| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 4 hours | Narrow search to only uploaded traits.HEADmain | Frederick Muriuki Muriithi | |
| 35 hours | Collapse the DataTables' viewport if there's less data. | Frederick Muriuki Muriithi | |
| 2 days | Use positional parameters rather than named ones. | Frederick Muriuki Muriithi | |
| Named parameters were causing problems on staging, where the names would be converted into bytestrings and then used to index into the dictionaries, leading to `KeyError` exceptions. | |||
| 2 days | Add notification for users that data is not saved yet. | Frederick Muriuki Muriithi | |
| 2 days | Use pathlib.Path object for file paths. | Frederick Muriuki Muriithi | |
| 9 days | Allow users to provide transposed files. | Frederick Muriuki Muriithi | |
| 9 days | Fix documentation: The rows and columns were interchanged in docs. | Frederick Muriuki Muriithi | |
| 2025-06-12 | Allow a publication to *NOT* have a PubMed ID. | Frederick Muriuki Muriithi | |
| 2025-06-12 | Create a visual separation of fields. | Frederick Muriuki Muriithi | |
| 2025-06-12 | Improve publication fetching for datatables. | Frederick Muriuki Muriithi | |
| 2025-06-12 | Improve logger setup. | Frederick Muriuki Muriithi | |
| 2025-06-11 | Limit returned results | Frederick Muriuki Muriithi | |
| Limit the number of results returned to make page more responsive. This is buggy at this point — it doesn't do exactly what I expect, e.g. when I attempt to scroll, or use pagination, it doesn't actually display all the pages as expected. | |||
| 2025-06-11 | Enable server-side searching. | Frederick Muriuki Muriithi | |
| 2025-06-11 | Specify searchable columns. | Frederick Muriuki Muriithi | |
| 2025-06-11 | Fix issues caught by linter. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Display the success page. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Bug: The Phenotype datasets need the InbredSet.Name as a prefix | Frederick Muriuki Muriithi | |
| The Phenotype datasets need the InbredSet.Name, (not the InbredSet.InbredSetCode) as a prefix for the data to be found and listed in the GeneNetwork menu. | |||
| 2025-06-10 | Pass on the publication to the next job. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Bug: Fix logging. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Cleanup UI detritus. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Provide handler for `load-new-phenotypes-data` jobs. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Provide generalised success and error handling for the jobs. | Frederick Muriuki Muriithi | |
| 2025-06-10 | On success, redirect to job status check page. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Display the error. | Frederick Muriuki Muriithi | |
| 2025-06-10 | Set loglevel for background job's launcher. | Frederick Muriuki Muriithi | |
| 2025-06-05 | Request token for use with script to update authorisations | Frederick Muriuki Muriithi | |
| After the script has completed loading the data into the database, the user who uploads the data will need to access the data they've uploaded. This commit requests a new token to use with the script for updating the authorisations as appropriate, to grant the user access to their data. | |||
| 2025-06-03 | Save data with `LOAD DATA INFILE …` query | Frederick Muriuki Muriithi | |
| To help speed up the saving of the data (for really huge files) into the database, use the `LOAD DATA INFILE …` command if available, and if not fallback to the one using raw queries. | |||
| 2025-06-03 | Increase number of rows per query. | Frederick Muriuki Muriithi | |
| 2025-06-03 | Debug the query: useful to figure out what's happening. | Frederick Muriuki Muriithi | |
| 2025-06-03 | Memory saving: Don't reload saved data | Frederick Muriuki Muriithi | |
| We already have all the data in memory, so we do not need to reload it and keep yet another copy. | |||
| 2025-06-02 | Add some debugging statements. | Frederick Muriuki Muriithi | |
| 2025-06-02 | Parametrize the "DataId" column for different tables. | Frederick Muriuki Muriithi | |
| 2025-06-02 | Explicitly query for newly entered data. | Frederick Muriuki Muriithi | |
| The `cursor.executemany()` call only returned the last row that was inserted, rather than ALL the rows. This is not the correct thing to do, therefore, this commit fixes that by explicitly querying for all the newly entered data. | |||
| 2025-05-30 | Add dataset_id and bundle path to job metadata. | Frederick Muriuki Muriithi | |
| 2025-05-30 | Fix typo: Fix table name. | Frederick Muriuki Muriithi | |
| 2025-05-30 | Bug: Loop until the data is exhausted. | Frederick Muriuki Muriithi | |
| 2025-05-30 | Fix typo, and bug. | Frederick Muriuki Muriithi | |
| 2025-05-30 | Fix indentation. | Frederick Muriuki Muriithi | |
| 2025-05-30 | Use full table names rather than aliases | Frederick Muriuki Muriithi | |
| Using aliases leads to errors when you have to use table locking to prevent data corruption. This commit updates queries to use the full table names rather than aliases, in order to prevent such troubles. | |||
| 2025-05-28 | Add javascript debugging function. | Frederick Muriuki Muriithi | |
| 2025-05-19 | Handle case where the given publication_id does not exist. | Frederick Muriuki Muriithi | |
| 2025-05-19 | Provide extra metadata to the job. | Frederick Muriuki Muriithi | |
| 2025-05-19 | Provide missing URI to the MariaDB database to the script. | Frederick Muriuki Muriithi | |
| 2025-05-19 | Add function to save the numerical data for phenotypes. | Frederick Muriuki Muriithi | |
| 2025-05-19 | Setup log format for the application. | Frederick Muriuki Muriithi | |
| 2025-05-12 | Use builtin functions to compute log level. | Frederick Muriuki Muriithi | |
| 2025-05-12 | Break "merge file" race-condition | Frederick Muriuki Muriithi | |
| Multiple requests/threads were attempting to merge the same file, leading to race conditions, and sometimes, rarely, it would lead to actual data corruption. | |||
| 2025-05-12 | BugFix: Don't scroll to top of page on clicking "Browse" buttons. | Frederick Muriuki Muriithi | |
| This fixes the behaviour where clicking the "Browse" buttons on any of the resumable elements, the viewport would scroll to the top of the page. | |||
| 2025-05-09 | Use more of the screen width for content on smaller screens. | Frederick Muriuki Muriithi | |
| Display only the links and main content on screens smaller than 20 CSS inches — the idea is that laptop screens and smaller will only display the links and the main content, leaving the sidebar content hidden. | |||
| 2025-05-05 | Init setup and script for async job to load phenotypes into database | Frederick Muriuki Muriithi | |
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index : gn-uploader | |
| gn-uploader: Data uploader for GeneNetwork |
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