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

Age	Commit message (Collapse)	Author
2 days	Genenetwork: Initialise datatable for genetic markers. HEAD main	Frederick Muriuki Muriithi

2 days	genotypes: Reorganise UI.	Frederick Muriuki Muriithi

2 days	genotypes: Refactor to consistently use monads.	Frederick Muriuki Muriithi

2 days	genotypes: Move "GET" handling out of context manager.	Frederick Muriuki Muriithi

2 days	genotypes: Setup sane defaults for creating new genotype datasets.	Frederick Muriuki Muriithi

2 days	genotypes: Delete obsolete template.	Frederick Muriuki Muriithi

2 days	genotypes: Add module-level logger.	Frederick Muriuki Muriithi

4 days	Open link in new tab/window.	Frederick Muriuki Muriithi

4 days	genotypes: Remove obsolete endpoints.	Frederick Muriuki Muriithi

4 days	genotypes: Simplify UI text.	Frederick Muriuki Muriithi

11 days	Move button to the right.	Frederick Muriuki Muriithi

12 days	Improve alignment of table column headings.	Frederick Muriuki Muriithi

12 days	Replace '#' with 'Index' in tables.	Frederick Muriuki Muriithi

12 days	Species: Improve UI text, and fix minor bug.	Frederick Muriuki Muriithi

12 days	Publication: Update UI Text.	Frederick Muriuki Muriithi
	Update the UI text for the Publications page to the text provided by @acenteno.
12 days	Change frontpage text	Frederick Muriuki Muriithi
	Update the text to the suggestion made by @acenteno. Move the sign-in button to the right.
12 days	Fix indentation: Everything is re-indented; no other changes.	Frederick Muriuki Muriithi

12 days	Add a frontpage banner image.	Frederick Muriuki Muriithi

2026-03-09	Enable download of list of errors.	Frederick Muriuki Muriithi

2026-02-18	Type-Checking: Add type hints for variable.	Frederick Muriuki Muriithi

2026-02-18	Lint: Disable some checks for specific functions.	Frederick Muriuki Muriithi

2026-02-18	Lint: Add docstrings for functions.	Frederick Muriuki Muriithi

2026-02-18	Make dataset name not editable.	Frederick Muriuki Muriithi

2026-02-18	Provide a default name for the dataset.	Frederick Muriuki Muriithi

2026-02-18	Improve tooltip message.	Frederick Muriuki Muriithi

2026-02-18	Remove link to provide more area for publication selection.	Frederick Muriuki Muriithi
	Remove the link from the publication title to allow it be more easily used for selecting the publication on the "Upload Phenotypes" page. The user has other ways for getting to a publication to edit it.
2026-02-11	Optionally render breadcrumb if no dataset defined yet.	Frederick Muriuki Muriithi

2026-02-10	Pass any set feature flags back to ourselves after authentication.	Frederick Muriuki Muriithi

2026-02-10	Make function usable outside module.	Frederick Muriuki Muriithi

2026-02-10	Samples: Redirect background job correctly on success.	Frederick Muriuki Muriithi

2026-02-09	Update configuration variable name.	Frederick Muriuki Muriithi

2026-02-06	Expose 'delete-phenotypes' feature to end users.	Frederick Muriuki Muriithi

2026-02-06	Fix flash message class.	Frederick Muriuki Muriithi

2026-01-30	Fetch and display actual details for phenotypes being deleted.	Frederick Muriuki Muriithi

2026-01-30	Narrow selection if cross-reference IDs are provided.	Frederick Muriuki Muriithi

2026-01-30	Set max-width to prevent <pre> from reflowing the page.	Frederick Muriuki Muriithi

2026-01-30	Implement UI logic to trigger phenotype deletion job.	Frederick Muriuki Muriithi

2026-01-29	Fix indentation.	Frederick Muriuki Muriithi

2026-01-29	Improve layout on small screens.	Frederick Muriuki Muriithi

2026-01-29	Trim whitespace in class names.	Frederick Muriuki Muriithi

2026-01-29	SHIM: Simplify preview UI. Hard-code container width.	Frederick Muriuki Muriithi
	This hard-codes the width of the table's container element to ensure that the overflow property is respected. Without the hard-coded width, the table - generated with javascript - overrides the page width, causing all content to reflow. We do not want that. This also get's rid of the unnecessary "card" interface.
2026-01-29	Make the "no value" indicator more explicit.	Frederick Muriuki Muriithi

2026-01-29	Remove fieldsets: They break styling.	Frederick Muriuki Muriithi

2026-01-27	Fix typos in configuration variable name.	Frederick Muriuki Muriithi

2026-01-27	Handle big deletes: Delete in batches.	Frederick Muriuki Muriithi
	Do avoid locking up the database server, or leading to sluggishness when doing huge deletes, do the deletions in chunks, with a tiny delay between each delete to free up the server.a See https://mariadb.com/docs/server/ha-and-performance/optimization-and-tuning/query-optimizations/big-deletes
2026-01-26	Provide some utilities to fetch common config variables.	Frederick Muriuki Muriithi

2026-01-26	Move the UPLOAD_DIRECTORY under the SCRATCH_DIRECTORY by default.	Frederick Muriuki Muriithi
	If the UPLOAD_DIRECTORY is not specified in the configuration file(s), then, by default, have it under the SCRATCH_DIRECTORY.
2026-01-26	Replace TEMPORARY_DIRECTORY with SCRATCH_DIRECTORY	Frederick Muriuki Muriithi
	Avoid using the terminology "TEMPORARY_DIRECTORY" which encourages use of the shared global mutable state in /tmp, that we want to move away from. Instead, we use "SCRATCH_DIRECTORY" which is an explicit specified directory for state needed for and by the gn-uploader application.
2026-01-26	Outline deletion: Create scaffolding for idea.	Frederick Muriuki Muriithi

2026-01-26	Initialise forms to help delete phenotypes.	Frederick Muriuki Muriithi