Sync: ncbo v6.6.1 release #27
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alexskr
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Sep 24, 2025
alexskr
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- https://github.com/ncbo/ontologies_linked_data/releases/tag/v6.6.0
- https://github.com/ncbo/ontologies_linked_data/releases/tag/v6.6.1
Develop to master merge, release v6.5.0
Add `system_controlled` DSL to LinkedData::Hypermedia::Resource - Adds `:system_controlled` to the DSL SETTINGS list - Allows declaring system-assigned (internally-managed) attributes in model classes - Intended for use in the API layer to reject client input for restricted fields like `uploadFilePath` - Mirrors the behavior of other DSLs like `serialize_never` (last call wins) - Add selected attributes to system_controlled list for User, OntologySubmission, Note and Project model as a proof of concept. More models may follow after further analysis. See ncbo/bioportal-project#348
Feature: submission version validation and fixes to the metadata auto-extraction
Fix/analytics key errors
Add unit test to verify fix for #232
Develop -> Master merge, release v6.6.0
- Switch from shelling out to `file --mime` to checking magic bytes
(PK for ZIP, 1F 8B for GZIP). Improves portability and removes
external dependency.
- Add `safe_join` guard to block path traversal.
- Normalize gzip names via `resolve_gzip_name` (strip control chars,
collapse to basename, ensure non-empty).
- Explicitly exclude .tar.gz and .tgz files (not supported yet).
- align with RubyZip v3+ semantics:
- enforce explicit destination_directory (no implicit cwd writes),
- block path traversal (`../` entries skipped).
- use streaming writes (`IO.copy_stream`) to reduce memory usage.
- Rename `files_from_zip` to `filenames_in_archive` for clarity
(returns entry names, not extracted files
- add rubyzip gem as dependency to gemspec
- pin thin gem to v1 for compatibility reasons
Refactor: improve archive handling in LinkedData::Utils::FileHelpers
Develop -> Master merge, release v6.6.1
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