Commit Graph

421 Commits

Author SHA1 Message Date
Nick 4352e0a61f Merge remote-tracking branch 'origin/master' into gg_20201105-remove-person-references 2020-12-03 11:28:21 -05:00
Tadgh a4b2fbd906
Merge pull request #2211 from bdenton/bd-20201202-fix-split-package
Split package: delete 'ca.uhn.fhir.rest.server' package from hapi-fhir-server-empi
2020-12-03 09:02:46 -05:00
James Agnew 1eae5db374
autoCreatePlaceholderReferenceTargets true breaks multitenancy (#2215)
* Fix #2209 - autoCreatePlaceholderReferenceTargets true breaks multi-tenancy

* Add changelog

* Address fixme
2020-12-03 08:53:37 -05:00
James Agnew 7627a86176
Improve version logging (#2213)
* Improve version logging

* Add changelog

* Test fixes
2020-12-02 21:19:04 -05:00
Bill Denton 01ca7f3746 move TransactionLogMessage to hapi-fhir-rest-server bundle (as per
feedback)
2020-12-02 17:22:31 -08:00
Nick Goupinets d63c580e82 Merge remote-tracking branch 'origin/master' into gg_20201105-remove-person-references 2020-12-01 13:18:42 -05:00
James Agnew c309737166
Allow reading from multiple partitions (#2198)
* Partitioning rework

* Work on partition improvements

* Partition updates

* Work on partitiong

* Test fixes

* Add docs

* Add changelog

* Resolve FIXME

* Test fixes

* Test fixes

* Test fixes

* Compile fix

* Fix compile error

* Test fix

* Test fixes
2020-11-30 17:59:52 -05:00
Nick Goupinets 8a7dc4e80b EMPI to MDM 2020-11-27 15:12:21 -05:00
Tadgh 953b662827 Merge branch '2161-refactor-empi' into gg_20201105-remove-person-references 2020-11-19 14:24:51 -05:00
Tadgh 3209faf2fb Rename package and module 2020-11-18 21:55:29 -05:00
jamesagnew 0c31741eec Version bump to 5.3.0-SNAPSHOT 2020-11-18 14:52:43 -05:00
jamesagnew 4d441ad7f2 Version bump to 5.2.0 2020-11-18 06:30:20 -05:00
Tadgh c0bef70e12 Add optional resource type to EMPI provider method 2020-11-13 16:42:09 -05:00
Tadgh 331acc1b55 Attempting to perform MDM on a new resource type 2020-11-11 14:15:35 -05:00
Tadgh ffbe35e2cd Partial refactor of Provider 2020-11-10 12:26:20 -05:00
Tadgh a67b3a8298 Fixed possible-matcher 2020-11-10 10:46:43 -05:00
James Agnew 8000d2d0cf
SQL Join Rework (#2086)
* 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
Ken Stevens 3b91873b7c
delete expunge (#2131)
Added delete _expunge=true
2020-10-20 17:21:50 -04:00
jamesagnew 7903b2b577 License headers 2020-10-13 11:43:09 -04:00
Tuomo Ala-Vannesluoma 1435540320
Improve synchronous searching by providing offset & limit support (#2059)
* 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
Joel Schneider (NMDP) a32397d993
add CorsInterceptorTest (#2126)
* add simple CorsInterceptorTest

* add relevant exposedHeaders to custom CorsConfiguration

* use SLF4J Logger.info() instead of System.err.println(), and run the test assertions first

* Add logback-classic dependency to test scope, to enable SLF4J logging within unit tests.  (SLF4J defaults to NOP binding if no binding found on classpath, see also http://www.slf4j.org/codes.html#StaticLoggerBinder)
2020-10-12 17:38:31 -04:00
Josh Collins 844624b6dd
RDF Support in HAPI FHIR (#2118)
* RDF Support in HAPI FHIR

* Ability to read/write FHIR resources as RDF (turtle serialization)
* Test suite to test roundtrip-ability of RDF parser

* Add null checks to appease LGTM

* Correct null check logic
2020-10-12 17:16:00 -04:00
James Agnew d2aae361bf
Rewrite deferred interceptor callback framework (#2121)
* Rewrite deferred interceptor callback framework

* Improve deferred handling

* Null guard

* Test fix
2020-10-07 20:08:18 -04:00
jamesagnew edbd089092 Docs update 2020-10-06 05:52:22 -04:00
Tadgh 66a0115340 Missed a space 2020-09-30 11:13:40 -04:00
Tadgh ca52268249 Rename accessors, fix whitespace 2020-09-30 11:11:56 -04:00
Ken Stevens 09d09233ff
empi bugfixes and enhancements (#2104) 2020-09-29 17:27:43 -04:00
James Agnew 072e63be5a
Avoid a crash on double date chains (#2097)
* Avoid a crash on double date chains

* Add changelog

* Address coverage warning
2020-09-21 15:43:07 -04:00
Tadgh 45775c8660 Reuse constant 2020-09-16 15:29:04 -04:00
Tadgh ddfac72e8d Clean spacing 2020-09-16 15:27:03 -04:00
Tadgh 9d3a97a46f Default for int 2020-09-16 15:24:09 -04:00
Tadgh 558f7a5ccf Minor cleanup 2020-09-16 15:21:49 -04:00
Tadgh 4c5051a5d9 More refactor for custom headers and top level attributes 2020-09-16 15:05:44 -04:00
Tadgh 666113696b add attributes to HapiHeaders. Turns out deserialization makes a best guess, and doesnt respect types in Map<String,Object> 2020-09-16 14:06:54 -04:00
Tadgh cdc195bd0b Change to use long type for failure timestamps 2020-09-16 13:13:43 -04:00
Tadgh 74bba9dbcc Rename to ResourceOperationMessage 2020-09-15 18:57:55 -04:00
Tadgh ea64bea1b0 Refactor to use concrete class instead of parent 2020-09-15 15:27:21 -04:00
Tadgh a9fb849d49 Moved more into parent class, added javadocs for transactionId 2020-09-14 16:44:50 -04:00
Tadgh 6e0ef035e9 Rename constants. Remove dead comment 2020-09-14 15:35:58 -04:00
Tadgh f20c42a8bd Remove license claims, remove dead class 2020-09-14 13:48:44 -04:00
Tadgh 9a09a8abf3 Update todos 2020-09-14 13:41:11 -04:00
Tadgh 3e324355f2 Add javadocs 2020-09-14 13:28:36 -04:00
Tadgh 2e1f2a662a Move class to top level, add tests 2020-09-14 13:20:01 -04:00
Tadgh c3ddf59d6f Add HapiMessageHeaders to BaseJsonMessage class 2020-09-14 13:02:32 -04:00
Tadgh 28a9a53917 Rework to keep several things in subscription 2020-09-10 16:05:56 -04:00
Tadgh 2229233749 Move subscription models to legacy, except the ones that are subscription specific 2020-09-09 15:58:41 -04:00
jamesagnew 190f0ccb22 Add test for #2063 2020-09-01 14:12:57 -04:00
jamesagnew 92718c7ef2 Version bump to 5.2.0-SNAPSHOT 2020-08-12 10:23:46 -04:00
jamesagnew 5fb7bd5156 Version bump to 5.1.0 2020-08-11 17:43:24 -04:00
James Agnew 63ef2ce006
Fix #2012 - Always filter total from search results when consent interceptor in use (#2020)
* 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