Ecosyste.ms: Issues

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GitHub / mapping-commons/sssom issues and pull requests

#388 - Update generated SSSOM schema files

Pull Request - State: closed - Opened by matentzn about 2 months ago

#387 - Amendments to the "new literal profile" PR

Pull Request - State: closed - Opened by gouttegd about 2 months ago

#386 - Replace semantic_similarity_* slots by similarity_* slots

Pull Request - State: closed - Opened by matentzn about 2 months ago - 1 comment
Labels: schema

#384 - Add new "literal profile" solution based on "subject_label" and "object_label"

Pull Request - State: closed - Opened by matentzn about 2 months ago - 5 comments
Labels: schema

#383 - Provisionally removes previously added literal profile from SSSOM

Pull Request - State: closed - Opened by matentzn about 2 months ago
Labels: schema

#382 - Rework the literal profile idea

Pull Request - State: closed - Opened by matentzn about 2 months ago - 2 comments

#381 - Specify how to express an unmapped entity using sssom:NoTermFound

Pull Request - State: closed - Opened by matentzn about 2 months ago - 3 comments
Labels: schema

#380 - Add pydantic generated classes

Pull Request - State: open - Opened by matentzn about 2 months ago

#379 - Reformat some docs pages to render correctly

Pull Request - State: closed - Opened by matentzn about 2 months ago
Labels: documentation

#378 - Add Every Cure seminar to presentations.md

Pull Request - State: closed - Opened by matentzn about 2 months ago
Labels: documentation

#377 - Docs restructuring, adding funding and training pages

Pull Request - State: closed - Opened by matentzn 2 months ago

#376 - Add `curie_map` to the model

Pull Request - State: closed - Opened by gouttegd 2 months ago - 3 comments
Labels: schema

#375 - Add support for extension slots

Pull Request - State: closed - Opened by gouttegd 2 months ago - 4 comments
Labels: enhancement, schema

#374 - Document testing SSSOM-Py against a development version of the schema.

Pull Request - State: closed - Opened by gouttegd 2 months ago - 1 comment
Labels: documentation

#373 - Add min/max value constraints to score and confidence slots.

Pull Request - State: closed - Opened by gouttegd 2 months ago - 2 comments
Labels: enhancement

#372 - Range constraints for Double-typed slots not specified/enforced

Issue - State: closed - Opened by gouttegd 2 months ago
Labels: enhancement

#371 - Model propagatable slots

Pull Request - State: closed - Opened by gouttegd 3 months ago
Labels: documentation, enhancement

#370 - Move predicate_label examples to predicate_id in sssom_schema.yaml

Pull Request - State: closed - Opened by matentzn 3 months ago
Labels: documentation

#369 - Docs: `predicate_label` examples -> `predicate_id`

Issue - State: closed - Opened by joeflack4 3 months ago

#368 - Reorganise docs

Pull Request - State: closed - Opened by gouttegd 3 months ago - 5 comments
Labels: documentation

#367 - Update SSSOM Logo in docs

Pull Request - State: closed - Opened by matentzn 4 months ago - 7 comments

#365 - Docs: Are built-in prefixes in metadata required, or recommended?

Issue - State: closed - Opened by joeflack4 4 months ago - 3 comments

#363 - Update `spec.md`: TSV entity references

Pull Request - State: closed - Opened by joeflack4 5 months ago

#362 - Fix examples of SSSOM/TSV files.

Pull Request - State: closed - Opened by gouttegd 6 months ago - 1 comment

#361 - Distinguish core mappings from metadata and introduce `core_mapping_id`

Issue - State: open - Opened by matentzn 6 months ago - 2 comments

#359 - New slot mapping_id

Issue - State: open - Opened by nichtich 6 months ago - 28 comments

#358 - Update documentation for entity reference to clarify CURIE/URI type

Pull Request - State: closed - Opened by matentzn 6 months ago - 6 comments

#357 - Change slot_uri for literal

Pull Request - State: closed - Opened by matentzn 6 months ago

#356 - Remove slot_uri mapping from literal mapping

Pull Request - State: closed - Opened by matentzn 6 months ago

#355 - Fixes #354

Pull Request - State: closed - Opened by hrshdhgd 6 months ago

#354 - [repo hygeine] Move everything mkdocs related to a dev dependency

Issue - State: closed - Opened by cmungall 6 months ago - 2 comments

#353 - upgrade `mkdocs-mermaid2-plugin` major version

Pull Request - State: closed - Opened by sujaypatil96 6 months ago

#352 - Add recommended pronunciation to FAQ

Issue - State: open - Opened by DavidFichtmueller 6 months ago - 6 comments
Labels: documentation

#351 - Shouldn't URL of the dataset also be included?

Issue - State: open - Opened by entin-hun 7 months ago - 3 comments

#350 - Distinguish candidate mappings and validated mappings

Issue - State: closed - Opened by huanyu-li 8 months ago - 2 comments

#349 - Add curie_map element to data model

Pull Request - State: closed - Opened by matentzn 8 months ago - 1 comment

#348 - Similarity Score - usage question

Issue - State: open - Opened by dr-shorthair 8 months ago - 7 comments

#347 - Add new slot "mapping_status" (mapping lifecycle) to SSSOM core model

Pull Request - State: closed - Opened by matentzn 8 months ago - 3 comments

#346 - Update gendoc to copy subdirectories

Pull Request - State: closed - Opened by matentzn 9 months ago

#345 - [New metadata element]: status

Issue - State: open - Opened by dr-shorthair 9 months ago - 15 comments

#344 - How to associate labels to ids in repeated slots

Issue - State: open - Opened by dr-shorthair 9 months ago - 3 comments
Labels: documentation

#343 - How to order repeated slots in TSV

Issue - State: closed - Opened by dr-shorthair 9 months ago - 1 comment

#341 - Fix link to schema in overview document

Pull Request - State: closed - Opened by matentzn 10 months ago - 1 comment

#340 - In SSSOM draft the link to 'SSSOM schema' is broken

Issue - State: closed - Opened by paulacalipho 10 months ago - 1 comment

#339 - Extend what's allowed in `curie_map` to enable extended prefix maps

Issue - State: open - Opened by cthoyt 10 months ago - 2 comments

#336 - Encoding license information (or lack thereof)

Issue - State: open - Opened by gouttegd 11 months ago - 4 comments

#335 - Fix documentation build/deployment Action

Pull Request - State: closed - Opened by sujaypatil96 11 months ago - 4 comments

#334 - Ensure that github action workflow deploys custom docs

Pull Request - State: closed - Opened by matentzn 11 months ago

#330 - The spec/doc should be reorganised

Issue - State: closed - Opened by gouttegd 11 months ago - 7 comments

#328 - Dealing with non-standard slots

Issue - State: closed - Opened by gouttegd 11 months ago - 41 comments

#327 - Add WPCI2023 to Presentations list

Pull Request - State: closed - Opened by cthoyt 11 months ago

#326 - Add "related docs" menu item to documentation page

Pull Request - State: closed - Opened by matentzn 11 months ago

#325 - Considerations on interoperability and evolution

Issue - State: open - Opened by gouttegd 11 months ago - 17 comments

#324 - Improve documentation: What a mapping is... and is not.

Issue - State: open - Opened by joeflack4 12 months ago - 6 comments

#322 - Documentation issue: can’t find any “metadata elements labelled with L”

Issue - State: closed - Opened by gouttegd about 1 year ago - 2 comments

#321 - JSON serialisation format is woefully underspecified

Issue - State: open - Opened by gouttegd about 1 year ago - 17 comments

#320 - Recommend that YAML keys be sorted by "spec order".

Pull Request - State: closed - Opened by gouttegd about 1 year ago - 1 comment

#319 - Recommend that YAML keys be alphabetically sorted.

Pull Request - State: closed - Opened by gouttegd about 1 year ago - 1 comment

#317 - Change sempav to semapv in the tutorial page

Pull Request - State: closed - Opened by jmillanacosta about 1 year ago

#316 - Issues with constraints on the `mapping_justification` slot

Issue - State: open - Opened by gouttegd about 1 year ago - 1 comment

#315 - `match_string` description update

Pull Request - State: closed - Opened by joeflack4 about 1 year ago

#314 - Request: Enable the possibility of adding unique identifiers for mappings

Issue - State: open - Opened by alko-k about 1 year ago - 1 comment

#313 - Landing page needs high-level motivation

Issue - State: open - Opened by cthoyt about 1 year ago - 1 comment

#310 - Document interpretation of mappings in data analysis

Issue - State: open - Opened by sbello about 1 year ago - 5 comments
Labels: documentation

#309 - Capturing the time of mapping review

Issue - State: open - Opened by gouttegd about 1 year ago - 7 comments
Labels: question, discussion

#308 - Add details on manual mapping curation in docs

Pull Request - State: closed - Opened by matentzn about 1 year ago

#307 - Standardize reference to `oboInOwl` in spec.md

Pull Request - State: closed - Opened by cthoyt about 1 year ago

#306 - Clarifying descriptions of various properties

Pull Request - State: closed - Opened by matentzn about 1 year ago

#305 - Clarify meaning of slots that exist both at mapping-level and at mapping set-level

Issue - State: closed - Opened by gouttegd about 1 year ago - 21 comments

#304 - Do not allow free-form text in EntityReference fields

Issue - State: closed - Opened by gouttegd about 1 year ago

#303 - Run `make all`

Pull Request - State: closed - Opened by cthoyt about 1 year ago

#302 - Fix SSSOM Schema not having bijective prefix map

Pull Request - State: closed - Opened by cthoyt about 1 year ago - 4 comments

#301 - Add sssom_schema.yaml to projects/

Issue - State: open - Opened by puja-trivedi about 1 year ago - 3 comments

#300 - Add basic version of OMOP mappings guide to SSSOM

Pull Request - State: closed - Opened by matentzn about 1 year ago

#299 - Add docs for setting up a basic mapping commons

Pull Request - State: closed - Opened by matentzn about 1 year ago

#298 - Add guide for tool implementors

Pull Request - State: closed - Opened by matentzn about 1 year ago

#297 - Add guide for tool implementors

Issue - State: closed - Opened by matentzn about 1 year ago

#296 - [New metadata element]: similarity_threshold

Issue - State: open - Opened by matentzn about 1 year ago

#295 - Add mapping_set_version to MappingSet metadata

Pull Request - State: closed - Opened by matentzn about 1 year ago

#294 - Fix publication_date

Pull Request - State: closed - Opened by matentzn about 1 year ago - 1 comment

#293 - Missing property on web page

Issue - State: closed - Opened by jonquet about 1 year ago - 1 comment

#292 - Add OHDSI poster presentation to docs

Pull Request - State: closed - Opened by matentzn over 1 year ago

#291 - Update sssom-schema as well

Pull Request - State: closed - Opened by matentzn over 1 year ago

#290 - Release process documented

Pull Request - State: closed - Opened by hrshdhgd over 1 year ago

#289 - Package context files through `make`

Pull Request - State: closed - Opened by hrshdhgd over 1 year ago

#288 - Document the SSSOM release pipeline

Issue - State: closed - Opened by matentzn over 1 year ago - 4 comments

#287 - Fix semapv namespace in SSSOM schema

Pull Request - State: closed - Opened by matentzn over 1 year ago - 1 comment

#286 - Schema does not clearly prescribe how to interpret SSSOM in OWL

Issue - State: open - Opened by matentzn over 1 year ago - 2 comments

#285 - Issues around canonical ordering

Pull Request - State: closed - Opened by matentzn over 1 year ago - 7 comments