* first pass moving core storage classes to storage-api
* move term service apis
* nearly done
* rename hapi-fhir-storage-api to hapi-fhir-storage and move transaction processor
* rename hapi-fhir-storage-api to hapi-fhir-storage and move transaction processor
* create new SearchConstants class to store platform independent search constants
* move a couple of subscription services
* move transaction processor adapter to storage
* version bump
* move searchparam
* fix test
* fix compile includes
* fix text
* fix docs
* Avoid dead SearchParameter links in CapabilityStatement
* Resolve fixmes
* Build fix
* Test fix
* Test fix
* Test fix
* Work on metadata
* Fixes
* Test fixes
* Test fix
* Test fix
* Test fixes
* Test fix
* Work on test fixes
* Test fixes
* Test fixes
* Test fixes
* Test fix
* Fix params
* Resolve fixme
* Adjust changelogs
* Version bump to 5.6.0-PRE7
* Add license header
* Bump version to 5.6.0-PRE5-SNAPSHOT
* initial roughout of mdm clear batch job
* still roughing out classes
* finished first draft of reader
* most tests passing now
* all tests pass. now FIXMEs
* FIXMEs done. Time for regression.
* fix test
* changelog and docs
* fix test
* pre-review cleanup
* version bump
* move spring autowire deps for cdr
* move spring autowire deps for cdr
* finally got beans working phew
* rearrange method calls so persistence module can perform clear operation on its own
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_mdm/mdm_operations.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* review feedback
* review feedback
* Remove inheritance
* fix beans
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
Co-authored-by: Tadgh <garygrantgraham@gmail.com>
* prepare to add $delete-expunge operation that will create a spring batch job
* Add operation
* Wire up jpa provider. Begin with failing test.
* Copy/paste bulk import job as a starting point.
FIXME with proposed design
* delete expunge job parameter validation with test
* implemented reader
stubbed processor, writer
* wip for master merge
* started implementing reader
* started implementing reader
* working with stubs
* happy path batch delete expunge is done
* Provider done but test not passing. Guessing batch infrastructure not running in that test.
* IT test works now
* add reader test
* Converted delete _expunge=true to use new batch job
* DeleteExpungeDaoTest passes
* Fix test
* Change batch size to integer
* rename search count to batch size
* Make delete expunge partition aware
* updated docs
* pre-review cleanup
* change log
* add partition id to SystemRequestDetails
* Make RequestPartitionId serializable
* Change delete expunge provider to use partition id instead of tenant name
* fix tests
* test pointcut gets called
* assert on pointcut calls
* Add resource type to STORAGE_PARTITION_SELECTED pointcut
* bump hapi-fhir version
move expunge provider parameters from JpaConstants to ProviderConstants
* bump hapi-fhir version
* copyrights
* restore deleteexpungeservice for mdm
* restore deleteexpungeservice for mdm
* fix test
* public constants
* convert instant to date
* Moved expunge constants to ProviderConstants
* final review
* disabling InMemoryResourceMatcherR5Test.testNowNextMinute() to see if I can get a clean test run
* fix tests
* fix tests
* fix tests
* fix tests
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
* improve logging
* bump version
* version bump
* recovering from failed merge
* unzip RequestListJson per Gary's suggestion. I didn't want to do it at first, but as usual Gary was right.
* fix serialization
* Start work on OpenAPI
* Fixes
* Work on OpenAPI
* Cleanup
* Cleanup
* More swagger work
* Build fix
* More work
* More work
* Add documentation
* Docs fixes
* Add changelog
* License updates
* Add API
* Cleanup
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_plain/openapi.md
Co-authored-by: patrick-vachon-smilecdr <81274188+patrick-vachon-smilecdr@users.noreply.github.com>
* Work on scripts
* Add docs
* Compile fix
* Work on fixes
* Fix tests
* Test fix
* Test fix
* Build fix
* Tests
* Build fix
* Work on pipeline
* Version bump
* Test fix
* Version bump
* Test fix attempts
* Test fix
* Test fix
* Remove accidentally committed files
* Fixes
* Tets fixes
* Test fix
* Test fix
* Test fix
* Test fixes
* Test fixes
* Test fixes
* License header updates
* test fix
* Test fixes
* Test fix
* Test fixes
* Test fix
* Checkstyle bump
Co-authored-by: patrick-vachon-smilecdr <81274188+patrick-vachon-smilecdr@users.noreply.github.com>
* Start work on bul;k import
* Work on bulk import
* Have batch working
* Working
* Working
* More work
* More work on bulk export
* Address fixmes
* License header updates
* Test fixes
* License header updates
* Test fix
* Test fix
* Version bumps
* Work on config
* Test cleanup
* One more version bump
* Version bump
* CLeanup
* A few additions
* Test fixes
* Test fix
* Test fix
* Migration fix
* Test fix
* Test fix
* Search param service cleanup
* Work on collapsing search param
* Search param cleanup
* Work on build
* Test fix
* Test fixes
* Ongoing work
* Test fix
* Compile fix
* Test fixes
* Test fix
* Test fix
* License header updates
* Remove fixme
* Cleanup
* Cleanup
* [dev] Integration of a Jackson serializer and deserializer - first stage
* [fix] Fixed some serializing issues
[improve] Improved the processing, removed the loggers
* [clean] Removed the JacksonSerializer class, replaced all the Gson classes with Jackson classes
* [clean] Small cleanup
* [improve] Throw a ConfigurationException if the JsonGenerator cannot be created
* [improve] Use the ObjectMapper's `readTree` instead of `readValue`
* [dev] Latest fixes and improvements
* [dev] Use the Jackson serializer
* [clean] Removed the ObjectMapper configuration, for now
* [fix] Use the GsonStructure also for the parsing of a FHIR resource
* [clean] Removed the LinkedList usage
* Work on preparing for merge of #1673
* Resolve build errors
* Work on parser integration
* Tests passing
* Resolve fixme
* CLeanup
* Fix dependency
Co-authored-by: Bogdan Solga <bogdan.solga@gmail.com>
* Validation enhancements
* Work on validation api reworking
* Keep working on validation API
* Keep working on new term API
* Work on validation api
* Ongoing work on validation
* Work on integrating validation
* Work on validation API
* Add to validation API
* Work on validation
* Work on API
* Work on validation
* Work on validation API
* Work on validation API
* Work on validation api
* Work on validation API
* Work on validation api
* Validation API changes
* Work on API
* More work on validationo API
* Work on validation API
* FIxes
* WOrk on validation api
* Work on validation API
* Tests passing!
* More cleanup
* More validation API changes
* Fix intermittent test failure
* Package reorg
* Validation API work
* Work on doocumentation
* Work on API
* More work on new validation API
* Fix errorprone-reported error
* Test fixes
* Documentation updates
* Documentation tweaks
* Work on API
* Bean name adjustments
* Build fixes
* Some test fixes
* Some CI surefire improvements
* Build tweak
* More tweak
* Update azure-pipelines.yml for Azure Pipelines
* Update azure-pipelines.yml for Azure Pipelines
* One more CI attempt
* Update azure-pipelines.yml for Azure Pipelines
* Tweak command line
* Another build test fixc
* More build cleanup
* Start refactoring terminology delta operations
* Work on delta operations
* Work on concept saving
* Split term services into smaller services
* Work on term delta operations
* Work on term svcs
* Work on term operations
* More work on delta uploader
* Add a test
* Wrk on term service
* Fix compile error
* Some refactoring
* Test fix
* Test fix
* Test fixes
* Test fix
* Test fixes
* Test fixes
* Work on delta
* Work on tests#
* Test fixes
* Improve resequencing logic
* Build test
* More testing
* More build testing
* More work on tests
* CHange test logging
* Fix term service PID issue
* Update src/changes/changes.xml
Co-Authored-By: Diederik Muylwyk <diederik.muylwyk@gmail.com>
* Address review comment
* Some cleanup
* Test fix
* Fix some tests
* Test fixes
* Add some logging
* Add more test logging
* Work on some test logging
* Fix compile error
* Work on codecov
* Work on codecov
* Remove test debug messages
* Replace phloc with ph
* Enable schematron tests
* Make HAPI-FHIR ph-schematron on OSGI
* Work on getting tests passing
* Another test fix
* Fix up transaction handling for DSTU2
* Add changelog
* Avoid double transaction
* Dont use readonly
* One more test fix
* Update to snapshow build
* Resolve a circular dependency
* Try to fix tests
* Solve recurring NPE in DSTU2 tests
* Fix one more test
* Test fix
* More test threading fixes
* One more attempt to get tests passing
* Refactoring for tests
* Refactoring for tests
Squashed commit of the following:
commit 12f89a423a
Author: James <jamesagnew@gmail.com>
Date: Sun Aug 13 14:38:51 2017 -0400
Minimize validation resources
commit f6868cce5c
Merge: 3b80779fd31e158311d8
Author: James <jamesagnew@gmail.com>
Date: Sun Aug 13 14:05:34 2017 -0400
Forward port fix for #710
Merge branch 'master' into hapi3_refactor
commit 3b80779fd3
Merge: 1f534985e8356d9acaf7
Author: James <jamesagnew@gmail.com>
Date: Sun Aug 13 12:31:09 2017 -0400
Forward port #705, #708, and #710
Merge branch 'master' into hapi3_refactor
commit 1f534985e8
Merge: 7c39a47852dedd3d635b
Author: James <jamesagnew@gmail.com>
Date: Sun Aug 13 10:52:59 2017 -0400
Forward port #695
Merge branch 'master' into hapi3_refactor
commit 7c39a47852
Merge: e0ffb84d216efafe62f1
Author: James <jamesagnew@gmail.com>
Date: Sun Aug 13 09:53:17 2017 -0400
Forward port #688
Merge branch 'master' into hapi3_refactor
commit e0ffb84d21
Merge: 52388c11c1d19b00ff09
Author: James <jamesagnew@gmail.com>
Date: Sat Aug 12 14:59:46 2017 -0400
Merge branch 'master' into hapi3_refactor
commit 52388c11c1
Author: James <jamesagnew@gmail.com>
Date: Sat Aug 12 06:21:46 2017 -0400
Cleanup
commit 209752cd63
Author: James <jamesagnew@gmail.com>
Date: Thu Aug 10 11:18:19 2017 -0400
Fix tests
commit 4543408dc8
Author: James <jamesagnew@gmail.com>
Date: Sat Aug 5 06:55:50 2017 -0400
Fix a potential deadlock
commit ee360f5376
Author: James <jamesagnew@gmail.com>
Date: Sat Aug 5 06:22:06 2017 -0400
Add R4 code to CLI
commit 1a95ba3b65
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Aug 3 06:14:01 2017 -0400
More cleanup
commit f0d8802681
Author: James <jamesagnew@gmail.com>
Date: Wed Aug 2 11:27:43 2017 -0400
Tests are working!
commit a4cbda357e
Author: James Agnew <jamesagnew@gmail.com>
Date: Wed Aug 2 10:42:04 2017 -0400
Connection handling cleanup for new tests
commit 0e2cecfbd0
Author: James Agnew <jamesagnew@gmail.com>
Date: Wed Aug 2 10:16:28 2017 -0400
Clean up R4 JPA tests
commit 40317a650d
Author: James <jamesagnew@gmail.com>
Date: Wed Aug 2 09:12:38 2017 -0400
Work on R4 for JPA server
commit e7f8f8c30d
Author: James <jamesagnew@gmail.com>
Date: Tue Aug 1 20:43:47 2017 -0400
More work on porting tests
commit 43c9003258
Author: James <jamesagnew@gmail.com>
Date: Tue Aug 1 07:09:29 2017 -0400
Work on porting DSTU1 tests
commit 602857f1e2
Author: James Agnew <jamesagnew@gmail.com>
Date: Mon Jul 31 22:34:08 2017 -0400
More work on bring unit tests up to date
commit e326a7b0cd
Author: James Agnew <jamesagnew@gmail.com>
Date: Mon Jul 31 17:36:38 2017 -0400
Credit for #686 and forward port the fix to R4 validator
commit 96543c3992
Merge: 3fb75aa61a9901b802c4
Author: James Agnew <jamesagnew@gmail.com>
Date: Mon Jul 31 17:12:33 2017 -0400
Merge branch 'master' into hapi3_refactor
commit 3fb75aa61a
Author: James <jamesagnew@gmail.com>
Date: Mon Jul 31 15:21:30 2017 -0400
More work on cleanup
commit b02fbb6804
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jul 30 22:11:07 2017 -0400
Work on porting STU1 tests
commit 1ae37b0db3
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jul 30 20:56:10 2017 -0400
Try to get coverage report working
commit 72b88849b3
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jul 30 20:27:02 2017 -0400
Fix android tests
commit e5f6c35aea
Author: James <jamesagnew@gmail.com>
Date: Sun Jul 30 19:31:18 2017 -0400
More work on getting legacy code cleaned up
commit 0b513b0845
Author: James <jamesagnew@gmail.com>
Date: Sun Jul 30 18:41:13 2017 -0400
Continue work on removing deprecated API
commit defea69aa3
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jul 30 17:10:01 2017 -0400
More cleanup of legacy code
commit 9ae7295705
Author: James <jamesagnew@gmail.com>
Date: Sun Jul 30 07:11:45 2017 -0400
More cleanup of legacy code
commit ebd3eeb5ee
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jul 30 06:43:25 2017 -0400
More work on removing legacy code
commit 92224c2532
Author: James <jamesagnew@gmail.com>
Date: Sat Jul 29 18:44:06 2017 -0400
Remove DSTU1 Bundle
commit c52cacf71b
Author: James <jamesagnew@gmail.com>
Date: Sat Jul 29 14:27:42 2017 -0400
Now compiling
commit b405e51773
Merge: c3ddf04e25cb2cea54d7
Author: James Agnew <jamesagnew@gmail.com>
Date: Fri Jul 28 06:21:02 2017 -0400
Merge branch 'master' into hapi3_refactor
commit c3ddf04e25
Author: James <jamesagnew@gmail.com>
Date: Thu Jul 27 11:06:06 2017 -0400
Sync R4 releases in
commit b13333c3c0
Author: James <jamesagnew@gmail.com>
Date: Fri Jul 14 05:52:33 2017 -0400
JPA server is now able to handle placeholder IDs (e.g. urn:uuid:00....000) being used in Bundle.entry.request.url as a part of the conditional URL within transactions.
commit 2e60ff7521
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 13 20:02:46 2017 -0400
Fix imports
commit a92ace2e0d
Merge: 3196db96d11a6b3ea867
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 13 12:02:27 2017 -0400
Merge branch 'master' into hapi3_refactor
commit 3196db96d1
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 13 11:48:10 2017 -0400
Don't add false paging link to request
commit bd4e1d3388
Author: James <jamesagnew@gmail.com>
Date: Sun Jul 9 21:32:16 2017 -0400
Finally building correctly!
commit 6464ce9304
Author: James <jamesagnew@gmail.com>
Date: Sun Jul 9 16:38:28 2017 -0400
Work on refactor
commit 0059f2e48e
Author: James <jamesagnew@gmail.com>
Date: Sat Jul 8 07:16:20 2017 -0400
Keep working on refactor
commit 6c2e87e8cc
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 6 22:35:13 2017 -0400
Lots of work on refactor
commit 11cab97504
Merge: 34ec6b88076c47bd4c51
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 6 21:43:57 2017 -0400
Merge branch 'master' into hapi3_refactor
commit 34ec6b8807
Merge: f8e647511bc520e60ac1
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 6 21:43:49 2017 -0400
Merge branch 'hapi3_refactor' of github.com:jamesagnew/hapi-fhir into hapi3_refactor
commit f8e647511b
Author: James Agnew <jamesagnew@gmail.com>
Date: Thu Jul 6 18:46:55 2017 -0400
Work on hapi3 changes
commit c520e60ac1
Author: James <jamesagnew@gmail.com>
Date: Wed Jul 5 08:08:40 2017 -0400
Keep working on refactor
commit f1d2ee9092
Author: James Agnew <jamesagnew@gmail.com>
Date: Mon Jul 3 22:10:59 2017 -0400
Continue refactor for HAPI 3
commit 9281ccafc3
Merge: ea1264cd8e294d080bd3
Author: James Agnew <jamesagnew@gmail.com>
Date: Mon Jul 3 20:34:16 2017 -0400
Merge branch 'master' into hapi3_refactor
commit ea1264cd8e
Author: James <jamesagnew@gmail.com>
Date: Wed Jun 28 10:26:01 2017 -0400
Continue work on refactor
commit fbe2f98a02
Merge: b2bef471000a4dcc32ec
Author: James <jamesagnew@gmail.com>
Date: Wed Jun 28 06:21:22 2017 -0400
Merge branch 'master' into hapi3_refactor
commit b2bef47100
Author: James <jamesagnew@gmail.com>
Date: Tue Jun 27 21:13:23 2017 -0400
Work on refactor
commit 8f76e4e463
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun Jun 25 21:55:35 2017 -0400
Lots of work on refactoring
Removed the file:// prefix on the checkstyle config location, this is
needed for the site build to work on Windows. I've tested this on Linux,
though not as thouroughly.
Ken Stevens
James Agnew
Tadgh
Nick Goupinets
Diederik Muylwyk
Bill Denton
Stig Rohde Døssing
admin
patrick-werner
jpoth
sekaijin
Thomas Andersen
Bryce Van Dyk