Build #385

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  • Shao Yuan <shaoyuan_chewchia@college.harvard.edu>

    Shao Yuan <shaoyuan_chewchia@college.harvard.edu> 62cf3df4e9994674bfb470c61734218c3b11d919

    RC-29 - Merge MPI Functionality into Registration Core
    *  #114 Sending Hl7 PDQ message to OpenEmpi

    *  #114 Added parsing response from OpenEMPI

    * Refactor PixPdq support to be interface based

    * Clean-up and added PIX code

    * Make patient root configurable

    * Add update code

    TBD: errors

    * Rename util class

    *  #114 Searching patient using Identifier and importing it to OpenMRS

    * Added patient export through PIX

    * Fix deprecated call

    *  #114 Removed unnecessary methods

    * Added configurability for additional fields

    * Added separate config for PIX ports

    * Remove pdq search UI

    * Fix PIX & PDQ issues

    * Interfaces
    * PIX messages

    * Remove unused code & everest dependencies

    * Make id type configurable & remove unused methods

    * Limit PDQ results

    *  #128 Added sending PIX/PDQ messages by http

    *  #128 Fixed after review

    * Removed unused constants

    * Remove oudated todo

    *  #147 Added dependecy for outgoing message module

    *  Fixed Global Properties

    * * Added a few matched fields

    * * Added gender field.
    * Added countryDistrict field.
    * Fixed count score.

    * * Fixed PixPdqMessageUtil class
    * Added PdqSimilarPatientsSearcherTest

    * Updating global properties to better represent their meaning

    * * Changed PatientIdefierMapper class

    * * Fixed issue with PatientIdentifierMapperTest

    * * Working on PIX message util

    *  #170: Merged biometrics changes done by PIH into our fork of registration-core.

    * * Added new field universalIdType to PatientIdentifierMapper

    * * Added pix uuid list global property

    * * Added other identifiers in PIX request

    * * Changed the mapping of identifiers in interpretPIDSegments()

    * * Added new global property registrationcore.mpi.pdqIdentifierUuidList
    * Changed default return value getUniversalIdType()

    * * Added global property to UI

    * * Changed methods in PatientIdentifierMapper

    * * Added other identifiers in PdqPatientFetcher

    * * Changed updatePID() method

    * * Changed global property

    * * Changed global property

    * #175: Registration Core; Switch patientIdentifierType property to use UUID

    *  #147 Added service for OutgoingMessage module

    * * Fixed after review

    *  #147 Changed global property

    * #175: Fix after code review

    * * Fixed after review

    * #175: Changed registrationcore.mpi.personIdentifierTypeUuid property description

    * * Removed unused global property

    * * Removed unused code

    * #175: Fixed problem with HibernateProxy in order to fetch proper PatientIdentifierType UUID

    * #215: Persist ids generated by the MPI in OpenMRS and fix problems with filtering fetched patients

    * #215: Fixed problems with ConcurrentModificationException durling filtering fetched patients

    * * Delete enum biometricTemplateFormat.

    * #205: Adjustment saveBiometricsForPatient method to m2Sys module

    * #205: Added registerPatient method with biometic data

    * #205: Removed unnecessary calling method by service

    * #205: Added generateBiometricData method

    * #205: Fixed problems with bad biometrics engine status

    * #175: Removed deproxy method

    * #175: Removed unused imports

    * #205: Moved generateBiometicData method to registrationapp

    *  #327: Added contition for pdq search.

    * Creating a global property and setting the registration constant so users can define the fingerprint Identifier Type UUID. This is referenced by the fingerprint fragments.

    *  #348 Added PDQ search by identifier

    *  #355 Added fields to PIX create/update message

    * Fix checks when searching for patient using IDs (PDQ)

    * Generate primary identifier for imported patients

    * Reuse the code
    * If we don't generate this id, patient fail to import (if they don't
    have it in the MPI)

    * Fix code smells

    * Fix test to check for the new id generation

    * Fixed order of params in asserts as well

    * Fix issues with PDQ patient fetcher:

    * Fetch properly using the id (ECID)
    * Return an org.openmrs.Patient that can be persisted

    * Fix patient reference in identifiers

    * Add Biometric search method

    *  #426 Fixed some bugs with registration process

    * ITNFA-6: Added nationalPersonIdentifierTypeUuid

    * ITNFA-19: Added possibility to import patient from MPI by chosen PatientIdentifierType

    * ITNFA-19: Added appropriate comment

    * ITNFA-19: Patient is fetched from MPI by PatientIdetifierType UUID instead of PatientIdetifierType name

    * ITNFA-19: Added EnrollmentStatus

    * ITNFA-19: Added findByPatientIdentifier to registration service

    * ITNFA-19: Extended EnrollmentResult with national BiometricSubject

    * ITNFA-19: Added checking zero MPI results during fetchMpiPatient method

    * ITNFA-19: Disabled lookup during saving biometrics for patient

    * ITNFA-30: Added findMpiPatient method

    * ITNFA-30: Fixed not working method

    * ITNFA-30: Ignored tests of not implemented and not used functionality

    * ITNFA-30: Extended results of findByBiometricMatch by MPI patients

    * ITNFA-30: Fixed indentation

    * ITNFA-30: Changed naming

    * ITNFA-30: Corrected BiometricEngine interface

    * ITNFA-30: Added enroll method with xmlTemplate parameter

    * ITNFA-30: Prevented throwing exception during finding in MPI

    * ITNFA-30: Removed duplicated results

    * ITOS-9: added ccd import service

    * ITOS-9: changed import CCD exception handling with exception catching

    * ITOS-9: fixed indentation

    * ITOS-9: removed undesired line

    * ITOS-9: corrected qualifier name, added private modifiier in XdsCcdImporter

    * ITOS-15: Corrected error handling service interface

    * ITOS-15: Added specyfic error handlers - PIQ, PDQ, CCD

    * ITOS-15: Added get method for error handelers & added required global properties

    * ITOS-15: Used more appopriate methods and params names

    * ITOS-15: Added PIX error handling

    * ITOS-15: Added PDQ error handlint

    * ITOS-15: Corrected protection level of method

    * ITOS-15: Corrected propagation of MPI connection errors

    * ITOS-15: Added error handler to MPI search method

    * ITOS-25: added exceptions declarations in downloadAndSaveCcd method

    * ITOS-15: Added sending patient to MPI parameters to outgoingMessageExceptions

    * ITOS-25: corrected bean initialization and module attaching - xds-sender

    * ITOS-15: Added MPI patient parameters to outgoingMessageExceptions

    * Fixed integration tests (missing dependencies)

    * Ignored not used test

    * ITOS-15: Added public constructors to POJO classes

    * ITOS-15: Corrected PDQ error message

    * ITOS-15: Throw exception if Patient is not successfully exported to MPI

    * ITOS-49: Throws error when no proper mapping found

    * Fix issues with identifier refresh

    * Don't add national results if we have a local result already

    * ITOS-72: Fix issue with double OpenMRS id

    * Removed improper use of idsource var
    * Generate OpenMRS id only if patient doesn't have it
    * Added new var to mark OpenMRS id

    * Removed m2sys, biometric and fingerprint code

    * fixed minor typos that were creating errors

    * fixed merge by removing unresolved conflict in config.xml

    * Removed XDS-Sender Module dependancy

    * refactored to remove references to ECID in pixpdq code, also set global property defaults

    * Fixed bugs in refactoring of references to ECID and used mpiproperties instead of registrationcoreconstants

    * added in liquibase to create the MPI global identifier in Patient_Identifier_Types table

    * Started creating more unit and context sensitive tests for pixpdq

    * Created context sensitive test for exportPatient and interpretPIDSegments

    * Modified pdqSimilarPatientSearcher to send both name and identifiers and included check before pix patient export to ensure no patient exitsts in mpi

    * added checking for exisiting patient on mpi in exportPatient, checks on list of patients returned by pdqPatientFetcher, moved query creation for pdqSimilarPatientSearcher to pixPdqMessageUtil and modified logic

    * Fixed empty address bug and gender bug in patientToQPD3Params

    * Attempt to fix async registerPatient MPI issue, experiencing issues connecting with openempi

    * [MPI-1] proof of concept for using SubscribableEventListener on Patient CREATE and UPDATE events as opposed to PatientRegistrationEvent

    * [MPI-1] Converted Listeners, further testing and clean up required

    * [MPI-1] fixed patient import bug when patient has multiple of same identifier

    * Resolved [MP1-1], WIP [MPI-11]Updating of Locally generated ID in MPI after MPI import not occurring

    * cleaned up tests

    * [MPI-12] Hibernate test errors resolved

    * Fixed Typo in openmrsIdenitfier in registrationcoreconstansts

    * Changed returned object of importMpiPatient to Patient rather than Uuid

    * refactored such that findMpiPatient returns MpiPatient and not Patient

    * Ignored tests that are dependent on Openmrs-Core 2.2.0-SNAPSHOT

    * Added some javadocs and TODOs from code review

    * Added Javadocs, removed redundant and unused findByPatientIdentifier method, put registration event firing back in and necessary registrationcore constants, changed loggers to private from protected

    * Experimenting with mixing context and mocks

    * Changed the way registrationCoreService is called by the listeners and removed some experiments with tests and created an exception when getting patient to replace log

    * working through code review comments and created stub for ticket RC-31

    * fixed bug created during refactor to remove getcomponentbypropertyname and put back set patient creator when creating identifier

    * Changes made based on code review

    * Moved MPI credentials to runtime properties file

    * test to create util method getBeanFromName

    * fixed tests broken by change

    * refactored to remove hl7senderholder

    * removed some default values for global properties

    * added documentation and removed getter from interface

    • api/pom.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/RegistrationCoreConstants.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/RegistrationCoreUtil.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/RegistrationCoreService.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/db/RegistrationCoreDAO.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/errorhandling/ErrorHandlingService.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/errorhandling/FetchingMpiPatientParameters.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/errorhandling/PdqErrorHandlingService.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/errorhandling/PixErrorHandlingService.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/errorhandling/SendingPatientToMpiParameters.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/IdentifierBuilder.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/PatientActionListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/PatientCreatedListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/PatientCreationListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/PatientEditListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/PatientUpdatedListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/RegistrationCoreProperties.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/impl/RegistrationCoreServiceImpl.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiException.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiPatient.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiPatientFetcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiProperties.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiProvider.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/common/MpiSimilarPatientsSearcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiConnector.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientFetcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientFilter.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientQueryBuilder.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientsSearcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/PatientBuilder.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/openempi/PatientIdentifierMapper.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/Hl7v2Sender.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/HttpSender.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/MllpSender.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PdqPatientFetcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PdqSimilarPatientsSearcher.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPatientExporter.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPatientUpdater.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPdqMessageUtil.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPdqProvider.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/java/org/openmrs/module/registrationcore/api/search/PatientAndMatchQuality.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/resources/liquibase.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/resources/messages.properties (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/main/resources/moduleApplicationContext.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/BaseRegistrationCoreSensitiveTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/MockSubscribableEventListener.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/RegistrationCoreSensitiveTestBase.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/RegistrationCoreServiceTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/impl/IdentifierBuilderTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/impl/PatientCreatedListenerTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/impl/PatientCreationListenerTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/impl/PatientEditListenerTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/impl/PatientUpdatedListenerTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiConnectorTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientFetcherTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientFilterTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientResultBuilderTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/OpenEmpiPatientSearchAlgorithmTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/PatientBuilderTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/openempi/PatientIdentifierMapperTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PdqSimilarPatientsSearcherTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPatientExporterTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/mpi/pixpdq/PixPdqContextSensitiveTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/search/BasicExactPatientSearchAlgorithmTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/search/BasicPatientNameSearchTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/search/BasicSimilarPatientSearchAlgorithmTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/java/org/openmrs/module/registrationcore/api/search/ExistingPatientNameSearchTest.java (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/resources/mpi_global_properties_dataset.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/resources/patient_without_openmrs_id.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • api/src/test/resources/patients_dataset.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • omod/pom.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • omod/src/main/resources/config.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)
    • pom.xml (version 62cf3df4e9994674bfb470c61734218c3b11d919)