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

Age	Commit message (Collapse)	Author
2022-05-20	Use standard-error rather than standard_error for consistency	Frederick Muriuki Muriithi
	The CLI scripts use "standard-error" so update the web version to fit in with that.
2022-05-20	Fix minor bugs	Frederick Muriuki Muriithi

2022-05-20	Handle errors	Frederick Muriuki Muriithi
	Implement code to handle errors in the processing of files.
2022-05-19	Update Web-UI: use new error collection paradigm	Frederick Muriuki Muriithi
	- README.org: document how to run scripts manually - manifest.scm: remove python-rq as a dependency - qc_app/jobs.py: rework job launching and processing - qc_app/parse.py: use reworked job processing - qc_app/templates/job_progress.html: display progress correctly - qc_app/templates/parse_results.html: display final results - scripts/worker.py: new worker script
2022-05-02	Optimise strain names parsing	Frederick Muriuki Muriithi
	- Use a way faster way of parsing the strains file
2022-04-28	Use sqlite3 to save the jobs metadata	Frederick Muriuki Muriithi
	* Use sqlite to save the jobs metadata and enable UI update of the progress for large files
2022-04-28	Update queuing and display results of file parsing	Frederick Muriuki Muriithi
	* Make the 'worker' functions free from needing the application context by passing all the details they need as arguments. * Enable the display of parsing results.
2022-04-26	Fix issues caught processing the jobs	Frederick Muriuki Muriithi
	* Create and push the application context for the worker functions * Fix the update of meta fields
2022-04-26	Queue file parsing jobs	Frederick Muriuki Muriithi
	Enable the queuing of file parsing jobs, since the files could be really large and take a long time to parse and present results. * etc/default_config.py: Add default config for redis server * manifest.scm: Add redis, and rq as dependencies * qc_app/__init__.py * qc_app/jobs.py: module to hold utilities for management of the jobs * qc_app/parse.py: Enqueue the job - extract file-parsing code to callable function * qc_app/templates/base.html: Enable addition of extra meta tags * qc_app/templates/job_progress.html: template to display job progress * qc_app/templates/no_such_job.html: template to indicate when a job id is invalid * quality_control/parsing.py: Add the total size parsed so far
2022-04-25	Call parsing function. Fix a few issues.	Frederick Muriuki Muriithi
	* qc_app/entry.py: Pass filetype onward to parsing endpoint * qc_app/parse.py: Call the function(s) necessary to parse a file * quality_control/errors.py: Fix argument passing to super class
2022-04-25	Implement file upload	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.
2022-04-20	Add scaffolding for web app	Frederick Muriuki Muriithi
	Add a basic scaffolding for the web interface to the quality-control application.