Commit Graph

1789 Commits

Author SHA1 Message Date
Grahame Grieve 28b21d566a Fix up error messages 2023-04-28 18:56:00 +10:00
Grahame Grieve d60db32e37 more quote fixing 2023-04-28 17:50:13 +10:00
Grahame Grieve f9121a51c9
Merge branch 'master' into gg-202304-extension-validation 2023-04-28 17:47:11 +10:00
Alexander Henket d021a9dc7f
Merge branch 'hapifhir:master' into master 2023-04-28 09:39:54 +02:00
Alexander Henket b4870b0a6b Updated Dutch according to Messages.properties 2023-04-28 09:38:53 +02:00
Alexander Henket 9a165b75d4 Fixed some more typos 2023-04-28 09:31:09 +02:00
Grahame Grieve 069dc03c90 Validate Extension Context + fix questionnaire value set validation 2023-04-28 17:28:28 +10:00
Alexander Henket 07a08f5de2
Fixed two typos 2023-04-28 08:51:30 +02:00
Grahame Grieve 4ec909e302
Merge branch 'master' into gg-202304-r6-support 2023-04-28 10:50:28 +10:00
Grahame Grieve 53eae9b51f fix error messages 2023-04-28 10:14:17 +10:00
dotasek e01aa876c8
Bump HAPI to 6.4.1 (#1237)
* Bump HAPI to 6.4.1

* Fix broken checkstyle configs

* Fix checkstyle in convertors
2023-04-27 18:11:25 -04:00
Grahame Grieve 6e2b113f94 improved error message 2023-04-28 07:36:39 +10:00
Grahame Grieve 789eae760e
Merge pull request #1236 from ahenket/patch-1
Fixed missing = in key "QUESTIONNAIRE_QR_ITEM_BADOPTION_CS"
2023-04-28 06:33:00 +10:00
Alexander Henket de75e4db52
Fixed missing = in key "QUESTIONNAIRE_QR_ITEM_BADOPTION_CS" 2023-04-27 17:50:43 +02:00
Grahame Grieve 07a2e63941 more http logging to subdirectory of temp 2023-04-27 20:09:23 +10:00
markiantorno 46259c47e0 Updating version to: 6.0.1-SNAPSHOT and incrementing test cases dependency. 2023-04-26 23:45:01 +00:00
markiantorno 5a4049e0e2 Release: v6.0.0
## Validator Changes

Note: This validator release is accompanied by a new release of tx.fhir.org, and earlier versions
of the validator will not perform validation correctly for some valuesets and languages. This is
in effect a mandatory upgrade

* Major **Breaking** change: test multi-lanugage support on the terminology service API, and make many fixes.
** This release also includes full support for supplements providing designations and properties
* Add support for -install operation to install packages and generate snapshots while at it (support simplifier packages in sushi)
* Add support for ```lang-transform extract``` and ```-lang-transform inject``` to the validator (start of multi-lingual implementation support)
* Add support for -tx-tests to validator
* Change settings file to fhir-settings.json in .fhir, instead of fhir-tools-setting.ini (see [here](https://confluence.hl7.org/display/FHIR/Using+fhir-settings.json) for documentation)
* Add provisional support for running without a network: -no-network. Beware: this is not fully tested at this point
* Warning not error when the code system isn't known validating questionnaires
* Fix up loading of IG bundles
* Work around issue with R5 path in extensions pack
* Fix issue with SearchParameter validation throwing an exception if no expressions are valid

## Other code changes

* Code to support translation functionality
* Partial fix for problem parsing maps from previous versions
* Fix Code System rendering for supplements, and when there's 1..2 display translations
* Remove spurious header from ConceptMap rendering
* Return ID part correctly when FhirPath expression result is converted to string
* fix problem with leaf rendering in profile driven renderer
* Fix R4B tests to be based on R4B
* fix index error validating HierarchicalTable
* fix NPE in requirements renderer
* Fix NPE in code generator
* Rework package cache manager - add testing mode
* Add link to questionnaire rendering questionnaireResponse + Fix access violation rendering questionnaire
* Fix bugs generating narratives
* Defining the existence of R6
* i18n framework for HTML generation in renderers - step #1
* Re-org validation testing to be more memory efficient
* Better error handling loading resources
* Restore broken R4 loading
* Add new R5 fields to R4/R5 conversion for ValueSet
* minor changes two HumanName.getNameAsSingleString (missed family name)
***NO_CI***
2023-04-26 23:16:02 +00:00
Grahame Grieve 085ddde843 bump major version 2023-04-27 08:00:56 +10:00
Grahame Grieve 3ed7813973 language translations support in validator 2023-04-25 21:51:31 +10:00
Grahame Grieve b6b4fbcd0c more tx test fixes 2023-04-24 23:08:29 +10:00
Grahame Grieve 907126703f fix default server settings 2023-04-22 18:55:56 +08:00
Grahame Grieve 1498823d5f fix error processing nucc locally 2023-04-21 18:53:03 +08:00
Grahame Grieve fe86ab1d7c reorg server settings 2023-04-21 18:52:36 +08:00
Grahame Grieve 580079f26d allow to prohibit network access from within code 2023-04-21 12:25:54 +08:00
dotasek 9b4b1ae2cc
Add -fhir-settings param to Validator CLI (#1203)
* Start work

* Tests for new Param

* More tests, add param, refactor

* Rename + JsonProperty annotations

* Logging for API keys

* WIP rename search parameter + add settings object for serialization

* Switch to JSON based settings file.

* Rename FHIRSettings and remove ToolGlobalSettings

* Update default path for settings file + expand test

* Only allow single instantiation with explicitFilePath

* Move and expand tests

* Fix failing test

* Add test for FhirSettings param precedence

* Refactor to only call getInstance() internally in FhirSettings
2023-04-19 17:18:29 -04:00
Grahame Grieve 5ec1bd9f67 fix npe 2023-04-18 09:51:23 +08:00
Grahame Grieve cc8c7be307 fix which servers tests are based on 2023-04-18 09:41:15 +08:00
Grahame Grieve 02bd1d8ce7 more fixing for language handling issues 2023-04-18 09:40:49 +08:00
Grahame Grieve 81d26c5160 work on no-network-access mode 2023-04-18 09:39:59 +08:00
Grahame Grieve f1d5676425 run txTests from validator 2023-04-16 21:56:41 +10:00
Grahame Grieve 48e86fa905 fix failing tests 2023-04-14 22:39:48 +10:00
Grahame Grieve c9416e9a56 Merge remote-tracking branch 'origin/master' 2023-04-14 18:01:18 +10:00
Grahame Grieve 6ac00b8c68 rework terminology interface 2023-04-14 17:59:06 +10:00
Grahame Grieve 03eb6e7bf0 more work doing terminology server testing 2023-04-08 15:06:51 +10:00
dotasek c4f8b65ba4
JUnit Bump (#1204)
* Bump JUnit Version and manage dependencies via bom

* Bump JUnit Version and manage dependencies via bom

* Remove explicit version references in child projects

* Vintage engine isn't managed. Manage it explicitly
2023-04-04 22:39:03 -04:00
Grahame Grieve 548284fcda rework language handling again 2023-04-02 23:08:17 +10:00
Grahame Grieve 0bbff8d14d rework package cache manager - add testing mode 2023-04-02 23:06:29 +10:00
Grahame Grieve 981d233827 fix index error validating HierarchicalTable 2023-04-01 07:34:14 +11:00
Grahame Grieve 7ef17d41d6 warning not error when the code system isn't known validating questionnaire answer options 2023-04-01 07:33:56 +11:00
Grahame Grieve e59c83855d Defining the existence of R6 2023-04-01 07:32:02 +11:00
Grahame Grieve e18cfcf0f8 Add reading translations 2023-03-30 23:30:53 +11:00
Grahame Grieve 1b6137967f i18n framework for HTML generation in renderers - step #1 2023-03-30 10:16:51 +11:00
Grahame Grieve 6a8e425696 Merge remote-tracking branch 'origin/master' 2023-03-30 06:37:57 +11:00
Grahame Grieve 12de53f336 Work on language translations 2023-03-30 06:32:10 +11:00
markiantorno aa8cb39580 Updating version to: 5.6.118-SNAPSHOT and incrementing test cases dependency. 2023-03-29 14:03:26 +00:00
markiantorno 3c04b80fdb Release: v5.6.117
## Validator Changes

* no changes

## Other code changes

* Fix R5 path for spec in generated narratives
* Hack to fix wrong R5 paths in generated narratives in extensions pack
* Suppress Prism rendering if ttl source is too big
* Fix up URLs in untouched elements when processing snapshots
* Fix up URLs in binding.description when generating snapshots
***NO_CI***
2023-03-29 13:36:02 +00:00
Grahame Grieve bbdb3dea89 undo dependency on test case packages (memory reasons) 2023-03-29 17:10:38 +11:00
Grahame Grieve d7817c785a XML utils - add tag 2023-03-29 15:06:59 +11:00
Grahame Grieve 520d13ab51 fix R5 path for spec 2023-03-29 15:06:35 +11:00
Grahame Grieve 0233e48a1c suppress prism if ttl source is too big 2023-03-29 15:06:24 +11:00
markiantorno 7928c858bb Updating version to: 5.6.117-SNAPSHOT and incrementing test cases dependency. 2023-03-27 23:58:35 +00:00
markiantorno 9f671be87b Release: v5.6.116
## Validator Changes

* Make checking displays in concept map not case sensitive and just a warning

## Other code changes

* Fix loading version of extensions package in test cases
* Don't suppress error when FML doesn't parse in FMLParser
* Add PathBuilder (documentation + clean up code)
***NO_CI***
2023-03-27 23:33:00 +00:00
Grahame Grieve 9460f1f64b
Merge pull request #1183 from hapifhir/do-20230315-pathbuilder
Give finer grained control over path building with dedicated PathBuilder class
2023-03-28 05:47:26 +11:00
dotasek 3044a188d9 Add PathBuilder documentation clean up code. 2023-03-27 10:41:44 -04:00
markiantorno 794a9c46b6 Updating version to: 5.6.116-SNAPSHOT and incrementing test cases dependency. 2023-03-25 12:24:55 +00:00
markiantorno e68a6171ee Release: v5.6.115
Final Code changes for R5 release

## Validator Changes

* Fix NPE validating maps

## Other code changes

* Refactor Loader for easier loading of earlier versions
* Fix various NPEs from version conversion testing
* First draft of Code generation for Extensions
* Improve summary message for map conversion outcome
* Move web path out of userData into resource field
* Fix FTP problem on windows (remote seperator)
* Update tests to use R5 package from test case repo everywhere
* Finish removing population type
* Rebuild .index.json if it's empty when installing a package
***NO_CI***
2023-03-25 11:55:37 +00:00
Grahame Grieve 7bf243f593
Merge pull request #1188 from hapifhir/gg-202303-ftp-windows
Fix FTP problem on windows
2023-03-24 22:20:05 +11:00
Grahame Grieve ac64a6bbd7 Fix FTP problem on windows 2023-03-24 21:13:54 +11:00
Grahame Grieve 37206a1f30
Merge pull request #1187 from hapifhir/gg-202303-r5-final-gen
Gg 202303 r5 final gen
2023-03-24 11:50:23 +11:00
Grahame Grieve b8777319da update tests to use R5 package from test case repo everywhere 2023-03-24 10:18:42 +11:00
Grahame Grieve d16e6d3249
Merge pull request #1184 from hapifhir/gg-202303-r5-final-gen
Gg 202303 r5 final gen
2023-03-23 21:42:19 +11:00
Grahame Grieve b5c48d1934 rebuild .index.json if it's empty 2023-03-23 20:49:55 +11:00
Grahame Grieve f122dc164f update code for R5 final 2023-03-23 20:48:38 +11:00
dotasek 36dce28691 Make getter for remote separator 2023-03-22 17:31:40 -04:00
dotasek 8ce7cd8323 Merge remote-tracking branch 'origin/master' into do-20230315-pathbuilder 2023-03-22 12:09:56 -04:00
markiantorno ce2480a745 Updating version to: 5.6.115-SNAPSHOT and incrementing test cases dependency. 2023-03-22 14:12:23 +00:00
markiantorno 7736f31847 Release: v5.6.114
## Validator Changes

* Fix up stated path in CodeSystemValidator
* Validate example URLs in value sets correctly
* Fix problem with composition library reference in R4

## Other code changes

* More work to sort out mappings
* Fix broken links in FMM & standards status levels
* Fix type of IG-parameter extension
* FTP: Stop re-initializing file type and mode with each upload (#1178)  …
* Fix snaphot generation warning when when profile-element is used
* fix path failure in tests
* Inline help16.png when generating narrative
* Suppress img.src=data content when rendering narrative
* Suppress value set expansion for core value sets that tx.fhir.org is getting wrong
* Fix NPE in profile comparison
***NO_CI***
2023-03-22 13:46:22 +00:00
Grahame Grieve 6173d77a24
Merge pull request #1181 from hapifhir/gg-202303-vs-example-urls
Gg 202303 vs example urls
2023-03-22 23:56:01 +11:00
Grahame Grieve 74a69de992 validate example URLs in value sets correctly 2023-03-22 23:06:33 +11:00
Grahame Grieve 05a367b088 validate example URLs in value sets correctly 2023-03-22 23:06:06 +11:00
dotasek 1442f1609c
Stop re-initializing file type and mode with each upload (#1178)
* Stop re-initializing file type and mode with each upload

* Methods for setting up buffer size
2023-03-21 15:36:19 -04:00
Grahame Grieve f796ffc57f fix issues with help16.png 2023-03-21 18:21:42 +11:00
Grahame Grieve 851d9c149d Merge remote-tracking branch 'origin/master' 2023-03-21 17:41:52 +11:00
Grahame Grieve c053ed9c6e suppress data attributes in XHTML 2023-03-21 17:27:14 +11:00
Grahame Grieve 5444c3a33a Inline help6.png in resources 2023-03-21 17:26:51 +11:00
markiantorno 8878bc9cef Updating version to: 5.6.114-SNAPSHOT and incrementing test cases dependency. 2023-03-21 00:29:38 +00:00
markiantorno 950c781ffc Release: v5.6.113
## Validator Changes

* Fix problems validating variables
* No longer ignore hl7.org/fhir/tools when validating

## Other code changes

* Fixed bug with incorrect parameter type when POSTing a $validate-code request to a remote terminology server
* Fix OS issue with zipslip protection
* Fix for where profile_element extension was being ignored when checking types after snapshot generation
* Fix generated name for FML rules to be a valid name
* Allow loaders to decide which resources to load into the context
***NO_CI***
2023-03-21 00:00:30 +00:00
Grahame Grieve 7ea1e5197d Fix OS issue with zipslip protection 2023-03-21 06:14:01 +11:00
dotasek 7a85bc00c9 Merge branch 'master' into do-20230315-pathbuilder 2023-03-20 11:38:53 -04:00
markiantorno 2a877b6faa Updating version to: 5.6.113-SNAPSHOT and incrementing test cases dependency. 2023-03-19 04:45:57 +00:00
markiantorno 59d8cf0bee Release: v5.6.112
## Validator Changes

* Don't validate codes in value sets if terminology vlidation is turned…  …
* Fix nPE validating bundles

## Other code changes

* Add file: to URL scheme list when checking for absolute URLs
* Adjust mappings handling code generating snapshots
* More improvements to r4/r5 transform testing
* Better error messages setting properties when transforming
* Better error messages converting types
* FHIRPath tests on element model
* Refactor FTPClient to perform fewer directory creates (#1159)  …
* Document how to build validator_cli locally (#1171)
***NO_CI***
2023-03-19 04:17:32 +00:00
Grahame Grieve e1fed0a8eb Merge remote-tracking branch 'origin/master' 2023-03-19 08:52:55 +11:00
Grahame Grieve 95f3fdd187 Add file: to URL scheme list 2023-03-19 08:52:49 +11:00
dotasek cbf864b1b9
Refactor FTPClient to perform fewer directory creates (#1159)
* Refactor FTPClient to perform fewer directory creates

* Restore old main

* More lenient test for delete timing (delete is fast)

* More timing leniency

* Add more checks for command completion, switch time track to nanos

* Logging logging logging
2023-03-16 14:53:59 -04:00
markiantorno 90bcab6554 Updating version to: 5.6.112-SNAPSHOT and incrementing test cases dependency. 2023-03-16 11:24:39 +00:00
markiantorno 7a9e5444c5 Release: v5.6.111
## Validator Changes

* Fixing issues parsing Bundle.issues in R5

## Other code changes

* Fix bugs handling XHTML
* Refactor package loading API - List(String) instead of String[]
***NO_CI***
2023-03-16 10:56:41 +00:00
Grahame Grieve cf9bd54a74 fix bug in XhtmlNode 2023-03-16 15:42:04 +11:00
Grahame Grieve 413cbb115a fix issues with R3R4MapTester 2023-03-16 14:08:00 +11:00
Grahame Grieve 27598a382d Fix issues with xhtml handling 2023-03-16 14:07:11 +11:00
Grahame Grieve 19cb639d37 refactor how types are handled loading packages 2023-03-16 13:26:34 +11:00
dotasek 0ae4aa9a0f Start pathbuilder work 2023-03-15 16:20:51 -04:00
markiantorno 2e36c8147a Updating version to: 5.6.111-SNAPSHOT and incrementing test cases dependency. 2023-03-14 12:43:23 +00:00
markiantorno e2967d923c Release: v5.6.110
## Validator Changes

* no changes

## Other code changes

* Fix NPE in string handling
***NO_CI***
2023-03-14 12:18:03 +00:00
Grahame Grieve 6be0becc61 fix for NPE 2023-03-14 21:28:37 +11:00
markiantorno b5bbe5108b Updating version to: 5.6.110-SNAPSHOT and incrementing test cases dependency. 2023-03-13 05:16:16 +00:00
markiantorno f48d413690 Release: v5.6.109
## Validator Changes

* Add format codes ```md``` and ```url``` to FHIRPath escape() and unescape()
* Add second parameter ```s_last``` to FHIRPath join() to use a different separator for the last time (e.g. ```.join(', ', 'and')```)

## Other code changes

* Parse status when parsing FML metadata
* Fix NPE in FHIRPath resolve() for contained resources ([discussion](https://chat.fhir.org/#narrow/stream/179167-hapi/topic/fix.20to.20FHIRPathEngine))
***NO_CI***
2023-03-13 04:45:19 +00:00
Grahame Grieve a45de03431 add tail() to Utilities 2023-03-13 13:53:41 +11:00
Grahame Grieve 07a3962ac2
Merge pull request #1167 from hapifhir/gg-202303-misc3
Gg 202303 misc3
2023-03-13 06:36:00 +11:00
Grahame Grieve 96f265653e fix run time test 2023-03-12 23:02:46 +11:00
markiantorno 209fcc8c0b Updating version to: 5.6.109-SNAPSHOT and incrementing test cases dependency. 2023-03-11 12:16:50 +00:00
markiantorno 35fb1b20c1 Release: v5.6.108
## Validator Changes

* no changes

## Other code changes

* Tdy up extensions for R5 release
* Hack R5 observation for fix after QA
* Improve StructureMap rendering again
* Clarify Error messages converting between versions
***NO_CI***
2023-03-11 11:49:55 +00:00
Grahame Grieve 957e9fe7cc Load all types not no types from Npm Package when no types are specified 2023-03-11 18:54:23 +11:00
markiantorno a3a9017bdb Updating version to: 5.6.108-SNAPSHOT and incrementing test cases dependency. 2023-03-10 13:09:53 +00:00
markiantorno 1e43fe43f0 Release: v5.6.107
## Validator Changes

* Add support for new ColorRGB code system (special case)

## Other code changes

* Add support for special case code systems internally
***NO_CI***
2023-03-10 12:44:48 +00:00
Grahame Grieve 10d560c859 Add support for locally processed special case code systems (and an example - rgb) 2023-03-10 21:28:08 +11:00
Grahame Grieve 1212b85b5e Change from Error to FHIRException when wrong value type is wrong on polymorphic element 2023-03-10 16:12:59 +11:00
dotasek cedadbcbe7
Convenience method for unchecked read only use of Utilities.path (#1164)
* Convenience method for unchecked read only use of Utilities.path

* Restore remove first null behaviour

* Method rename and update JavaDoc
2023-03-09 22:08:41 -05:00
markiantorno a3473354fd Updating version to: 5.6.107-SNAPSHOT and incrementing test cases dependency. 2023-03-09 21:19:20 +00:00
markiantorno d666d0aa80 Release: v5.6.106
## Validator Changes

* no changes

## Other code changes

* Additional checks in path construction for zip slip vulnerability
***NO_CI***
2023-03-09 20:50:18 +00:00
dotasek 909f7e64fe
Additional zip-slip tests (#1162)
* Additional zip-slip tests

* Fix windows path test
2023-03-09 14:30:53 -05:00
markiantorno f49eee623b Updating version to: 5.6.106-SNAPSHOT and incrementing test cases dependency. 2023-03-09 13:06:01 +00:00
markiantorno 0b8e2c3984 Release: v5.6.105
## Validator Changes

* More validation of StructureMaps

## Other code changes

* Add new R5 version to R4 version enumeration
* Fix for NPE generating profile comparison
* Add FML renderer for StructureMaps + various parsing fixes
***NO_CI***
2023-03-09 12:38:13 +00:00
Grahame Grieve 95813d9004 Fix FML Comments parsing, and add StructureMap rendering to pretty FML 2023-03-09 19:44:57 +11:00
Grahame Grieve 187d3e98c7 More fixes for structure map validation 2023-03-09 09:11:31 +11:00
markiantorno 8bd83810ea Updating version to: 5.6.105-SNAPSHOT and incrementing test cases dependency. 2023-03-08 08:23:43 +00:00
markiantorno 2a2fc497c7 Release: v5.6.104
## Validator Changes

* Fix up issues validating whitespace
* Multiple fixes to StructureMap and ConceptMap validation

## Other code changes

* rename ig-r4.json to ig-r4.jsonx in IGs
* move R5 package to test cases
***NO_CI***
2023-03-08 07:53:54 +00:00
Grahame Grieve 6870c7a32c
Merge pull request #1157 from hapifhir/gg-202303-qa-sm-validation-5
Gg 202303 qa sm validation 5
2023-03-08 10:10:55 +11:00
Grahame Grieve 53e67bc1cb handle re-use of mapping groups when validating maps 2023-03-08 09:11:24 +11:00
markiantorno d4d160eb29 Updating version to: 5.6.104-SNAPSHOT and incrementing test cases dependency. 2023-03-07 16:31:22 +00:00
markiantorno b18181ab7e Release: v5.6.103
## Validator Changes

* Fix structure map validation issues around type
* Revise whitespace handling for unicode conformance in validator
* Improved error message for output directory requirements
* Improve compact version sorting in renderer
* Add timestamp to compact format

## Other code changes

* Fix JSON escaping utility function
* Bug fixes in XHTML processing.
* Convertors: Bug Fixes in spec evaluation
* Convertors: patchUrls now patches fhir-type extension values
* R5: Fix FML parsing missing locations
* R5: Fix location bugs in FML parsing
***NO_CI***
2023-03-07 16:03:02 +00:00
Grahame Grieve 26eb1311a4 release notes 2023-03-07 23:33:35 +11:00
Grahame Grieve 6bf26255ab fix structure map validation issues around type 2023-03-07 20:58:51 +11:00
Grahame Grieve 58a933094f fix json escaping 2023-03-07 06:30:01 +11:00
Grahame Grieve 0c26f09721 revise whitespace handling for unicode conformance in validator 2023-03-07 06:25:45 +11:00
Grahame Grieve 5eca02f879 bug fixes 2023-03-06 23:33:38 +11:00
markiantorno 8a546d37eb Updating version to: 5.6.103-SNAPSHOT and incrementing test cases dependency. 2023-03-06 12:05:52 +00:00
markiantorno a7507e9887 Release: v5.6.102
## Validator Changes

* Add ConceptMap validation
* Add StructureMap validation
* Validate using type regex (had been omitted to now, mostly affects decimal validation)
* Add new -output-style values compact and compact-split
* Fix bug validating CDA choice elements without [x] in their names

## Other code changes

* Various fixes and utilities to support StructureMap & ConceptMap validation
* Fix Observation.value conversion between R5 and other versions
* Recognise R4B and R5 core packages
* Improvements to specification diffference engine for R5 publication
* More efficient XHTML AST model
***NO_CI***
2023-03-06 11:39:27 +00:00
Grahame Grieve 6559c4b245 improve SM validation message 2023-03-06 20:45:05 +11:00
Grahame Grieve 507ff74c23 recognise R4B and R5 core packages 2023-03-06 20:44:41 +11:00
Grahame Grieve adafa7eec8 Improve Specification Difference Engine 2023-03-06 16:55:02 +11:00
Grahame Grieve 36d22c522a make xhtml nodes use less memory 2023-03-06 10:32:54 +11:00
Grahame Grieve bf202870d9 Merge remote-tracking branch 'origin/master' 2023-03-06 06:20:01 +11:00
Grahame Grieve 356e500ab6 finish ConceptMap validation 2023-03-05 23:25:12 +11:00
Grahame Grieve ec72b1fcdd fix parsing and validating of concept maps in structure maps + validate terminology part of structure maps 2023-03-05 18:29:11 +11:00
Grahame Grieve c42da7af68 more package hacking work 2023-03-05 06:14:22 +11:00
Grahame Grieve 52c97f3c70 test primitive regexes if other tests pass 2023-03-05 06:14:07 +11:00
markiantorno ebd93f570f Updating version to: 5.6.102-SNAPSHOT and incrementing test cases dependency. 2023-03-03 04:08:44 +00:00
markiantorno f317bb15f6 Release: v5.6.101
## Validator Changes

* Fix NPE in Structure Map validation

## Other code changes

* Add back code missed when regenerating R5
* Update conversions for discovered issues for R5
***NO_CI***
2023-03-03 03:21:09 +00:00
markiantorno da62438802 Updating version to: 5.6.101-SNAPSHOT and incrementing test cases dependency. 2023-03-02 03:50:02 +00:00
markiantorno 578b964cf9 Release: v5.6.100
## Major change:

* New R5 release - rebuild R5 implementation, update a lot of related code

## Validator Changes

* Load separate R5 extensions package
* Load FML directly, and validate mapping as much as possible

## Other code changes

* Fix bugs in Java R5 code generator
* Add more control at the code level over how to handle unknown profiles when generating snapshots
* Rework ConceptMap for major R5 changes
* Fix bug in CommaGeneratedStringBuilder (calling toString() multiple times duplicated content)
* handle case [reference].where(resolve() is X) when analysing types+elements in FHIRPath statements
***NO_CI***
2023-03-02 03:21:29 +00:00
Grahame Grieve 99d2421014 fix using wrong version of extensions package 2023-03-02 08:49:22 +11:00
Grahame Grieve 31b770db8a ping build 2023-03-02 07:36:10 +11:00
Grahame Grieve abba72d099 Fix bug in CommaSeparatedStringBuilder 2023-03-01 21:48:43 +11:00
Grahame Grieve c5d6e0f5f4 Merge remote-tracking branch 'origin/master' 2023-02-28 05:58:54 +11:00
Grahame Grieve 4c30621491 structuremap validation and invariant fixes for forthcoming R5 release 2023-02-27 18:32:38 +11:00
Grahame Grieve a62c8683f2
Merge pull request #1139 from hapifhir/gg-202302-map-validation-2
Work on StructureMap validation
2023-02-27 09:14:13 +11:00
Grahame Grieve 2bd73c650e Work on StructureMap validation 2023-02-27 07:30:04 +11:00
Grahame Grieve edf5ecf275
Merge pull request #1138 from hapifhir/gg-202302-map-validation
FML validation
2023-02-25 16:41:26 +11:00
Grahame Grieve d3a407e369 FML validation 2023-02-25 14:05:03 +11:00
dotasek 76c01a98aa
Add basic checkstyle plugin config (#1122)
Co-authored-by: dotasek <david.otasek@smilecdr.com>
2023-02-24 15:05:49 -05:00
Grahame Grieve 521e72a5ff
Merge pull request #1110 from balhoff/rdf-wg-r5-with-generated
Implement R5 RDF format changes
2023-02-24 10:21:19 +11:00
markiantorno e9607783da Updating version to: 5.6.100-SNAPSHOT and incrementing test cases dependency. 2023-02-23 18:15:08 +00:00
markiantorno e2185d7d5c Release: v5.6.99
## Validator Changes

* Fix validation for query references with empty parameter values
* Fix validation for conditional references

## Other code changes

* Fix resource rendering for conditional references
* Fix bug caused by changing DiagnosticReport.conclusion to markdown
* Track target types on references in FHIRPath
* Minor type checking fixes for FHIRPath
* Fix bugs in FHIRPath type checking discovered during R5 preparation
* Add standardsStatus support to core model
* Update okhttp library
* Allow HTTPS for terminology server URL
* Update table generator to suppress external links in base row and column
***NO_CI***
2023-02-23 17:50:57 +00:00
dotasek 5d6636ba8c
Bump okhttp version (#1131)
Co-authored-by: dotasek <david.otasek@smilecdr.com>
2023-02-23 11:14:50 -05:00
Grahame Grieve 1eeee429ce More markdown detection work 2023-02-21 16:52:32 +11:00
Grahame Grieve 3eda8580fc fix rendering for conditional references 2023-02-21 16:46:02 +11:00
Grahame Grieve 76a3129b30 fix validation of conditional references 2023-02-20 23:48:16 +11:00
Grahame Grieve 455d2774da remove reference to package-client folder 2023-02-20 10:44:11 +11:00
Grahame Grieve 38a55d261d update table generator to suppress external links in base row and column 2023-02-18 15:13:13 +11:00
Grahame Grieve fecf024952 FHIR-40387 Improve guidance for markdown datatype 2023-02-16 13:03:37 +11:00
Grahame Grieve 3011b37df4 fix bugs in XHTML parser (common entities) 2023-02-16 10:07:18 +11:00
Jim Balhoff c3580528bb Fix Turtle syntax errors with multiline comments. 2023-02-15 09:58:25 -05:00
markiantorno 9c768415f2 Updating version to: 5.6.99-SNAPSHOT and incrementing test cases dependency. 2023-02-15 10:37:45 +00:00
markiantorno 7ec74d0321 Release: v5.6.98
## Validator Changes

* Fix bug checking canonical URLs in bundles with dashes in them
* Fix extension messages (modifier and normal messages reversed)
* Change how error location paths are reported in bundles for easier resolution (no counting!)
* fix bugs checking whether binding is allowed in corner cases

## Other code changes

* Rendering Improvements: Additional Bindings, Search Parameters, Operation Definitions
* FHIRPath implementations for comparable(), highBoundary(), lowBoundary()
* Fix list of canonical resources from VersionUtilities
* Fix bug parsing html entities in XHTML parser
* Rename extension to http://hl7.org/fhir/StructureDefinition/structuredefinition-imposeProfile
***NO_CI***
2023-02-15 10:13:36 +00:00
Grahame Grieve d1690a9416
Merge pull request #1101 from hapifhir/do-20230202-fix-jsonobject-instant-test
Fix JsonObjectTests interaction with Instant
2023-02-15 08:31:58 +11:00
Jim Balhoff 97772ada1e Merge branch 'master' into rdf-wg-r5 2023-02-14 13:47:28 -05:00
Grahame Grieve 33a84012f2 fix bug parsing html entities 2023-02-14 17:32:26 +11:00
Grahame Grieve d5d83bea9c fix broken links in R5 builds 2023-02-14 09:53:22 +11:00
Grahame Grieve 3a427385c5 FHIR QA driven changes 2023-02-12 17:53:41 +11:00
Grahame Grieve e6548bcccd add unCamelCaseKeepCapitals 2023-02-09 17:39:47 +11:00
markiantorno 97604fdff5 Updating version to: 5.6.98-SNAPSHOT and incrementing test cases dependency. 2023-02-07 12:55:19 +00:00
markiantorno c91376f3b9 Release: v5.6.97
## Validator Changes

* no changes

## Other code changes

* Fix for Extensions moving in R5
***NO_CI***
2023-02-07 12:28:44 +00:00
markiantorno eec7c33e63 Updating version to: 5.6.97-SNAPSHOT and incrementing test cases dependency. 2023-02-05 21:04:53 +00:00
markiantorno 729e7afb33 Release: v5.6.96
## Validator Changes

* no changes

## Other code changes

* Fix bug with duplicate value in getResourceNames()
***NO_CI***
2023-02-05 20:42:24 +00:00
Grahame Grieve 1d4f1e9d90 fix bug with duplicate value in getResourceNames() 2023-02-06 05:38:02 +11:00
markiantorno b3cebe7bc6 Updating version to: 5.6.96-SNAPSHOT and incrementing test cases dependency. 2023-02-03 20:09:35 +00:00
markiantorno 1696b56b50 Release: v5.6.95
## Validator Changes

* Fixes for FHIRPath as() operator in r4 and r5

## Other code changes

* no changes
***NO_CI***
2023-02-03 19:45:12 +00:00
dotasek 7b3e206b1c Fix JsonObjectTests interaction with Instant 2023-02-02 13:52:01 -05:00
markiantorno ea41a8b6a6 Updating version to: 5.6.95-SNAPSHOT and incrementing test cases dependency. 2023-02-02 17:07:22 +00:00
markiantorno 67329e20ad Release: v5.6.94
## Validator Changes

* no changes

## Other code changes

* Test release
***NO_CI***
2023-02-02 16:34:58 +00:00
Jim Balhoff 5dc19cd052 Tweak spacing. 2023-02-01 11:55:11 -05:00
markiantorno e922cc2a97 Updating version to: 5.6.94-SNAPSHOT and incrementing test cases dependency. 2023-02-01 07:27:59 +00:00
markiantorno 4e97bb0d5a Release: v5.6.93
## Validator Changes

* Fix for NPE rendering resources
* Consider CanonicalResource to be a CanonicalResource when validating profile references
* Work around error in R5 sdf-29 invariant

## Other code changes

* XHTML processing: Cater for "." in XML element and attribute names
* Handle R3 encoding of primitive values when validating profiles
* Improve error messaging when validating StructureDefinition
* Temporary Support for MedicationStatement in R5
* Work around for Identifier.use = ? in THO R5 package (old error)
* Rework Package API to allow for authentication on package servers
* Structure mapping now finds source Structure Definition by URI and sets ParserBase logical property appropriately.
* DOn't convert ig-r4 when converting package versions
***NO_CI***
2023-02-01 07:02:20 +00:00
Jim Balhoff 69ce2b45f2 Output lists in examples using RDF lists. Don’t output fhir:index. 2023-01-31 14:11:29 -05:00
Grahame Grieve 08ed54fd35 Rework Package API to allow for authentication on package servers 2023-01-31 10:32:21 +11:00
Grahame Grieve 4ab03c5c93 cater for "." in XML element and attribute names 2023-01-31 07:23:52 +11:00
dotasek cca38587ce
Cleanup jetbrains annotations (#1090)
Co-authored-by: dotasek <david.otasek@smilecdr.com>
2023-01-23 18:27:47 -05:00
markiantorno cb441456a8 Updating version to: 5.6.93-SNAPSHOT and incrementing test cases dependency. 2023-01-20 23:14:26 +00:00
markiantorno dc677cad51 Release: v5.6.92
## Validator Changes

* update FHIRPath implementation for corrections to 'as' (R5 only in validator)
* Critical Security fix: enforce correct paths when unpacking archives (SecurityAdvisory-1082, CVE TBA)

## Other code changes

* Update to latest FHIRPath for older versions
* Add new ElementModel based parser for StructureMaps
* go-publish related changes
* FTP Client upload and logging improvements
* Refactor base64 handling for Android compatibility

## Security Note

The validator unzips archive files to the local file system when
it is scanning zip files it has been asked to validate, and when it is
installing packages. These processes are now resistant to the zip-slip
vulnerability.
***NO_CI***
2023-01-20 22:57:29 +00:00
dotasek b50aec5912
Advisory fix 1 (#1089)
* Update cache and comparison downloads to use https

* Zip Slip tests and fix

* Zip Slip tests 2 and fix

* Add missing tempDir child in ScannerTest

* Add win format zip test

* Add tests to r4b

* Add tests and fixes for slips in tgz processing

* Update fhir-test-cases version
2023-01-20 16:56:57 -05:00
Grahame Grieve f8e6371e1f
Merge branch 'master' into gg-202301-sm-errors 2023-01-20 19:44:24 +11:00
Grahame Grieve 68b36d3cb5 go-publish related changes 2023-01-20 11:23:17 +11:00
dotasek f58b7acfb5
Swaps isBase64 with internal implementation for Android compatibility (#1079)
* Adding animal sniffer to display all issues related to android compatibility.

* Duplicate isBase64 internally

Co-authored-by: Vitor Pamplona <vitor@vitorpamplona.com>
Co-authored-by: dotasek <david.otasek@smilecdr.com>
2023-01-18 18:40:24 -05:00
dotasek 885e55352f
FTPClient: upload file path creation, logging, and improved default path (#1078)
* More logging of errors.

* WIP create path for file to upload.

* WIP Tests

* More tests

* Improved logging and path fixes

* Clean up imports

* Rename test

* add testing code

Co-authored-by: dotasek <david.otasek@smilecdr.com>
Co-authored-by: Grahame Grieve <grahameg@gmail.ccom>
2023-01-18 12:42:59 -05:00
markiantorno 4367813a2c Updating version to: 5.6.92-SNAPSHOT and incrementing test cases dependency. 2023-01-17 21:59:38 +00:00
markiantorno 7b22d0355b Release: v5.6.91
## Validator Changes

* Fixed validation of URNs
* Check profiles don't have slicing on roof

## Other code changes

* Fix significant performance issue with profile xls generation
* Fix issue with setProperty dropping extensions in R3 - R5
* Debug logging improvements generating snapshots
* Fix issues with types missing in CDA IGs
* Fix problem converting ActivityDefinition R4(B)/R5
* More work on FTP Client
***NO_CI***
2023-01-17 21:40:28 +00:00
Grahame Grieve 829cea8d33 Add check for slicing at the root of a profile 2023-01-17 11:41:42 +11:00
Grahame Grieve 4b1a3dba46 Improve URN validation 2023-01-16 22:13:53 +11:00
Grahame Grieve a61d860ddb FTP passive mode 2023-01-16 22:13:38 +11:00
markiantorno c52777c462 Updating version to: 5.6.91-SNAPSHOT and incrementing test cases dependency. 2023-01-14 06:35:33 +00:00