007cfaf00e
Don't error out on missing CS ( #1570 )
...
* Don't error out on mi9ssing CS
* Add tests
* Add a bit of test coverage
* One more test
2019-10-30 08:38:39 -04:00
8b227a59fc
Add some tests
2019-10-28 06:02:19 -04:00
ac4d108126
Merge branch 'ja_20190928_rationalize_search_param_extractor' of github.com:jamesagnew/hapi-fhir into ja_20190928_rationalize_search_param_extractor
2019-10-27 18:17:29 -04:00
d18550b96f
Merge branch 'master' into ja_20190928_rationalize_search_param_extractor
2019-10-27 18:00:31 -04:00
a82da8de1c
Override enum factory interfaces
2019-10-27 17:51:57 -04:00
817f9ae36e
Merge branch 'master' into ja_20190928_rationalize_search_param_extractor
2019-10-27 17:25:20 -04:00
6580c98ed7
Work on extractor
2019-10-26 16:56:12 -04:00
2b3c775b77
Some cleanup and fix a test
2019-10-26 12:45:57 -04:00
5a300d2d8e
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-10-26 10:32:16 -04:00
9cc945b5bd
Merge branch 'osgi-server-work' of https://github.com/bdenton/hapi-fhir into bdenton-osgi-server-work
2019-10-25 17:05:09 -04:00
fd73a593ea
Work on merge
2019-10-25 08:50:34 -04:00
cd84af30b1
Merge branch 'master' into ja_20190928_rationalize_search_param_extractor
2019-10-25 05:56:39 -04:00
935ec9ebc2
License headers
2019-10-25 05:44:51 -04:00
f19100cbb3
final cleanup
2019-10-24 20:29:45 -04:00
4a2ed62357
review feedback
2019-10-24 20:25:16 -04:00
08472c1e3f
ready to merge
2019-10-24 17:56:15 -04:00
5379ab8c2c
implement in-memory match
2019-10-24 17:53:02 -04:00
b7aa327118
pre-review cleanup
2019-10-24 16:47:43 -04:00
4fa849a3e5
pre-review cleanup
2019-10-24 16:43:47 -04:00
43f17534bb
commiting with FIXMEs so James can review
2019-10-24 16:40:53 -04:00
74c03b5bb7
Add a test
2019-10-24 08:32:52 -04:00
91ec0a6922
Test fix
2019-10-24 08:32:52 -04:00
385a885abf
Add ability for resource source to be specified by header
2019-10-24 08:32:52 -04:00
19247ffb46
Allow updating externalized binary ( #1556 )
...
* Add non working test
* Add a test
* FIx test
* Allow updating existing externalized binary data
* Add test
* Remove unneeded test
* Fix test
2019-10-22 18:10:03 -04:00
c337fdde14
Override breakes stuff here for Kotlin
2019-10-22 13:58:52 -04:00
5002a087bb
Some work on jamesagnew/hapi-fhir/#1297
2019-10-22 13:58:52 -04:00
73961072a6
Handle invalid chains on custom search params ( #1553 )
...
* Handle invalid chains on custom search params
* Add some more tests
* One more test fix
2019-10-21 21:21:33 -04:00
0af79b84d9
Use webjars instead of including JS deps ( #1551 )
...
* Use webjars instead of including JS deps
* Add changelog
2019-10-21 07:22:55 -04:00
bfbc73caaf
Auto externalize binary contents ( #1550 )
...
* Auto externaliZe binary attachments
* Work on externalization
* Auto externalize binary content
* Work on tests
* Fix alert
2019-10-19 09:01:00 -04:00
b51a93a2b5
Intermittent test fix
2019-10-18 15:46:02 -04:00
a71d969ba1
Add line numbers to validation failures
2019-10-18 14:10:47 -04:00
9fff043892
Fix #1481 - Remove Jetty reference
2019-10-17 11:41:57 -04:00
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
9c23959b38
Licene header updates
2019-10-15 15:08:13 -04:00
9a050461a8
Make cache timeout configurable
2019-10-15 09:34:48 -04:00
ff4fba15c9
Add a test
2019-10-15 07:34:44 -04:00
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
f81aaa7f00
refactor "split" packages; create osgi bundle for server framework
2019-10-12 14:08:41 -07:00
861ed36f00
Allow patches to be authorized for DSTU3 transactions ( #1529 )
...
* Allow patches to be authorized for DSTU3 transactions
* Add changelog
2019-10-08 14:29:27 -05:00
1f1b94a566
Resolve XXE issue in validator ( #1530 )
...
* Resolve XXE issue in validator
* Ensure that we're blocking XXE events into validator XML parser
* A bit of cleanup
* Add an LGTM config
* Add one more fix
2019-10-08 13:06:03 -05:00
150c865f68
License header updates
2019-10-03 21:20:08 -04:00
069db501ee
Fix _has parameter ( #1525 )
...
* Fix _has parameter
* Bug fixes
* Add a comment
* Test fixes
2019-10-03 21:19:31 -04:00
53f47fbb1e
Merge remote-tracking branch 'remotes/origin/master' into ks-narrow-search-pointcut
2019-10-03 12:20:20 -04:00
d1deedf247
pre-review cleanup
2019-10-03 12:14:11 -04:00
566443d0fe
move BundleUtil back
2019-10-03 12:05:26 -04:00
98c76a4d49
Test passes
2019-10-03 12:03:38 -04:00
29e7cdc476
Added ability to modify URLs in BundleUtil
2019-10-03 09:46:32 -04:00
db668d96b9
Add a few tests and remove some dead code
2019-10-03 09:00:14 -04:00
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
a1bf50685d
Work on cleanup
2019-09-30 21:40:41 -04:00
eaaf2768c3
Fix #402 - Don't overwrite narrative sections
2019-09-30 20:14:36 -04:00
066c9a7fb7
Improvements to AutohrizationInterceptor create handling
2019-09-30 15:07:23 -04:00
c8ce07c40e
Deprecate redundant IVersionSpecificBundleProvider method
2019-09-30 09:45:31 -04:00
557a8ccc66
Add top level support for ElasticSearch ( #1514 )
...
* ElasticSearch work
* Add ElasticSearch properties builder
* Clean up POM
* Remove redundant project
* Try to troubleshoot embedded elasticsearch
* Another test attempt
* Add credentials to elasticsearch config
* Work on lastn
* Address review comments
* A couple of test fixes
2019-09-30 09:30:39 -04:00
3870c14a6c
Remove unused contructors
2019-09-26 16:42:39 -04:00
cc0df9850c
Make sure the validator can get at codes defined in notpresent
...
codesystems
2019-09-26 14:44:09 -04:00
8657afb01e
Fix intermittent test failures regarding search ( #1509 )
...
* Add some logging
* Add more test logging
* Work on some test logging
* Fix compile error
* Work on codecov
* Work on codecov
* Remove test debug messages
2019-09-25 20:15:21 -04:00
473fa3456e
Work on adding codecov
2019-09-25 14:12:42 -04:00
dfe07e7a2b
Avoid concurrency issue introduced by #1489
2019-09-25 13:45:02 -04:00
7b363c2c5c
Some test fixes
2019-09-24 15:28:14 -04:00
9b2826f3c6
Handle searches with chained slash value ( #1503 )
...
* Work on test case for bug with searches
* Work on tests
* Fix issue with slashes in reference chain parameter for JPA server
2019-09-24 14:31:05 -04:00
936587df6e
Work on migrating docs
2019-09-22 15:52:49 -04:00
0a5eca0821
Work on docs
2019-09-22 13:25:50 -04:00
a989a746b0
Fix #1494 - Upgrade to new :recurse syntax for R4 include/revinclude
...
statements
2019-09-20 09:38:29 -04:00
c2c07c95fc
We can't short circuit traversal after all.
2019-09-19 20:38:30 -04:00
c8c8ab6881
Add modifier extensions to tha actual modifier extensions collection
2019-09-19 20:38:30 -04:00
946f3a1732
Cut short traversal when finding top-level base references
2019-09-19 20:38:30 -04:00
4021fccf3b
We only need to extract the existing contained resources once
2019-09-19 20:38:30 -04:00
1f253856cf
Optimise for encoding String primitive data types
...
We typically have many more string primitives than anything else
2019-09-19 20:38:30 -04:00
8b84b8ffea
Cache the composite children that need encoding to improve performance
2019-09-19 20:38:30 -04:00
5120fe795e
Dramatically improve the performance of containResourcesForEncoding
...
We do this by avoiding the double processing of contained resources when
looking for resources to contain
2019-09-19 20:38:30 -04:00
6475146bc9
Add license headers
2019-09-19 18:08:21 -04:00
eddb98084d
Move PreferReturnEnum back to original location to avoid regressions
2019-09-19 15:48:58 -04:00
2be63a1650
Test fixes
2019-09-19 09:45:07 -04:00
30dfde645b
Upgrade to Fontawesdome 5 and prevent uploading resources with binary
...
storage extensions
2019-09-19 05:28:05 -04:00
6b21e8cd90
Add some testing to the bulk export service
2019-09-18 14:43:00 -04:00
4a751cbfc5
Integrate Bulk Export ( #1487 )
...
* Start working on subscription processor
* Work on new scheduler
* Test fixes
* Scheduler refactoring
* Fix test failure
* One more test fix
* Updates to scheduler
* More scheduler work
* Tests now all passing
* Ongoing work on export
* Ongoing scheduler work
* Ongoing testing
* Work on export task
* Sync master
* Ongoing work
* Bump xml patch version
* Work on provider
* Work on bulk
* Work on export scheduler
* More test fies
* More test fixes
* Compile fix
* Reduce logging
* Improve logging
* Reuse bulk export jobs
* Export provider
* Improve logging in bulk export
* Work on bulk export service
* One more bugfix
* Ongoing work on Bulk Data
* Add changelog
2019-09-17 16:01:35 -04:00
08835c1615
FIx a failure in FhirTerser when visiting custom types
2019-09-13 09:11:47 -04:00
abef4455eb
done
2019-09-09 17:22:07 -04:00
7cfbf710fe
Merge remote-tracking branch 'remotes/origin/master' into ks-in-memory-date-compare
...
# Conflicts:
# src/changes/changes.xml
2019-09-09 14:46:25 -04:00
9e83f1d40a
changelog
2019-09-09 14:22:42 -04:00
722c7a8211
Work on GraphQL updates
2019-09-06 14:56:17 -04:00
1ef70a0fca
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-09-03 07:02:09 -04:00
8b09b3f3eb
Rename config enum for consistency
2019-09-03 07:01:36 -04:00
9f7cf3923b
Merge pull request #1458 from jamesagnew/1457-valueset-pre-expansion-need-to-account-for-existing-valuesets-and-user-assigned-ids
...
Resolve "ValueSet pre-expansion - need to account for existing ValueSets and user-assigned IDs."
2019-08-30 10:48:39 -04:00
8ef9c61b83
Address review comments; improve logging.
2019-08-30 10:47:21 -04:00
e03d6a5d47
Fixed handling of pre-expansion in light of pre-existing, non-pre-expanded ValueSets.
2019-08-29 18:09:30 -04:00
c5a88444b6
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2019-08-29 14:00:37 -04:00
956bb39327
Resolve an inefficient regex expression
2019-08-29 13:59:31 -04:00
b41926307c
Completed work on large ValueSet expansion support; ready for review.
2019-08-23 17:40:45 -04:00
890555a77d
Incremental work on large ValueSet expansion support; transaction boundaries need to be broken up.
2019-08-23 11:46:32 -04:00
97a235ddfc
Merging master into working branch.
...
# Conflicts:
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/DaoConfig.java
2019-08-22 14:02:56 -04:00
9428430822
Add support for Resource.meta.source ( #1438 )
...
* Work on indexing source
* Work on tests
* Refactor query count tests
* Unit test fixes
* Add some tests
* DAO fix
* Fix compile error
* Unit test fix
* Cleanup
* Test fix
* Fix compile error
* One more test fix
2019-08-21 11:17:43 -04:00
ce44115152
Handle cascading deletes correctly with circular references ( #1435 )
...
* Handle cascading deletes correctly with circular references
* A bit of cleanup
* Address review comments
* FIx some javadocs
* Fix an incorrect message
2019-08-20 10:08:34 -04:00
8590e0ca4d
Merging master into working branch.
...
# Conflicts:
# hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/dao/DaoConfig.java
2019-08-19 02:28:30 -04:00
dfd098c374
Incremental work on large ValueSet expansion support; added use of terminology tables when expanding.
2019-08-19 02:26:12 -04:00
57c6064d89
Another test fix
2019-08-17 12:21:08 -04:00
74c83f6148
Test fixes
2019-08-17 12:01:04 -04:00
1e07fcd2b3
Fix an unintended regression in #1357 ( #1429 )
...
* Start working on a tweak to #1357 - Not yet complete
* Tweaks to avoid an unintended regression from #1357
2019-08-15 08:35:50 -04:00
f29c37a654
added IBaseReference constructor to TokenParam
2019-08-14 15:33:50 -04:00
James Agnew
Ken Stevens
jelmer.terwal
bdenton
David Maplesden
Diederik Muylwyk