merge: staging into main #21
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* feat: updated beta version code * chore: update version --------- Co-authored-by: Na Yoon Kim <[email protected]>
) * feat: yaml file to validate against with for data types * wip: validation and generate functions for data types yaml file * import yaml file to validate file * wip: update yaml file and validate function for datatypes * ✨ feat: validation function for datatype description data * ✨ feat: generate function for datatype description yaml file * ✨ feat: tests for generating datatype description file * ✨ feat: tests for validating datatype description data * ✨ feat: update version for pyfairdatatools * 🐛 fix: correct function name on import * 🐛 fix: assert validation function's output * ♻️ refactor: isort * ♻️ refactor: run black on branch * ♻️ refactor: update poetry and run format * ♻️ refactor: add data type for dictionary * ♻️ refactor: import data type for dictionary * 🐛 fix: update the imports for generate * 🐛 fix: linter issue * ✨ feat: add types-pyyaml with poetry * ♻️ refactor: Add none case instead of N/A string for mypy error * 🐛 fix: black formatting issues * ♻️ refactor: add types override for classifying rules * 🚧 wip: remove pylint and pydocstyle temporarily to create builds * ♻️ refactor: parameters for tests * 🐛 fix: assert after generate * 🐛 fix: formatting * ♻️ refactor: update workflow file (upload coverage) * ♻️ refactor: update makefile, workflow, and function names
* 🔨 chore: add script to sync schemas * ✨ feat: add support for datacite 4.5 * 🐛 fix: update datacite 4.5 schema changes * 🐛 fix: update datacite 4.5 schema changes * 🐛 fix: update datacite 4.5 schema changes * 🐛 fix: update datacite 4.5 schema changes * 🐛 fix: update datacite 4.5 schema changes * 🐛 fix: remove required values * ⏪ chore: reset study_desccription schema * ✨ feat: update study_description schema (#14) * 🚧 wip: update schema * 🚧 wip: update schema * 🚧 wip: update schema * 🚧 wip: update change notes * 🔨 chore: refactor clinical trials data structure * 🔨 chore: refactor clinical trials data structure * ✨ feat: update study_description * 🔨 chore: move changes folder
* ♻️ refactor: update tests to handle validation and generation * 🚧 wip: function to data conversion * ♻️ refactor: conver pipeline function to pyfairdatatools * 🐛 fix: import modules needed * 📦 create beta builds for pipeline testing * ♻️ refactor: updates based on comments * ♻️ refactor: update convert function for updated schema * ♻️ refactor: update conversion function for new schema * 🐛 fix: identifier object not in for loop
Co-authored-by: Sanjay Soundarajan <[email protected]>
* wip: study metadata * fix: ci version * fix: import * fix: import * fix: import * fix: import validate * fix: import validate * fix: import validate * fix: import style * fix: pulling schema statement * fix: validate readme * fix: updated schemas * fix: updated study description creation * fix: validation error handling * fix: validation error handling for separate metadata * fix: validation error handling * fix: validation error handling for study design * fix: comments * fix: func call * fix: remove validate call * fix: fix the full name * fix: move integration function into a generate.py
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