347 lines
14 KiB
C#
347 lines
14 KiB
C#
using Elastic.Clients.Elasticsearch;
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using Microsoft.EntityFrameworkCore;
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using Microsoft.Extensions.Diagnostics.HealthChecks;
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using Prometheus;
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using Serilog;
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using StackExchange.Redis;
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using System.Text.Json.Serialization;
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using FluentValidation;
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using FluentValidation.AspNetCore;
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using Microsoft.AspNetCore.Mvc;
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using System.Reflection;
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using Microsoft.AspNetCore.Authentication.JwtBearer;
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using Microsoft.IdentityModel.Tokens;
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using Microsoft.AspNetCore.Authorization;
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using System.Text;
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using Microsoft.OpenApi;
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Log.Logger = new LoggerConfiguration()
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.WriteTo.Console()
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.CreateBootstrapLogger();
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try
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{
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var builder = WebApplication.CreateBuilder(args);
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builder.Services.Configure<JwtOptions>(builder.Configuration.GetSection(JwtOptions.Section));
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var jwtOptions = builder.Configuration.GetSection(JwtOptions.Section).Get<JwtOptions>()!;
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builder.Services.AddAuthentication(JwtBearerDefaults.AuthenticationScheme)
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.AddJwtBearer(options =>
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{
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options.TokenValidationParameters = new TokenValidationParameters
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{
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ValidateIssuer = true,
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ValidateAudience = true,
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ValidateLifetime = true,
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ValidateIssuerSigningKey = true,
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ValidIssuer = jwtOptions.Issuer,
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ValidAudience = jwtOptions.Audience,
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IssuerSigningKey = new SymmetricSecurityKey(Encoding.UTF8.GetBytes(jwtOptions.SigningKey))
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};
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});
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builder.Services.AddSingleton<IAuthorizationPolicyProvider, PermissionPolicyProvider>();
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builder.Services.AddSingleton<IAuthorizationHandler, PermissionAuthorizationHandler>();
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builder.Services.AddAuthorization(options =>
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{
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options.FallbackPolicy = new AuthorizationPolicyBuilder()
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.RequireAuthenticatedUser()
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.Build();
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});
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builder.Services.AddFluentValidationAutoValidation();
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builder.Services.AddValidatorsFromAssemblyContaining<Program>();
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// Serilog's reloadable logger can only be frozen once per process; skip in
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// integration tests where WebApplicationFactory may build multiple hosts.
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if (!builder.Environment.IsEnvironment("Testing"))
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{
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builder.Host.UseSerilog((ctx, services, config) =>
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config.ReadFrom.Configuration(ctx.Configuration)
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.ReadFrom.Services(services)
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.Enrich.FromLogContext()
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.Enrich.WithMachineName()
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.Enrich.WithThreadId());
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}
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builder.Services.AddDbContext<AppDbContext>(opts =>
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opts.UseNpgsql(builder.Configuration.GetConnectionString("DefaultConnection")));
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builder.Services.AddSingleton<IConnectionMultiplexer>(sp =>
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ConnectionMultiplexer.Connect(sp.GetRequiredService<IConfiguration>()["Redis:ConnectionString"]!));
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builder.Services.Configure<KafkaOptions>(
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builder.Configuration.GetSection(KafkaOptions.Section));
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builder.Services.Configure<ElasticsearchOptions>(
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builder.Configuration.GetSection(ElasticsearchOptions.Section));
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var esOptions = builder.Configuration
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.GetSection(ElasticsearchOptions.Section)
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.Get<ElasticsearchOptions>()!;
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builder.Services.AddSingleton(
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new ElasticsearchClient(new Uri(esOptions.Uri)));
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builder.Services.Configure<RabbitMqOptions>(
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builder.Configuration.GetSection(RabbitMqOptions.Section));
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builder.Services.Configure<MinioOptions>(
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builder.Configuration.GetSection(MinioOptions.Section));
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builder.Services.AddSingleton<RabbitMqTopologyProvisioner>();
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builder.Services.AddHostedService(sp => sp.GetRequiredService<RabbitMqTopologyProvisioner>());
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builder.Services.Configure<ReconciliationJobOptions>(
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builder.Configuration.GetSection(ReconciliationJobOptions.Section));
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builder.Services.Configure<DataLakeOptions>(
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builder.Configuration.GetSection(DataLakeOptions.Section));
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builder.Services.Configure<TrendDetectionOptions>(
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builder.Configuration.GetSection(TrendDetectionOptions.SectionName));
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builder.Services.Configure<SuppressionOptions>(
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builder.Configuration.GetSection(SuppressionOptions.SectionName));
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builder.Services.Configure<MedicationCorrelationOptions>(
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builder.Configuration.GetSection(MedicationCorrelationOptions.SectionName));
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builder.Services.Configure<DashboardOptions>(
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builder.Configuration.GetSection(DashboardOptions.Section));
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builder.Services.Configure<SofaOptions>(builder.Configuration.GetSection("Sofa"));
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var dashboardOptions = builder.Configuration
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.GetSection(DashboardOptions.Section)
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.Get<DashboardOptions>() ?? new DashboardOptions();
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builder.Services.Configure<FhirOptions>(
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builder.Configuration.GetSection(FhirOptions.Section));
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builder.Services.Configure<PatientOptions>(
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builder.Configuration.GetSection(PatientOptions.Section));
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builder.Services.AddCors(options =>
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{
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options.AddPolicy("Dashboard", policy =>
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{
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policy.WithOrigins(dashboardOptions.CorsOrigins)
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.AllowAnyHeader()
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.AllowAnyMethod();
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});
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});
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builder.Services.AddScoped<IPatientService, PatientService>();
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builder.Services.AddScoped<IEncounterService, EncounterService>();
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builder.Services.AddScoped<IAlertThresholdService, AlertThresholdService>();
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builder.Services.AddScoped<IObservationService, ObservationService>();
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builder.Services.AddScoped<IObservationQueryService, ObservationQueryService>();
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builder.Services.AddScoped<IAlertService, AlertService>();
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builder.Services.AddScoped<IOrderService, OrderService>();
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builder.Services.AddScoped<IAnalyticsService, AnalyticsService>();
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builder.Services.AddScoped<INews2Service, News2Service>();
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builder.Services.AddScoped<IQsofaService, QsofaService>();
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builder.Services.AddScoped<ISepsisBundleService, SepsisBundleService>();
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builder.Services.AddScoped<SepsisAlertHandler>();
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builder.Services.AddScoped<QsofaDetector>();
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builder.Services.AddScoped<UnacknowledgedAlertsCheck>();
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builder.Services.AddScoped<PendingOrdersCheck>();
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builder.Services.AddScoped<DisconnectedMonitorsCheck>();
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builder.Services.AddScoped<ReconciliationPublisher>();
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builder.Services.AddScoped<WarningEvaluator>();
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builder.Services.AddScoped<News2Detector>();
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builder.Services.AddScoped<TrendDetector>();
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builder.Services.AddSingleton<IAlertSuppressionService, AlertSuppressionService>();
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builder.Services.AddScoped<IMedicationService, MedicationService>();
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builder.Services.AddScoped<MedicationCorrelationHelper>();
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builder.Services.AddScoped<GcsDetector>();
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builder.Services.AddScoped<IGcsService, GcsService>();
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builder.Services.AddScoped<SofaLabCache>();
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builder.Services.AddScoped<SofaVasopressorResolver>();
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builder.Services.AddScoped<SofaDetector>();
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builder.Services.AddScoped<ISofaService, SofaService>();
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builder.Services.AddScoped<IExternalIdentifierService, ExternalIdentifierService>();
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builder.Services.AddScoped<FhirReferenceResolver>();
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builder.Services.AddScoped<PatientFhirMapper>();
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builder.Services.AddScoped<EncounterFhirMapper>();
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builder.Services.AddScoped<ObservationFhirMapper>();
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builder.Services.AddScoped<MedicationAdministrationFhirMapper>();
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builder.Services.AddScoped<FhirBundleProcessor>();
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builder.Services.AddScoped<FhirExceptionFilter>();
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builder.Services.AddHttpContextAccessor();
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builder.Services.AddScoped<ICurrentUserService, CurrentUserService>();
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builder.Services.AddScoped<IAuthService, AuthService>();
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builder.Services.AddScoped<IAuditService, AuditService>();
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builder.Services.AddHostedService<ThresholdCacheLoader>();
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builder.Services.AddHostedService<KafkaTopicProvisioner>();
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builder.Services.AddHostedService<OutboxRelayService>();
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builder.Services.AddHostedService<ElasticIndexProvisioner>();
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builder.Services.AddHostedService<EsIndexerService>();
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builder.Services.AddHostedService<SepsisEngineService>();
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builder.Services.AddHostedService<NotificationPublisherService>();
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builder.Services.AddHostedService<PagingWorkerService>();
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builder.Services.AddHostedService<EscalationWorkerService>();
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builder.Services.AddHostedService<DischargeSummaryWorkerService>();
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builder.Services.AddHostedService<ReconciliationScheduler>();
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builder.Services.AddSingleton<ClinicalMetrics>();
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builder.Services.AddHostedService<AlertsUnacknowledgedCollector>();
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builder.Services.AddHostedService<OutboxPendingCollector>();
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builder.Services.AddHostedService<KafkaConsumerLagCollector>();
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builder.Services.AddHostedService<DataLakeWriterService>();
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builder.Services.AddHostedService<WarningAlertService>();
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builder.Services.AddHostedService<News2ScoringService>();
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builder.Services.AddHostedService<TrendAnalyzerService>();
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builder.Services.AddHostedService<SepsisBundleMonitorService>();
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builder.Services.AddHostedService<GcsScoringService>();
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builder.Services.AddHostedService<SofaScoringService>();
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builder.Services.AddHealthChecks()
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.AddDbContextCheck<AppDbContext>("postgresql", tags: new[] { "ready" })
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.AddCheck<RedisHealthCheck>("redis", tags: new[] { "ready" })
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.AddCheck<KafkaHealthCheck>("kafka", tags: new[] { "ready" })
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.AddCheck<RabbitMqHealthCheck>("rabbitmq", tags: new[] { "ready" })
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.AddCheck<ElasticsearchHealthCheck>("elasticsearch", tags: new[] { "ready" });
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builder.Services.AddControllers()
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.AddJsonOptions(opts =>
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{
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opts.JsonSerializerOptions.ReferenceHandler = ReferenceHandler.IgnoreCycles;
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opts.JsonSerializerOptions.Converters.Add(new BloodTypeJsonConverter());
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opts.JsonSerializerOptions.Converters.Add(new JsonStringEnumConverter());
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opts.JsonSerializerOptions.Converters.Add(new ObservationSourceJsonConverter());
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opts.JsonSerializerOptions.Converters.Add(new DepartmentJsonConverter());
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});
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builder.Services.AddEndpointsApiExplorer();
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builder.Services.AddSwaggerGen(options =>
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{
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options.SwaggerDoc("v1", new OpenApiInfo
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{
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Title = "VigilCare Clinical API",
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Version = "v1",
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Description = "Clinical monitoring and alerting platform API"
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});
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options.AddSecurityDefinition("Bearer", new OpenApiSecurityScheme
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{
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Name = "Authorization",
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Type = SecuritySchemeType.Http,
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Scheme = "bearer",
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BearerFormat = "JWT",
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In = ParameterLocation.Header,
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Description = "Enter your JWT token"
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});
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options.AddSecurityRequirement(document => new OpenApiSecurityRequirement
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{
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{
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new OpenApiSecuritySchemeReference("Bearer", document),
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new List<string>()
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}
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});
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var xmlPath = Path.Combine(AppContext.BaseDirectory,
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$"{Assembly.GetExecutingAssembly().GetName().Name}.xml");
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options.IncludeXmlComments(xmlPath);
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});
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builder.Services.Configure<ApiBehaviorOptions>(options =>
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{
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options.InvalidModelStateResponseFactory = context =>
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{
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var errors = context.ModelState
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.Where(e => e.Value?.Errors.Count > 0)
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.SelectMany(e => e.Value!.Errors.Select(err => new
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{
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field = e.Key,
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message = err.ErrorMessage
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}))
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.ToList();
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var response = ApiResponse<object>.Fail(400,
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"One or more validation errors occurred.", "VALIDATION_ERROR");
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return new BadRequestObjectResult(new
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{
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response.Success,
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response.StatusCode,
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data = (object?)null,
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error = new { message = "One or more validation errors occurred.", code = "VALIDATION_ERROR", details = errors }
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});
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};
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});
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var app = builder.Build();
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if (!app.Environment.IsEnvironment("Testing"))
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{
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using var scope = app.Services.CreateScope();
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var db = scope.ServiceProvider.GetRequiredService<AppDbContext>();
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var redis = scope.ServiceProvider.GetRequiredService<IConnectionMultiplexer>();
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await DataSeeder.SeedAsync(db, redis);
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await UserSeeder.SeedAsync(db);
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}
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if (!app.Environment.IsEnvironment("Testing"))
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{
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app.UseSerilogRequestLogging(options =>
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{
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options.MessageTemplate =
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"HTTP {RequestMethod} {RequestPath} responded {StatusCode} in {Elapsed:0.000}ms";
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});
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}
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app.UseSwagger();
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app.UseSwaggerUI(options =>
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{
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options.SwaggerEndpoint("/swagger/v1/swagger.json", "VigilCare Clinical API v1");
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});
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app.UseMiddleware<CorrelationIdMiddleware>();
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app.UseMiddleware<FhirApiKeyOrJwtMiddleware>();
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app.UseMiddleware<ExceptionHandlerMiddleware>();
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app.UseCors("Dashboard");
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app.UseAuthentication();
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app.UseAuthorization();
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app.MapHealthChecks("/health/live", new Microsoft.AspNetCore.Diagnostics.HealthChecks.HealthCheckOptions
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{
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Predicate = _ => false,
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ResponseWriter = HealthCheckResponseWriter.WriteAsync
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}).AllowAnonymous();
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app.MapHealthChecks("/health/ready", new Microsoft.AspNetCore.Diagnostics.HealthChecks.HealthCheckOptions
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{
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Predicate = check => check.Tags.Contains("ready"),
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ResponseWriter = HealthCheckResponseWriter.WriteAsync
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}).AllowAnonymous();
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app.MapMetrics("/metrics");
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app.MapControllers();
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app.Run();
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}
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/***
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dotnet ef tools use HostFactoryResolver which throws HostAbortedException internally as a control-flow mechanism to stop the host after discovering the DbContext.
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Your generic catch was swallowing it instead of letting it propagate, so EF saw the process exit abnormally.
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***/
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catch (HostAbortedException)
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{
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throw;
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}
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catch (Exception ex)
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{
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Log.Fatal(ex, "Application failed to start.");
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throw;
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}
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finally
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{
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Log.CloseAndFlush();
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}
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public partial class Program { } |