jamesagnew
ef86d26357
License header updates
2020-07-02 12:07:02 -04:00
Ken Stevens
714bd6216e
Empi 70 phonetic indexing ( #1941 )
...
* 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
jamesagnew
2cdef055aa
Missed commit on #1951
...
Squashed commit of the following:
commit f820135996
Author: jamesagnew <jamesagnew@gmail.com>
Date: Tue Jun 30 14:29:24 2020 -0400
Address review comments
commit 11c4f9defb
Author: jamesagnew <jamesagnew@gmail.com>
Date: Tue Jun 30 09:38:16 2020 -0400
Fix LGTM warning
commit b650fdb9ea
Author: jamesagnew <jamesagnew@gmail.com>
Date: Tue Jun 30 09:20:52 2020 -0400
Test fix
commit 6ebcceeb5c
Author: jamesagnew <jamesagnew@gmail.com>
Date: Mon Jun 29 18:49:01 2020 -0400
Add changelog
commit 4a1d7383b0
Author: jamesagnew <jamesagnew@gmail.com>
Date: Mon Jun 29 18:46:52 2020 -0400
Bundle transmission
commit 88bd4abf0c
Merge: 7cde945281
25fc747b9f
Author: jamesagnew <jamesagnew@gmail.com>
Date: Mon Jun 29 17:31:23 2020 -0400
Merge branch 'master' into ja_20200617_subscription_send_bundles
commit 7cde945281
Author: jamesagnew <jamesagnew@gmail.com>
Date: Mon Jun 29 17:10:33 2020 -0400
Work on seed bundles
commit ed2e62752e
Author: jamesagnew <jamesagnew@gmail.com>
Date: Mon Jun 29 09:39:10 2020 -0400
Work on subscriptions
commit 52addcff59
Merge: 64a9eaa4de
bf8de84801
Author: jamesagnew <jamesagnew@gmail.com>
Date: Sat Jun 27 18:09:23 2020 -0400
Merge branch 'master' into ja_20200617_subscription_send_bundles
commit 64a9eaa4de
Author: jamesagnew <jamesagnew@gmail.com>
Date: Wed Jun 17 18:32:17 2020 -0400
Start work
commit f74eba5397
Author: jamesagnew <jamesagnew@gmail.com>
Date: Wed Jun 17 18:28:18 2020 -0400
Terser should create correct Enumeration on create
2020-06-30 14:31:40 -04:00
James Agnew
fa4bbe3685
Allow search criteria as subscription delivery mechanism ( #1951 )
...
* 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
James Agnew
6825d2fcf0
Reduce DB roundtrips for revincludes ( #1937 )
...
* Reduce DB roundtrips for revincludes
* Add changelog
2020-06-23 16:26:04 -04:00
James Agnew
b8da4f0140
Add package support ( #1911 )
...
* 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
ianmarshall
78b7f091ec
Merge remote-tracking branch 'remotes/origin/master' into im_2020601_lastn_code_text_filter
...
# Conflicts:
# hapi-fhir-jpaserver-base/src/test/java/ca/uhn/fhir/jpa/search/lastn/LastNElasticsearchSvcMultipleObservationsIT.java
2020-06-04 16:55:18 -04:00
Ken Stevens
60e420aaa3
resolves #1838 ( #1839 )
...
* Added %today that works like %now but with date precision instead of dateTime precision.
2020-06-04 09:52:41 -04:00
ianmarshall
8d5232bced
Merge remote-tracking branch 'remotes/origin/master' into im_2020601_lastn_code_text_filter
2020-06-02 21:28:10 -04:00
jamesagnew
75a74bdd38
License headers
2020-06-02 18:20:56 -04:00
ianmarshall
2e709a50c0
Enable filtering $lastn operation by Observation effective date.
2020-06-02 16:37:07 -04:00
ianmarshall
f48214deda
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamExtractor.java
2020-05-29 23:54:11 -04:00
ianmarshall
a4811f1508
Changes per code review.
2020-05-29 23:47:44 -04:00
James Agnew
7f72305f57
Improve Period range indexing ( #1873 )
...
* 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
ianmarshall
a63d90c1f5
Additional cleanup and test fixes.
2020-05-25 18:36:04 -04:00
ianmarshall
1e554731bb
Additional cleanup and test fixes.
2020-05-25 18:25:25 -04:00
ianmarshall
4d378ee0ed
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-cli/hapi-fhir-cli-jpaserver/src/main/java/ca/uhn/fhir/jpa/demo/CommonConfig.java
# hapi-fhir-jpaserver-base/pom.xml
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamExtractor.java
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/ISearchParamExtractor.java
2020-05-22 17:04:01 -04:00
Tadgh
d1b963321a
MVP EMPI implementation ( #1857 )
...
EMPI Initial Implementation (still plenty of known gaps)
2020-05-22 15:03:20 -04:00
James Agnew
5b2181a563
Implement FHIR Patch ( #1850 )
...
* 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
ianmarshall
d2b54d6203
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/SearchBuilder.java
2020-05-19 15:20:06 -04:00
ianmarshall
6a27192a96
Fixed sorting with chunked and paged queries.
2020-05-19 14:48:26 -04:00
jamesagnew
52c8e3551c
Version bump to 5.1.0-SNAPSHOT
2020-05-15 14:43:32 -04:00
jamesagnew
fe0e07a313
Bump to 5.0.1
2020-05-15 05:47:01 -04:00
James Agnew
79a064dfd9
Optimize chain sql paths ( #1844 )
...
* 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
ianmarshall
529e1e1f5e
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
2020-05-14 12:09:24 -04:00
jamesagnew
1d13e29ac0
Version bump to 5.1.0-SNAPSHOT
2020-05-12 20:04:20 -04:00
jamesagnew
d631ecff4a
Prepare for 5.0.0
2020-05-12 11:49:18 -04:00
ianmarshall
e56cb049f7
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
2020-05-08 09:19:44 -04:00
ianmarshall
c290fa3493
Fixes to enable $lastn to return more than 32K records.
2020-05-08 09:19:14 -04:00
James Agnew
6cc07b6689
Make binary storage work for bulk export ( #1836 )
...
* 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
James Agnew
b67509d7ff
Transaction write performance fix ( #1832 )
...
* Performance fix for transactions
* Test fix
* Fixes
* Add docs
* Test fixes
2020-05-07 10:56:41 -04:00
ianmarshall
1e882d640d
Merging with latest from Master.
2020-05-05 17:35:22 -04:00
ianmarshall
4cced40b54
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamExtractor.java
2020-05-05 17:19:32 -04:00
ianmarshall
4db5beeabf
Additional changes to enable processing of lastn operations with large numbers of parameters.
2020-05-05 16:53:47 -04:00
James Agnew
a77aa6a28e
Multitenancy Ticket 2 - #1813 ( #1821 )
...
* 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
James Agnew
35c2b7a2c1
Allow disabling text modifier indexing ( #1831 )
...
* Allow disabling text modifier indexing
* Add changelog
* Address review comment
* Resolve merge conflicts
2020-05-05 12:16:55 -04:00
James Agnew
dada217966
Clean up hash code calculation ( #1830 )
...
* Clean up hash code calculation
* Test fixes
* Test fix
* Test fixes
* Compile fix
* Test fix
2020-05-05 11:11:24 -04:00
Tadgh
8f8a8a3dc2
Merge branch 'master' into date-match-bug
2020-04-29 16:17:50 -07:00
ianmarshall
3e49e5615f
Fixing merge conflicts after merge from Master.
2020-04-25 22:14:55 -04:00
ianmarshall
dd749791db
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-jpaserver-searchparam/src/main/java/ca/uhn/fhir/jpa/searchparam/extractor/BaseSearchParamExtractor.java
2020-04-24 16:55:45 -04:00
ianmarshall
0e45db0ba9
More cleanup and test fixes.
2020-04-24 16:23:59 -04:00
ianmarshall
197bf2b6a8
Further refinements and test fixes.
2020-04-23 23:21:45 -04:00
jamesagnew
c7de85339c
Work on review comments
2020-04-21 20:18:06 -04:00
jamesagnew
bbab016ca6
Rename config
2020-04-20 12:38:04 -04:00
ianmarshall
540375a7eb
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
2020-04-17 17:39:27 -04:00
jamesagnew
25cdbb15c2
Work on multitenancy
2020-04-16 15:33:48 -04:00
jamesagnew
cd06137745
Work on multitenancy
2020-04-15 22:12:28 -04:00
jamesagnew
d822867a4a
Merge branch 'master' into ja_20200206_multitenancy
2020-04-15 22:12:20 -04:00
James Agnew
f95f619bdc
Correct two JPA processing bugs ( #1801 )
...
* Work on search params on contained
* Add workaround for stored decimals with leading decimal point
* Add changelog
* Cleanup
* Test fix
* Test fix
* One more test fix
2020-04-15 14:22:47 -04:00
ianmarshall
925bbbbcdc
Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch
...
# Conflicts:
# hapi-fhir-cli/hapi-fhir-cli-api/src/main/java/ca/uhn/fhir/cli/RunServerCommand.java
# hapi-fhir-cli/hapi-fhir-cli-jpaserver/src/main/java/ca/uhn/fhir/jpa/demo/CommonConfig.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/dstu3/BaseDstu3Config.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/r4/BaseR4Config.java
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/r5/BaseR5Config.java
# pom.xml
2020-04-13 18:35:15 -04:00
jamesagnew
982b54df57
Work on multitenancy
2020-04-13 11:50:49 -04:00
jamesagnew
c26a5553e9
Multitenancy work
2020-04-12 20:47:32 -04:00
jamesagnew
e55ccf88fc
Work on multitenancy
2020-04-10 20:01:59 -04:00
jamesagnew
7c6024fa14
More work on subscriptions
2020-04-03 07:43:21 -04:00
jamesagnew
e1142f4043
Start work on subscription cleanup
2020-04-02 05:31:12 -04:00
ianmarshall
f819c91530
Initial implementation of lastn operation.
2020-03-31 21:55:57 -04:00
jamesagnew
a5257f0fa8
Add new indexing extractor method
2020-03-19 20:22:30 -04:00
Tadgh
3eb09b15f0
Merge branch 'master' into bugfix/1752-support-chained-parameters-inside-reverse-chained-parameter
2020-03-17 10:32:43 -07:00
James Agnew
22413911bf
Validation api changes ( #1719 )
...
* 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
2020-03-17 13:28:59 -04:00
Tadgh
4777d75e6b
Merge branch 'master' into bugfix/1752-support-chained-parameters-inside-reverse-chained-parameter
2020-03-13 18:40:11 -07:00
James Agnew
1dc5d89013
Optmize forced ID resolution ( #1754 )
...
* Add forced ID caching
* Work on id optimization
* Test fixes
* More optimization work
* Add some docs
* Work on docs
* Test fixes
* Test fixes
* Test fixes
* Address review comments
* Compile fix
2020-03-12 17:12:50 -04:00
Tadgh
59d1603597
Some variable renaming. Adds some questions.
2020-03-09 13:51:47 -07:00
jamesagnew
202b9c9a51
License header
2020-03-08 07:23:57 -04:00
Tadgh
aca4bcfaad
Minor refactoring for readability
2020-03-06 14:22:31 -08:00
Ken Stevens
ccd983ab42
review feedback: code improvement
2020-03-03 13:46:23 -05:00
Ken Stevens
705735b9c0
review feedback: javadoc
2020-03-03 13:29:10 -05:00
Ken Stevens
4e1be80525
fixme
2020-03-02 21:39:28 -05:00
Ken Stevens
27dcafe4f2
all but unit tests
2020-03-02 21:27:50 -05:00
Ken Stevens
24acb57f3b
began with failing test.
...
test now passes.
2020-03-02 17:56:25 -05:00
Gary Graham
b1d7072c42
Add precision checker for ordinal date returning on DateRangeParam
2020-02-26 22:22:42 -05:00
Gary Graham
f86a4c9fa1
Add date ordinals to subscription matching checker
2020-02-26 17:05:23 -05:00
James Agnew
cb9906580e
Index canonical references ( #1728 )
...
* Index canonical references
* Add changelog
* Fix compile error
* Add whitespace
2020-02-25 21:45:46 -05:00
Gary Graham
a1b6e37395
Fix bug with Period bounds not counting as first value
2020-02-25 17:03:50 -05:00
Gary Graham
3ec772b527
rework ResourceIndexedSearchParamDate constructor to support incoming string values
2020-02-25 14:06:36 -05:00
James Agnew
60f16dd91d
Update to 4.3.x core JAR ( #1715 )
...
* Added optionality for adding resource fetcher
* Added coverage that proves invocations
* Bumped version of fhir.core to latest version. Added wrapping of AssumeValidRestReferences
* Added optionality for adding resource fetcher
* Added coverage that proves invocations
* Bumped version of fhir.core to latest version. Added wrapping of AssumeValidRestReferences
* Start working on converter
* Account for compile errors
* Test fix
* Work no validator
* Work on getting core working
* Add some test coverage
* Many test fixes
Co-authored-by: Jens Kristian Villadsen <46567685+jvitrifork@users.noreply.github.com>
2020-02-17 14:28:29 -05:00
jamesagnew
ddc7b601ee
Version bump to 4.3.0-SNAPSHOT
2020-02-16 19:23:22 -05:00
jamesagnew
4fd80cfca7
Bump to 4.2.0
2020-02-16 19:00:15 -05:00
Ken Stevens
63f2f38689
reinstate near param count validation
2020-02-02 21:21:37 -05:00
Ken Stevens
c10d44327c
fix in-memory matcher
2020-02-02 17:52:09 -05:00
Ken Stevens
decb47dfc2
remove unused block
2020-02-02 16:56:25 -05:00
Ken Stevens
74948737a7
pre-review cleanup
2020-02-01 20:18:42 -05:00
Ken Stevens
fb1eb7ca8f
parking wip
2020-02-01 13:58:27 -05:00
Ken Stevens
2bc3181218
ensure in-memory matching location search for Dstu3 falls back to a db search
2020-01-25 13:30:26 -05:00
Ken Stevens
2c53468177
fix test
2020-01-24 21:11:37 -05:00
Ken Stevens
c87f8e0f4a
tested near anti-meridian
2020-01-24 18:55:32 -05:00
Ken Stevens
72ccd76ed0
prepping for antimeridian test
2020-01-24 14:37:28 -05:00
Ken Stevens
39c7642d8c
fix test
2020-01-24 09:27:20 -05:00
Ken Stevens
b465a7b781
final cleanup
2020-01-23 19:20:51 -05:00
Ken Stevens
01bc941f5f
Optimize imports
2020-01-23 19:15:30 -05:00
Ken Stevens
e6f5af01ed
convert degrees to kilometers for near calculation
2020-01-22 16:55:19 -05:00
Ken Stevens
9413e8f198
r4 works. But distance calculation still needs to be fixed.
2020-01-22 11:59:03 -05:00
Ken Stevens
6cebb56f13
testing complete. Now just need pre-review cleanup.
2020-01-21 17:06:19 -05:00
Ken Stevens
3cb9a9f4a2
added asserts
2020-01-21 15:45:41 -05:00
Ken Stevens
b463929c28
parse nearDistance into a special search parameter field so it's available when we're adding the near parameter
2020-01-21 15:38:25 -05:00
Ken Stevens
299e1e35e1
removed coordextractor and moved to token (looks cleaner and more in line with how the other ones are parsed)
2020-01-21 11:06:40 -05:00
Ken Stevens
dd137a0a30
Coord extraction implemented
2020-01-21 10:17:49 -05:00
James Agnew
c0e929dacb
Copy identifiers to placeholder resources ( #1675 )
...
* Copy identifiers to placeholder resources
* Add tests
* Maven cleanup
* Still messing around with azure
* Adding to logging
* More azure work
* One more attempt
* More messing around with azure
* Test fix
* Another caching attempt
* More work on azure pipeline
* Fix pipeline file
* Keep working on pipeline
* More work on azure
* More azure
* More azure work
* More azure
2020-01-21 06:09:06 +09:00
James Agnew
1390ea3c06
Update FHIR R5 structures to 4.2.0 version ( #1665 )
...
* Work on upgrading core
* Work on R5 updates
* Work on core updates
* Test fix
* Update model version properties file for R5
* Bump core version
* Test fixes
* Add 4.2.0-SNAPSHOT version to versions page in docs
2020-01-14 10:27:01 +08:00
jamesagnew
9c7f5e1b9b
License header updates
2020-01-12 10:15:08 -05:00
Ken Stevens
2d0c30f7a2
fix test
2019-12-20 15:46:55 -05:00