gn-uploader - gn-uploader: Data uploader for GeneNetwork

Age	Commit message (Collapse)	Author
2022-04-25	Advance seek_position on error	Frederick Muriuki Muriithi
	Advance the seek position, once we have yielded up an error to causing an infinite loop in certain conditions, where the `parse_errors` function ends up resuming the gile in the same position once it experiences an error.
2022-04-25	`take`: function to select a few items from an iterable	Frederick Muriuki Muriithi
	To avoid processing all the items in an iterable, the `take` function is added in this commit. It realised a limited number (specified at call time) of items from the iterable given.
2022-04-25	docs: update documentation on checks	Frederick Muriuki Muriithi

2022-04-25	UI: Add index page and basic styling	Frederick Muriuki Muriithi
	Add template(s) for the index page and some basic styling to get started with.
2022-04-25	Ignore the instance directory if present in the repository	Frederick Muriuki Muriithi
	Ignore the flask instance directory if it is present in the repository. The directory being present in the repository is mostly a development convenience feature.
2022-04-21	Collect all the errors	Frederick Muriuki Muriithi
	Build a function to collect all the parsing errors into a "sequence" of dict objects containing the issues found.
2022-04-20	Add scaffolding for web app	Frederick Muriuki Muriithi
	Add a basic scaffolding for the web interface to the quality-control application.
2022-04-20	Update parameters for tests	Frederick Muriuki Muriithi
	Derive a "correct" sample file from an existing sample file with errors for testing with large files. Fix issue caught by test.
2022-04-20	Fix linting issues	Frederick Muriuki Muriithi

2022-04-13	Implement remaining file parsing tests	Frederick Muriuki Muriithi
	* Implement remaining file parsing tests and some helpers functions needed for ensuring the tests work.
2022-04-13	Check for `DuplicateHeader` errors in `parse_file` function	Frederick Muriuki Muriithi

2022-04-13	Update `valid_header` to pass check for duplicated headers	Frederick Muriuki Muriithi

2022-04-13	Add test for duplicate headers	Frederick Muriuki Muriithi

2022-04-13	Implement test for parsing that fails	Frederick Muriuki Muriithi
	* Improve tests that ensure parsing fails in case the file has errors * Add strains.csv file * Implement minimum viable functionality that passes the implemented tests
2022-04-13	Add tests outline for file parsing	Frederick Muriuki Muriithi
	Add dummy failing tests and a stub for the parsing of the files
2022-04-13	Update Exception name	Frederick Muriuki Muriithi
	Change the exception name to be more descriptive.
2022-04-13	Add sample files for tests	Frederick Muriuki Muriithi
	Add some sample files to be used for testing that the parsing works as expected.
2022-04-11	Add missing `__init__.py` to prevent import errors	Frederick Muriuki Muriithi
	Without the `tests/__init__.py` file, the tests directory was not considered a package and therefore, running: $ pytest would fail with import error notifications. This fixes that.
2022-04-11	Implement MVI for headers validity checking function	Frederick Muriuki Muriithi
	Add a minimum viable implementation that passes the tests for the function that checks for the validity of the headers
2022-04-11	Add tests for headers	Frederick Muriuki Muriithi
	* Add tests to check for validity of the headers * Add stubs for the tests
2022-04-11	Implement MVP for valid_value functions	Frederick Muriuki Muriithi
	* Implement the minimum viable functions for the average and standard error `valid_value` functions.
2022-04-11	Implement tests and stubs for functions under test	Frederick Muriuki Muriithi

2022-04-11	Set up initial, failing tests for cell values	Frederick Muriuki Muriithi

2022-04-11	Initialise the QC repository	Frederick Muriuki Muriithi