:outline-none focus:text-indigo-800 dark:focus:text-indigo-200 focus:bg-indigo-100 dark:focus:bg-indigo-900 focus:border-indigo-700 dark:focus:border-indigo-300 transition duration-150 ease-in-out' + : 'block w-full ps-3 pe-4 py-2 border-l-4 border-transparent text-start text-base font-medium text-gray-600 dark:text-gray-400 hover:text-gray-800 dark:hover:text-gray-200 hover:bg-gray-50 dark:hover:bg-gray-700 hover:border-gray-300 dark:hover:border-gray-600 focus:outline-none focus:text-gray-800 dark:focus:text-gray-200 focus:bg-gray-50 dark:focus:bg-gray-700 focus:border-gray-300 dark:focus:border-gray-600 transition duration-150 ease-in-out'; +@endphp + +merge(['class' => $classes]) }}> + {{ $slot }} + diff --git a/dashboard/resources/views/components/secondary-button.blade.php b/dashboard/resources/views/components/secondary-button.blade.php new file mode 100644 index 0000000..fa1c549 --- /dev/null +++ b/dashboard/resources/views/components/secondary-button.blade.php @@ -0,0 +1,3 @@ + diff --git a/dashboard/resources/views/components/text-input.blade.php b/dashboard/resources/views/components/text-input.blade.php new file mode 100644 index 0000000..3f44b2f --- /dev/null +++ b/dashboard/resources/views/components/text-input.blade.php @@ -0,0 +1,3 @@ +@props(['disabled' => false]) + +merge(['class' => 'border-gray-300 dark:border-gray-700 dark:bg-gray-900 dark:text-gray-300 focus:border-indigo-500 dark:focus:border-indigo-600 focus:ring-indigo-500 dark:focus:ring-indigo-600 rounded-md shadow-sm']) }}> diff --git a/dashboard/resources/views/dashboard/detail.blade.php b/dashboard/resources/views/dashboard/detail.blade.php index b395903..53c0042 100644 --- a/dashboard/resources/views/dashboard/detail.blade.php +++ b/dashboard/resources/views/dashboard/detail.blade.php @@ -74,8 +74,81 @@
+ code === 'AFI'): ?> + +
+
+
+
+
Real-Time RT-PCR (NP/OP Sample)
+

+ (based on selected epiweek range) +

+ +
+ +
+
+ +
+
+
+
+
+
+
+
Real-Time Multiplex RT-PCR (Plasma Sample)
+

+ (based on selected epiweek range) +

+ +
+ +
+
+ +
+ +
+
+
+
+
+
+
Serology ELISA (IgM) (Serum Sample)
+

+ (based on selected epiweek range) +

+ +
+ +
+
+ +
+
+
+
+ + +
+ +
+
@@ -91,6 +164,9 @@
+ + +
@@ -110,6 +186,8 @@
+ +
@@ -205,6 +283,6 @@ window.PROGRAM_CODE = "{{ $selected->code }}"; - + @endsection \ No newline at end of file diff --git a/dashboard/resources/views/dashboard/overview.blade.php b/dashboard/resources/views/dashboard/overview.blade.php index 700b758..b3bb709 100644 --- a/dashboard/resources/views/dashboard/overview.blade.php +++ b/dashboard/resources/views/dashboard/overview.blade.php @@ -45,13 +45,15 @@
-
-
+
+
Epidemic Trend

(based on selected epiweek range)

- +
+ +
@@ -63,14 +65,20 @@
-
+
-
Influenza Subtypes Distribution
+ +
+ Influenza Subtypes Distribution +
+

(based on selected epiweek range)

- +
+ +
@@ -83,13 +91,15 @@
-
+
SARS-CoV-2 Detected Distribute by Age Group

(based on selected epiweek range)

- +
+ +
@@ -97,21 +107,23 @@
- +
-
-
+
+
SARS-CoV-2 Lineage Relative Frequencies Over Time

(based on selected epiweek range)

- +
+ +
-
-
+
+
Influenza Subtypes Relative Frequencies Over Time

(based on selected epiweek range)

- + +
+ +
Influenza Subtypes Detected by Province

(based on selected epiweek range)

-
+
+
+
+
@@ -179,6 +197,6 @@
- + -@endsection +@endsection \ No newline at end of file diff --git a/dashboard/resources/views/dashboard/sequencing.blade.php b/dashboard/resources/views/dashboard/sequencing.blade.php index a001db2..47a1049 100644 --- a/dashboard/resources/views/dashboard/sequencing.blade.php +++ b/dashboard/resources/views/dashboard/sequencing.blade.php @@ -108,5 +108,5 @@ window.SURVEILLANCE_ID = 6; - -@endsection + +@endsection \ No newline at end of file diff --git a/dashboard/resources/views/layouts/app.blade.php b/dashboard/resources/views/layouts/app.blade.php index e086ead..8a05483 100644 --- a/dashboard/resources/views/layouts/app.blade.php +++ b/dashboard/resources/views/layouts/app.blade.php @@ -19,6 +19,7 @@ +  +- +- +- +- +-
 +-
 +- National Reference Medical Laboratory Surveillance Dashboard +-
 +-
 +- Last update: 12:05 | 2026-03-15 +-
 +-
 +- +-
 +- +-  +- Overview +-  +- +- @foreach($programs as $program) +- @if($program->code === 'SEQ') +-  +- SEQ +-  +- @else +-  +- {{ $program->code }} +-  +- @endif +- @endforeach +- +-
 +- +-  +- +-
 +- +-  +- +-
 +-  +-  +-  +-  +-
 +- +-
 +-
 +-
Select Charts
 +-
 +- +-
 +-  +-  +-
 ++ ++  ++  ++  ++  ++ ++ {{ config('app.name', 'Laravel') }} ++ ++  ++  ++  ++ ++  ++ @vite(['resources/css/app.css', 'resources/js/app.js']) ++  ++  ++
 ++ @include('layouts.navigation') ++ ++  ++ @isset($header) ++
 ++
 ++ {{ $header }} +
 +-
 +- +-
 +- +-
 +- +-
 ++  ++ @endisset +  +-
 +-
 +- @yield('content') ++  ++
 ++ {{ $slot }} ++
 +
 +-
 +- +- @yield('scripts') +- +-  +- +- +- ++  +  +diff --git a/dashboard/routes/web.php b/dashboard/routes/web.php +index 4bcbea0..69ac7ac 100644 +--- a/dashboard/routes/web.php ++++ b/dashboard/routes/web.php +@@ -1,17 +1,40 @@ + check() ++ ? redirect()->route('dashboard') ++ : redirect()->route('login'); ++ + }); +  ++Route::get('/dashboard', function () { ++ return view('dashboard'); ++})->middleware(['auth', 'verified'])->name('dashboard'); ++ ++Route::middleware('auth')->group(function () { ++ Route::get('/profile', [ProfileController::class, 'edit'])->name('profile.edit'); ++ Route::patch('/profile', [ProfileController::class, 'update'])->name('profile.update'); ++ Route::delete('/profile', [ProfileController::class, 'destroy'])->name('profile.destroy'); ++ Route::get('/dashboard', [DashboardController::class, 'overview']) ++ ->name('dashboard'); ++ Route::get('/dashboard/{code}', [DashboardController::class, 'detail']) ++ ->name('dashboard.detail'); ++}); ++Route::middleware(['auth', 'role:admin'])->group(function () { ++ ++ Route::get('/admin/users', function () { ++ return view('admin.users'); ++ }); ++ ++ Route::get('/admin/settings', function () { ++ return view('admin.settings'); ++ }); +  +-Route::get('/dashboard/seq', function () { +- return view('dashboard.sequencing'); + }); +-Route::get('/dashboard', [DashboardController::class, 'overview']); +-Route::get('/dashboard/{code}', [DashboardController::class, 'detail']); +  ++require __DIR__ . '/auth.php'; +diff --git a/dashboard/vite.config.js b/dashboard/vite.config.js +index f35b4e7..421b569 100644 +--- a/dashboard/vite.config.js ++++ b/dashboard/vite.config.js +@@ -1,6 +1,5 @@ + import { defineConfig } from 'vite'; + import laravel from 'laravel-vite-plugin'; +-import tailwindcss from '@tailwindcss/vite'; +  + export default defineConfig({ + plugins: [ +@@ -8,11 +7,5 @@ export default defineConfig({ + input: ['resources/css/app.css', 'resources/js/app.js'], + refresh: true, + }), +- tailwindcss(), + ], +- server: { +- watch: { +- ignored: ['**/storage/framework/views/**'], +- }, +- }, + });