EA-182 - Update minimum OpenMRS version to 2.2.1 and consolidate lega…

…cy code

* Increase OpenMRS version requirement to 2.2.1 (minimum required by code in web-2.2)
* Update reporting module dependencies to reflect increased OpenMRS platform dependency
* Removed api-1.10 which was only loaded used for 1.10
* Removed api-1.11 which was only loaded used for 1.11
* Removed api-pre2.2, which was only loaded for versions < 2.2.0
* Removed fhir-condition, which was only loaded for versions 2.0-2.1
* Moved / consolidated code from api-1.12 and api-2.2 into api
* Moved / consolidated code from web-2.2 into omod
* Consolidated different versions of EmrOrderService, ObservationMapper, ObsBuilder, DrugMapper, OrderMapper that were only needed to support Order API differences between 1.9 and 2.2
* Update REST supported versions
* Removed provider name tests that are not supported in OpenMRS 2.2+
* Fix failing unit tests and upgraded for compatibility with 2.2+
* Removed/conslidated EmrVisitService in favor of DiagnosisService as all methods are diagnosis related
* Ignore out unit test that fails due to multi-threading and configuration
* Remove custom CareSettingType in favor of the core version

README.md

@@ -3,5 +3,145 @@
 openmrs-module-emrapi
 ====================
 
-Higher-level APIs to support building EMR functionality in OpenMRS, to supplement the data-level APIs
-        in the OpenMRS core.
+Higher-level APIs to support building EMR functionality in OpenMRS, to supplement the data-level APIs in the OpenMRS core.
+
+# Dependencies
+
+## Required core version
+
+* 2.2.1
+
+## Required modules
+
+* reporting (+ serialization.xstream, htmlwidgets, calculation)
+* providermanagement
+* metadatamapping
+* event
+* webservices.rest
+
+## Aware of modules
+
+* fhir2
+* metadatasharing
+
+# Configuration
+
+* EmrApiProperties + EmrApiConstants wraps much of the configuration, much of which is in GPs and metadata mappings
+
+# Startup
+
+* Creates a role named "Privilege Level: Full", if it doesn't exist, and ensures it has every privilege that does not start with "App:" or "Task:"
+* Creates a role named "Privilege Level: High", if it doesn't exist, and ensures it has every privilege that does not start with "App:" or "Task:" and is not in a list of "unsafe" privileges
+* Creates metadata source, metadata mappings, and metadata sets that are required for the configuration
+* Creates an "Unknown Provider" provider if it does not exist
+* Sets default visit assignment handler via global property
+* Sets up the patient viewed event listener subscription
+* Ensures the person image folder exists
+
+# API
+
+## account
+
+* AccountDomainWrapper - wrapper for Person + User + Provider with methods for getting and manipulating account-related data
+* AccountService - CRUD operations for AccountDomainWrapper and opinionated methods for getting roles and privileges
+* AccountValidator - validates an AccountDomainWrapper
+* ProviderIdentifierGenerator - interface for generating a provider identifier
+
+## adt
+
+* Provides higher level APIs around Admission, Discharge, and Transfer
+* These are based on the "Disposition" configuration in DispositionService / DispositionDescriptor and metadata in EmrApiProperties
+* A/D/T based around specific encounter type and optional form
+* Provides an implementation of automatically creating visits and assigning encounters to visits with appropriate visit types, if no visit is associated with the encounter
+* Provides an implementation of closing "stale" visits and a scheduled task to automate this
+* Provides additional service methods to manage visits, ensure active visit, deal with overlapping visits, manage visit locations, enter retrospective visits
+* Provides implementations for merging patients and merging visits
+* Provides APIs for creating checkin encounters, adt encounters, and identify and get inpatient visits
+
+* (reporting module) definitions and evaluators for getting:
+  * AwaitingAdmissionVisitQuery - any Visits that are in the state of "awaiting admission"
+  * MostRecentAdmissionRequestVisitDataDefinition - data from a Visit relevant for "admission request"
+
+## concept
+
+* Provides additional service methods for getting and searching for concepts
+
+## db
+
+* Various utility classes for dealing with DB and Hibernate queries and access and DAO implementations in support of other services
+
+## descriptor
+
+* Utilities for working defining concept sets and members and creating and manipulating obs groups
+
+## diagnosis
+
+* Diagnosis and CodedOrFreeTextAnswer wrapper classes to represent a diagnosis as a concept set / obs group 
+* Deprecated services and utility classes (is core as of 2.2) related to Diagnosis
+
+## disposition
+
+* Concept Set / Obs Group specification for modeling a disposition
+* Configuration relating disposition to Admission / Discharge / Transfer
+* Json parsing and handling specification for reading in a dispositionConfig.json that determines how disposition obs behave 
+* Services and DispositionAction interface and implementations for performing operations as a result of a disposition
+
+## domainwrapper
+
+* Utility classes for creating and manaing domain wrapper classes
+
+## encounter
+
+* EncounterTransaction that provides a json model object for encounter, obs, order, diagnosis, disposition, providers, and additional extensions and context
+* Mappers to convert to/from data and EncounterTransaction / json
+* Matcher interface and base implementations to find an existing Encounter given a set of parameters
+* Processor interface for reading and saving Encounter and EncounterTransaction
+* Service methods to leverage the other entities to enable saving/finding/retrieving encounters based on the EncounterTransaction construct
+* Logic for handling evolution of Orders through to OpenMRS 1.9
+
+## event
+
+* Basic interface and implementation for publishing events with the event module whenever a user views a patient
+* Event listener on patient view events to track in the user's property of emrapi.lastViewedPatientIds
+
+## exitfromcare
+
+* Service with methods to close/reopen programs, visits, patient death information
+
+## merge
+
+* Interfaces for PatientMergeAction and VisitMergeAction, used within the merge methods in the adt package
+* Should really have this and the service methods in the adt package together
+
+## metadata
+
+* Utility classes for mds import specifications, likely no longer used
+
+## patient
+
+* PatientDomainWrapper - convenience methods around Patient and related tables, including primary identifier, telephone number, unknown patient, and test patient 
+* EmrPatientProfileService - allows associating a patient with a PersonImage
+* EmrPatientService - methods to find patients by visit location or primary identifier
+* (reporting module) definitions and evaluators for getting patient Primary Identifier
+
+## person
+
+* Services and convenience entities for saving person images to a configurable directory
+
+## test
+
+* Convenience classes for constructing concepts, concept data types, and obs
+
+## utils
+
+* Utility classes / functions in support of the other packages as needed
+
+## visit
+
+* Service and parameter objects to find visits and return associated EncounterTransactions in that visit
+* Service methods to get diagnoses obs and patients with particular diagnoses
+* VisitDomainWrapper - convenience wrapper to get info around active / open status, encounters contained, diagnoses, dispositions, ADT status
+
+# condition-list
+
+This provides an implementation of condition list functionality, but condition was added to core in 2.2, so this is likely no longer needed