99d2bf1f0e
Merge pull request #2170 from jamesagnew/2169-docs-hapi-fhir-cli
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2169 - Fixed hapi-fhir-cli doc issues.
2020-11-20 10:43:46 -05:00
8647502da1
update to docs to indicate requests to default partition ( #2186 )
2020-11-20 10:32:59 -05:00
5b471602c6
Merge branch 'master' into ft-fix-expend-filter-contains-issue
2020-11-20 10:29:58 -05:00
2d2add60ec
Updated the changelog
2020-11-20 09:02:40 -05:00
a01f5ae906
Fix subsumption test direction ( #2183 )
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* Fix subsumption test direction
* Add changelog
* Test fixes
2020-11-19 21:48:54 -05:00
8b65db0c98
Improve error message on unique constraint violation ( #2182 )
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* Improve error message on unique constraint violation
* Add changelog
* Test fixes
* Test fix
2020-11-19 21:20:59 -05:00
e551f1837e
Updated based on review
2020-11-19 20:22:13 -05:00
4bbe4a3ef7
Merge branch 'gg_20201105-remove-person-references' of https://github.com/jamesagnew/hapi-fhir into gg_20201105-remove-person-references
2020-11-19 14:56:31 -05:00
4378df7dcb
Removed more EMPI refs from the docs
2020-11-19 14:56:18 -05:00
953b662827
Merge branch '2161-refactor-empi' into gg_20201105-remove-person-references
2020-11-19 14:24:51 -05:00
eb0f5e1e5e
Add changelog.
2020-11-19 09:37:34 -05:00
d97d4b63a0
Merge branch 'gg_20201105-remove-person-references' of github.com:jamesagnew/hapi-fhir into gg_20201105-remove-person-references
2020-11-18 19:53:21 -05:00
75c0c25d7b
remove references to EMPI
2020-11-18 19:50:00 -05:00
1f21220e39
Updated MDM create use cases
2020-11-18 15:57:05 -05:00
0c31741eec
Version bump to 5.3.0-SNAPSHOT
2020-11-18 14:52:43 -05:00
0336e59591
Add changelog
2020-11-18 14:26:37 -05:00
6d50687d4c
Renamed EMPI to MDM in the docs
2020-11-18 13:49:17 -05:00
4d441ad7f2
Version bump to 5.2.0
2020-11-18 06:30:20 -05:00
f470c343c5
Docs - first pass
2020-11-17 17:22:06 -05:00
1048df4d87
Update rest_operations.md
2020-11-13 15:54:43 -05:00
8f95ad4c0f
fix typo :)
2020-11-13 15:35:06 -05:00
16003162fd
Address #2172
2020-11-13 15:27:58 -05:00
50328abff1
2169 - Fixed hapi-fhir-cli doc issues.
2020-11-10 15:50:43 -05:00
bf9e02bc16
Merge pull request #2164 from jamesagnew/im_20201029_ig_package_long_description
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Truncate package descriptions that are longer than 200 characters.
2020-11-10 12:01:53 -05:00
63b7b379c2
Improve ValueSet filtering ( #2162 )
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* Improve filter search
* Filter improvements
* Tests passing
* Test fixes
* Fix transaction filter
* Add changelog
* Test fix
* Update hapi-fhir-base/src/main/resources/ca/uhn/fhir/i18n/hapi-messages.properties
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/BaseTermReadSvcImpl.java
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
* Resolve FIXME
* Test fix
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/term/ValueSetExpansionR4Test.java
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-11-10 11:01:13 -05:00
40c34a4518
Truncate package descriptions that are longer than 200 characters.
2020-11-09 16:36:37 -05:00
228e75b501
Bump core to latest versions ( #2154 )
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* Bump core to latest versions
* Compile fix
* Bump to non snapshot core library
2020-11-03 15:43:37 -05:00
5e8ec8d6f3
Resolve crash in InMemory SP resolver for empty source ( #2150 )
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* Resolve crash in InMemory SP resolver for empty source
* Add changelog
2020-10-28 14:30:32 -04:00
6ccb7c8312
Bump HTTPClient version
2020-10-28 10:28:04 -04:00
53c23b8d9b
Add method to stringutil
2020-10-27 11:29:16 -04:00
72294fc0a0
Suport typeFilter parameter for bulk export ( #2147 )
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* Cleanup
* Fix tests
* Work on bulk export
* Work on export
* Test fixes
* Add changelog
* Address review comments
* Address review comments
2020-10-26 12:28:07 -04:00
137e215003
Docs fixes
2020-10-26 07:36:46 -04:00
8000d2d0cf
SQL Join Rework ( #2086 )
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* switched to adding annotations. Just did a test with Token, but the sql looks clean.
* switched to adding annotations. Just did a test with Token, but the sql looks clean.
* added the other six index links
* trying different annotations
* Start testing
* Update resources on package install
* Add changelog
* Join rework
* CLean up SQL builder
* Add docs
* SP rework
* Join work
* Work on params
* Work on refactor
* Work on chains
* Work on joins
* Rework queries
* Work on queries
* Many more tests passing
* Refs test
* Work on sorting
* Work on tests
* More joins work
* Work on tests
* Work on queries
* Tests passing
* More test fixes
* Test fixes
* Work on SQL
* Tests passing
* Add some tests
* Add some tests
* License headers
* Use entity manager to get datasourcd
* One more fix
* Model cleanup
* Ongoing work
* Fixes
* Fixes
* Work on joins
* Ongoing fixes
* Merge conflict
* Cleanup
* clean up unused fields
* Work on join
* COmpile fix
* Rework querying
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/HibernateDialectProvider.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Address review comments
* Resolve fixmes
* Test fix
* Test fixes
* Test fix
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-10-26 05:24:26 -04:00
4a5f5199b5
Add custom partition interceptor examples ( #2145 )
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* Add custom partition interceptor examples
* Add documentation
* Test fixes
* Remove outdated test
* Test modification
2020-10-25 19:19:40 -04:00
0fdff3e052
Credit for #2142
2020-10-23 10:33:49 -04:00
fd46d0965f
Merge pull request #2141 from jamesagnew/im_20201020_package_installer_enhancements
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Enable package installer to load non-Conformance resources
2020-10-21 18:28:15 -04:00
830ad70089
Add changelog for package installer enhancement.
2020-10-21 16:18:10 -04:00
3b91873b7c
delete expunge ( #2131 )
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Added delete _expunge=true
2020-10-20 17:21:50 -04:00
66e36378c1
Add hardcoded anchor name to docs
2020-10-13 12:11:58 -04:00
aa3da9b05f
Bump bootstrap version ( #2128 )
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* Bump bootstrap version
* Add changelog
* Resolve fixme
* Rmove test code
2020-10-12 20:47:14 -04:00
7d150858dc
Credit for #2118
2020-10-12 20:45:02 -04:00
90016b25a2
Credit for #2059
2020-10-12 17:45:01 -04:00
1435540320
Improve synchronous searching by providing offset & limit support ( #2059 )
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* Improve synchronous searching by providing offset & limit support
Add support for offset querying which leverages paging at the query level
Add configuration for search default page size and search maximum page size
If using offset, always use synchronous searching to avoid extra database insert/update etc.
When using offset, only calculate count if it's wanted
Validate params closer to provider and handle size if search returned "all" (or last)
* Review and test fixes
Comment _offset as nonstandard parameter
Make synchronous search always count the total value (for now)
Fix issue with FulltextSearchSvcImpl mutating param map
Dirty fix for BaseJpaTest (not sure how to fix the including resources issue)
* Remove temporary count querying fix for synchronous loads
* Fix offsetting of everything operations, do not drop zero offset
* Fix jpa test default and maximum page size, add some fixmes to tests before resolved
* Ignore one failing test, fix others
* Fix Dereferenced variable may be null
* Fix everything paging in R4 by adding DISTINCT if synchronous load is used
Also fix assertion of size when hitting fetchSizeDefaultMaximum
* Add documentation about offset annotation and paging
Co-authored-by: James Agnew <jamesagnew@gmail.com>
2020-10-12 17:42:03 -04:00
bd6feec2f4
Initial credit for #2118
2020-10-12 17:19:15 -04:00
81d7a1eae1
Credit for #2112
2020-10-11 15:29:06 -04:00
576f6efc39
Credit for #1607
2020-10-09 11:58:00 -04:00
2134d40f1c
Account for timezones in lastUpdated search ( #2113 )
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* Add test
* Fix
* Add changelog
* Test fixes
* Test fix
* Test fixes
* Resolve fixme
* Test fixes
* Remove debug logs
* Try to get CI tests passing again
2020-10-09 07:52:46 -04:00
5a29fd9945
rollback the elastic changes
2020-10-06 17:20:11 -04:00
edbd089092
Docs update
2020-10-06 05:52:22 -04:00
5ec1284b8a
Apply suggestions from code review
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Edits per code review.
Co-authored-by: Diederik Muylwyk <diederik.muylwyk@gmail.com>
2020-10-05 15:14:39 -04:00
30e50ba90c
Improvements to terminology documentation.
2020-10-05 14:08:29 -04:00
4ca739e223
Improvements to terminology documentation.
2020-10-05 12:02:01 -04:00
03bd94462d
Fix typo in changelog.
2020-10-05 10:13:08 -04:00
2258d37283
Documentation for terminology.
2020-10-05 09:02:00 -04:00
8613e76659
Documentation for terminology.
2020-10-04 21:20:19 -04:00
f1710fd0be
Merge pull request #2081 from jamesagnew/feature_2020_09_02_term_multi_version_support
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Feature 2020 09 02 term multi version support
2020-10-01 12:24:40 -04:00
dc3443665c
Changes per code review.
2020-09-29 21:12:27 -04:00
8e7b4e8437
Changes per code review.
2020-09-29 21:05:28 -04:00
d71121e268
oops
2020-09-29 17:37:09 -04:00
09d09233ff
empi bugfixes and enhancements ( #2104 )
2020-09-29 17:27:43 -04:00
42b4e9ae02
Add change log.
2020-09-28 08:45:59 -04:00
ecc09889cb
Avoid duplicate search param defs in generated CapabilityStatement ( #2101 )
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* Avoid duplicate search param defs in generated CapabilityStatement
* Add changelog
2020-09-22 19:21:34 -04:00
8d9aa417e2
One more file rename
2020-09-22 17:13:06 -04:00
3debef6cd4
Rename changelog
2020-09-22 12:39:05 -04:00
ef4f3df945
Don't install draft package contents ( #2099 )
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* Don't install draft package contents
* Add changelog
* Add changelog
2020-09-22 09:44:36 -04:00
072e63be5a
Avoid a crash on double date chains ( #2097 )
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* Avoid a crash on double date chains
* Add changelog
* Address coverage warning
2020-09-21 15:43:07 -04:00
3189819dd5
limit transaction size config ( #2087 )
2020-09-16 14:13:03 -04:00
b64e982ec3
Credit for #2083
2020-09-16 09:07:33 -04:00
9711b5ed18
Update resources on package reinstall ( #2078 )
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* Start testing
* Update resources on package install
* Add changelog
2020-09-15 08:46:43 -04:00
5b6ee4e475
Dependency version bump ( #2074 )
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* Dependency version bump
* More dependency work
* One more fix
2020-09-14 08:42:28 -04:00
800283ae97
Update points.json ( #2073 )
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Update of my contact e-mail and lat./long. points
2020-09-13 16:06:33 -04:00
c73da4d989
Fix SIL-A's name
2020-09-03 14:17:37 -04:00
c6777578a8
Avoid DB binary storage deadlock ( #2062 )
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* Avoid DB binary storage deadlock
* Add changelog
* Rework
2020-09-01 09:52:38 -04:00
437e81fc65
Support multiple updates of one resource in a transaction ( #2050 )
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* Support multiple updates of one resource in a transaction
* Test update
* Add changelog
* Test fix
2020-08-25 05:55:54 -04:00
969a20d9e8
Credit for #2049
2020-08-22 17:01:37 -04:00
dbbff1fd16
Allow HTTP 204 response to transaction ( #2051 )
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* Allow HTTP 204 response to transaction
* Add changelog
* Test fix
2020-08-21 21:00:55 -04:00
03cde8c53f
Don't use remote termsvc on implied system validation ( #2045 )
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* Don't use remote termsvc on implied system validation
* Add changelog
2020-08-18 13:56:37 -04:00
1fadaeeff5
Reject nvalid SearchParameter wiith no path expression ( #2043 )
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* Fix some changelog typos
* Reject SearchParameter with invalid path
* Add changelog
* Test fix
* Test fixes
* Test fixes
* Test fix
* One more test fix
2020-08-17 11:21:55 -04:00
eab828f47a
Add transactionbuilder ( #2041 )
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* Add transactionbuilder
* Add changelog
* Add creates
2020-08-17 07:47:40 -04:00
3a5e0ed872
Fix #2042 - Outdated CI link on website
2020-08-16 21:03:27 -04:00
ad12ee4a5c
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2020-08-16 21:03:13 -04:00
cd65c298fe
Fix some changelog typos
2020-08-16 09:01:42 -04:00
a3951b551f
Add release details for 5.1.0
2020-08-13 17:36:04 -04:00
89f68353ee
Add changelog
2020-08-13 05:47:56 -04:00
92718c7ef2
Version bump to 5.2.0-SNAPSHOT
2020-08-12 10:23:46 -04:00
5fb7bd5156
Version bump to 5.1.0
2020-08-11 17:43:24 -04:00
aed97ad1cb
added EMPI change log ( #2036 )
2020-08-11 15:33:33 -04:00
39eea88b47
Update interceptors.md ( #2033 )
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Added the mention of public requirement!
2020-08-11 05:25:36 -04:00
e61b39fc30
Force a flush of the SearchParameter cache sooner when SPs change ( #2030 )
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* Force a flush of the SearchParameter cache sooner when SPs change
* Add changelog
* Test fixes
2020-08-09 19:30:59 -04:00
8f6d08dd58
Fix #2022 - Invalidate caches on expunge ( #2029 )
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* Fix #2022 - Invalidate caches on expunge
* Rename changelog file
2020-08-09 14:14:28 -04:00
8e0023c385
Disable referential integrity for some paths ( #2025 )
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* Disable referential integrity for some paths
* Add changelog
* Remove unneeded file
2020-08-09 07:09:37 -04:00
0de0b88aa0
Fix TestpageOverlay XSS Vulnerability ( #2027 )
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* Resolve XSS vulnerability
* Add changelog
2020-08-09 07:06:11 -04:00
63ef2ce006
Fix #2012 - Always filter total from search results when consent interceptor in use ( #2020 )
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* consent bug test
* Fix #2012 - Always filter total from search results when consent
interceptor in use
* Add changelog
* Address coverage issues
Co-authored-by: Jens Kristian Villadsen <46567685+jvitrifork@users.noreply.github.com>
Co-authored-by: jvi <jvi@trifork.com>
2020-08-07 09:16:02 -04:00
6cb39a14ea
Empi doc updates ( #2021 )
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* Update documentation about EMPI automatic linking
* Further documentation updates
2020-08-06 16:45:04 -04:00
3b9f9e6cc3
Rename operation
2020-08-03 21:35:12 -07:00
0ef1665061
Merge branch 'batch-empi-job' of github.com:jamesagnew/hapi-fhir into batch-empi-job
2020-08-01 11:48:27 -07:00
8b378995b2
Doc updates
2020-08-01 11:45:47 -07:00
4c64cec8fa
Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_operations.md
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Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-08-01 11:40:24 -07:00
9c5b69bb6e
Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_operations.md
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Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-08-01 11:37:11 -07:00
dfecca33bc
Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_operations.md
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Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-08-01 11:32:30 -07:00
7299162f10
Update doc phrasing
2020-08-01 11:31:28 -07:00
bd22b0239f
Add caveat
2020-07-31 09:13:38 -07:00
9f0af3c21c
docs for batch run
2020-07-30 19:25:30 -07:00
f731e44303
Partial addition of docs for batch run
2020-07-30 18:21:35 -07:00
07f9e8466b
Add documentation for -clear
2020-07-30 15:23:43 -07:00
8b4fa8048f
Add changelog
2020-07-30 14:42:25 -07:00
0e88f359f5
Merge remote-tracking branch 'remotes/origin/master' into batch-empi-job
2020-07-29 09:42:12 -07:00
3098affccb
Update path when updating resource links ( #2007 )
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* fix resource link index reuse bug
* Resolve merge conflicts
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-07-28 21:40:56 -04:00
6a8e09addf
Ensure that parent structuredefinitions are snapshotted before ( #2005 )
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* Ensure that parent structuredefinitions are snapshotted before
snapshotting child
* Add changelog
2020-07-28 11:46:58 -04:00
82dcc395ec
Merge branch 'master' into batch-empi-job
2020-07-27 14:59:27 -07:00
3a7ac0debc
Correct invalid decimal numbers stored in DB ( #2003 )
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* Correct invalid decimal numbers stored in DB
* Add changelog
2020-07-27 13:33:27 -04:00
4e66cb6752
Merge pull request #1994 from jamesagnew/fix_mssql_errors
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Fix mssql errors
2020-07-24 11:26:23 -04:00
296ed963cc
Fix sentence fragment
2020-07-23 12:57:46 -04:00
7b435d6052
changelog for mssql changers
2020-07-23 12:16:11 -04:00
bbe6d5600e
Address review comments
2020-07-22 11:58:08 -07:00
160778d3fd
Empi docs ( #1989 )
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* Remove lines from image edges. Thanks Max!
* fix case 4 docs
only mark possible match as eid if it was via an eid match
2020-07-21 13:07:49 -04:00
4c4d46008b
Credit for #1848
2020-07-21 05:40:41 -04:00
c13e17b4e6
Add changelog and bump Jetty
2020-07-17 11:50:45 -04:00
ebd6ca4b64
Empi 3 ruleset version ( #1978 )
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* add rule version
* add rule version
* Rough in model for Golden Record.
* Test Link Rule Version
* add eid match boolean
* added new fields to EmpiLink to provide more information about how the link was created
* add logging to check an edge case
* all tests pass
* wip with failing tests
* tests pass
* FIXME
* optimize imports
* test score in provider output
* FIXME
* FIXME
* Fix jpa test app context
* fix migration string length
* review feedback param name
* review feedback javadoc
* review feedback javadoc
* bean config reorganization for cdr
* add more tests
2020-07-17 08:31:15 -04:00
49c08f31d8
Credit for #1896
2020-07-16 09:26:41 -04:00
077ee02771
Fix validation for enumerated ValueSets ( #1982 )
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* Allow code validation against enumerated VS
* Work on validation
* Work on this
* Work on tests
* Work on validation
* Work on tests
* Work on validation
* Test fixes
* Add changelog
* For a change
* Test fixes
2020-07-15 13:38:14 -04:00
063bf4237c
Allow ConceptMap with no explicit group source/target ( #1983 )
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* Allow ConceptMap with no explicit group source/target
* Add changelog
2020-07-15 12:57:10 -04:00
baba4cc240
Avoid version conflicts on current writes ( #1971 )
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* Add auto retry of transactions
* Experiment in Maven build
* Transaction autoretry
* Work on transaction retries
* Work on transaction retry
* Work on transaction retry
* Fix tests
* Avoid version conflicts
* Add changelog
* Resolve LGTM issue
* FIx transaction scope error
* Test fixes
* Test fix
* Test fixes
* Test fix
* Test fixes
2020-07-13 08:51:13 -04:00
c40d15294d
Credit for #1966
2020-07-08 10:44:52 -04:00
b786006183
Credit for #1878
2020-07-06 13:46:30 -04:00
11ad41d472
Credit for #1893
2020-07-06 05:52:40 -04:00
2b5c834d96
Merge branch 'atlas-grand-rounds' of https://github.com/ConsultingMD/hapi-fhir into ConsultingMD-atlas-grand-rounds
2020-07-06 05:45:19 -04:00
4c883cf741
Added an entry for Ohum/FHIR ( #1930 )
2020-07-06 05:43:20 -04:00
4b1546f002
Add support for ISO 3166 to validator ( #1967 )
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* Add ISO 3166 support
* Add support for ISO-3166
* Add changelog
* Test fixes
2020-07-06 05:29:48 -04:00
6fb6675b1e
Resolve validation errors to ValueSet with UCUM ( #1948 )
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* Add tests for validation errors
* Work on validation errors
* Bump core version
* Fix validation errors
* Test fixes
* Add changelog
* Test fix
* Test fix
* Test fix
2020-07-05 19:59:21 -04:00
f356c7c385
Migrate to JUnit5 ( #1952 )
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* Work on junit
* Work on junit 5
* Work on junit 5
* Bump errorprone vcersion
* Work on tests
* Junit 5 tweaks
* Fixes
* Work on tests
* Work on junit5
* Work on tests
* Test fixes
* Work on junit5
* Test work
* Get junit5 working
* Test fix
* Work on tests
* WOrk on tests
* Work on tests
* fixes
* Compile fix
* One more tweak
* Compile fix
* Add changelog
* Fix compile error
* Compile fix
2020-07-04 18:28:16 -04:00
290577ff3e
Remove unnecessary type predicate ( #1963 )
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* Remove unnecessary type predicate
* Add changelog
2020-07-03 17:54:25 -04:00
714bd6216e
Empi 70 phonetic indexing ( #1941 )
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* start with failing test
* test passes with fixmes
* javadoc and config
* pre-review cleanup
* generalize encoding
* test passes, but indexing needs to be optimized
* test passes, but indexing needs to be optimized
* step 1 of optimization. big refactor of all predicates
* step 2 of optimization: determine phonetic encoder at time of RuntimeSearchParam creation
* integrated new phonetic encoders into empi
* phonetic search implemented
* IT passes
* pre-review cleanup
* final pre-review cleanup
* final pre-review cleanup
* Fix compile error
Co-authored-by: James Agnew <jamesagnew@gmail.com>
2020-06-30 17:36:54 -04:00
fa4bbe3685
Allow search criteria as subscription delivery mechanism ( #1951 )
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* Terser should create correct Enumeration on create
* Start work
* Work on subscriptions
* Work on seed bundles
* Bundle transmission
* Add changelog
* Test fix
* Fix LGTM warning
2020-06-30 14:29:09 -04:00
072f3a422a
Use read partition for finding update candidate on upsert ( #1945 )
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* Use read partition for finding update candidate on upsert
* Add changelog
2020-06-29 18:22:27 -04:00
571589d00d
Merge branch 'master' into spring-batch-integration
2020-06-24 13:46:13 -07:00
2bd17806c4
Update changelog
2020-06-24 09:46:56 -07:00
38a2b00663
Empi 69 and candidates ( #1936 )
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broaden empi blocking searches to support and searchparams as well as ors
2020-06-24 09:12:56 -04:00
bb7a773f41
Merge branch 'master' into spring-batch-integration
2020-06-23 16:02:41 -07:00
e65c264927
Support double _has expressions ( #1939 )
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* Support nested _has queries
* Add changelog
2020-06-23 17:58:47 -04:00
6825d2fcf0
Reduce DB roundtrips for revincludes ( #1937 )
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* Reduce DB roundtrips for revincludes
* Add changelog
2020-06-23 16:26:04 -04:00
f88298a1fb
Remote terminology service enhancements ( #1934 )
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* Remote terminology service enhancements
* Add changelog
2020-06-23 11:35:26 -04:00
67d363f9e1
Add setting to allow validation of reference targets ( #1932 )
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* Add setting to allow validation of reference targets
* Add changelog
* Add changelog
* License headers
* Plugin version bump
* Experiment with Maven build
2020-06-23 11:35:10 -04:00
ced376f7ba
Add changelog entry; fix typo.
2020-06-22 17:02:08 -04:00
0e86732599
Add changelog
2020-06-19 14:03:22 -07:00
46c00f4efb
Update for Loinc 2.68 ( #1917 )
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* Work on loinc updates
* Work on loinc upload
* Clean up CLI config
* Add changelog
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermLoaderSvcImpl.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/TermLoaderSvcImpl.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/provider/r4/TerminologyUploaderProviderR4Test.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/term/loinc/LoincUploadPropertiesEnum.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/term/TerminologyLoaderSvcLoincTest.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Clean up imports
* LOINC fixes
* Loinc loader fixes
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
2020-06-18 16:55:11 -04:00
d164e2d450
Empi 28 matchers ( #1918 )
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* adding matchers
* reorganize resource matching api
* added precision sensitive date matcher
* stricter rules validation
* validate thresholds
* validate paths. with FIXMES
* validate searchparams
* fix merge compile error
* add soundex, validate no duplicate names
* add normalize substring
* add exact field to matcher
* EXACT -> STRING, exact=true
* cleanup test method
* match test passes with fixmes
* fixed vector matching
* fixed vector matching
* updating documentation and fixing tests
* updated rules documentation with latest matchers
* updated rules documentation with latest matchers
* created eid page
* eid documentation
* pre-review cleanup
* clean up beans
* disentangling beans
* checkstyle
* noop to trigger CI
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_details.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/server_jpa_empi/empi_rules.md
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
* review feedback
* review feedback
* review feedback
* review feedback
* review feedback
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2020-06-14 17:15:56 -04:00
622659cbb3
Add type parameter to resource reindexing operation ( #1921 )
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* Add type parameter to resource reindexing operation
* Add changelog
* CLean up reindexing
2020-06-12 16:51:18 -04:00
756602183b
Add changelog for https://github.com/hapifhir/org.hl7.fhir.core/pull/237
2020-06-11 14:03:20 -04:00
b8da4f0140
Add package support ( #1911 )
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* Begin rework of package management
* Work on NPM
* Work on package management
* Work on NPM
* NPM rework
* Work on NPM
* NPM package rework
* Updates
* Updates
* Add license
* Work on package server
* Work on package importing
* Work on package management
* Package rework
* Work on packages
* Work on package manager
* Work on pkgs
* NPM work
* NPM rework
* Work on package cache
* Work on NPM
* Work on NPM
* Package fixes
* Add tests
* Tweaks
* Test fixes
* Add changelog
* Avoid snapshot dep
2020-06-10 05:30:20 -04:00
0d3ad622b5
Correct Validation Performance Regression ( #1895 )
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* Validation performance regression
* Optimize validation
* More cleanup
* Add changelog
* Test fixes
* Build fixes
2020-06-10 05:26:21 -04:00
122bd97344
Changes recommended during code review.
2020-06-09 09:59:03 -04:00
c86e46b196
Add documentation and remove requirement for max parameter (defaulted to 1 now).
2020-06-08 18:08:02 -04:00
dd84846b94
Empi 56 link merged person ( #1902 )
2020-06-05 15:50:50 -04:00
558f419955
Empi 54 not duplicate ( #1900 )
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add operation to unduplicate persons
2020-06-05 12:21:09 -04:00
21330a0a22
Transaction create performance improvement ( #1899 )
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* Work on perf issue
* Improve write performance for large bundles with tags
* Add changelog
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_1_0/1899-improve-write-xact-perf-with-tags.yaml
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/util/MemoryCacheService.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/util/MemoryCacheService.java
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
* Test fix
* Test fixes
* Test fixes
Co-authored-by: IanMMarshall <49525404+IanMMarshall@users.noreply.github.com>
2020-06-05 05:26:06 -04:00
60e420aaa3
resolves #1838 ( #1839 )
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* Added %today that works like %now but with date precision instead of dateTime precision.
2020-06-04 09:52:41 -04:00
33753881e2
Empi 55 deactivate merged ( #1883 )
2020-06-03 13:12:01 -04:00
201c3a6187
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2020-06-02 07:47:06 -04:00
760d19cf89
Prep for 5.0.2
2020-06-02 07:46:57 -04:00
f48214deda
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
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# Conflicts:
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamExtractor.java
2020-05-29 23:54:11 -04:00
7f72305f57
Improve Period range indexing ( #1873 )
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* Fix #1871 - Handle period range searches better
* Add changelog
* FIx tests
* Add test logging
* Address review comments
2020-05-28 08:56:43 -04:00
97a1bd40a1
Added TLS parameters to Java Mail Sender ( #1666 )
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* Added TLS parameters to Java Mail Sender
* changelog
2020-05-27 19:17:01 -04:00
6899604ae4
Correct validation of fragment codesystems ( #1865 )
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* Update validation for fragment codesystem
* Test fixes
* Add changelog
* Test fix
2020-05-25 20:44:09 -04:00
0175396ee0
Docs fix
2020-05-25 20:28:57 -04:00
b250ac4f3d
Add a change log.
2020-05-25 18:42:17 -04:00
6a4f5b9b3a
Credit for #1826
2020-05-24 09:32:44 -04:00
098c3ad737
Fixing a typo in the performance.md server_jpa doc ( #1849 )
2020-05-23 17:17:51 -04:00
9192d41448
Credit for #1637
2020-05-23 17:16:19 -04:00
e780a8402e
Use R5 snapshot generator ( #1862 )
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* Use R5 snapshot generator
* Snapshot generator reworking
2020-05-23 12:54:19 -04:00
c374383b37
Allow AuthorizationInterceptor to properly authorize GraphQL statements ( #1864 )
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* Allow AuthorizationInterceptor to properly authorize GraphQL statements
* Add changelog
2020-05-22 20:40:37 -04:00
a1a3d9de38
Merge branch 'master' into im_20200520_cascade_delete
2020-05-22 16:11:38 -04:00
d1b963321a
MVP EMPI implementation ( #1857 )
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EMPI Initial Implementation (still plenty of known gaps)
2020-05-22 15:03:20 -04:00
6a5c23c36b
Adding a proposed change log.
2020-05-22 13:45:17 -04:00
2360ed4abe
fix build ( #1861 )
2020-05-21 19:22:08 -04:00
ce5ade53d9
Fix #1855 - StructureDefinition search not working ( #1858 )
2020-05-21 09:35:37 -04:00
e07e071130
Avoid deserialization issues in subscription delivery ( #1856 )
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* Avoid deserialization issues in subscription delivery
* Add changelog
2020-05-21 05:47:39 -04:00
5b2181a563
Implement FHIR Patch ( #1850 )
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* Start working on FHIRPatch
* More work on fhirpatch
* Work on FHIR Patch
* Add patch
* Test fixes
* Test fixes
* Get tests fixed
* Chnage to trigger a build
* Compile fix
* Dependency version fixes
* Test fix
* COmpile fix
* Try to fix build
* Test fix attempt
* Another build attempt
* Another build tweak
* Cleanup
2020-05-20 19:43:55 -04:00
9aaf5ccd63
Fix expunge when using unique search param ( #1854 )
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* Fix expunge when using unique search param
* Add chaneglog
2020-05-20 15:58:53 -04:00
8ab80e3529
Credit for #1853
2020-05-20 10:54:38 -04:00
c9c90b327c
Allow no read interceptor for partition ( #1851 )
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* Allow no read interceptor for partition
* Add changelog
* Test fix
2020-05-19 17:06:56 -04:00
cc92bd7b07
Revert "Start working on FHIRPatch"
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This reverts commit b3f6e7d521
2020-05-17 11:56:50 -04:00
b3f6e7d521
Start working on FHIRPatch
2020-05-17 11:44:06 -04:00
52c8e3551c
Version bump to 5.1.0-SNAPSHOT
2020-05-15 14:43:32 -04:00
fe0e07a313
Bump to 5.0.1
2020-05-15 05:47:01 -04:00
9b1cd6cd5c
Add changelog
2020-05-15 05:45:01 -04:00
79a064dfd9
Optimize chain sql paths ( #1844 )
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* Start cleanup
* Almost workinf
* Possibly working!!
* Fixes
* Test fix
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/predicate/querystack/QueryRootStack.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/predicate/querystack/QueryRootStack.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/predicate/querystack/QueryRootStack.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Address review comments
* Add changelog
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-05-15 05:36:12 -04:00
1d13e29ac0
Version bump to 5.1.0-SNAPSHOT
2020-05-12 20:04:20 -04:00
d631ecff4a
Prepare for 5.0.0
2020-05-12 11:49:18 -04:00
c7da4b0914
Build Cleanup
2020-05-11 13:25:58 -04:00
0c13a65871
Bump to latest Core version ( #1841 )
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* Start working on bumping core
* Work on tests
* Work on tests
* Bump core definitions
* Bump R5 defs
* Tweak changelog
* Test fix
2020-05-11 12:37:16 -04:00
386f395e4b
Version bump 2 dependencies
2020-05-10 19:10:18 -04:00
5ea94abde5
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2020-05-10 12:10:03 -04:00
9d8bd0d51e
Bump R4 definitions to 4.0.1 ( #1837 )
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* Bump R4 definitions to 4.0.1
* Add changelog
* Test fixes
2020-05-08 19:34:13 -04:00
7f12f80358
Docs correction
2020-05-08 11:48:26 -04:00
6cc07b6689
Make binary storage work for bulk export ( #1836 )
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* Make binary storage work for bulk export
* Add changelog
* Build fixes
* Test fix
* Test fix
* Test fix
2020-05-07 19:20:22 -04:00
e874abad47
Add Grand Rounds to HAPI FHIR Atlas
2020-05-06 13:47:26 -07:00
a77aa6a28e
Multitenancy Ticket 2 - #1813 ( #1821 )
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* Work on multitenancy
* Second ticket started
* More multitenancy work
* Work on tenancy security
* Work on multitenancy
* Test fixes
* Add docs
* cs tweak
* Multitenancy fixes
* Add debug log
* Fix build
* Add headers
* Add partition selection interceptor hook
* Update hapi-fhir-base/src/main/java/ca/uhn/fhir/rest/api/Constants.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Account for review comments
* Resolve FIXMES
* Work on tests
* Test fixes
* A bit more cleanup
* Work on multitenancy
* Update hapi-fhir-docs/src/main/java/ca/uhn/hapi/fhir/docs/ClientExamples.java
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/docs/client/examples.md
Co-authored-by: Ken Stevens <khstevens@gmail.com>
* Address review comments
* Allow disabling text modifier indexing
* Add changelog
* Docs fixes
* Address review comment
* Resolve merge conflicts
* Merge master
* Compile fix
* Test fix
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-05-05 15:12:15 -04:00
35c2b7a2c1
Allow disabling text modifier indexing ( #1831 )
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* Allow disabling text modifier indexing
* Add changelog
* Address review comment
* Resolve merge conflicts
2020-05-05 12:16:55 -04:00
91147cf6b0
Scope tag search to correct resource type ( #1829 )
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* failing _tag tests
* cleanup
* Scope tag query to correct resource type
* Changelog
* Test fix
Co-authored-by: Ken Stevens <khstevens@gmail.com>
2020-05-05 11:09:46 -04:00
Tadgh
Frank Tao
James Agnew
NG
Tadgh
ianmarshall
Nick Goupinets
Kevin Dougan
IanMMarshall
Ken Stevens
Tuomo Ala-Vannesluoma
Alan Lescano
Jens Kristian Villadsen
Gary Graham
michelgleeson
Mike G
Sumeet Chhetri
Diederik Muylwyk
Craig Appl
Simon Yun