package ca.uhn.fhir.jpa.rp.r5;

import java.util.*;

import org.apache.commons.lang3.StringUtils;

import ca.uhn.fhir.jpa.searchparam.SearchParameterMap;
import ca.uhn.fhir.model.api.Include;
import ca.uhn.fhir.model.api.annotation.*;
import org.hl7.fhir.r5.model.*;
import ca.uhn.fhir.rest.annotation.*;
import ca.uhn.fhir.rest.param.*;
import ca.uhn.fhir.rest.api.SortSpec;
import ca.uhn.fhir.rest.api.SummaryEnum;
import ca.uhn.fhir.rest.api.SearchTotalModeEnum;
import ca.uhn.fhir.rest.api.SearchContainedModeEnum;

public class MolecularSequenceResourceProvider extends 
        ca.uhn.fhir.jpa.provider.BaseJpaResourceProvider<MolecularSequence>
        {

        @Override
        public Class<MolecularSequence> getResourceType() {
                return MolecularSequence.class;
        }

        @Search(allowUnknownParams=true)
        public ca.uhn.fhir.rest.api.server.IBundleProvider search(
                        jakarta.servlet.http.HttpServletRequest theServletRequest,
                        jakarta.servlet.http.HttpServletResponse theServletResponse,

                        ca.uhn.fhir.rest.api.server.RequestDetails theRequestDetails,

                        @Description(shortDefinition="Search the contents of the resource's data using a filter")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_FILTER)
                        StringAndListParam theFtFilter,

                        @Description(shortDefinition="Search the contents of the resource's data using a fulltext search")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_CONTENT)
                        StringAndListParam theFtContent, 

                        @Description(shortDefinition="Search the contents of the resource's narrative using a fulltext search")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_TEXT)
                        StringAndListParam theFtText, 

                        @Description(shortDefinition="Search for resources which have the given tag")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_TAG)
                        TokenAndListParam theSearchForTag, 

                        @Description(shortDefinition="Search for resources which have the given security labels")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_SECURITY)
                        TokenAndListParam theSearchForSecurity, 
  
                        @Description(shortDefinition="Search for resources which have the given profile")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_PROFILE)
                        UriAndListParam theSearchForProfile,

                        @Description(shortDefinition="Search the contents of the resource's data using a list")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_LIST)
                        StringAndListParam theList,

                        @Description(shortDefinition="The language of the resource")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_LANGUAGE)
                        TokenAndListParam theResourceLanguage,

                        @Description(shortDefinition="Search for resources which have the given source value (Resource.meta.source)")
                        @OptionalParam(name=ca.uhn.fhir.rest.api.Constants.PARAM_SOURCE)
                        UriAndListParam theSearchForSource,

                        @Description(shortDefinition="Return resources linked to by the given target")
                        @OptionalParam(name="_has")
                        HasAndListParam theHas, 

   

                        @Description(shortDefinition="The ID of the resource")
                        @OptionalParam(name="_id")
                        TokenAndListParam the_id,
   

                        @Description(shortDefinition="Only return resources which were last updated as specified by the given range")
                        @OptionalParam(name="_lastUpdated")
                        DateRangeParam the_lastUpdated, 
   

                        @Description(shortDefinition="The profile of the resource")
                        @OptionalParam(name="_profile")
                        UriAndListParam the_profile, 
   

                        @Description(shortDefinition="The security of the resource")
                        @OptionalParam(name="_security")
                        TokenAndListParam the_security,
   

                        @Description(shortDefinition="The tag of the resource")
                        @OptionalParam(name="_tag")
                        TokenAndListParam the_tag,
   

                        @Description(shortDefinition="Search on the narrative of the resource")
                        @OptionalParam(name="_text")
                        SpecialAndListParam the_text,
   

                        @Description(shortDefinition="What the molecular sequence is about, when it is not about the subject of record")
                        @OptionalParam(name="focus", targetTypes={  } )
                        ReferenceAndListParam theFocus, 
   

                        @Description(shortDefinition="Multiple Resources: * [Account](account.html): Account number* [AdverseEvent](adverseevent.html): Business identifier for the event* [AllergyIntolerance](allergyintolerance.html): External ids for this item* [Appointment](appointment.html): An Identifier of the Appointment* [AppointmentResponse](appointmentresponse.html): An Identifier in this appointment response* [Basic](basic.html): Business identifier* [BodyStructure](bodystructure.html): Bodystructure identifier* [CarePlan](careplan.html): External Ids for this plan* [CareTeam](careteam.html): External Ids for this team* [ChargeItem](chargeitem.html): Business Identifier for item* [Claim](claim.html): The primary identifier of the financial resource* [ClaimResponse](claimresponse.html): The identity of the ClaimResponse* [ClinicalImpression](clinicalimpression.html): Business identifier* [Communication](communication.html): Unique identifier* [CommunicationRequest](communicationrequest.html): Unique identifier* [Composition](composition.html): Version-independent identifier for the Composition* [Condition](condition.html): A unique identifier of the condition record* [Consent](consent.html): Identifier for this record (external references)* [Contract](contract.html): The identity of the contract* [Coverage](coverage.html): The primary identifier of the insured and the coverage* [CoverageEligibilityRequest](coverageeligibilityrequest.html): The business identifier of the Eligibility* [CoverageEligibilityResponse](coverageeligibilityresponse.html): The business identifier* [DetectedIssue](detectedissue.html): Unique id for the detected issue* [DeviceRequest](devicerequest.html): Business identifier for request/order* [DeviceUsage](deviceusage.html): Search by identifier* [DiagnosticReport](diagnosticreport.html): An identifier for the report* [DocumentReference](documentreference.html): Identifier of the attachment binary* [Encounter](encounter.html): Identifier(s) by which this encounter is known* [EnrollmentRequest](enrollmentrequest.html): The business identifier of the Enrollment* [EpisodeOfCare](episodeofcare.html): Business Identifier(s) relevant for this EpisodeOfCare* [ExplanationOfBenefit](explanationofbenefit.html): The business identifier of the Explanation of Benefit* [FamilyMemberHistory](familymemberhistory.html): A search by a record identifier* [Flag](flag.html): Business identifier* [Goal](goal.html): External Ids for this goal* [GuidanceResponse](guidanceresponse.html): The identifier of the guidance response* [ImagingSelection](imagingselection.html): Identifiers for the imaging selection* [ImagingStudy](imagingstudy.html): Identifiers for the Study, such as DICOM Study Instance UID* [Immunization](immunization.html): Business identifier* [ImmunizationEvaluation](immunizationevaluation.html): ID of the evaluation* [ImmunizationRecommendation](immunizationrecommendation.html): Business identifier* [Invoice](invoice.html): Business Identifier for item* [List](list.html): Business identifier* [MeasureReport](measurereport.html): External identifier of the measure report to be returned* [Medication](medication.html): Returns medications with this external identifier* [MedicationAdministration](medicationadministration.html): Return administrations with this external identifier* [MedicationDispense](medicationdispense.html): Returns dispenses with this external identifier* [MedicationRequest](medicationrequest.html): Return prescriptions with this external identifier* [MedicationStatement](medicationstatement.html): Return statements with this external identifier* [MolecularSequence](molecularsequence.html): The unique identity for a particular sequence* [NutritionIntake](nutritionintake.html): Return statements with this external identifier* [NutritionOrder](nutritionorder.html): Return nutrition orders with this external identifier* [Observation](observation.html): The unique id for a particular observation* [Person](person.html): A person Identifier* [Procedure](procedure.html): A unique identifier for a procedure* [QuestionnaireResponse](questionnaireresponse.html): The unique identifier for the questionnaire response* [RelatedPerson](relatedperson.html): An Identifier of the RelatedPerson* [RequestOrchestration](requestorchestration.html): External identifiers for the request orchestration* [ResearchSubject](researchsubject.html): Business Identifier for research subject in a study* [RiskAssessment](riskassessment.html): Unique identifier for the assessment* [ServiceRequest](servicerequest.html): Identifiers assigned to this order* [Specimen](specimen.html): The unique identifier associated with the specimen* [SupplyDelivery](supplydelivery.html): External identifier* [SupplyRequest](supplyrequest.html): Business Identifier for SupplyRequest* [Task](task.html): Search for a task instance by its business identifier* [VisionPrescription](visionprescription.html): Return prescriptions with this external identifier")
                        @OptionalParam(name="identifier")
                        TokenAndListParam theIdentifier,
   

                        @Description(shortDefinition="Multiple Resources: * [Account](account.html): The entity that caused the expenses* [AdverseEvent](adverseevent.html): Subject impacted by event* [AllergyIntolerance](allergyintolerance.html): Who the sensitivity is for* [Appointment](appointment.html): One of the individuals of the appointment is this patient* [AppointmentResponse](appointmentresponse.html): This Response is for this Patient* [AuditEvent](auditevent.html): Where the activity involved patient data* [Basic](basic.html): Identifies the focus of this resource* [BodyStructure](bodystructure.html): Who this is about* [CarePlan](careplan.html): Who the care plan is for* [CareTeam](careteam.html): Who care team is for* [ChargeItem](chargeitem.html): Individual service was done for/to* [Claim](claim.html): Patient receiving the products or services* [ClaimResponse](claimresponse.html): The subject of care* [ClinicalImpression](clinicalimpression.html): Patient assessed* [Communication](communication.html): Focus of message* [CommunicationRequest](communicationrequest.html): Focus of message* [Composition](composition.html): Who and/or what the composition is about* [Condition](condition.html): Who has the condition?* [Consent](consent.html): Who the consent applies to* [Contract](contract.html): The identity of the subject of the contract (if a patient)* [Coverage](coverage.html): Retrieve coverages for a patient* [CoverageEligibilityRequest](coverageeligibilityrequest.html): The reference to the patient* [CoverageEligibilityResponse](coverageeligibilityresponse.html): The reference to the patient* [DetectedIssue](detectedissue.html): Associated patient* [DeviceRequest](devicerequest.html): Individual the service is ordered for* [DeviceUsage](deviceusage.html): Search by patient who used / uses the device* [DiagnosticReport](diagnosticreport.html): The subject of the report if a patient* [DocumentReference](documentreference.html): Who/what is the subject of the document* [Encounter](encounter.html): The patient present at the encounter* [EnrollmentRequest](enrollmentrequest.html): The party to be enrolled* [EpisodeOfCare](episodeofcare.html): The patient who is the focus of this episode of care* [ExplanationOfBenefit](explanationofbenefit.html): The reference to the patient* [FamilyMemberHistory](familymemberhistory.html): The identity of a subject to list family member history items for* [Flag](flag.html): The identity of a subject to list flags for* [Goal](goal.html): Who this goal is intended for* [GuidanceResponse](guidanceresponse.html): The identity of a patient to search for guidance response results* [ImagingSelection](imagingselection.html): Who the study is about* [ImagingStudy](imagingstudy.html): Who the study is about* [Immunization](immunization.html): The patient for the vaccination record* [ImmunizationEvaluation](immunizationevaluation.html): The patient being evaluated* [ImmunizationRecommendation](immunizationrecommendation.html): Who this profile is for* [Invoice](invoice.html): Recipient(s) of goods and services* [List](list.html): If all resources have the same subject* [MeasureReport](measurereport.html): The identity of a patient to search for individual measure report results for* [MedicationAdministration](medicationadministration.html): The identity of a patient to list administrations  for* [MedicationDispense](medicationdispense.html): The identity of a patient to list dispenses  for* [MedicationRequest](medicationrequest.html): Returns prescriptions for a specific patient* [MedicationStatement](medicationstatement.html): Returns statements for a specific patient.* [MolecularSequence](molecularsequence.html): The subject that the sequence is about* [NutritionIntake](nutritionintake.html): Returns statements for a specific patient.* [NutritionOrder](nutritionorder.html): The identity of the individual or set of individuals who requires the diet, formula or nutritional supplement* [Observation](observation.html): The subject that the observation is about (if patient)* [Person](person.html): The Person links to this Patient* [Procedure](procedure.html): Search by subject - a patient* [Provenance](provenance.html): Where the activity involved patient data* [QuestionnaireResponse](questionnaireresponse.html): The patient that is the subject of the questionnaire response* [RelatedPerson](relatedperson.html): The patient this related person is related to* [RequestOrchestration](requestorchestration.html): The identity of a patient to search for request orchestrations* [ResearchSubject](researchsubject.html): Who or what is part of study* [RiskAssessment](riskassessment.html): Who/what does assessment apply to?* [ServiceRequest](servicerequest.html): Search by subject - a patient* [Specimen](specimen.html): The patient the specimen comes from* [SupplyDelivery](supplydelivery.html): Patient for whom the item is supplied* [SupplyRequest](supplyrequest.html): The patient or subject for whom the supply is destined* [Task](task.html): Search by patient* [VisionPrescription](visionprescription.html): The identity of a patient to list dispenses for")
                        @OptionalParam(name="patient", targetTypes={  } )
                        ReferenceAndListParam thePatient, 
   

                        @Description(shortDefinition="The subject that the sequence is about")
                        @OptionalParam(name="subject", targetTypes={  } )
                        ReferenceAndListParam theSubject, 
   

                        @Description(shortDefinition="Multiple Resources: * [Account](account.html): E.g. patient, expense, depreciation* [AllergyIntolerance](allergyintolerance.html): allergy | intolerance - Underlying mechanism (if known)* [Composition](composition.html): Kind of composition (LOINC if possible)* [Coverage](coverage.html): The kind of coverage (health plan, auto, Workers Compensation)* [DocumentReference](documentreference.html): Kind of document (LOINC if possible)* [Encounter](encounter.html): Specific type of encounter* [EpisodeOfCare](episodeofcare.html): Type/class  - e.g. specialist referral, disease management* [Invoice](invoice.html): Type of Invoice* [MedicationDispense](medicationdispense.html): Returns dispenses of a specific type* [MolecularSequence](molecularsequence.html): Amino Acid Sequence/ DNA Sequence / RNA Sequence* [Specimen](specimen.html): The specimen type")
                        @OptionalParam(name="type")
                        TokenAndListParam theType,

                        @RawParam
                        Map<String, List<String>> theAdditionalRawParams,

        
                        @IncludeParam
                        Set<Include> theIncludes,

                        @IncludeParam(reverse=true)
                        Set<Include> theRevIncludes,

                        @Sort
                        SortSpec theSort,
                        
                        @ca.uhn.fhir.rest.annotation.Count
                        Integer theCount,

                        @ca.uhn.fhir.rest.annotation.Offset
                        Integer theOffset,

                        SummaryEnum theSummaryMode,

                        SearchTotalModeEnum theSearchTotalMode,

                        SearchContainedModeEnum theSearchContainedMode

                        ) {
                startRequest(theServletRequest);
                try {
                        SearchParameterMap paramMap = new SearchParameterMap();
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_FILTER, theFtFilter);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_CONTENT, theFtContent);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_TEXT, theFtText);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_TAG, theSearchForTag);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_SECURITY, theSearchForSecurity);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_PROFILE, theSearchForProfile);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_SOURCE, theSearchForSource);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_LIST, theList);
                        paramMap.add(ca.uhn.fhir.rest.api.Constants.PARAM_LANGUAGE, theResourceLanguage);

                        paramMap.add("_has", theHas);
                                paramMap.add("_id", the_id);
                                                                paramMap.add("_profile", the_profile);
                                paramMap.add("_security", the_security);
                                paramMap.add("_tag", the_tag);
                                paramMap.add("_text", the_text);
                                paramMap.add("focus", theFocus);
                                paramMap.add("identifier", theIdentifier);
                                paramMap.add("patient", thePatient);
                                paramMap.add("subject", theSubject);
                                paramMap.add("type", theType);
paramMap.setRevIncludes(theRevIncludes);
                        paramMap.setLastUpdated(the_lastUpdated);
                        paramMap.setIncludes(theIncludes);
                        paramMap.setSort(theSort);
                        paramMap.setCount(theCount);
                        paramMap.setOffset(theOffset);
                        paramMap.setSummaryMode(theSummaryMode);
                        paramMap.setSearchTotalMode(theSearchTotalMode);
                        paramMap.setSearchContainedMode(theSearchContainedMode);

                        getDao().translateRawParameters(theAdditionalRawParams, paramMap);

                        ca.uhn.fhir.rest.api.server.IBundleProvider retVal = getDao().search(paramMap, theRequestDetails, theServletResponse);
                        return retVal;
                } finally {
                        endRequest(theServletRequest);
                }
        }

}