Commit Graph

744 Commits

Author SHA1 Message Date
Tadgh 0a27b08aad
Merge pull request #2783 from hapifhir/2777-hapi-fhir-cli-Add-option-to-pass-request-headers-to-target-server
Add changelog. Address MR comments.
2021-07-09 09:35:56 -04:00
Tadgh 218325b385
Add backport info for full diff between 5.4.1 and 5.4.2 (#2784) 2021-07-08 16:25:18 -04:00
juan.marchionatto 1e9163c636 Add changelog. Address MR comments. 2021-07-08 14:52:19 -04:00
James Agnew 95306c3d64
Add NPM validation support module (#2782)
* Add NPM validation support module

* Add changelog
2021-07-07 16:28:41 -04:00
Tadgh 3e7bc2a81e
Forward port 5 4 2 (#2781)
* Add new version to enum

* Add backport tags, new VersionEnum, and new release folder for 5.4.2
2021-07-07 10:10:07 -04:00
James Agnew d762a07817
Partition patient interceptor (#2766)
* Start work on interceptor

* Implemented

* Add interceptor and docs

* Add docs

* Compile fix

* Test fixes

* Test cleanup

* Test fixes

* Test fixes

* Improve error message

* Add broken tests

* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2766-add-patient-id-compartment-interceptor.yaml

Co-authored-by: Tadgh <tadgh@cs.toronto.edu>

* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/interceptor/PatientIdPartitionInterceptor.java

Co-authored-by: Tadgh <tadgh@cs.toronto.edu>

* Address review comments

Co-authored-by: Tadgh <garygrantgraham@gmail.com>
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2021-07-05 09:15:20 -04:00
Tadgh a4fb72975d
Merge pull request #2767 from hapifhir/2765-mdm-paging
Paging implementation for MDM query links operation
2021-07-01 23:16:47 -04:00
Tadgh 0a4a50f0a8 update docs 2021-07-01 17:05:14 -04:00
Ken Stevens b1334241c7
change out-of-order flag to switch-order flag so the default behaviour reverses (#2773)
* change out-of-order flag to switch-order flag so the default behaviour reverses

* change log
2021-07-01 15:17:39 -04:00
michaelabuckley 7aba83293a
Merge pull request #2771 from hapifhir/issue-2768-convert-mdm-submit-to-spring-batch
$mdm-submit operation was only submitting 100 resources ...
2021-06-30 16:14:01 -04:00
Tadgh f66f9b992e Bump pre-version as this will break downstream implementations 2021-06-30 15:37:19 -04:00
Tadgh f33696a165 Add changelog 2021-06-30 15:24:29 -04:00
Tadgh 883337a9f4 Tidying 2021-06-30 14:55:57 -04:00
Tadgh 91dee55279 Correct docs 2021-06-30 14:49:37 -04:00
Michael Buckley fa750d209e $mdm-submit operation was only submitting 100 resources and then stopping.
It now correctly submits all requested resources.
2021-06-30 14:48:28 -04:00
Tadgh 8f3cbb0a7f Refactor docs 2021-06-30 14:48:13 -04:00
Clark Van Oyen 4a1b836582
Add Cortico to HAPI FHIR Global Atlas (#2769)
Cortico uses HAPI FHIR to help medical providers engage seamlessly with patients over video, email and SMS.
2021-06-30 08:36:38 -04:00
Ken Stevens 795fb31a3a
fixed mdm rules (#2764)
* fixed mdm rules

* changelog

* review feedback jetbrains

* review feedback
2021-06-28 23:24:37 -04:00
Ken Stevens 9500a1a7de
fix false rule matches (#2762)
* fixed an issue with matching compartments to lists of ids

* change log

* Added extra guards against false rule matches.

* changelog

* fix inCompartment

* cleanup
2021-06-27 10:34:32 -04:00
Ken Stevens 5565bf9930
fixed an issue with matching compartments to lists of ids (#2761)
* fixed an issue with matching compartments to lists of ids

* change log
2021-06-26 20:24:28 -04:00
Ken Stevens ea98e62656
collapse multiple owners for same compartment into shared compartment (#2760)
* collapse multiple owners for same compartment into shared compartment

* changelog

* fix regression

* fix regression

* pre-review cleanup

* pre-review cleanup
2021-06-26 11:48:47 -04:00
michaelabuckley 110173dafb
Merge pull request #2757 from hapifhir/2091-MemoryCacheService-confused-expiry
Fix units on cache expiry
2021-06-25 14:29:43 -04:00
michaelabuckley f1b8802f45
Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2758-fix-cache-expiry-units.yaml
Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2021-06-25 14:19:04 -04:00
James Agnew 7185089c9d
Add forced offset search JPA interceptor (#2756)
* Add support for offset searches

* Tests working

* Add changelog

* Test fixes

* Test fix

* More test fixes

* Add commit counter
2021-06-25 10:40:39 -04:00
Michael Buckley 1367e61c93 changelog 2021-06-24 19:13:54 -04:00
Josiah a9208a88da Revert "Version bump"
This reverts commit 1f5fa70fb6.
2021-06-24 11:48:31 -04:00
Josiah 1f5fa70fb6 Version bump 2021-06-24 11:22:35 -04:00
Josiah 2cc27d9b4f Forgot changelog 2021-06-24 10:19:45 -04:00
jamesagnew 59653759ed Update tests 2021-06-23 15:58:14 -04:00
Nick Goupinets 6feaa12593
Merge pull request #2747 from hapifhir/2746_npe_in_mdm_utils
Added null checks
2021-06-23 09:51:53 -04:00
jamesagnew e3158045aa License header 2021-06-22 23:25:36 -04:00
James Agnew 8379392e16
Add inline tag mode (#2748)
* Start work on tag mode 3

* Add changelog

* Test fix
2021-06-22 23:08:09 -04:00
Nick Goupinets 9caa5e68fc Added changelog 2021-06-22 15:52:21 -04:00
Josiah 912b44c3fa
Merge pull request #2734 from hapifhir/2732-bump-conceptmap-group-element-display-storage-size
Address #2732
2021-06-21 08:33:36 -04:00
James Agnew 6ea1438f1d
Add transaction write semaphore interceptor (#2743)
* Add transaction write semaphore interceptor

* Add changelog

* Test fix
2021-06-20 12:55:49 -04:00
Ken Stevens 32ac16e2aa
add a limit to mdm candidate searches (#2742)
* done

* verbal review feedback

* Update hapi-fhir-docs/src/main/resources/ca/uhn/hapi/fhir/changelog/5_5_0/2739-max-mdm-matches.yaml

Co-authored-by: Tadgh <tadgh@cs.toronto.edu>

* review feedback

Co-authored-by: Tadgh <tadgh@cs.toronto.edu>
2021-06-18 20:48:34 -04:00
James Agnew 8b205b23d0
Fix history paging (#2741)
* Fix history paging

* Add changelog

* Add license header
2021-06-18 17:47:51 -04:00
Ken Stevens 097a2f70b3
add partition support to $evaluate-measure (#2736)
* Finished adding partition support to $evaluate-measure

* review feedback
2021-06-18 14:22:57 -04:00
Josiah 164e684d7c Merge branch 'master' into 2732-bump-conceptmap-group-element-display-storage-size 2021-06-17 15:14:05 -04:00
Josiah 324201b105 Make change 2021-06-17 11:28:02 -04:00
James Agnew 659efa786c
ValueSet Expansion Should Preserve Order (#2724)
* Add test

* FIxed

* Add changelog

* Add test

* Intermittent test failure fix

* Build fix

* Build fix

* Test fix

* Test fixes

* Fix checkstyle issue

* Test fix

* Add test logging
2021-06-16 07:20:59 -04:00
Ken Stevens 134631fdee
Convert delete expunge to use Spring Batch (#2697)
* prepare to add $delete-expunge operation that will create a spring batch job

* Add operation

* Wire up jpa provider.  Begin with failing test.

* Copy/paste bulk import job as a starting point.
FIXME with proposed design

* delete expunge job parameter validation with test

* implemented reader
stubbed processor, writer

* wip for master merge

* started implementing reader

* started implementing reader

* working with stubs

* happy path batch delete expunge is done

* Provider done but test not passing.  Guessing batch infrastructure not running in that test.

* IT test works now

* add reader test

* Converted delete _expunge=true to use new batch job

* DeleteExpungeDaoTest passes

* Fix test

* Change batch size to integer

* rename search count to batch size

* Make delete expunge partition aware

* updated docs

* pre-review cleanup

* change log

* add partition id to SystemRequestDetails

* Make RequestPartitionId serializable

* Change delete expunge provider to use partition id instead of tenant name

* fix tests

* test pointcut gets called

* assert on pointcut calls

* Add resource type to STORAGE_PARTITION_SELECTED pointcut

* bump hapi-fhir version
move expunge provider parameters from JpaConstants to ProviderConstants

* bump hapi-fhir version

* copyrights

* restore deleteexpungeservice for mdm

* restore deleteexpungeservice for mdm

* fix test

* public constants

* convert instant to date

* Moved expunge constants to ProviderConstants

* final review

* disabling InMemoryResourceMatcherR5Test.testNowNextMinute() to see if I can get a clean test run

* fix tests

* fix tests

* fix tests

* fix tests

* review feedback

* review feedback

* review feedback

* review feedback

* review feedback

* review feedback

* improve logging

* bump version

* version bump

* recovering from failed merge

* unzip RequestListJson per Gary's suggestion.  I didn't want to do it at first, but as usual Gary was right.

* fix serialization
2021-06-15 10:36:05 -04:00
jamesagnew 376a84d213 Version bump 2021-06-14 13:12:34 -04:00
James Agnew b934abb297
Impropve transaction Performance (#2717)
* Work on changes

* Work on perf

* Work on testing

* Work on perf

* Work on perf

* Work on fix

* Work on perf

* Ongoing work

* Add changelog

* Additional docs

* Test fixes

* Address review comments

* Test fix
2021-06-14 13:08:19 -04:00
jamesagnew 48eea5a7cc Prepare changelog for 5.4.1 release 2021-06-14 09:13:41 -04:00
jamesagnew 474cca877a Merge branch 'rel_5_4_2' 2021-06-14 09:07:26 -04:00
jmarchionatto 39d7d4ad03
Use pageSize variable to hold page size (#2719)
* Use pageSize variable to hold page size as previously used variable has other function, so not always hols intended value required for previous link

* Adjust test to standards and use RestfulServerExtension instead of own server

Co-authored-by: juan.marchionatto <juan.marchionatto@smilecdr.com>
2021-06-11 17:29:14 -04:00
jamesagnew 090dc9a2e2 Docs 2021-06-11 15:55:35 -04:00
James Agnew fcb32eacb6
Add support for loinc 2.70 (#2721)
* Add support for loinc 2.70

* Add changelog
2021-06-11 15:15:22 -04:00
James Agnew dc627dc019
Add bulk export authorization layer (#2712)
* Add bulk export authorization layer

* Add docs

* Version bump

* Authorize any

* Add bulk export - all

* Address lgtm issue
2021-06-06 20:47:43 -04:00