| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2022-07-19 | Add 'group' and 'tissue' selection. | Frederick Muriuki Muriithi | |
| - Build code to populate the "Group" and "Tissue" dropdown lists - Enable redirect with POST data (code 307) in case there is input error to enable the user fix their errors - Move hidden fields to macro to reduce repetition | |||
| 2022-07-19 | Implement select study | Frederick Muriuki Muriithi | |
| Implement the select study UI | |||
| 2022-07-19 | Select the platform (GeneChipId) first | Frederick Muriuki Muriithi | |
| 2022-07-07 | Rework guix.scm to use latest commit | Frederick Muriuki Muriithi | |
| Rather than specifying a specific commit in the development guix.scm this commit has the system automatically get the latest commit and use that for building the package object. | |||
| 2022-07-07 | Fix linting and typing errors | Frederick Muriuki Muriithi | |
| 2022-07-07 | Fix test | Frederick Muriuki Muriithi | |
| 2022-07-07 | Replace 'magic' with builtin 'mimetypes' | Frederick Muriuki Muriithi | |
| Use the builtin mimetypes which gives better results | |||
| 2022-07-07 | Rework styling for form elements | Frederick Muriuki Muriithi | |
| 2022-07-07 | Add filetype details to database update code | Frederick Muriuki Muriithi | |
| The filetype determines the queries to be run to update the database, therefore, this commit adds filetype information. | |||
| 2022-07-07 | Provide selection for GeneChips | Frederick Muriuki Muriithi | |
| The GeneChipId value is required for the data being inserted, so this commit provides the UI to enable selection of the chip. | |||
| 2022-07-06 | Implement UI for dataset selection | Frederick Muriuki Muriithi | |
| As part of updating the database with the new data, there is a need to select the appropriate dataset that the data belongs to, and this commit provides the UI to assist the user do that. | |||
| 2022-06-28 | Check for inconsistent columns | Frederick Muriuki Muriithi | |
| The number columns in each contents line should be equal to the nember of columns in the header line. | |||
| 2022-06-22 | Test zipfiles uploads: commit forgotten tests | Frederick Muriuki Muriithi | |
| 2022-06-22 | Test the results pages | Frederick Muriuki Muriithi | |
| 2022-06-21 | Test the progress indication feature | Frederick Muriuki Muriithi | |
| 2022-06-21 | Rename fixture: fixture gives back the redis url, not a server | Frederick Muriuki Muriithi | |
| 2022-06-21 | Update tests: Ensure errors return status code 400 | Frederick Muriuki Muriithi | |
| 2022-06-21 | Test the upload of zip files works as expected | Frederick Muriuki Muriithi | |
| - Ensure errors respond with status code 400 - Ensure error messages are displayed for any invalid zip file that is uploaded. | |||
| 2022-06-17 | Add configs for pytest | Frederick Muriuki Muriithi | |
| 2022-06-17 | Test endpoint '/parse/parse' | Frederick Muriuki Muriithi | |
| * Ensure error messages are displayed if a request is made to the '/parse/parse' endpoint with invalid, or missing data. | |||
| 2022-06-16 | Add more UI tests | Frederick Muriuki Muriithi | |
| - Test upload with missing or invalid data - Test triggering the parsing of the file | |||
| 2022-06-15 | Fix linting and type errors | Frederick Muriuki Muriithi | |
| 2022-06-15 | Setup test fixtures and initial tests for web-UI | Frederick Muriuki Muriithi | |
| 2022-06-13 | Add upload progress indicator | Frederick Muriuki Muriithi | |
| 2022-06-10 | Enable upload of zipfiles | Frederick Muriuki Muriithi | |
| 2022-06-10 | Update tests: Accept zeroes as valid values | Frederick Muriuki Muriithi | |
| 2022-06-02 | Enable user abortion of file parsing | Frederick Muriuki Muriithi | |
| Enable the user to abort the background parsing of the file. | |||
| 2022-06-02 | Expire the jobs in 14 days by default | Frederick Muriuki Muriithi | |
| 2022-06-02 | Add an error display to the progress status report | Frederick Muriuki Muriithi | |
| Enable the progress status page to show all the errors found at any point during the processing of the file. | |||
| 2022-06-02 | Provide missing argument | Frederick Muriuki Muriithi | |
| 2022-05-27 | Update documentation | Frederick Muriuki Muriithi | |
| 2022-05-27 | Remove unnecessary print statement | Frederick Muriuki Muriithi | |
| 2022-05-27 | Accept zeroes | Frederick Muriuki Muriithi | |
| 2022-05-27 | Revert "Accept exponential notation for standard-error files" | Frederick Muriuki Muriithi | |
| This reverts commit 960c1a5b831d8761a3e1716f86ded4cc5b67eea0. After meeting with Arthur, it was confirmed that the CSV file should not have values in the exponential notation. | |||
| 2022-05-20 | Accept exponential notation for standard-error files | Frederick Muriuki Muriithi | |
| 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 | |||
| 2022-05-19 | Extract progress indication from the parsing | Frederick Muriuki Muriithi | |
| Since progress indication is not part of the parsing, this commit extracts the progress indication into functions with well defined input arguments that hide the progress indication logic from the parsing function. | |||
| 2022-05-18 | Update CLI: use new error collection code | Frederick Muriuki Muriithi | |
| Use the new code that collects the errors in the CLI client. | |||
| 2022-05-18 | Remove obsoleted code. Fix linting errors. | Frederick Muriuki Muriithi | |
| Remove the old code that relied on exceptions to parse errors in the uploaded files. | |||
| 2022-05-18 | Simplify slot names and fix namedtuple type name | Frederick Muriuki Muriithi | |
| - replace `line_number` with `line` and `column_number` with `column` to save on slot name lengths. - Fix the type name for the `DuplicateHeading` namedtuple type | |||
| 2022-05-18 | Parse files with new non-exception functions | Frederick Muriuki Muriithi | |
| Parse the files with the new functions that return error objects instead of raising exceptions | |||
| 2022-05-18 | Return errors when found or None otherwise | Frederick Muriuki Muriithi | |
| This commit adds a number of functions that return the error object when an error is found, or `None` otherwise. It avoids the use of exceptions as control flow constructs. | |||
| 2022-05-11 | Remove unnecessary packages for the CLI version | Frederick Muriuki Muriithi | |
| 2022-05-11 | Update the guix definitions for the application | Frederick Muriuki Muriithi | |
| 2022-05-11 | Document generating and running qc for/with docker | Frederick Muriuki Muriithi | |
| 2022-05-11 | Tag string as a python f-string to fix error display bug | Frederick Muriuki Muriithi | |
| 2022-05-09 | Update documentation and license | Frederick Muriuki Muriithi | |
| Add documentation on how to run the development version of the GeneNetwork Quality Control application. Update the license to the agpl3+ license used by genenetwork3 | |||
 |
index : gn-uploader | |
| gn-uploader: Data uploader for GeneNetwork |
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