honeymoose
/
hapi-fhir
mirror of https://github.com/hapifhir/hapi-fhir.git
1
0
Fork 0
Code Issues Packages Projects Releases Wiki Activity
6,680 Commits 666 Branches 129 Tags 1.2 GiB
Commit Graph

327 Commits

Author SHA1 Message Date
Ken Stevens ebd6ca4b64
Empi 3 ruleset version (#1978) 
* 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
Ken Stevens 50ae07acaa
stub out all migrations if an empty schema was initialized (#1975) 2020-07-09 20:18:54 -04:00
Ken Stevens 1e2505e548
change migration to correct table. (#1970) 
* change migration to correct table.

QUESTION: Do we need to stub this migration and add new ones?

* fix variable name
 2020-07-07 05:45:39 -04:00
Ken Stevens 79862c449a
add migration cutpoint (#1968) 2020-07-06 16:12:44 -04:00
James Agnew 6fb6675b1e
Resolve validation errors to ValueSet with UCUM (#1948) 
* 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
James Agnew f356c7c385
Migrate to JUnit5 (#1952) 
* 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
dependabot[bot] ef4b79da7e
Bump mysql-connector-java in /hapi-fhir-jpaserver-migrate (#1955) 
Bumps [mysql-connector-java](https://github.com/mysql/mysql-connector-j) from 6.0.5 to 8.0.16.
- [Release notes](https://github.com/mysql/mysql-connector-j/releases)
- [Changelog](https://github.com/mysql/mysql-connector-j/blob/release/8.0/CHANGES)
- [Commits](https://github.com/mysql/mysql-connector-j/compare/6.0.5...8.0.16)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2020-07-01 18:29:57 -04:00
Tadgh e365e643ba
Merge pull request #1906 from jamesagnew/spring-batch-integration 
Spring batch integration
 2020-06-28 16:10:43 -07:00
ianmarshall 053094f2a6 Apply recent fixes for MySQL migration tasks to MariaDB as well. 2020-06-24 17:42:46 -04:00
Tadgh bb7a773f41 Merge branch 'master' into spring-batch-integration 2020-06-23 16:02:41 -07:00
ianmarshall 5b120ee71e Removed unused code and import statement. 2020-06-17 11:57:37 -04:00
ianmarshall 5d22af45bf Added tests for cases where a renamed column is used in a Foreign Key constraint. 2020-06-17 11:56:20 -04:00
ianmarshall eb990e9a68 Enhance added JUnit test. 2020-06-17 09:05:53 -04:00
ianmarshall cc7ed1b036 Cleanup JUnit test. 2020-06-16 17:21:17 -04:00
ianmarshall 2d857f484c Fix broken JUnit. 2020-06-16 17:13:00 -04:00
ianmarshall 0bd8084b5e Additional fixes to migration tasks for MySQL. 2020-06-16 16:05:10 -04:00
Tadgh 798fdb9cc2 Merge branch 'master' into spring-batch-integration 2020-06-15 09:10:41 -07:00
jamesagnew db4b749436 License updates 2020-06-14 15:44:33 -04:00
Tadgh 4270636d43 Merge branch 'master' into spring-batch-integration 2020-06-12 16:20:54 -07:00
Tadgh 0f469c1a56 Rework to allow for job creation inside of batch 2020-06-12 14:20:50 -07:00
ianmarshall 1ed65f2e03 Enable rename table column migration task for MySQL. 2020-06-12 09:01:46 -04:00
Tadgh a9c704c06e Merge branch 'master' into spring-batch-integration 2020-06-10 12:24:19 -07:00
jamesagnew 05df4f0827 Migration task updates 2020-06-10 09:56:49 -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
Tadgh 9c153527dd remove dead imports 2020-06-09 09:03:56 -07:00
Tadgh 8b995f8be7 Remove dead test 2020-06-08 17:16:22 -07:00
Tadgh 278a1070ae :Merge branch 'master' into spring-batch-integration 2020-06-08 17:16:11 -07:00
Tadgh aa7d1cbcb7 Wip getting tasks built 2020-06-01 11:32:36 -07:00
Tadgh 81d5ff8f5a Add schema initialization 2020-05-27 17:06:52 -07:00
James Agnew 22af36ae7b
Conditional update on Partitioned Server fails (#1870) 
* Fix #1869

* Remove FIXME

* Test fix

* Test fix
 2020-05-27 10:40:29 -04:00
jamesagnew 5482367e37 Remove redundant index - Already covered by FK 2020-05-26 08:54:00 -04:00
jamesagnew 499f1ce672 Test order fix 2020-05-26 05:41:45 -04:00
jamesagnew 9192d41448 Credit for #1637 2020-05-23 17:16:19 -04:00
Jacob Stampe Mikkelsen 262a964a31
Add index on CONCEPT_PID on TRM_CONCEPT_PROPERTY to optimize a full-reindex of lucene index which can be needed when running in a docker container where the lucene files are discarded on redeploy. (#1637) 
Co-authored-by: James Agnew <jamesagnew@gmail.com>
 2020-05-23 17:11:21 -04:00
Tadgh d1b963321a
MVP EMPI implementation (#1857) 
EMPI Initial Implementation (still plenty of known gaps)
 2020-05-22 15:03:20 -04:00
jamesagnew 52c8e3551c Version bump to 5.1.0-SNAPSHOT 2020-05-15 14:43:32 -04:00
jamesagnew b46f4a993d One more fix for 5.0.1 2020-05-15 09:58:45 -04:00
jamesagnew fe0e07a313 Bump to 5.0.1 2020-05-15 05:47:01 -04:00
Tadgh 9fec726b0e
Add missing indexes on ResourceIndexedSearchParamDate (#1847) 
* Add migration tasks for new indexes. Add new indexes to ResourceIndexedSearchParamDate

* fix dates on task, remove redundant index

* Today is not the 20th

* Fix incorrectly named migration indexes

* out of order indexes
 2020-05-15 05:38:16 -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
jamesagnew 034e878a6f Add NOP tasks for 4.3.0 to avoid migrator issues 2020-05-10 12:09:47 -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
jamesagnew 8b49142b94 Clean up migrator tasks 2020-05-01 15:03:36 -04:00
James Agnew 3d5a8bb3f8
Add UCUM support (#1824) 
* Add UCUM support

* Add changelog

* Some cleanup

* Test fix

* Add flywayDB callback

* Add hooks to schema migrator
 2020-04-30 15:22:41 -04:00
Tadgh a5e1b3d159 Minor changes for merge conflicts 2020-04-29 16:18:02 -07:00
Tadgh 8f8a8a3dc2 Merge branch 'master' into date-match-bug 2020-04-29 16:17:50 -07:00
jamesagnew 0d8c42ee1a Migrator tweaks 2020-04-29 10:13:55 -04:00
jamesagnew 36a7e9c980 Test fixes 2020-04-22 14:56:13 -04:00
jamesagnew af43c4377a Roll back a change that was causing test failures 2020-04-22 14:11:01 -04:00