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7514 Commits

Author SHA1 Message Date
Frank Tao 1d1ebcf5e8
Improved DateQuery and removed 'OR' in the SQL (#2302) 
* improved DateQuery and removed 'OR' in the SQL

* improved DateQuery and removed 'OR' in the SQL

* Date handling cleanup (#2316)

* Date handling cleanup

* Fix codecov

* One more fix

* Fix tests

Co-authored-by: James Agnew <jamesagnew@gmail.com>
 2021-01-23 17:53:18 -05:00
James Agnew 522efc87d9
Reusable interceptor service (#2318) 
* Reusable interceptor service

* Azure fix
 2021-01-22 19:17:08 -05:00
Nick 10382c4915 Added a few more tests 2021-01-22 16:46:18 -05:00
Ken Stevens 749934d5f1
fixed name text indexing (#2309) 
* fixed name text indexing

* fixed name text indexing
 2021-01-22 15:39:26 -05:00
Nick d783229406 updated docs 2021-01-22 13:28:24 -05:00
dependabot[bot] feff734736
Bump jaxb-runtime from 2.3.1 to 3.0.0 (#2289) 
* Bump jaxb-runtime from 2.3.1 to 3.0.0

Bumps jaxb-runtime from 2.3.1 to 3.0.0.

Signed-off-by: dependabot[bot] <support@github.com>

* Bump jaxb-runtime from 2.3.1 to 3.0.0

Bumps jaxb-runtime from 2.3.1 to 3.0.0.

Signed-off-by: dependabot[bot] <support@github.com>

* Add jakarta bindings

* Dependency cleanup

* More depndency cleanup

* Work on deps

* Replace transaction annotation

* Cleanup

* Another fix

* Build fix

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: jamesagnew <jamesagnew@gmail.com>
 2021-01-22 11:24:23 -05:00
Nick cfc798cb2b Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc 2021-01-22 09:45:04 -05:00
Tadgh 71c76e3ea1
Merge pull request #2314 from hapifhir/2313/error-in-mdm-docs 
Add documentation fixes for MDM-match
 2021-01-22 09:26:20 -05:00
Tadgh edd9769686 Add documentation fixes for MDM-match 2021-01-22 09:17:51 -05:00
Nick cdda12ef8e Added empty matcher 2021-01-21 17:42:28 -05:00
Mark Iantorno d5250e6f1a Adding back in test runs. 2021-01-21 16:40:17 -05:00
Mark Iantorno c09b1394fc Variable name fix. 2021-01-21 16:01:36 -05:00
Mark Iantorno 560d960ec9 I am a dummy who puts typos everywhere in his code. 2021-01-21 15:53:29 -05:00
Mark Iantorno 7f3e0726c8 Initial setup for snapshot pipeline 
Still have to enable tests. They are only disabled now so I can run this multiple times quickly to test deployment. [skip ci]
 2021-01-21 15:39:26 -05:00
Frank Tao 341eb404e6
Improved the performance for multiple _has by exclude previous pids (#2304) 
* Improved the performance for multiple _has by exclude prev pids

* Removed extra import

* Added test case for SQL contains RES_ID NOT IN ()
 2021-01-21 14:42:10 -05:00
Tadgh e7bc2f0e2d
Merge pull request #2311 from hapifhir/cve-fix-2021-20190 
bump databind version for CVE
 2021-01-21 10:48:24 -05:00
Nick ed5727d795 Fixed missing imports 2021-01-21 10:04:16 -05:00
Tadgh 7159d65902 bump databind version for CVE 2021-01-21 10:03:16 -05:00
jamesagnew 7cf41a7e85 One more build fix (grrrrrr) 2021-01-21 09:24:42 -05:00
Nick 82e52750e7 Merge branch 'master' into ng_20201218_survivorship_poc 2021-01-21 09:00:28 -05:00
jamesagnew 656dd33ba8 FIx javadoc build 2021-01-21 08:58:23 -05:00
jamesagnew 078a94f1a6 Fix nonnull annotations 2021-01-21 08:47:44 -05:00
James Agnew 14b0688f69
Bump core version to 5.2.16 (#2308) 
* Bump core library version

* Test fix

* Build fixes

* Some test fixes

* One more bit of docs

* Build fix

* Test fix

* Test fix

* Docs fix
 2021-01-21 05:30:23 -05:00
Tadgh a538ed571a
Merge pull request #2306 from hapifhir/bump-es-version-for-cve 
Minor version bump for CVE-2021-22132
 2021-01-20 22:54:51 -05:00
Nick f8c1591d21 post CDR review fixes 2021-01-20 16:44:48 -05:00
Nick 4b53ef3920 Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc 2021-01-20 14:59:38 -05:00
Tadgh f99733244e
Merge pull request #2305 from hapifhir/add-backport-information 
Prepare for backporting
 2021-01-20 14:45:14 -05:00
Tadgh 3d5255d88c Bump ES version running in tests 2021-01-20 11:34:51 -05:00
Tadgh fa17ea35cd Minor version bump for CVE-2021-22132 2021-01-20 11:31:00 -05:00
Tadgh 159128109b Add versionenum value 2021-01-20 10:49:08 -05:00
jamesagnew 063f4b7700 Add license headers 2021-01-19 14:18:46 -05:00
Nick ae9d4a191f Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc 2021-01-19 11:34:01 -05:00
Nick 0cb6d56348 Code review followup 2021-01-19 11:33:39 -05:00
James Agnew 874b16207f
Bundle.entry.resource.id should not be stripped on POST from client #2297 (#2303) 2021-01-19 11:12:42 -05:00
Nick f5e2086cfd Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc 2021-01-19 09:35:31 -05:00
Kevin Dougan SmileCDR 240decc210
Added an extra check for an IS NOT NULL Constraint when checking an Oracle DB Column for Nullability (#2288) 
* Added an extra check for an IS NOT NULL Constraint when checking an Oracle DB Column for Nullability.
 2021-01-19 08:44:41 -05:00
Tadgh 649032681d
Merge pull request #2301 from hapifhir/disable-docker-tests-in-non-docker 
Disable docker tests in non docker
 2021-01-18 23:11:54 -05:00
Tadgh ceb0155ab7 Fix hamcrest inclusion via compile scope 2021-01-18 22:07:12 -05:00
Tadgh 8d87f0f92b Simplify check 2021-01-18 21:53:14 -05:00
Tadgh edbc789a93 Add annotation to skip test classes which require docker if it is not found on the host 2021-01-18 21:49:43 -05:00
Tadgh 17d74648de
Merge pull request #2300 from hapifhir/2299-bug-with-bulk-export-bean 
Add bean to config
 2021-01-18 16:53:36 -05:00
Tadgh 7c6c64bfb7 Remove dead import 2021-01-18 15:53:49 -05:00
IanMMarshall 292d7751b3
Merge pull request #2298 from hapifhir/im_20210118_db_migrate_dryrun_issue 
Ensure that table indexes are not deleted during DB migration dry-run.
 2021-01-18 15:14:22 -05:00
Tadgh 141cd14918 Add changelog 2021-01-18 15:04:03 -05:00
Tadgh 5b2530a948 Remove dead beans 2021-01-18 14:55:33 -05:00
Tadgh 8f72970063 Add bean to config 2021-01-18 14:09:38 -05:00
ianmarshall 26491f3bc8 Ensure that table indexes are not deleted during DB migration dry-run. 2021-01-18 14:09:06 -05:00
ianmarshall 1972838249 Ensure that table indexes are not deleted during DB migration dry-run. 2021-01-18 14:03:50 -05:00
Nick b00f47ef81 Merge remote-tracking branch 'origin/master' into ng_20201218_survivorship_poc 2021-01-18 09:25:58 -05:00
jamesagnew a08392e6b2 Add license header 2021-01-17 19:10:34 -05:00