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8230 Commits

Author SHA1 Message Date
juan.marchionatto 264dfee099 Merge branch 'master' into issue-2786-upload-terminology-command-add-explicit-current-version-control 2021-07-29 16:21:56 -04:00
juan.marchionatto 1fcb36d84a Fix implementation to work also for use case where version is being updated. 
Use property instead of parameter.
 2021-07-29 15:54:00 -04:00
Tadgh 1b9761c91b
Merge pull request #2840 from hapifhir/issue-2835-cve-jetty 
bump Jetty for CVEs
 2021-07-28 10:51:59 -04:00
Tadgh e076b30eef bump Jetty for CVEs 2021-07-27 15:49:00 -04:00
Tadgh 7c1d87b662
Merge pull request #2834 from hapifhir/issue-2833-commons-compress-cve 
Bump commons-compress version
 2021-07-27 11:00:19 -04:00
Tadgh 07cb3ff427 Bump commons-compress version 2021-07-27 09:14:05 -04:00
James Agnew f957661dda
Patient ID Partition Mode should support conditional create (#2828) 
* Fixes

* Test fix

* Add changelog

* Test fixes

* Test fixes

* Docs tweak

* Partitioning fixes

* Import fix

* Fix test data
 2021-07-26 14:18:58 -04:00
Ken Stevens 6bbb403fd1
When Client Id Strategy is set to NOT_ALLOWED, permit system requests to create resources (#2827) 
* resolved 2826

* fix regression
 2021-07-23 19:10:19 -04:00
Ken Stevens 92ec113775
fixed bug (#2824) 2021-07-23 16:58:53 -04:00
michaelabuckley 91bbebad27
Merge pull request #2830 from hapifhir/mb-docker-mac-m1-arm 
Upgrade net.java.dev.jna dependency to support Mac M1 ARM architecture.
 2021-07-23 16:50:31 -04:00
Michael Buckley 2539f49662 Add detail to changelog 2021-07-23 15:07:36 -04:00
Michael Buckley d99f94e665 changelog 2021-07-23 15:00:48 -04:00
Michael Buckley 0a256fef77 Upgrade net.java.dev.jna dependency to support Mac M1 ARM architecture. 2021-07-23 14:58:10 -04:00
Ken Stevens 6f7f787813
fixed migration (#2822) 2021-07-22 14:07:10 -04:00
juan.marchionatto ad6f7a204c Fix changelog syntax. Merge current master. 2021-07-22 10:49:16 -04:00
juan.marchionatto ae0665131b Fix syntax. 2021-07-22 09:41:16 -04:00
jamesagnew a5e6674e84 Version bump to 5.5.0-PRE7-SNAPSHOT 2021-07-22 08:41:16 -04:00
James Agnew d78fef6732
Fix NPE in IdHelperService (#2819) 2021-07-22 08:34:28 -04:00
IanMMarshall 8b8db82666
Enable Package Loader when partitioning is enabled with unnamed partitions (#2808) 
* Enable Package Loader when partitioning is enabled with unnamed partitions.

* Enable Package Loader when partitioning is enabled with unnamed partitions.

* Additional package loading problems found with partitioning.

* Additional package loading problems found with partitioning.

Co-authored-by: ianmarshall <ian@simpatico.ai>
 2021-07-22 05:17:17 -04:00
James Agnew 6d37749be8
Add non unique combo search params (#2809) 
* Start work on nonunique combo search params

* Work on SQL

* Version bump

* A fix

* Test fixes

* Fixes

* Undo version bump

* Test fixes

* Resolve fixme
 2021-07-21 19:14:14 -04:00
James Agnew 6af022062f
Fix issue with partitioning in patient ID compartment mode (#2810) 
* Fix issue with partitioning in patient ID compartment mode

* Add changelog
 2021-07-21 17:21:23 -04:00
juan.marchionatto e0e52c666c Add current-version parameter to upload-terminology command. 2021-07-21 16:18:35 -04:00
jamesagnew 9f77c57e5a Widen access for utility methods 2021-07-20 17:30:26 -04:00
michaelabuckley 0ebf274d36
Merge pull request #2806 from hapifhir/2805-improve-package-error-messages 
Add details when we fail to load an element of a package definition.
 2021-07-20 15:41:05 -04:00
Michael Buckley cbb9a4355a Add details when we fail to load an element of a package definition. 2021-07-19 17:59:54 -04:00
Frank Tao 64f1643046
Added LOINC linguistic variants support (#2803) 
* Added linguistic variants for LOINC uploader

* Using static class

* Added the changelog
 2021-07-19 14:17:56 -04:00
Frank Tao 946080d709
Added ConsumerName to the loinc loader. (#2800) 
* Added ConsumerName to the loinc loader.

* Added extra test for coverage

* Added the changelog for LOINC CONSUMER NAME support
 2021-07-16 13:30:42 -04:00
James Agnew 0235296ba7
Add support for bulk export of multiple types (#2797) 
* Add support for bulk export of multiple types

* Add changelog
 2021-07-15 14:01:10 -04:00
Mad Mirrajabi 5f2a3af01e
Add Innovattic B.V. to HAPI FHIR Global Atlas (#2798) 2021-07-15 14:00:33 -04:00
Nick Goupinets ddf3df4209
Merge pull request #2795 from hapifhir/2794_res_links_not_resolved 
Fixed link resolution
 2021-07-15 10:38:26 -04:00
Nick Goupinets ac31000377 Updated docs 2021-07-15 09:13:03 -04:00
Nick Goupinets 520cec1e15 Fixed link resolution 2021-07-14 11:30:09 -04:00
Tadgh 744a95ae58
Merge pull request #2792 from hapifhir/2791-increase-identifier-length 
2791 increase identifier length
 2021-07-14 09:49:33 -04:00
Tadgh 554685d142 Fix MDM documentation 2021-07-13 16:08:01 -04:00
Tadgh a7e6813510 Update string length. Add migration 2021-07-13 15:46:47 -04:00
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
jamesagnew b48b1884b8 Add license header 2021-07-08 19:19:02 -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
jamesagnew 6d4c2ef8f0 Expand access to SqlQuery 2021-07-08 16:16:27 -04:00
juan.marchionatto 1e9163c636 Add changelog. Address MR comments. 2021-07-08 14:52:19 -04:00
jmarchionatto ee1f1fb5b8
Merge pull request #2778 from hapifhir/2777-hapi-fhir-cli-Add-option-to-pass-request-headers-to-target-server 
Add header-passthrough option to hapi-fhir-cli commands which generate http requests(#2777)
 2021-07-07 16:47:28 -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
juan.marchionatto d83cf30a9e Remove double interceptor setup 2021-07-07 13:33:33 -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
juan.marchionatto 41e1b4d45c Register parameter also for child classes overriding addHeaderPassthroughOption 2021-07-06 14:37:12 -04:00
juan.marchionatto 5c5bd1ec6c Organize imports 2021-07-06 09:31:53 -04:00
juan.marchionatto 5f36fe56b0 Add header-passthrough option to hapi-fhir-cli commands which generate http requests. 
Add class to parent request-generating commands.
Allow ValidationResult to be set number of detected errors to inform.
 2021-07-05 16:08:03 -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
jamesagnew 6bb5cbf764 Cleanup logging 2021-07-04 15:31:10 -04:00
Nick Goupinets 3bafdd7de1
Merge pull request #2776 from hapifhir/2775_address_interceptor 
Address interceptor bug
 2021-07-03 11:19:38 -04:00