Commit Graph

2600 Commits

Author SHA1 Message Date
Grahame Grieve 8bd4fc3ee6
Merge pull request #1309 from hapifhir/do-20230615-tx-request-lenient-display
Add lenient-display-validation param
2023-06-19 02:33:17 +10:00
Grahame Grieve 297313b30a Fix issue with broken NullFlavor binding in R4 2023-06-18 13:02:21 +10:00
Grahame Grieve dfb4404ce6 Add support for mustHaveValue and valueAlternatives + render imposesProfile + compliesWithProfile 2023-06-18 13:00:58 +10:00
Grahame Grieve 11eb2cef53 fix index error 2023-06-17 09:41:15 +10:00
Grahame Grieve 99895e7a97 Performance improvements for validation, including -watch engine 2023-06-17 09:40:34 +10:00
Grahame Grieve 2d0dcbb803 rendering improvements for profile extensions 2023-06-17 09:38:27 +10:00
dotasek f4b6ff2f6e Refactor and introduce test 2023-06-15 10:38:03 -04:00
dotasek 10c50a14f0 Add lenient-display-validation param 2023-06-15 08:31:30 -04:00
Grahame Grieve 481698cf24 Fix up terminology tests to ignore irrelevant extensions 2023-06-12 17:17:30 +01:00
dotasek ff7997d7d2
Fix older jetbrains annotations transitive dependency (#1299) 2023-06-09 14:43:49 -04:00
markiantorno 8237fb862b Updating version to: 6.0.16-SNAPSHOT and incrementing test cases dependency. 2023-06-08 21:23:36 +00:00
markiantorno cc14a4142f Release: v6.0.15
## Validator Changes

* no changes

## Other code changes

* Update commons-beanutils and apache.poi dependencies
***NO_CI***
2023-06-08 20:56:04 +00:00
dotasek 7b05c7514e
Bump poi version, remove unused old dependencies (#1296) 2023-06-08 10:47:37 -04:00
markiantorno 10f466487b Updating version to: 6.0.15-SNAPSHOT and incrementing test cases dependency. 2023-06-08 05:03:27 +00:00
markiantorno 3969ac75c4 Release: v6.0.14
## Validator Changes

* no changes

## Other code changes

* Fix bugs in language handling
* Implement Trivy vulnerability scanning and update POI and okhttp libraries
***NO_CI***
2023-06-08 04:33:30 +00:00
markiantorno 619703dbf8 Updating version to: 6.0.14-SNAPSHOT and incrementing test cases dependency. 2023-06-07 13:14:17 +00:00
markiantorno b704ea50fc Release: v6.0.13
## Validator Changes

* no changes

## Other code changes

* add clear() to JsonObject
***NO_CI***
2023-06-07 12:48:04 +00:00
Grahame Grieve bfdb28b96e add JsonObject.clear() 2023-06-07 13:57:56 +02:00
markiantorno a605d944bc Updating version to: 6.0.13-SNAPSHOT and incrementing test cases dependency. 2023-06-06 21:27:18 +00:00
markiantorno 8edd61a197 Release: v6.0.12
## Validator Changes

* Improve message when there's multiple display options

## Other code changes

* Fix loading issue with r5 extensions
* NPM package compression improvements
* Update language file handling to handle context
* Remove logical models in minifier, and other improvements
* Auto update minimum slicing cardinality when slicer is assumed (extensions)
***NO_CI***
2023-06-06 20:55:08 +00:00
Grahame Grieve a4f54f519f
Merge pull request #1290 from hapifhir/gg-202206-cardinality-fixes
Gg 202206 cardinality fixes
2023-06-05 23:26:13 +02:00
Grahame Grieve 01b4219259 update language file handling to handle context properly 2023-06-05 21:16:51 +02:00
Grahame Grieve fe7cd1f39a Clean up extension loading issue 2023-06-05 21:16:28 +02:00
Grahame Grieve fd346cc67b Auto update minimum slicing cardinality when slicer is assumed (extensions) 2023-06-05 21:16:14 +02:00
Grahame Grieve 1c4ef1fa00 Improve message when there's multiple display options 2023-06-05 21:15:31 +02:00
Grahame Grieve bf19a2d2fa Remove logical models in minifier, and other improvements 2023-06-05 21:14:56 +02:00
markiantorno 72eee9cab7 Updating version to: 6.0.12-SNAPSHOT and incrementing test cases dependency. 2023-06-02 14:24:34 +00:00
markiantorno 44db954743 Release: v6.0.11
## Validator Changes

* no changes

## Other code changes

* Increment CQFramework dependency
***NO_CI***
2023-06-02 13:58:04 +00:00
Grahame Grieve c31836e734 better error reporting when parsing fails outright 2023-06-01 06:58:46 +03:00
Grahame Grieve d4d5b42aa1 add Resource Dependency walker + Resource Minifier functionality 2023-05-31 06:32:55 +03:00
markiantorno f238d1af14 Updating version to: 6.0.11-SNAPSHOT and incrementing test cases dependency. 2023-05-29 22:43:58 +00:00
markiantorno edd06865c7 Release: v6.0.10
## Validator Changes

* no changes

## Other code changes

* Delete unused package import that breaks downstream JavaDoc
***NO_CI***
2023-05-29 22:14:49 +00:00
dotasek 6626fe1952
Remove unused dependency (#1283) 2023-05-29 16:57:20 -04:00
markiantorno 253357e5aa Updating version to: 6.0.10-SNAPSHOT and incrementing test cases dependency. 2023-05-29 13:44:41 +00:00
markiantorno 4014698c7d Release: v6.0.9
## Validator Changes

* Add support for "Obligation Profiles" (see https://chat.fhir.org/#narrow/stream/179177-conformance/topic/Proposed.20new.20Profile.20features)
* Adjust slice min/max checking to ignore type slices (rules are different in this case)
* Properly handle validating mime/type when terminology server is not available

## Other code changes

* Rework Pipelines - more stability and quicker
* Fix bug where elementmodel.Element.copy() didn't clone children. Users of the Element Model (not the normal model) should check all uses of copy. (Only known users are Validator + IG publisher)
* Add nimbus & ZXing to core library dependencies for forthcoming improved SHC/SHL support
***NO_CI***
2023-05-29 13:18:12 +00:00
Grahame Grieve 8c7a5bf724 fix bug checking slice min/max 2023-05-29 03:38:48 +03:00
Grahame Grieve fe474b1ad2 properly handle... 2023-05-29 01:13:45 +03:00
Grahame Grieve 783a8cf28b Support for Obligation Profiles 2023-05-29 01:12:46 +03:00
Grahame Grieve ece4a44ff2 Merge remote-tracking branch 'origin/master' 2023-05-28 15:50:39 +03:00
Gregor Lichtner aaa7490a22 copying element children 2023-05-26 15:42:57 +02:00
Grahame Grieve d60b9009b2 get control over caching for terminology testing 2023-05-25 16:41:52 +10:00
dotasek 55ac916133
Refactor Pull Request Pipeline (#1273)
* Try multiple module target directories

* Try different format

* Try displaying cache task name + multiple caches

* Name the maven artifact cache step + add all modules

* Start consuming cached builds + targets

* Fix job list

* Fix other bad params

* Fix bad indent

* Try test task

* Try different value syntax

* Add all modules

* See if cacheing works from linux to windows

* Refactor as testUnits

* Trim tested modules

* missing colon

* It's not an image anymore, it's a unit

* Test exec

* Test exec for real

* Fix parameters format

* Fix r5 url for package fetch (#1260)

* Fix r5 url for package fetch

* Revert previous commit

* Make r6 the only packages fetched from build.fhir.org

* Update RELEASE_NOTES.md

* Update RELEASE_NOTES.md

* Release: v6.0.6
## Validator Changes

* no changes

## Other code changes

* Update R6 package tgz fetching
***NO_CI***

* Updating version to: 6.0.7-SNAPSHOT and incrementing test cases dependency.

* Try using parameters

* Try another way

* Try third way

* Try fourth way

* Try fifth way

* Try 6

* Try 7

* Apply refactor

* Try iterating over images

* Try iterating over images 2

* Test all images

* Conditionally test multiplatform modules

* Test JDKs too

* Fix and()

* Add JDK image to job names + test JDKs for exec

* Better job name for setup

* Fix names

* more granular test configs

* fix repeated jobs

* name for exec jobs

* fix missing s

* Add placeholder Codecov job

* Fix complaint about job name

* Try moving codecov to test template

* Add explicit module for test

* Try setting up job name

* Try setting up job name

* Change job names to use underscore and alphanum

* Move codecov job back to master-branch

* Fix condition to match ubuntu_java_11

* Publish test reports

* Publish test reports

* use value for artifact name

* Use variable for skipJaCoCo conditions

* Skip validation temporarily

* Change artifact names.

* add jacoco:report-aggregate task

* remove leftover cut and paste line

* Improve test job display name

* Add jacoco results + codecov upload

* Fix accidental inclusions in module loop

* Remove JaCoCo coverage condition

* Bump down JaCoCo plugin

* Rearrange JaCoCo plugin

* Fix surefire and jacoco output

* Add jacoco to pipeline

* Try skipping maven cache step

* Add codecov token

* Add missing MAVEN_CACHE_FOLDER

* Change variable syntax

* Move setup to own template

* Change setup template

* rearrange pipeline yml, re-enable validation test module

* Update core version bumps

* Temporarily disable tests

* Move to PR pipeline + Fix unused pool declaration

* Disable some more.

* Restore disabled and ignored tests

* Fix task name + clean up old prototype

---------

Co-authored-by: markiantorno <markiantorno@gmail.com>
2023-05-24 13:09:13 -04:00
markiantorno 8f52ad8fe8 Updating version to: 6.0.9-SNAPSHOT and incrementing test cases dependency. 2023-05-24 14:51:20 +00:00
markiantorno 4f90606776 Release: v6.0.8
## Validator Changes

* Snapshot Generation Changes:
** Check for slicenames without any slicing
** Check that slice names are unique
** Check for additional slicing rules in a set of slices
** Check that the minimum cardinality of a set of slices is correct
* Clean up duplicate errors when dates/dateTimes/instants have invalid formats
* Handle unknown code systems consistently when validating coded elements
* Handle sub-slicing case where slice matches both the slice definition and the sub-slice definition

## Other code changes

* Add support for R4B to loader
* Change type if cache-id parameter
* Change snapshot generation to not update documentation from profile for elements with profiled types that are not extensions
* Add support for TestPlan and SubscriptionTopic in R4 IGs
***NO_CI***
2023-05-24 14:23:30 +00:00
Grahame Grieve 442d9286b5 more checking slice min and max 2023-05-24 22:28:53 +10:00
Grahame Grieve 7eea5158c5 fix npe 2023-05-24 19:06:34 +10:00
Grahame Grieve df26951336 fix npe 2023-05-24 16:57:22 +10:00
Grahame Grieve 0ec2dfab78 Add support for SubscriptionTopic in R4 IGs 2023-05-24 16:57:09 +10:00
Grahame Grieve e724c9d58b
Merge pull request #1274 from hapifhir/ja_20230523_1262_fix_asstringvalue
Fix asStringValue on IdType
2023-05-24 10:37:28 +10:00
Grahame Grieve 426fe1083a
Merge pull request #1265 from rettema/testplan_40_50
#1264 add R5 TestPlan conversion classes to R3, R4 and R4B
2023-05-24 10:37:07 +10:00
James Agnew 0eca8d14ba Fix asStringValue on IdType 2023-05-23 17:02:23 -04:00
Grahame Grieve 87d8323c91
Merge branch 'master' into gg-202304-more-snapshot 2023-05-24 06:52:50 +10:00
Grahame Grieve a7026ca51d
Merge pull request #1272 from pnewhook/getLink-enum-bug
Bundle.getLink(String) comparing string to enum
2023-05-24 06:15:58 +10:00
Richard Ettema 39d221736c
Merge branch 'hapifhir:master' into testplan_40_50 2023-05-23 16:05:09 -04:00
Peter Newhook 671ab4b964 Compare the string value of a LinkRelationTypes enum in Bundle.getLink(String)
Fixes #1266
2023-05-23 11:41:12 -04:00
Grahame Grieve a2e2ef714e Handle sub-slicing case where slice matches both the slice definition and the sub-slice definition 2023-05-23 17:39:08 +10:00
Grahame Grieve 8a5c9c7ca6 Adjust handling of slicing min issues 2023-05-23 17:37:11 +10:00
Richard Ettema 1ee320a462 revert changes to RequirementsRenderer 2023-05-22 17:54:58 -04:00
Grahame Grieve ba45c863db Merge remote-tracking branch 'origin/master' 2023-05-23 07:05:43 +10:00
Grahame Grieve 49571de18a #1266 fix Bundle.getLink() for enumeration 2023-05-23 06:13:05 +10:00
Grahame Grieve 5979d4abea
Merge pull request #1267 from antvaset/patch-1
Fix typo in ConceptMapRenderer.java
2023-05-23 05:54:51 +10:00
Grahame Grieve 753ca69545 Merge remote-tracking branch 'origin/master' 2023-05-22 17:19:42 +10:00
Grahame Grieve 7da282b5d7 update test cases for various issues encountered and fixed 2023-05-22 17:17:17 +10:00
Grahame Grieve 073e89d98d Handle unknown code systems properly 2023-05-22 17:16:08 +10:00
Grahame Grieve 7339d0ae1d Fix for NPEs 2023-05-22 17:15:44 +10:00
Grahame Grieve 30290b9567 Handle unknown code systems properly 2023-05-22 17:15:29 +10:00
Grahame Grieve 95d8399992 Handle unknown code systems properly 2023-05-22 17:15:16 +10:00
Grahame Grieve c2dfdfea0b Check for erroneous attempts to reslice 2023-05-22 17:14:49 +10:00
Grahame Grieve 6e3171d85f Check for erroneous attempts to slice or re-slice + add checking for getting slicing minimum cardinality right 2023-05-22 17:14:16 +10:00
Anton Vasetenkov b7e802ee79
Fix typo in ConceptMapRenderer.java 2023-05-19 21:16:06 +02:00
Richard Ettema e9c2a5f622 #1264 add R5 TestPlan conversion classes to R3, R4 and R4B 2023-05-18 17:36:21 -04:00
markiantorno ff8943061c Updating version to: 6.0.8-SNAPSHOT and incrementing test cases dependency. 2023-05-17 04:54:30 +00:00
markiantorno 9221395f06 Release: v6.0.7
## Validator Changes

* Update terminology for changes to tx validation policy: Wrong displays change from a warning to an error
* Add parameter ```-display-issues-are-warnings``` for restoring original behaviour that display issues are warnings
* Relax constraints on Reference targets for logical models
* Update dutch and german validation error messages + minor improvements to error messages
* Fix r5 url for package fetch (#1260)  …

## Other code changes

* Fix up all terminology cache tests
* Switch to System.err for now + report missing constants
* Add I18n tests for coverage and plural validity + fix missing messages
* Partial fix for R4/R5 conversion issues
***NO_CI***
2023-05-17 04:23:04 +00:00
Grahame Grieve 0278518c26 update terminology for changes to tx validation policy 2023-05-17 11:33:45 +10:00
Grahame Grieve ef92f38d9e Fix up all terminology cache tests 2023-05-17 10:33:22 +10:00
Grahame Grieve 6d2e3ee388 Fixes for display warnings 2023-05-13 21:47:25 -07:00
Grahame Grieve 37bf22f8e9 Add path to error message 2023-05-13 21:46:58 -07:00
markiantorno 110f695e9c Updating version to: 6.0.7-SNAPSHOT and incrementing test cases dependency. 2023-05-12 23:49:33 +00:00
markiantorno 171a87c777 Release: v6.0.6
## Validator Changes

* no changes

## Other code changes

* Update R6 package tgz fetching
***NO_CI***
2023-05-12 23:22:47 +00:00
Lloyd McKenzie 8c494278f4 Fix problem when profiling a base type that supports both Reference and canonical 2023-05-11 21:54:48 -05:00
markiantorno 44c1b43516 Updating version to: 6.0.6-SNAPSHOT and incrementing test cases dependency. 2023-05-10 15:28:58 +00:00
markiantorno 91de165e2c Release: v6.0.5
## Validator Changes

* Fix NPE validating StructureMap
* Improve error message about uri values
* Fix for wrong display when server returns error
* Slight improvement in performance
* Fix FHIRPath split function (parameter is not regex)
* Stop warning that Markdown autolinks need to be escaped
* Allow NPM package versions to have the form {id}#{url} for direct access to packages

## Other code changes

* Support for NamingSystem conversion of url, version, and title (for THO)
* Update Conversion package docs (#1257)  …
* Return codeableConcept from validate-code
* Refactor: Resource Root Elements Conversion
* Minor fixes for R5 redirector
* Fix bug handling filter, and refactor terminology code
* Fix for dstu2016may Resource equals methods (#1251)  + Tests a
***NO_CI***
2023-05-10 14:58:38 +00:00
Grahame Grieve ecc2a5f634 Remove spurious logging 2023-05-10 05:46:58 -05:00
Grahame Grieve 13254f39a2 support for NamingSystem conversion of url, version, and title (for THO) 2023-05-09 18:46:39 -05:00
Grahame Grieve ce46eee731 return codeableConcept from validate-code 2023-05-08 13:30:04 -05:00
Grahame Grieve 491b5ccb4a Fix for wrong display when server returns error 2023-05-08 07:09:32 -05:00
Grahame Grieve 6232c54f15 Fix core 2023-05-07 12:02:00 -05:00
Grahame Grieve bcb0656ff5 Merge remote-tracking branch 'origin/master' 2023-05-07 11:04:07 -05:00
Grahame Grieve ae13abfc2a performance related changes 2023-05-07 11:04:04 -05:00
Sean McIlvenna fa1e0c5a71 Changes based on performance profiling validation of a large Bundle of 32 patients
Reduced execution time from >2 minutes to 36 seconds
2023-05-07 10:03:12 -05:00
Grahame Grieve d35b881cf1 Fix FHIRPath split function 2023-05-06 09:55:36 -05:00
Grahame Grieve 24b0cc2ee4 Fixes for kindling 2023-05-06 00:55:50 -05:00
Grahame Grieve f734f98c05 update for failing tests 2023-05-05 22:21:05 -05:00
Grahame Grieve b402fd1c45 Fix bug handling filter, and refactor terminology code 2023-05-05 13:55:23 -05:00
markiantorno 551fe6d7c0 Updating version to: 6.0.5-SNAPSHOT and incrementing test cases dependency. 2023-05-04 13:17:39 +00:00
markiantorno 83a45f95f9 Release: v6.0.4
## Validator Changes

* Fix bug accessing canonical resources on servers

## Other code changes

* Various changes to support terminology service testing
***NO_CI***
2023-05-04 07:22:08 +00:00
Grahame Grieve e8de25c197 fix tests 2023-05-04 10:35:03 +10:00
Grahame Grieve 806c065fcb fix version return + profile support in testing 2023-05-04 10:01:35 +10:00
Grahame Grieve 94fd0ae795 more tests fixes 2023-05-03 17:16:16 +10:00
Grahame Grieve 0b71add74c Always report version on validation, and use the correct type for version in expansion parameters 2023-05-03 11:59:54 +10:00