Commit Graph

3329 Commits

Author SHA1 Message Date
Tadgh 8dcb6053a4 Swap to URI instead of token 2021-06-24 15:48:51 -04:00
jamesagnew 9bc4859761 Add test 2021-06-23 20:55:22 -04:00
jamesagnew 59653759ed Update tests 2021-06-23 15:58:14 -04:00
James Agnew 068de6a708
Test cleanup (#2749)
* Start work on tag mode 3

* Add changelog

* Test fix

* Test cleanup
2021-06-22 23:09:03 -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
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 0d0a0fd6a2
Add transaction write semaphore interceptor (#2744)
* Add transaction write semaphore interceptor

* Add changelog

* Test fix

* Two missing commits on TransactionConcurrencySemaphoreInterceptor

* License header
2021-06-21 05:38:53 -04:00
jamesagnew f0cfb5ad1b License headers 2021-06-21 05:29:02 -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 0b05c730fb
don't create a channel if subscriptions are disabled. (#2733)
* don't create a channel if subscriptions are disabled.

* review feedback

* fix test

* fix intermittent

* fix intermittent
2021-06-19 00:00:16 -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
jamesagnew 5d246bcca8 License header 2021-06-17 14:40:00 -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
Kevin Dougan SmileCDR 6f680af3ce
SearchBuilder NPE (#2726)
* Add failing test first.

* Fixed the NPE and enhanced the test.

* Update hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/search/builder/SearchBuilder.java

Co-authored-by: Ken Stevens <khstevens@gmail.com>

Co-authored-by: Ken Stevens <khstevens@gmail.com>
2021-06-15 11:50:18 -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 14070914ae Add test 2021-06-14 05:53:22 -04:00
jamesagnew 3ee05b5a62 Refactor transaction processing 2021-06-13 19:42:26 -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
jamesagnew 4f1f09abb1 Merge branch 'master' of github.com:hapifhir/hapi-fhir 2021-06-04 20:40:51 -04:00
jamesagnew 3e4522be86 Add logging 2021-06-04 20:40:40 -04:00
Kevin Dougan SmileCDR 0143e83156
Added another try-with-resources local variable based on a lgtm.com report. (#2711) 2021-06-04 15:17:27 -04:00
jamesagnew 899caa1913 Update transaction service visibility 2021-06-04 14:18:19 -04:00
James Agnew 62be623cf5
Add support for ICD-10-CM (#2702)
* Add support for ICD-10-CM

* Have this working

* Fix LGTM issues

* Test fix
2021-06-03 19:55:16 -04:00
Ken Stevens 94d6b15db9
_filter searchparam should not appear in cap stmt if disabled (#2706)
* issue reproduced and fixed

* changelog

* cleanup
2021-06-03 18:45:49 -04:00
Ken Stevens c498522c78
search by source reported incorrect size (#2705)
* issue reproduced in test and fixed

* changelog
2021-06-03 18:19:43 -04:00
juan.marchionatto 473de64ddc Fix DockerRequiredCondition check.
Add @RequiresDocker annotation to two tests.
2021-06-03 14:14:47 -04:00
jamesagnew 9401ecaf95 Merge branch 'master' of github.com:hapifhir/hapi-fhir 2021-06-02 16:47:12 -04:00
jamesagnew a0366befc4 Forward port fix 2021-06-02 16:47:02 -04:00
James Agnew 1d2b47c9fb
Update endpoint validation interceptors (#2698) 2021-06-02 05:39:01 -04:00
James Agnew fe763dd2d6
Upgrade deps (#2695)
* Upgrade deps

* Fix build error

* Branch tweak

* Build fix

* Build fix

* Undo bump

* Test fixes
2021-06-01 12:03:29 -04:00
rbhman dfde993f2d
Allow lower case error message to also trigger retry (#2693)
* Allow lower case error message to also trigger retry

* similar data integrity exception on different table

Co-authored-by: Hedman, Bruno <bruno.hedman@rmp.uhn.ca>
2021-06-01 10:50:06 -04:00
James Agnew 05ac88bc21
Add initiate bulk export pointcut (#2692)
* Add initiate bulk export pointcut

* Add changelog

* Test fixes
2021-05-31 16:05:09 -04:00
James Agnew a2950324ef
Avoid SQL based transaction dupe check (#2688)
* Avoid SQL based transaction dupe check

* Add changelog

* Test fixes

* Test fixes
2021-05-30 20:26:36 -04:00
James Agnew 8d377fbf76
Add bulk import instrumentation (#2685)
* Add batch job instrumentation

* Add bulk import instrumentation

* Fix build
2021-05-30 11:47:51 -04:00
Patrick Werner f34dd7ecd8
Merge pull request #2683 from me-d4l/feature/ignore-package-id-case
Make package ID handling case-insensitive (#2682)
2021-05-29 17:12:43 +02:00
James Agnew 24b3f0f30d
Enable mass ingestion mode (#2681)
* Work on fixes

* Work on counts

* Enable mass ingestion mode

* Add changelog

* Test fix

* Test fix

* Test fixes

* Fixes

* Test fix

* Test fix
2021-05-27 18:43:51 -04:00
morten.ernebjerg 69d3e3f3ca
Add further test for non-matching IDs 2021-05-27 15:18:45 +02:00
morten.ernebjerg cbfca6a560
Make package ID handling case-insensitive 2021-05-27 14:57:07 +02:00
James Agnew c8c596aff4
Fix date search on period with no end (#2676)
* Add test

* Working test

* Update test

* Account for date fixes

* Add changelog

* Add setting

* Test fixes

* Test fix
2021-05-26 21:03:53 -04:00
James Agnew 7a83c76e65
Add validation suppression mode (#2675)
* Add validation suppression mode

* Add changelog

* Compile fix
2021-05-26 17:41:48 -04:00
Ken Stevens af44b9c7a0
Ks 20210526 accurate total (#2677)
* begin with failing test

* fixed

* changelog
2021-05-26 12:20:49 -04:00
Kevin Dougan SmileCDR 6167fb2415
2669 - Cache-Control no-store returns excessive resources (#2671)
* First attempt at a Unit Test.

* Removed sample test data.

* Added failing Unit Test - now to find out why.

* Added a _count param to more exactly match the provided customer scenario.

* Added a possible fix for this sceanrio.

* Work on this

* Have a working fix, not yet fully tested

* Test fix

Co-authored-by: jamesagnew <jamesagnew@gmail.com>
2021-05-25 08:49:25 -04:00
James Agnew 2c722e64c2
Add support for including qualified star syntax (#2672)
* Add support for including qualified star syntax

* Add changelog

* Add docs

* Build fix
2021-05-23 16:50:37 -04:00