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1982 Commits

Author SHA1 Message Date
jamesagnew 935ec9ebc2 License headers 2019-10-25 05:44:51 -04:00
Ken Stevens f19100cbb3 final cleanup 2019-10-24 20:29:45 -04:00
Ken Stevens 4a2ed62357 review feedback 2019-10-24 20:25:16 -04:00
Ken Stevens 08472c1e3f ready to merge 2019-10-24 17:56:15 -04:00
Ken Stevens 5379ab8c2c implement in-memory match 2019-10-24 17:53:02 -04:00
Ken Stevens b7aa327118 pre-review cleanup 2019-10-24 16:47:43 -04:00
Ken Stevens 4fa849a3e5 pre-review cleanup 2019-10-24 16:43:47 -04:00
Ken Stevens 43f17534bb commiting with FIXMEs so James can review 2019-10-24 16:40:53 -04:00
James Agnew 74c03b5bb7 Add a test 2019-10-24 08:32:52 -04:00
James Agnew 91ec0a6922 Test fix 2019-10-24 08:32:52 -04:00
James Agnew 385a885abf Add ability for resource source to be specified by header 2019-10-24 08:32:52 -04:00
James Agnew 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
jelmer.terwal c337fdde14 Override breakes stuff here for Kotlin 2019-10-22 13:58:52 -04:00
jelmer.terwal 5002a087bb Some work on jamesagnew/hapi-fhir/#1297 2019-10-22 13:58:52 -04:00
James Agnew 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
James Agnew 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
James Agnew 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
James Agnew b51a93a2b5 Intermittent test fix 2019-10-18 15:46:02 -04:00
James Agnew a71d969ba1 Add line numbers to validation failures 2019-10-18 14:10:47 -04:00
James Agnew 9fff043892 Fix #1481 - Remove Jetty reference 2019-10-17 11:41:57 -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 9c23959b38 Licene header updates 2019-10-15 15:08:13 -04:00
James Agnew 9a050461a8 Make cache timeout configurable 2019-10-15 09:34:48 -04:00
James Agnew ff4fba15c9 Add a test 2019-10-15 07:34:44 -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
James Agnew 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
James Agnew 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
jamesagnew 150c865f68 License header updates 2019-10-03 21:20:08 -04:00
James Agnew 069db501ee
Fix _has parameter (#1525) 
* Fix _has parameter

* Bug fixes

* Add a comment

* Test fixes
 2019-10-03 21:19:31 -04:00
Ken Stevens 53f47fbb1e Merge remote-tracking branch 'remotes/origin/master' into ks-narrow-search-pointcut 2019-10-03 12:20:20 -04:00
Ken Stevens d1deedf247 pre-review cleanup 2019-10-03 12:14:11 -04:00
Ken Stevens 566443d0fe move BundleUtil back 2019-10-03 12:05:26 -04:00
Ken Stevens 98c76a4d49 Test passes 2019-10-03 12:03:38 -04:00
Ken Stevens 29e7cdc476 Added ability to modify URLs in BundleUtil 2019-10-03 09:46:32 -04:00
James Agnew db668d96b9 Add a few tests and remove some dead code 2019-10-03 09:00:14 -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 eaaf2768c3 Fix #402 - Don't overwrite narrative sections 2019-09-30 20:14:36 -04:00
James Agnew 066c9a7fb7 Improvements to AutohrizationInterceptor create handling 2019-09-30 15:07:23 -04:00
James Agnew c8ce07c40e Deprecate redundant IVersionSpecificBundleProvider method 2019-09-30 09:45:31 -04:00
James Agnew 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
James Agnew 3870c14a6c Remove unused contructors 2019-09-26 16:42:39 -04:00
James Agnew cc0df9850c Make sure the validator can get at codes defined in notpresent 
codesystems
 2019-09-26 14:44:09 -04:00
James Agnew 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
jamesagnew 473fa3456e Work on adding codecov 2019-09-25 14:12:42 -04:00
James Agnew dfe07e7a2b Avoid concurrency issue introduced by #1489 2019-09-25 13:45:02 -04:00
James Agnew 7b363c2c5c Some test fixes 2019-09-24 15:28:14 -04:00
James Agnew 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
jamesagnew 936587df6e Work on migrating docs 2019-09-22 15:52:49 -04:00
James Agnew 0a5eca0821 Work on docs 2019-09-22 13:25:50 -04:00
James Agnew a989a746b0 Fix #1494 - Upgrade to new :recurse syntax for R4 include/revinclude 
statements
 2019-09-20 09:38:29 -04:00