Commit Graph

401 Commits

Author SHA1 Message Date
James Agnew 228e75b501
Bump core to latest versions (#2154)
* Bump core to latest versions

* Compile fix

* Bump to non snapshot core library
2020-11-03 15:43:37 -05:00
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 baba4cc240
Avoid version conflicts on current writes (#1971)
* 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
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
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 35b75f8ffb Merge remote-tracking branch 'remotes/origin/master' into im_20200316_lastn_operation_elasticsearch 2020-05-23 15:54:23 -04:00
James Agnew e780a8402e
Use R5 snapshot generator (#1862)
* Use R5 snapshot generator

* Snapshot generator reworking
2020-05-23 12:54:19 -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
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
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 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
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
ianmarshall 0e45db0ba9 More cleanup and test fixes. 2020-04-24 16:23:59 -04:00
ianmarshall 4a89860f9b Additional tests and cleanup. 2020-04-17 17:38:42 -04:00
ianmarshall d03ce6533e Fixed conflicts after merging latest from Master. 2020-04-13 20:01:34 -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 47786660d5 Test fixes 2020-04-07 13:58:24 -04:00
ianmarshall 83e673e725 Consolidate changes to Command Line Tool and add/improve tests. 2020-04-03 17:12:04 -04:00
jamesagnew 6baf1995c9 Work on subscription cleanup 2020-04-02 20:30:19 -04:00
ianmarshall f819c91530 Initial implementation of lastn operation. 2020-03-31 21:55:57 -04:00
jamesagnew 082c201333 Improve debug logging 2020-03-31 11:20:48 -04:00
jamesagnew 9d09466c21 Add debug logging to CLI 2020-03-31 10:49:16 -04:00
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
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
James Agnew 4989361922 One more test fix 2020-02-03 21:51:13 -05:00
jamesagnew 9c7f5e1b9b License header updates 2020-01-12 10:15:08 -05:00
James Agnew 0b682eeb1f Fix broken constructor 2019-12-18 14:28:28 -05:00
Ken Stevens 68a7613f9e Merge remote-tracking branch 'remotes/origin/master' into ks-20191119-scheduler
# Conflicts:
#	hapi-fhir-cli/hapi-fhir-cli-api/src/main/java/ca/uhn/fhir/cli/BaseFlywayMigrateDatabaseCommand.java
2019-12-16 08:58:26 -05:00
Ken Stevens e3922d5c01 pre-review cleanup 2019-12-15 08:32:45 -05:00
Ken Stevens 7c3514fecc Skip versions tested 2019-12-14 19:00:58 -05:00
Ken Stevens 4946fffac2 pass test 2019-12-14 17:27:17 -05:00
James Agnew 96003a44cc Correct issue with CLI 2019-12-13 13:40:40 -05:00
Ken Stevens 931a41938b added dry-run output to both Flyway and TaskOnly migrator
dry-run only calls TaskOnly migrator now
2019-12-12 14:42:43 -05:00
Ken Stevens 7c1544d8f3 strip comments from sql before splitting ; (to avoid ; in comments) 2019-12-11 14:02:24 -05:00
Ken Stevens 176bf657a7 Merge remote-tracking branch 'remotes/origin/master' into ks-20191119-scheduler
# Conflicts:
#	hapi-fhir-jpaserver-migrate/src/main/java/ca/uhn/fhir/jpa/migrate/tasks/HapiFhirJpaMigrationTasks.java
2019-12-10 10:10:41 -05:00
Ken Stevens bd1b41ff82 change out-of-order-permitted from environment variablet to flag to work like dont-use-flyway 2019-12-09 16:44:24 -05:00
Ken Stevens bfa89483e7 Merge remote-tracking branch 'origin/master' into ks-20191119-scheduler 2019-12-06 18:13:38 -05:00
James Agnew 438ef70fdb Reuse connections in brute force migrator 2019-12-06 16:52:26 -05:00
Ken Stevens 6c432733d5 Merge remote-tracking branch 'remotes/origin/master' into ks-20191119-scheduler 2019-12-05 18:03:02 -05:00
James Agnew d91617e923
Account for review changes (#1623) 2019-12-05 18:01:45 -05:00
Ken Stevens 1ce5dca5db intermittent failure? 2019-12-05 15:32:53 -05:00
James Agnew 69a5266127 Allow non-flyway migration 2019-12-05 10:46:37 -05:00
Ken Stevens 8c7c4fc56f configurable table name 2019-11-26 13:40:03 -05:00
Ken Stevens 01ebe9ae8c Revert "fix test"
This reverts commit 3b35724b
2019-11-26 12:07:31 -05:00
Ken Stevens 3b35724bdd fix test 2019-11-26 11:36:25 -05:00
Ken Stevens 3d00634b16 make migration table name configurable 2019-11-26 09:07:53 -05:00
Ken Stevens 6543da1470 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway 2019-11-15 09:28:30 -05:00
James Agnew 497a96ae68 Version bump for next round of development 2019-11-12 22:09:21 -05:00
jamesagnew f99ad981b5 Version bump to 4.1.0 2019-11-12 16:08:20 -05:00
Ken Stevens 30865588e3 pre-review cleanup 2019-11-04 08:36:24 -05:00
Ken Stevens 5890059362 moar integration tests 2019-11-03 13:46:09 -05:00
Ken Stevens de4f909eda optimize imports 2019-11-02 21:52:35 -04:00
Ken Stevens fd9d61018c FIXME 2019-10-31 17:14:54 -04:00
Ken Stevens f95e4d387d added schema migration validation 2019-10-31 14:56:55 -04:00
Ken Stevens d29e112e26 removed old migration command 2019-10-30 17:32:46 -04:00
Ken Stevens c8c89d976f Flyway integration test passes 2019-10-29 14:18:41 -04:00
Ken Stevens 18e8604494 Merge remote-tracking branch 'remotes/origin/master' into ks-flyway
# Conflicts:
#	hapi-fhir-cli/hapi-fhir-cli-api/pom.xml
2019-10-27 08:29:52 -04:00
James Agnew 9b94e4e26d
Allow uploading term deltas using CS resource (#1555)
* Work on accepting codesystem reources for delta operations

* Ongoing work on term uploader

* Restore the ability to use CodeSystem resources for the delta

* Add tests

* Fix NPE

* Test fixes
2019-10-22 17:11:39 -04:00
James Agnew 464c6c5b45
Upgrade dependencies and addess Semmle issues (#1554)
* Version bumps

* FIx build issues

* Address a few Semmle issues

* Work on tests

* Some test fixes

* Test fix

* Fix deletions

* Test fix

* Fix intermittent test failure

* One more dependency bump

* Add some test logging

* Remove bad import

* Add some tests

* Test updates
2019-10-22 17:10:58 -04:00
James Agnew 12a74e6cbc
Fix term uploads and validate against valueset recalculation (#1540)
* 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

* Work on upload command

* Test fixes

* Work on validation fixes

* Work on validation against pre-expansion

* Work on direct validation

* A bit of cleanup

* Add some javadoc

* Force another build

* Test fixes

* Fix tests

* Fix tests
2019-10-15 21:31:29 -04:00
James Agnew 2725797610
Implement Terminology Delta Operations (#1536)
* 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
2019-10-14 19:14:41 -04:00
Ken Stevens 790f655a95 flyway initial implementation (with FIXMEs) 2019-10-06 17:55:10 -04:00
James Agnew 2193a30b45
CodeSystem Delta Uploader (#1520)
* Terminology Delta Uploading

* Add delta operations

* Fix up tests

* Improve test coverage a bit

* Improve test coverage reporting

* fix yaml

* A couple of test enhancements

* FIx intermittent test failure
2019-10-03 07:19:00 -04:00
James Agnew c8ce07c40e Deprecate redundant IVersionSpecificBundleProvider method 2019-09-30 09:45:31 -04:00
James Agnew f5788341f2
Add no-shrink-columns option to migrator (#1500)
* Add no-shrink-columns option to migrator

* Address review comments
2019-09-23 18:44:51 -04:00
jamesagnew 8b09b3f3eb Rename config enum for consistency 2019-09-03 07:01:36 -04:00
James Agnew 1b1d80b850 Test fix 2019-08-29 21:02:19 -04:00
jamesagnew e1b43d811f Version bump to 4.1.0-SNAPSHOT 2019-08-14 14:06:06 -04:00
jamesagnew 3f22456b0f Bump version to 4.0.0 2019-08-14 11:06:26 -04:00
James Agnew dd0cb10dbb
validate operation ignores parameter profile (#1417)
* This should be working now - need to check tests

* Add a changelog and some docs

* One more test fix

* Tests should be passing

* Fix compile

* Test fixes

* Ignore outdated DSTU2 validation test
2019-08-07 15:31:59 -04:00
James Agnew 60eab3ad70
Add support for R5 resources (#1416)
* Work so far on R5 support

* Add support for R5

* Docs changes
2019-08-06 17:30:31 -04:00
Ken Stevens 808da73854
Merge pull request #1413 from jamesagnew/ks-migration-tests
test all migrations to latest version
2019-08-02 16:13:24 -04:00
Ken Stevens 48c8497086 Changed migration test from derby to h2
Added a new test from 340 to latest version.
2019-08-02 16:00:43 -04:00
Diederik Muylwyk 345ce880ce Address review comments. 2019-08-02 14:45:59 -04:00
Diederik Muylwyk ca01f31ca9 Enable support of DSTU3 for upload-terminology command. 2019-08-02 14:00:56 -04:00
James Agnew 04ce9cfc1a Add support for uploading custom terminology using the
$upload-external-code-system operation
2019-07-30 17:30:18 -04:00
James Agnew a4ca5374ec
Add terminology delta operations (#1401)
* Start work on delta operations

* Add changelog

* Some build fixes

* Move upload terminology command to CodeSystem resource

* Updates

* Some test fixes

* Add changelog

* Some test fixes

* More test fixes

* Test fix

* Add additional tests

* Transaction boundary fixes
2019-07-29 17:46:42 -04:00
James Agnew 33531f9010 Add some test logging 2019-07-14 16:56:43 -04:00
James Agnew 7831e8a0ed Add support for $snapshot generation and validation based on snapshots 2019-07-14 16:15:56 -04:00
James Agnew 120b93f204
Use HL7 FHIR Core Structures (#1382)
* Ongoing work on core structures suport

* Ongoing work on this merge

* Ongoing work to clean up structures

* Credit for #1179

* Address compile issues

* Latest changes

* Work on parallel execution

* Work on getting tests passing

* Add H2 to migrator

* Test fix
2019-07-14 10:16:40 -04:00
jamesagnew dff2fdd3cf GET RID OF TRAILING LICENSE HEADER SPACES ONCE AND FOR ALL
YESSSSSSSSSSSSS
2019-07-05 11:19:51 -04:00
Stig Rohde Døssing b56f59542a Move JettyUtil to new module 2019-06-14 18:34:45 -04:00
Stig Rohde Døssing aab7bb6b64 Issue-1325: Let OS assign random ports to servers during testing, and let tests get the port of the running server once the OS has assigned a port. Delete PortUtil and similar utilities. 2019-06-14 18:34:45 -04:00
Diederik Muylwyk aed5bb8955
Resolve #1320: "import-csv-to-conceptmap is failing unexpectedly." (#1322)
* Reproduced issue in unit test and identified potential solution.

* Fixed using BOMInputStream.

* Added changelog.

* Added a missing word in changelog.

* Added a missing word in changelog. Take two.
2019-06-03 10:53:04 -04:00
James Agnew c811fe8a2f One more test fix 2019-05-30 21:57:49 -04:00
James Agnew 50a8c66bf5 Version bump to 4.0.0-SNAPSHOT 2019-05-30 17:13:03 -04:00
jamesagnew 73aa53be8f Release 3.8.0 2019-05-30 16:50:04 -04:00
patrick-werner 1aeb54e94e added all fetchValueSet Implementations 2019-03-30 21:02:24 +01:00
James Agnew 48c10bddc5
Narrative Generator refactoring (#1219)
* Starting work on this

* Working on narrative templates

* Work on new narrative system

* Account for some failing tests due to refactoring of narrative mode

* Another test fix

* More test fixes

* One more test fix

* Work on searches

* Address review comments
2019-02-27 14:59:57 -05:00
James Agnew 7adb14c754 Make App logging customizable 2019-02-08 17:14:22 -05:00
James Agnew 0f8c8d18e2 Bump version to 3.8.0-SNAPSHOT 2019-02-06 20:02:28 -05:00
jamesagnew 207015c3af Version bump to 3.7.0 2019-02-05 21:36:38 -05:00
jamesagnew d4af1ee2a3 Add tests and license headers 2019-02-04 16:34:39 -05:00
jamesagnew ea84f2c377 Version bump hibernate search 2019-02-02 11:26:19 -05:00
Ken Stevens 9280cde491
Subscription only registers active (#1189)
* Fixed a bug in standalone subscription subscriber:  It was adding REQUESTED subscriptions to the active subscription registry.  (Only ACTIVE subscriptions should be added.)
2019-02-01 10:14:46 -05:00
James Agnew 31b8a392b7 Better CLI error handling for unit tests 2019-01-03 12:57:18 -05:00
James Agnew a0cb7edd08 Version bump a few dependencies 2018-12-22 20:13:03 -05:00
jamesagnew 81e8131ffc Fix broken test 2018-12-09 19:36:03 -05:00
James Agnew 8c7f249a21 Migrator enhancements and adjust reindexer to account for missing
versions
2018-12-04 17:33:29 -05:00
James Agnew 84acafe3af Streamline expunge operation 2018-11-15 11:37:16 +01:00
James Agnew 75210d614b Bump to 3.7.0-SNAPSHOT 2018-11-12 22:37:52 -05:00
James Agnew bbcbcbf5d6 Don't hardcode commons-compress version 2018-11-12 12:26:17 -05:00
James Agnew 63af04a7b4 Prepare for 3.6.0 release 2018-11-12 05:40:55 -05:00
jamesagnew 896568c0f7 License updates 2018-11-04 16:06:53 -05:00
James Agnew bc72093555 Add reindexing support based on table instead of column 2018-11-04 20:00:27 +01:00
James Agnew 87f90fec47 Correctly handle password promnpt in CLI 2018-10-01 11:59:47 -04:00
James Agnew 3e445faf47 Squashed commit of the following:
commit df641506885e09e63f80efc6c658d01a1a3a8142
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sat Sep 29 13:47:22 2018 -0400

    Shrink validation resources

commit 4c1550eafa26f4235b4b8804741aecc03276b5c6
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 22:45:28 2018 -0400

    Updates to get R4 working

commit 8332f15291006691ed9b07ead3e3524b0fc85510
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 09:02:13 2018 -0400

    Ongoing work on gettign R4 working

commit f7146cab7aed937bb625a8aec95744d76db00041
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 28 05:21:01 2018 -0400

    More work on sync

commit f48de4a10b1bab2584fee813017d9b27b237bfa9
Merge: 9e4f3cc722 aacb78b779
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:11:29 2018 -0400

    Merge branch 'sync_r4' of github.com:jamesagnew/hapi-fhir into sync_r4

commit 9e4f3cc722668aae31a77b19bf9b032af3ae01b0
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:11:19 2018 -0400

    Fix compile error

commit 7ec29e0ceda8f9013cbabb95767cbe15b4b81303
Merge: 23f7517325 002c4b3ff7
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:04:23 2018 -0400

    Merge branch 'master' into sync_r4

commit aacb78b7793ab2c71e0a2a774240ee2b5d3f9e7f
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 27 20:01:42 2018 -0400

    Keep working on getting R4 building

commit 4950de46d99897e74d41dfdb10d3d8a3435cb0c9
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Tue Sep 25 13:11:27 2018 -0400

    Ongoing work to get R4 working

commit 819d69c20e112dd3c72569ec50114ddb8263c300
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 20 08:15:36 2018 -0400

    Work on getting build working

commit 2c61b6cd1205ced5d7b822cf10942c69272ea078
Merge: 16b5bb06c8 dfb4de86f1
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Thu Sep 20 05:16:53 2018 -0400

    Merge branch 'master' into sync_r4

commit 16b5bb06c8cdaf8d67c3b80f5aa9be9fccd99aef
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Mon Sep 17 05:30:39 2018 -0400

    Work on R4 sync

commit 23f7517325a14dd2ca1eb5641296ead2776634ae
Author: James Agnew <jamesagnew@gmail.com>
Date:   Sun Sep 16 10:19:00 2018 -0400

    Work on sync

commit 6cc413c1f1dea538295aa4c16c21a5677494ac4c
Author: James Agnew <jamesagnew@gmail.com>
Date:   Fri Sep 14 17:28:28 2018 -0400

    Work on R$ sync

commit df6f6ad2ce783b07ccc383134705d874bc5d2cf1
Author: jamesagnew <jamesagnew@gmail.com>
Date:   Fri Sep 14 08:33:07 2018 -0400

    Work on R4
2018-09-29 13:48:35 -04:00
James Agnew 002c4b3ff7 Add retrigger subscription operation 2018-09-27 20:03:01 -04:00
James Agnew 706e004b9d Bump to 3.6.0-SNAPSHOT 2018-09-19 10:24:48 -04:00
jamesagnew 321e88c811 License header updates 2018-09-14 05:25:07 -04:00
James Agnew 13fc65d6fe Work on migrator 2018-09-08 09:10:13 +08:00
James Agnew daef975734 Version bump to 3.5.0 2018-09-08 07:22:21 +08:00
James Agnew 4852b0b60f Work on migration 2018-09-08 07:14:43 +08:00
James Agnew f5d567cd00 Work on migrator 2018-09-08 03:30:35 +08:00
James Agnew fd55aa292c Allow interactive prompts for credentials from the user 2018-08-19 15:13:06 -04:00
James Agnew a40b7fe7d3 Add user prompting to BaseCommand 2018-08-18 15:04:14 -04:00
jamesagnew 7eb36c3392 Work on subscription 2018-08-11 16:14:53 -04:00
James Agnew ece0c9defe Subscription cleanup 2018-08-10 09:07:55 -04:00
jamesagnew 43ac912033 Clean up terminology uploading 2018-07-15 15:22:52 -04:00
James Agnew 1ec65d03fb
Merge pull request #969 from rhausam/upload-terminology
Fix client upload-terminology for r4.
2018-06-27 10:37:47 -04:00
Diederik Muylwyk 903df68d2a
978 cli tools for importing exporting terminology mappings need to be fixed (#988)
* Fixed export issue.

* Fixed import issue.

* Fixed tests.

* Fixed tests.
2018-06-07 10:22:41 -04:00
Diederik Muylwyk 044fc13b43 Added double quotes to CSV test data to ensure CLI import test still passes. 2018-06-04 13:58:29 -04:00
jamesagnew abcf7852b1 Tests pasing locally 2018-05-31 09:10:34 -04:00
jamesagnew 35a827eac3 Support for JDK10 working now 2018-05-30 08:54:16 -04:00
James Agnew a52805e504 Work on JDK9 support 2018-05-30 05:45:08 -04:00
Rob Hausam b29cdc22f3 Fix client upload-terminology for r4. 2018-05-29 22:54:09 -05:00
Diederik Muylwyk 0e2c57fa60 Bumping version. 2018-05-28 17:44:38 -04:00
Diederik Muylwyk 2871920734 Preparing release. 2018-05-28 10:45:47 -04:00
jamesagnew 49aaa01db8 Fix compile issues 2018-05-23 17:42:48 -04:00
Diederik Muylwyk baac934fba Added QuoteMode.ALL to export-conceptmap-to-csv operation in hapi-fhir-cli. 2018-05-22 15:09:29 -04:00
James Agnew c588e01a4d Handle invalid paths in Consent resource 2018-05-16 21:45:23 -04:00
James Agnew 4fd868afae Credit for #946 and add extensions to the CLI uploader 2018-05-16 19:32:12 -04:00
James Agnew e187d72a3b Fix server command 2018-05-16 16:13:16 -04:00
jamesagnew 8d6940a70e Merge branch 'master' of github.com:jamesagnew/hapi-fhir 2018-05-15 07:35:24 -04:00
jamesagnew f9946fee61 Fixes to get the build passing once more 2018-05-15 07:34:44 -04:00
patrick-werner 58e231d299 removed duplicated hapi-fhir-igpacks dependency 2018-05-15 11:56:56 +02:00
James Agnew a3ff08d9ec
Replace phloc with ph for #775 (#930)
* 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
2018-05-14 17:38:40 -04:00
jamesagnew ccb859fdbe FIxes to get the synced build working 2018-05-13 08:08:34 -04:00
James Agnew f1ba0016b2 Improve the error message thrown by JPA server 2018-05-11 17:03:48 -04:00
James Agnew 38e6edf4ae Command updates for validate command 2018-05-10 17:29:31 -04:00
James Agnew b17eebd8d2 Squashed commit of the following:
commit 2be11651c2
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 11:50:53 2018 -0400

    Update changelog

commit b3bb5f9052
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 11:19:28 2018 -0400

    Parameter updates

commit f6b1082ba4
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 07:24:30 2018 -0400

    More test fixes

commit 81a69c265f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:26:48 2018 -0400

    Fix compile error

commit 935938e92c
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:25:18 2018 -0400

    Another test fix

commit 43568a1f8d
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:18:06 2018 -0400

    Fix compile error

commit e95894e643
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 06:13:50 2018 -0400

    More work on tests

commit 9393fb8f4f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Thu May 10 05:36:27 2018 -0400

    One more fix

commit 437f5051e4
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 21:32:10 2018 -0400

    Work on validator

commit 20c51add4f
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 19:34:10 2018 -0400

    Validator fix

commit 7bf2b0a0e9
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 18:44:04 2018 -0400

    Fix test

commit adc73e75c9
Author: James Agnew <jamesagnew@gmail.com>
Date:   Wed May 9 17:22:34 2018 -0400

    Merge validator
2018-05-10 11:53:32 -04:00
Diederik Muylwyk 14a070a47e
927 cli tooling is needed for creating and maintaining conceptmaps using csvs (#934)
CLI tooling for import/export of ConceptMaps using CSVs has been implemented.
2018-05-10 11:12:45 -04:00
jamesagnew 7c6ba93d9e Header updates 2018-04-30 16:24:11 -04:00
James Agnew 392feb7082 Refactor CLI to extract commands 2018-04-30 15:04:35 -04:00