public SupportedSearchParameterDefinitionManager(ISearchParameterDefinitionManager inner)
{
EnsureArg.IsNotNull(inner, nameof(inner));
_inner = inner;
}
protected ParallelTaskWorker(TOptions options, int maxParallelism = 1)
{
_options = EnsureArg.IsNotNull(options, nameof(options));
_maxParallelism = EnsureArg.IsGt(maxParallelism, 0, nameof(maxParallelism));
}
public SearchParameterInfo(string name)
{
EnsureArg.IsNotNullOrWhiteSpace(name, nameof(name));
Name = name;
}
public static string CompartmentTypeToResourceType(string compartmentType)
{
EnsureArg.IsTrue(Enum.IsDefined(typeof(CompartmentType), compartmentType), nameof(compartmentType));
return(compartmentType);
}
/// <summary>
/// Initializes a new instance of the class <see cref="FigureInfoFactory"/>.
/// </summary>
public FigureInfoFactory(IFigureInfoTypeProvider figureInfoTypeProvider)
{
_figureInfoTypeProvider = EnsureArg.IsNotNull(figureInfoTypeProvider, nameof(figureInfoTypeProvider));
}
public static Task <RetrieveMetadataResponse> RetrieveDicomInstanceMetadataAsync(
this IMediator mediator, string studyInstanceUid, string seriesInstanceUid, string sopInstanceUid, string ifNoneMatch, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new RetrieveMetadataRequest(studyInstanceUid, seriesInstanceUid, sopInstanceUid, ifNoneMatch), cancellationToken));
}
public NormalizationDataMappingException(Exception ex)
: base(BuildMessage(ex), ex)
{
EnsureArg.IsNotNull(ex, nameof(ex));
}
/// <inheritdoc />
public ReferenceSearchValue Parse(string s)
{
EnsureArg.IsNotNullOrWhiteSpace(s, nameof(s));
Match match = ReferenceRegex.Match(s);
if (match.Success)
{
string resourceTypeInString = match.Groups[ResourceTypeCapture].Value;
ModelInfoProvider.EnsureValidResourceType(resourceTypeInString, nameof(s));
string resourceId = match.Groups[ResourceIdCapture].Value;
int resourceTypeStartIndex = match.Groups[ResourceTypeCapture].Index;
if (resourceTypeStartIndex == 0)
{
// This is relative URL.
return(new ReferenceSearchValue(
ReferenceKind.InternalOrExternal,
null,
resourceTypeInString,
resourceId));
}
Uri baseUri = null;
try
{
baseUri = new Uri(s.Substring(0, resourceTypeStartIndex), UriKind.RelativeOrAbsolute);
if (baseUri == _fhirRequestContextAccessor.FhirRequestContext.BaseUri)
{
// This is an absolute URL pointing to an internal resource.
return(new ReferenceSearchValue(
ReferenceKind.Internal,
null,
resourceTypeInString,
resourceId));
}
else if (baseUri.IsAbsoluteUri &&
SupportedSchemes.Contains(baseUri.Scheme, StringComparer.OrdinalIgnoreCase))
{
// This is an absolute URL pointing to an external resource.
return(new ReferenceSearchValue(
ReferenceKind.External,
baseUri,
resourceTypeInString,
resourceId));
}
}
catch (UriFormatException)
{
// The reference is not a relative reference but is not a valid absolute reference either.
}
}
return(new ReferenceSearchValue(
ReferenceKind.InternalOrExternal,
baseUri: null,
resourceType: null,
resourceId: s));
}
/// <summary>
/// Initializes a new instance of the <see cref="SearchParameterNotSupportedException"/> class.
/// </summary>
/// <param name="definitionUri">The search parameter definition URL.</param>
public SearchParameterNotSupportedException(Uri definitionUri)
{
EnsureArg.IsNotNull(definitionUri, nameof(definitionUri));
AddIssue(string.Format(Core.Resources.SearchParameterByDefinitionUriNotSupported, definitionUri.ToString()));
}
public SqlRootExpressionRewriter(NormalizedSearchParameterQueryGeneratorFactory normalizedSearchParameterQueryGeneratorFactory)
{
EnsureArg.IsNotNull(normalizedSearchParameterQueryGeneratorFactory, nameof(normalizedSearchParameterQueryGeneratorFactory));
_normalizedSearchParameterQueryGeneratorFactory = normalizedSearchParameterQueryGeneratorFactory;
}
public ReferenceSearchValueParser(IFhirRequestContextAccessor fhirRequestContextAccessor)
{
EnsureArg.IsNotNull(fhirRequestContextAccessor, nameof(fhirRequestContextAccessor));
_fhirRequestContextAccessor = fhirRequestContextAccessor;
}
protected override Observation MergeObservationImpl(CodeValueFhirTemplate template, IObservationGroup grp, Observation existingObservation)
{
EnsureArg.IsNotNull(grp, nameof(grp));
EnsureArg.IsNotNull(existingObservation, nameof(existingObservation));
existingObservation.Status = ObservationStatus.Amended;
existingObservation.Category = null;
if (template?.Category?.Count > 0)
{
existingObservation.Category = ResolveCategory(template.Category);
}
var values = grp.GetValues();
(DateTime start, DateTime end)observationPeriod = GetObservationPeriod(existingObservation);
// Update observation value
if (!string.IsNullOrWhiteSpace(template?.Value?.ValueName) && values.TryGetValue(template?.Value?.ValueName, out var obValues))
{
existingObservation.Value = _valueProcessor.MergeValue(template.Value, CreateMergeData(grp.Boundary, observationPeriod, obValues), existingObservation.Value);
}
// Update observation component values
if (template?.Components?.Count > 0)
{
if (existingObservation.Component == null)
{
existingObservation.Component = new List <Observation.ComponentComponent>(template.Components.Count);
}
foreach (var component in template.Components)
{
if (values.TryGetValue(component.Value.ValueName, out var compValues))
{
var foundComponent = existingObservation.Component
.Where(c => c.Code.Coding.Any(code => code.Code == component.Value.ValueName && code.System == FhirImportService.ServiceSystem))
.FirstOrDefault();
if (foundComponent == null)
{
existingObservation.Component.Add(
new Observation.ComponentComponent
{
Code = ResolveCode(component.Value.ValueName, component.Codes),
Value = _valueProcessor.CreateValue(component.Value, CreateMergeData(grp.Boundary, observationPeriod, compValues)),
});
}
else
{
foundComponent.Value = _valueProcessor.MergeValue(component.Value, CreateMergeData(grp.Boundary, observationPeriod, compValues), foundComponent.Value);
}
}
}
}
// Update observation effective period if merge values exist outside the current period.
if (grp.Boundary.Start < observationPeriod.start)
{
observationPeriod.start = grp.Boundary.Start;
}
if (grp.Boundary.End > observationPeriod.end)
{
observationPeriod.end = grp.Boundary.End;
}
existingObservation.Effective = observationPeriod.ToPeriod();
return(existingObservation);
}
public CodeValueFhirTemplateProcessor(IFhirValueProcessor <IObservationData, Element> valueProcessor)
{
EnsureArg.IsNotNull(valueProcessor);
_valueProcessor = valueProcessor;
}
public MetadataResult(RetrieveMetadataResponse response)
: base(EnsureArg.IsNotNull(response, nameof(response)).ResponseMetadata)
{
_response = response;
}
public static Task <UpdateExtendedQueryTagResponse> UpdateExtendedQueryTagAsync(
this IMediator mediator, string tagPath, UpdateExtendedQueryTagEntry newValue, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new UpdateExtendedQueryTagRequest(tagPath, newValue), cancellationToken));
}
protected override bool CanReadType(Type type)
{
EnsureArg.IsNotNull(type, nameof(type));
return(typeof(Resource).IsAssignableFrom(type));
}
public static Task <StoreResponse> StoreDicomResourcesAsync(
this IMediator mediator, Stream requestBody, string requestContentType, string studyInstanceUid, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new StoreRequest(requestBody, requestContentType, studyInstanceUid), cancellationToken));
}
public AccessTokenProviderException(string message)
: base(message)
{
EnsureArg.IsNotNullOrWhiteSpace(message, nameof(message));
}
public static Task <DeleteResourcesResponse> DeleteDicomSeriesAsync(
this IMediator mediator, string studyInstanceUid, string seriesInstanceUid, CancellationToken cancellationToken = default)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new DeleteResourcesRequest(studyInstanceUid, seriesInstanceUid), cancellationToken));
}
public DevelopmentAuthEnvironmentConfigurationSource(string filePath)
{
EnsureArg.IsNotNullOrWhiteSpace(filePath, nameof(filePath));
_filePath = filePath;
}
public CompartmentDefinitionManager(IModelInfoProvider modelInfoProvider)
{
EnsureArg.IsNotNull(modelInfoProvider, nameof(modelInfoProvider));
_modelInfoProvider = modelInfoProvider;
}
/// <summary>
/// Adds an in-process identity provider if enabled in configuration.
/// </summary>
/// <param name="services">The services collection.</param>
/// <param name="configuration">The configuration root. The "DevelopmentIdentityProvider" section will be used to populate configuration values.</param>
/// <returns>The same services collection.</returns>
public static IServiceCollection AddDevelopmentIdentityProvider(this IServiceCollection services, IConfiguration configuration)
{
EnsureArg.IsNotNull(services, nameof(services));
EnsureArg.IsNotNull(configuration, nameof(configuration));
var authorizationConfiguration = new AuthorizationConfiguration();
configuration.GetSection("FhirServer:Security:Authorization").Bind(authorizationConfiguration);
var developmentIdentityProviderConfiguration = new DevelopmentIdentityProviderConfiguration();
configuration.GetSection("DevelopmentIdentityProvider").Bind(developmentIdentityProviderConfiguration);
services.AddSingleton(Options.Create(developmentIdentityProviderConfiguration));
if (developmentIdentityProviderConfiguration.Enabled)
{
services.AddIdentityServer()
.AddDeveloperSigningCredential()
.AddInMemoryApiResources(new[]
{
new ApiResource(
DevelopmentIdentityProviderConfiguration.Audience,
claimTypes: new List <string>()
{
authorizationConfiguration.RolesClaim, ClaimTypes.Name, ClaimTypes.NameIdentifier
})
{
UserClaims = { authorizationConfiguration.RolesClaim },
},
new ApiResource(
WrongAudienceClient,
claimTypes: new List <string>()
{
authorizationConfiguration.RolesClaim, ClaimTypes.Name, ClaimTypes.NameIdentifier
})
{
UserClaims = { authorizationConfiguration.RolesClaim },
},
})
.AddTestUsers(developmentIdentityProviderConfiguration.Users?.Select(user =>
new TestUser
{
Username = user.Id,
Password = user.Id,
IsActive = true,
SubjectId = user.Id,
Claims = user.Roles.Select(r => new Claim(authorizationConfiguration.RolesClaim, r)).ToList(),
}).ToList())
.AddInMemoryClients(
developmentIdentityProviderConfiguration.ClientApplications.Select(
applicationConfiguration =>
new Client
{
ClientId = applicationConfiguration.Id,
// client credentials and ROPC for testing
AllowedGrantTypes = GrantTypes.ResourceOwnerPasswordAndClientCredentials,
// secret for authentication
ClientSecrets = { new Secret(applicationConfiguration.Id.Sha256()) },
// scopes that client has access to
AllowedScopes = { DevelopmentIdentityProviderConfiguration.Audience, WrongAudienceClient },
// app roles that the client app may have
Claims = applicationConfiguration.Roles.Select(r => new Claim(authorizationConfiguration.RolesClaim, r)).Concat(new[] { new Claim("appid", applicationConfiguration.Id) }).ToList(),
ClientClaimsPrefix = string.Empty,
}));
}
return(services);
}
private static Dictionary <CompartmentType, (CompartmentType, Uri, IList <(string, IList <string>)>)> ValidateAndGetCompartmentDict(BundleWrapper bundle)
{
EnsureArg.IsNotNull(bundle, nameof(bundle));
var issues = new List <OperationOutcomeIssue>();
var validatedCompartments = new Dictionary <CompartmentType, (CompartmentType, Uri, IList <(string, IList <string>)>)>();
IReadOnlyList <BundleEntryWrapper> entries = bundle.Entries;
for (int entryIndex = 0; entryIndex < entries.Count; entryIndex++)
{
// Make sure resources are not null and they are Compartment.
BundleEntryWrapper entry = entries[entryIndex];
var compartment = entry.Resource;
if (compartment == null || !string.Equals(KnownResourceTypes.CompartmentDefinition, compartment.InstanceType, StringComparison.Ordinal))
{
AddIssue(Core.Resources.CompartmentDefinitionInvalidResource, entryIndex);
continue;
}
string code = compartment.Scalar("code")?.ToString();
string url = compartment.Scalar("url")?.ToString();
if (code == null)
{
AddIssue(Core.Resources.CompartmentDefinitionInvalidCompartmentType, entryIndex);
continue;
}
CompartmentType typeCode = EnumUtility.ParseLiteral <CompartmentType>(code).GetValueOrDefault();
if (validatedCompartments.ContainsKey(typeCode))
{
AddIssue(Core.Resources.CompartmentDefinitionIsDupe, entryIndex);
continue;
}
if (string.IsNullOrWhiteSpace(url) || !Uri.IsWellFormedUriString(url, UriKind.Absolute))
{
AddIssue(Core.Resources.CompartmentDefinitionInvalidUrl, entryIndex);
continue;
}
var resources = compartment.Select("resource")
.Select(x => (x.Scalar("code")?.ToString(), (IList <string>)x.Select("param").AsStringValues().ToList()))
.ToList();
var resourceNames = resources.Select(x => x.Item1).ToArray();
if (resourceNames.Length != resourceNames.Distinct().Count())
{
AddIssue(Core.Resources.CompartmentDefinitionDupeResource, entryIndex);
continue;
}
validatedCompartments.Add(
typeCode,
(typeCode, new Uri(url), new List <(string, IList <string>)>(resources)));
}
if (issues.Count != 0)
{
throw new InvalidDefinitionException(
Core.Resources.CompartmentDefinitionContainsInvalidEntry,
issues.ToArray());
}
return(validatedCompartments);
void AddIssue(string format, params object[] args)
{
issues.Add(new OperationOutcomeIssue(
OperationOutcomeConstants.IssueSeverity.Fatal,
OperationOutcomeConstants.IssueType.Invalid,
string.Format(CultureInfo.InvariantCulture, format, args)));
}
}
public static Task <AddExtendedQueryTagResponse> AddExtendedQueryTagsAsync(
this IMediator mediator, IEnumerable <AddExtendedQueryTagEntry> extendedQueryTags, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new AddExtendedQueryTagRequest(extendedQueryTags), cancellationToken));
}
public CustomerConsoleCommandEventHandler(IMediator mediator)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
this.mediator = mediator;
}
public static Task <GetExtendedQueryTagResponse> GetExtendedQueryTagAsync(
this IMediator mediator, string extendedQueryTagPath, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new GetExtendedQueryTagRequest(extendedQueryTagPath), cancellationToken));
}
public static bool IsSortSupported(this SearchParameterInfo searchParameterInfo)
{
EnsureArg.IsNotNull(searchParameterInfo, nameof(searchParameterInfo));
return(supportedSortParameters.Contains(searchParameterInfo.Name));
}
public static Task <GetExtendedQueryTagErrorsResponse> GetExtendedQueryTagErrorsAsync(
this IMediator mediator, string extendedQueryTagPath, int limit, int offset, CancellationToken cancellationToken)
{
EnsureArg.IsNotNull(mediator, nameof(mediator));
return(mediator.Send(new GetExtendedQueryTagErrorsRequest(extendedQueryTagPath, limit, offset), cancellationToken));
}
public CompartmentDefinitionManager(FhirJsonParser fhirJsonParser)
{
EnsureArg.IsNotNull(fhirJsonParser, nameof(fhirJsonParser));
_fhirJsonParser = fhirJsonParser;
}
protected internal override void AcceptVisitor(IExpressionVisitor visitor)
{
EnsureArg.IsNotNull(visitor, nameof(visitor));
visitor.Visit(this);
}