Version 0.9.5 python framework for importing, exporting and combining various data entries from Open Specimen and Molgenis
SORCE code can be found in src/OpenSpecimenAPIconnector/
Framework strucutre:
In general the Framework is comprised of 2 individual Levels:
- core_OS/MG: contains the core classes that handle 1 call operations like get/set/post/put for Molgenis and OpenSpecimen, the requests are generated here such that OpenSpecimen's needs are fullfilled and it generates json-formatted strings, which OpenSpecimen can read according to the different entities.
- utility_OS/MG/merge contains classes that handle combinations of the mehtods given in the core level to accomplish more complex operations (combining 2 or more API calls) like creating of collections and participants.
- It does not generate any data_files and accepts json input/csv finished data inputs. More clearly it only does operations that setup predifined structures. Use inheritance as needed (see code file template in util folders for more information)
- All further operations are then handled via python scripts that use the methods from above to implement the desired functionality.
To install the pip package after cloning run:
pip install dist/OpenSpecimenAPIconnector-0.9.5-py3-none-any.whl