1033 lines
36 KiB
PHP
1033 lines
36 KiB
PHP
<?php
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namespace App\Services;
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use App\Models\Surveillance;
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use App\Models\SurveillanceCase;
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use App\Models\CaseLabResult;
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class DashboardService
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{
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private function totalTested($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
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{
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return SurveillanceCase::where('surveillance_id', $surveillanceId)
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->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
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$q->whereRaw("(year_data > ? OR (year_data = ? AND week_data >= ?))", [$startYear, $startYear, $startWeek])
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->whereRaw("(year_data < ? OR (year_data = ? AND week_data <= ?))", [$endYear, $endYear, $endWeek]);
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})
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->distinct('lab_code')
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->count('lab_code');
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}
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/*
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|--------------------------------------------------------------------------
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| Overview Summary Cards
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|--------------------------------------------------------------------------
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*/
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public function summaryCards()
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{
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$programs = Surveillance::orderBy('id')->get();
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$results = [];
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$today = date('Y-m-d');
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$currentFrom = date('Y-m-d', strtotime('-6 days'));
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$currentTo = $today;
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$prevFrom = date('Y-m-d', strtotime('-13 days'));
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$prevTo = date('Y-m-d', strtotime('-7 days'));
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foreach ($programs as $program) {
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$current = SurveillanceCase::where('surveillance_id', $program->id)
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->whereBetween('case_date', [$currentFrom, $currentTo])
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->count();
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$previous = SurveillanceCase::where('surveillance_id', $program->id)
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->whereBetween('case_date', [$prevFrom, $prevTo])
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->count();
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$percentChange = $previous > 0
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? round((($current - $previous) / $previous) * 100, 1)
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: ($current > 0 ? 100 : 0);
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$results[] = [
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'surveillance_id' => $program->id,
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'code' => $program->code,
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'current_total' => $current,
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'previous_total' => $previous,
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'percent_change' => $percentChange
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];
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}
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return $results;
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}
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/*
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|--------------------------------------------------------------------------
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| Fast SARI Summary (single query)
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|--------------------------------------------------------------------------
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*/
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public function programSummaryFast($surveillanceId, $year, $week)
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{
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$row = SurveillanceCase::leftJoin(
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'case_lab_results',
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'surveillance_cases.lab_code',
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'=',
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'case_lab_results.lab_code'
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)
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->where('surveillance_cases.surveillance_id', $surveillanceId)
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->where('surveillance_cases.year_data', $year)
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->where('surveillance_cases.week_data', $week)
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->selectRaw("
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COUNT(DISTINCT surveillance_cases.lab_code) as total_cases,
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COUNT(DISTINCT CASE
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WHEN case_lab_results.is_positive = 1
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THEN surveillance_cases.lab_code
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END) as overall_positive,
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COUNT(DISTINCT CASE
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WHEN case_lab_results.is_positive = 1
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AND (
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LOWER(case_lab_results.pathogen_name) LIKE '%influenza%'
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OR LOWER(case_lab_results.pathogen_name) LIKE '%influzena%'
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)
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THEN surveillance_cases.lab_code
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END) as influenza_positive,
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COUNT(DISTINCT CASE
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WHEN case_lab_results.is_positive = 1
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AND (
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LOWER(case_lab_results.pathogen_name) LIKE '%covid%'
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OR LOWER(case_lab_results.pathogen_name) LIKE '%sars%'
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)
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THEN surveillance_cases.lab_code
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END) as covid_positive
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")
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->first();
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if (!$row || $row->total_cases == 0) {
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return [
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'cases' => 0,
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'overall_rate' => 0,
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'influenza_rate' => 0,
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'covid_rate' => 0
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];
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}
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return [
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'cases' => $row->total_cases,
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'overall_rate' => round(($row->overall_positive / $row->total_cases) * 100, 1),
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'influenza_rate' => round(($row->influenza_positive / $row->total_cases) * 100, 1),
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'covid_rate' => round(($row->covid_positive / $row->total_cases) * 100, 1),
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];
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}
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/*
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|--------------------------------------------------------------------------
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| Program Summary
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|--------------------------------------------------------------------------
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*/
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public function afiTrend($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
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{
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return CaseLabResult::join(
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'surveillance_cases',
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'case_lab_results.lab_code',
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'=',
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'surveillance_cases.lab_code'
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)
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->where('surveillance_cases.surveillance_id', $surveillanceId)
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->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
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$q->whereRaw("(year_data > ? OR (year_data = ? AND week_data >= ?))", [$startYear, $startYear, $startWeek])
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->whereRaw("(year_data < ? OR (year_data = ? AND week_data <= ?))", [$endYear, $endYear, $endWeek]);
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})
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->where('case_lab_results.is_positive', 1)
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->whereNotNull('case_lab_results.pathogen_name')
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->where('case_lab_results.pathogen_name', '!=', '')
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->where('case_lab_results.pathogen_name', '!=', 'Positive')
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->selectRaw("
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surveillance_cases.year_data as year,
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surveillance_cases.week_data as period,
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CASE
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WHEN LOWER(case_lab_results.pathogen_name) LIKE '%influenza%' THEN 'Influenza'
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ELSE case_lab_results.pathogen_name
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END as pathogen,
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COUNT(DISTINCT surveillance_cases.lab_code) as total
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")
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->groupBy(
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'surveillance_cases.year_data',
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'surveillance_cases.week_data',
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'pathogen'
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)
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->orderBy('surveillance_cases.year_data')
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->orderBy('surveillance_cases.week_data')
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->get();
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}
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public function programSummary($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
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{
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$prevWeek = $endWeek - 1;
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$prevYear = $endYear;
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if ($prevWeek <= 0) {
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$prevWeek = 52;
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$prevYear--;
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}
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$latest = SurveillanceCase::where('surveillance_id', $surveillanceId)
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->selectRaw("year_data, week_data")
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->orderByDesc('year_data')
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->orderByDesc('week_data')
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->first();
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$year = $latest->year_data;
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$week = $latest->week_data;
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$current = $this->programSummaryFast($surveillanceId, $year, $week);
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$previous = $this->programSummaryFast($surveillanceId, $prevYear, $prevWeek);
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$prevWeek = $week - 1;
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$prevYear = $year;
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if ($prevWeek <= 0) {
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$prevWeek = 52;
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$prevYear--;
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}
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$previous = $this->programSummaryFast($surveillanceId, $prevYear, $prevWeek);
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return [
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'cases' => [
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'current' => $current['cases'],
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'previous' => $previous['cases']
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],
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'hospital_rate' => [
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'current' => 0,
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'previous' => 0
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],
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'icu_rate' => [
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'current' => 0,
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'previous' => 0
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],
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'positivity_rate' => [
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'current' => $current['overall_rate'],
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'previous' => $previous['overall_rate']
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],
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'influenza_rate' => [
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'current' => $current['influenza_rate'],
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'previous' => $previous['influenza_rate']
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],
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'covid_rate' => [
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'current' => $current['covid_rate'],
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'previous' => $previous['covid_rate']
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],
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];
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}
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/*
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|--------------------------------------------------------------------------
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| Overview Trend
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|--------------------------------------------------------------------------
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*/
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public function aggregateAllPrograms($startYear, $startWeek, $endYear, $endWeek)
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{
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$data = SurveillanceCase::selectRaw("
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surveillance_id,
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year_data as year,
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week_data as period,
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COUNT(*) as total
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")
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->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
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$q->whereRaw(
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"(year_data > ? OR (year_data = ? AND week_data >= ?))",
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[$startYear, $startYear, $startWeek]
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)
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->whereRaw(
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"(year_data < ? OR (year_data = ? AND week_data <= ?))",
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[$endYear, $endYear, $endWeek]
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);
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})
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->groupBy('surveillance_id', 'year_data', 'week_data')
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->orderBy('year_data')
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->orderBy('week_data')
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->get();
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$programs = Surveillance::pluck('code', 'id');
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$results = [];
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foreach ($data as $row) {
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$code = $programs[$row->surveillance_id];
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$results[$code][] = $row;
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}
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return $results;
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}
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/*
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|--------------------------------------------------------------------------
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| Program Dashboard
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|--------------------------------------------------------------------------
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*/
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public function programDashboardData($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
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{
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return [
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'summary' => $this->programSummary(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'trend' => $this->trendSingleProgram(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'pathogen_distribution' => $this->pathogenDistribution(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'age_distribution' => $this->ageDistribution(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'sex_distribution' => $this->sexDistribution(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'afi_trend' => $this->afiTrend(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'province_distribution' => $this->provinceProgram(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'virus_trend' => $this->virusTrend(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'subtype_distribution' => $this->subtypeDistribution(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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'sentinel_sites' => $this->sentinelSites(
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$surveillanceId,
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$startYear,
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$startWeek,
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$endYear,
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$endWeek
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),
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];
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}
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|
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|
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/*
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|--------------------------------------------------------------------------
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| Trend Single Program
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|--------------------------------------------------------------------------
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*/
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public function trendSingleProgram($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
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{
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$rows = SurveillanceCase::leftJoin(
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'case_lab_results',
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'surveillance_cases.lab_code',
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'=',
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'case_lab_results.lab_code'
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)
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|
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->where('surveillance_cases.surveillance_id', $surveillanceId)
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->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
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$q->whereRaw(
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"(surveillance_cases.year_data > ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data >= ?))",
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[$startYear, $startYear, $startWeek]
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)
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->whereRaw(
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"(surveillance_cases.year_data < ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data <= ?))",
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[$endYear, $endYear, $endWeek]
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);
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})
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->selectRaw("
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surveillance_cases.year_data as year,
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surveillance_cases.week_data as period,
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|
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COUNT(DISTINCT surveillance_cases.lab_code) as total_samples,
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|
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-- Overall positivity rate
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ROUND(
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COUNT(DISTINCT CASE
|
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WHEN case_lab_results.is_positive = 1
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THEN surveillance_cases.lab_code
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END)
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/ NULLIF(COUNT(DISTINCT surveillance_cases.lab_code), 0) * 100
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,1) as positivity_rate,
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|
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-- Influenza positivity rate
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ROUND(
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COUNT(DISTINCT CASE
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WHEN case_lab_results.is_positive = 1
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AND (
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LOWER(case_lab_results.pathogen_name) LIKE '%influenza%'
|
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OR LOWER(case_lab_results.pathogen_name) LIKE '%influzena%'
|
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)
|
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THEN surveillance_cases.lab_code
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END)
|
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/ NULLIF(COUNT(DISTINCT surveillance_cases.lab_code), 0) * 100
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,1) as influenza_rate,
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|
||
-- COVID positivity rate
|
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ROUND(
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COUNT(DISTINCT CASE
|
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WHEN case_lab_results.is_positive = 1
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AND (
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case_lab_results.pathogen_name = 'Positive'
|
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OR case_lab_results.pathogen_name = 'SARS-CoV-2'
|
||
)
|
||
AND case_lab_results.indicator LIKE '%Covid%'
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THEN surveillance_cases.lab_code
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END)
|
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/ NULLIF(COUNT(DISTINCT surveillance_cases.lab_code), 0) * 100
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,1) as covid_rate
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")
|
||
|
||
->groupBy(
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'surveillance_cases.year_data',
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'surveillance_cases.week_data'
|
||
)
|
||
|
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->get()
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->keyBy(fn($r) => $r->year . '-' . $r->period);
|
||
|
||
|
||
|
||
$results = [];
|
||
|
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$year = $startYear;
|
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$week = $startWeek;
|
||
|
||
while (true) {
|
||
|
||
$key = $year . '-' . $week;
|
||
|
||
if (isset($rows[$key])) {
|
||
|
||
$results[] = $rows[$key];
|
||
|
||
} else {
|
||
|
||
$results[] = [
|
||
'year' => $year,
|
||
'period' => $week,
|
||
'total_samples' => 0,
|
||
'positivity_rate' => 0
|
||
];
|
||
|
||
}
|
||
|
||
if ($year == $endYear && $week == $endWeek)
|
||
break;
|
||
|
||
$week++;
|
||
|
||
if ($week > 52) {
|
||
$week = 1;
|
||
$year++;
|
||
}
|
||
|
||
}
|
||
|
||
return $results;
|
||
|
||
}
|
||
public function virusTrend($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return 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, $endWeek]);
|
||
})
|
||
|
||
->selectRaw("
|
||
surveillance_cases.week_data as period,
|
||
|
||
COUNT(DISTINCT CASE
|
||
WHEN case_lab_results.is_positive = 1
|
||
AND (
|
||
LOWER(case_lab_results.pathogen_name) LIKE '%influenza%'
|
||
OR LOWER(case_lab_results.pathogen_name) LIKE '%influzena%'
|
||
)
|
||
THEN surveillance_cases.lab_code
|
||
END) as influenza,
|
||
|
||
COUNT(DISTINCT CASE
|
||
WHEN case_lab_results.is_positive = 1
|
||
AND (
|
||
case_lab_results.pathogen_name = 'Positive'
|
||
OR case_lab_results.pathogen_name = 'SARS-CoV-2'
|
||
)
|
||
AND case_lab_results.indicator LIKE '%Covid%'
|
||
THEN surveillance_cases.lab_code
|
||
END) as covid
|
||
")
|
||
|
||
->groupBy('surveillance_cases.week_data')
|
||
->orderBy('surveillance_cases.week_data')
|
||
->get();
|
||
}
|
||
|
||
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| Province Distribution (Program)
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
public function provinceCircles($startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
|
||
return SurveillanceCase::join('case_lab_results', function ($join) {
|
||
$join->on('surveillance_cases.lab_code', '=', 'case_lab_results.lab_code')
|
||
->on('surveillance_cases.surveillance_id', '=', 'case_lab_results.surveillance_id');
|
||
})
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?",
|
||
[
|
||
$startYear * 100 + $startWeek,
|
||
$endYear * 100 + $endWeek
|
||
]
|
||
);
|
||
})
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id not in(6) and case_lab_results.indicator="Influenza"')
|
||
->selectRaw("
|
||
surveillance_cases.patient_province,
|
||
case_lab_results.subtype as pathogen_name,
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
->groupBy(
|
||
'surveillance_cases.patient_province',
|
||
'case_lab_results.subtype'
|
||
)
|
||
->get();
|
||
|
||
|
||
return SurveillanceCase::leftJoin(
|
||
'case_lab_results',
|
||
'surveillance_cases.lab_code',
|
||
'=',
|
||
'case_lab_results.lab_code'
|
||
)
|
||
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data > ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data >= ?))",
|
||
[$startYear, $startYear, $startWeek]
|
||
)
|
||
->whereRaw(
|
||
"(surveillance_cases.year_data < ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data <= ?))",
|
||
[$endYear, $endYear, $endWeek]
|
||
)
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id not in(6)');
|
||
})
|
||
|
||
->selectRaw("
|
||
surveillance_cases.patient_province,
|
||
case_lab_results.pathogen_name,
|
||
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
|
||
->groupBy(
|
||
'surveillance_cases.patient_province',
|
||
'case_lab_results.pathogen_name'
|
||
)
|
||
|
||
->get();
|
||
}
|
||
|
||
/* Start Overview Section */
|
||
|
||
public function influenzaSubtypeDetected($startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::join('case_lab_results', function ($join) {
|
||
$join->on('surveillance_cases.lab_code', '=', 'case_lab_results.lab_code')
|
||
->on('surveillance_cases.surveillance_id', '=', 'case_lab_results.surveillance_id');
|
||
})
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?",
|
||
[
|
||
$startYear * 100 + $startWeek,
|
||
$endYear * 100 + $endWeek
|
||
]
|
||
);
|
||
})
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id not in(6) and case_lab_results.indicator="Influenza"')
|
||
->selectRaw("
|
||
case_lab_results.subtype,
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
->groupBy(
|
||
'case_lab_results.subtype'
|
||
)
|
||
->get();
|
||
}
|
||
|
||
public function covidDistributedByAgeGroup($startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::join('case_lab_results', function ($join) {
|
||
$join->on('surveillance_cases.lab_code', '=', 'case_lab_results.lab_code')
|
||
->on('surveillance_cases.surveillance_id', '=', 'case_lab_results.surveillance_id');
|
||
})
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?",
|
||
[
|
||
$startYear * 100 + $startWeek,
|
||
$endYear * 100 + $endWeek
|
||
]
|
||
);
|
||
})
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id not in(6) and case_lab_results.indicator="Covid-19"')
|
||
->selectRaw("
|
||
CASE
|
||
WHEN patient_age_inday <= 28 THEN '0–28 days'
|
||
WHEN patient_age_inday <= 364 THEN '29 days–11 months'
|
||
WHEN patient_age_inday <= 1460 THEN '1–4 years'
|
||
WHEN patient_age_inday <= 5110 THEN '5–14 years'
|
||
WHEN patient_age_inday <= 8765 THEN '15–24 years'
|
||
WHEN patient_age_inday <= 18250 THEN '25–49 years'
|
||
WHEN patient_age_inday <= 23725 THEN '50–64 years'
|
||
ELSE '65+ years'
|
||
END as age_group,
|
||
CASE
|
||
WHEN patient_age_inday <= 28 THEN 1
|
||
WHEN patient_age_inday <= 364 THEN 2
|
||
WHEN patient_age_inday <= 1460 THEN 3
|
||
WHEN patient_age_inday <= 5110 THEN 4
|
||
WHEN patient_age_inday <= 8765 THEN 5
|
||
WHEN patient_age_inday <= 18250 THEN 6
|
||
WHEN patient_age_inday <= 23725 THEN 7
|
||
ELSE 8
|
||
END as age_order,
|
||
COUNT(*) as total
|
||
")
|
||
->groupBy('age_group', 'age_order')
|
||
->orderBy('age_order')
|
||
->get();
|
||
|
||
}
|
||
|
||
public function covidLineageRelativeOverTime($startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::join('case_lab_results', function ($join) {
|
||
$join->on('surveillance_cases.lab_code', '=', 'case_lab_results.lab_code')
|
||
->on('surveillance_cases.surveillance_id', '=', 'case_lab_results.surveillance_id');
|
||
})
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?",
|
||
[
|
||
$startYear * 100 + $startWeek,
|
||
$endYear * 100 + $endWeek
|
||
]
|
||
);
|
||
})
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id=6 and case_lab_results.indicator="Covid-19" and case_lab_results.pathogen_name not in("","unable to align","N/A","NA")')
|
||
->selectRaw("
|
||
case_lab_results.pathogen_name as lineage,
|
||
concat(surveillance_cases.year_data,'-',surveillance_cases.week_data) as week,
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
->groupBy(
|
||
'case_lab_results.pathogen_name',
|
||
'week'
|
||
)
|
||
->get();
|
||
}
|
||
|
||
public function influenzaRelativeOverTime($startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::join('case_lab_results', function ($join) {
|
||
$join->on('surveillance_cases.lab_code', '=', 'case_lab_results.lab_code')
|
||
->on('surveillance_cases.surveillance_id', '=', 'case_lab_results.surveillance_id');
|
||
})
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data * 100 + surveillance_cases.week_data) BETWEEN ? AND ?",
|
||
[
|
||
$startYear * 100 + $startWeek,
|
||
$endYear * 100 + $endWeek
|
||
]
|
||
);
|
||
})
|
||
->whereRaw('case_lab_results.is_positive = 1 and surveillance_cases.surveillance_id not in(6) and case_lab_results.indicator="Influenza"')
|
||
->selectRaw("
|
||
case_lab_results.subtype as lineage,
|
||
concat(surveillance_cases.year_data,'-',surveillance_cases.week_data) as week,
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
->groupBy(
|
||
'case_lab_results.subtype',
|
||
'week'
|
||
)
|
||
->get();
|
||
}
|
||
|
||
/* End Overview Section */
|
||
|
||
public function provinceProgram($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::selectRaw("
|
||
surveillance_cases.patient_province,
|
||
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total,
|
||
|
||
COUNT(DISTINCT CASE
|
||
WHEN case_lab_results.is_positive = 1
|
||
THEN surveillance_cases.lab_code
|
||
END) as positive
|
||
")
|
||
|
||
->join(
|
||
'case_lab_results',
|
||
'surveillance_cases.lab_code',
|
||
'=',
|
||
'case_lab_results.lab_code'
|
||
)
|
||
|
||
->where('surveillance_cases.surveillance_id', $surveillanceId)
|
||
|
||
->where(function ($q) use ($startYear, $startWeek, $endYear, $endWeek) {
|
||
|
||
$q->whereRaw(
|
||
"(surveillance_cases.year_data > ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data >= ?))",
|
||
[$startYear, $startYear, $startWeek]
|
||
)
|
||
|
||
->whereRaw(
|
||
"(surveillance_cases.year_data < ? OR (surveillance_cases.year_data = ? AND surveillance_cases.week_data <= ?))",
|
||
[$endYear, $endYear, $endWeek]
|
||
);
|
||
|
||
})
|
||
|
||
->groupBy('surveillance_cases.patient_province')
|
||
->get();
|
||
}
|
||
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| sentinel sites
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
public function sentinelSites($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::selectRaw("
|
||
sentinel_site_name as name,
|
||
COUNT(DISTINCT lab_code) as total
|
||
")
|
||
->where('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, $endWeek]);
|
||
})
|
||
|
||
->groupBy('sentinel_site_name')
|
||
->orderByDesc('total')
|
||
->get();
|
||
}
|
||
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| Pathogen Distribution
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
|
||
public function pathogenDistribution($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
$total = $this->totalTested($surveillanceId, $startYear, $startWeek, $endYear, $endWeek);
|
||
|
||
$rows = CaseLabResult::where('case_lab_results.surveillance_id', $surveillanceId)
|
||
|
||
->whereIn('lab_code', function ($q) use ($surveillanceId, $startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->select('lab_code')
|
||
->from('surveillance_cases')
|
||
->where('surveillance_id', $surveillanceId)
|
||
->whereRaw("(year_data > ? OR (year_data = ? AND week_data >= ?))", [$startYear, $startYear, $startWeek])
|
||
->whereRaw("(year_data < ? OR (year_data = ? AND week_data <= ?))", [$endYear, $endYear, $endWeek]);
|
||
})
|
||
|
||
->where('case_lab_results.is_positive', 1)
|
||
|
||
->selectRaw("
|
||
CASE
|
||
WHEN LOWER(case_lab_results.pathogen_name) LIKE '%influenza%'
|
||
THEN 'Influenza'
|
||
ELSE case_lab_results.pathogen_name
|
||
END as pathogen,
|
||
|
||
COUNT(DISTINCT case_lab_results.lab_code) as total
|
||
")
|
||
|
||
->groupBy('pathogen')
|
||
->havingRaw("pathogen IS NOT NULL AND pathogen != ''")
|
||
->orderByDesc('total')
|
||
->get();
|
||
|
||
return $rows->map(function ($r) use ($total) {
|
||
$r->rate = $total > 0 ? round(($r->total / $total) * 100, 1) : 0;
|
||
return $r;
|
||
});
|
||
}
|
||
public function subtypeDistribution($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
$total = $this->totalTested($surveillanceId, $startYear, $startWeek, $endYear, $endWeek);
|
||
|
||
$rows = CaseLabResult::where('case_lab_results.surveillance_id', $surveillanceId)
|
||
|
||
->whereIn('case_lab_results.lab_code', function ($q) use ($surveillanceId, $startYear, $startWeek, $endYear, $endWeek) {
|
||
$q->select('lab_code')
|
||
->from('surveillance_cases')
|
||
->where('surveillance_id', $surveillanceId)
|
||
->whereRaw("(year_data > ? OR (year_data = ? AND week_data >= ?))", [$startYear, $startYear, $startWeek])
|
||
->whereRaw("(year_data < ? OR (year_data = ? AND week_data <= ?))", [$endYear, $endYear, $endWeek]);
|
||
})
|
||
|
||
->where('case_lab_results.is_positive', 1)
|
||
|
||
->selectRaw("
|
||
COALESCE(NULLIF(case_lab_results.subtype, ''), 'Unsubtyped') as subtype,
|
||
COUNT(DISTINCT case_lab_results.lab_code) as total
|
||
")
|
||
|
||
->where('case_lab_results.subtype', '!=', 'Positive')
|
||
|
||
->groupBy('subtype')
|
||
->orderByDesc('total')
|
||
->get();
|
||
|
||
return $rows->map(function ($r) use ($total) {
|
||
$r->rate = $total > 0 ? round(($r->total / $total) * 100, 1) : 0;
|
||
return $r;
|
||
});
|
||
}
|
||
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| Age Distribution
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
|
||
public function ageDistribution($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return SurveillanceCase::selectRaw("
|
||
CASE
|
||
WHEN patient_age_inday <= 28 THEN '0–28 days'
|
||
WHEN patient_age_inday <= 364 THEN '29 days–11 months'
|
||
WHEN patient_age_inday <= 1460 THEN '1–4 years'
|
||
WHEN patient_age_inday <= 5110 THEN '5–14 years'
|
||
WHEN patient_age_inday <= 8765 THEN '15–24 years'
|
||
WHEN patient_age_inday <= 18250 THEN '25–49 years'
|
||
WHEN patient_age_inday <= 23725 THEN '50–64 years'
|
||
ELSE '65+ years'
|
||
END as age_group,
|
||
|
||
CASE
|
||
WHEN patient_age_inday <= 28 THEN 1
|
||
WHEN patient_age_inday <= 364 THEN 2
|
||
WHEN patient_age_inday <= 1460 THEN 3
|
||
WHEN patient_age_inday <= 5110 THEN 4
|
||
WHEN patient_age_inday <= 8765 THEN 5
|
||
WHEN patient_age_inday <= 18250 THEN 6
|
||
WHEN patient_age_inday <= 23725 THEN 7
|
||
ELSE 8
|
||
END as age_order,
|
||
|
||
COUNT(*) as total
|
||
")
|
||
|
||
->where('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, $endWeek]
|
||
);
|
||
|
||
})
|
||
|
||
->groupBy('age_group', 'age_order')
|
||
->orderBy('age_order')
|
||
->get();
|
||
}
|
||
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| Sex Distribution
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
|
||
public function sexDistribution($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
|
||
return SurveillanceCase::selectRaw("
|
||
patient_sex,
|
||
COUNT(*) as total
|
||
")
|
||
|
||
->where('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, $endWeek]
|
||
);
|
||
|
||
})
|
||
|
||
->groupBy('patient_sex')
|
||
->get();
|
||
|
||
}
|
||
/*
|
||
|--------------------------------------------------------------------------
|
||
| sequencing trend
|
||
|--------------------------------------------------------------------------
|
||
*/
|
||
|
||
|
||
public function sequencingTrend($surveillanceId, $startYear, $startWeek, $endYear, $endWeek)
|
||
{
|
||
return CaseLabResult::join(
|
||
'surveillance_cases',
|
||
'case_lab_results.lab_code',
|
||
'=',
|
||
'surveillance_cases.lab_code'
|
||
)
|
||
->where('surveillance_cases.surveillance_id', $surveillanceId)
|
||
|
||
->where('case_lab_results.is_positive', 1)
|
||
|
||
->whereNotNull('subtype')
|
||
|
||
->where(function ($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.week_data as period,
|
||
subtype,
|
||
COUNT(DISTINCT surveillance_cases.lab_code) as total
|
||
")
|
||
|
||
->groupBy('period', 'subtype')
|
||
->orderBy('period')
|
||
->get();
|
||
}
|
||
}
|