| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-09-22 | Test heatmap creation from serialized figure | Frederick Muriuki Muriithi | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Attempt using the figure, serialized as JSON, to display the clustered heatmap. | |||
| 2021-09-20 | Prevent the default submit action | Frederick Muriuki Muriithi | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Prevent the default submit action. | |||
| 2021-09-20 | Fix id used. | Frederick Muriuki Muriithi | |
| 2021-09-20 | Move "Clustered Heatmap" button to separate form | Frederick Muriuki Muriithi | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Move the button out of the "export_form" into a new "heatmaps_form" to avoid some weird JS interaction that showed up. | |||
| 2021-09-20 | Implement proof-of-concept code to submit data | Frederick Muriuki Muriithi | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Implement some javascript to activate the "Clustered Heatmap" button. This commit provides a proof-of-concept implementation to help with identifying the requirements for sending and receiving of the heatmaps data. | |||
| 2021-09-20 | Provide UI elements for clustered heatmap generation | Frederick Muriuki Muriithi | |
| Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * wqflask/wqflask/collect.py: provide hard-coded URL for testing * wqflask/wqflask/templates/collections/view.html: provide button Provide a button to trigger the heatmap generation. As a test, we also provide a hard-coded URL for the API endpoint to get the heatmap data. | |||
| 2021-09-16 | wqflask: views: Redirect to the correct URL after phenotype update | BonfaceKilz | |
| 2021-09-14 | Replace / with _ in the mapping results filename, due to / causing issues ↵ | zsloan | |
| with being translated to directories | |||
| 2021-09-14 | Replace / with _ in the file hashes in rqtl_mapping.py, since they get ↵ | zsloan | |
| translated to directories | |||
| 2021-09-13 | Change mapping export filename to use the path passed from run_mapping, ↵ | zsloan | |
| instead of the generic mapping_results.csv | |||
| 2021-09-13 | Change mapping export filename to use the trait hash | zsloan | |
| 2021-09-13 | Add trait name and trait hash to exported mapping results | zsloan | |
| 2021-09-13 | Include some extra metadata in the mapping page details (in addition to the ↵ | zsloan | |
| figure itself) | |||
| 2021-09-13 | Change Genotype File text to only show the meaningful genotype deescription | zsloan | |
| 2021-09-13 | Temporarily point the View in GN1 button to gn1-lily.genenetwork.org since ↵ | zsloan | |
| some features aren't working on gn1.genenetwork.org yet | |||
| 2021-09-11 | Add Jupyter Notebook Launcher to Tools dropdown menu | jgart | |
| 2021-09-10 | Fix issue with the way the template was checking if genofile_string was set; ↵ | zsloan | |
| it was receiving an empty string, so the previous logic made it think there was a genofile string when there wasn't one | |||
| 2021-09-10 | Removed encoding, since it's apparently not needed since the Python 3 ↵ | zsloan | |
| switchover (and was causing there to be no matches between user IDs and groups) | |||
| 2021-09-09 | Change trait name to display name in the metadata at the top of the page (so ↵ | zsloan | |
| group codes will be includes in phenotype IDs | |||
| 2021-09-09 | Replaced trait name with trait display name in display_mapping_results so ↵ | zsloan | |
| the group codes will be includes in phenotype IDs | |||
| 2021-09-07 | Add trait hash and datetime to mapping figure | zsloan | |
| 2021-09-07 | Add timer to loading page to track how long the process has been running | zsloan | |
| 2021-09-05 | Fixed issue that caused sample data to not be fetched correctly; there's ↵ | zsloan | |
| something wrong with the 'get_probeset_data' function (not sure why this function exists) | |||
| 2021-09-03 | Allow categorical_var_list to be passed as a template variable | zsloan | |
| 2021-09-03 | Fix issue that caused javascript to not work on the R/qtl mapping result ↵ | zsloan | |
| page when permutations weren't used (because it wrongly expected the permutation histogram to always exist) | |||
| 2021-09-03 | Fix issue where values written to phenotype file for R/qtl sometimes had ↵ | zsloan | |
| trailing decimal values by grounding to 3 places past the decimal | |||
| 2021-08-25 | Fix issue where correlation results weren't included parents/f1s | zsloan | |
| 2021-08-25 | Fixed issue in get_diff_of_vals that caused the diff to be calculated wrong ↵ | zsloan | |
| (due to one set of values being rounded to 3 digits and the other not | |||
| 2021-08-25 | Add map scale option that was missing for groups with only a single genotype ↵ | zsloan | |
| file | |||
| 2021-08-25 | Fix issue that could cause an error when doing cM mapping | zsloan | |
| 2021-08-25 | Fix issue that could cause mapping_scale to not be set correctly in ↵ | zsloan | |
| show_trait.py | |||
| 2021-08-23 | Removed unused variable from list of 'wanted' variables for mapping | zsloan | |
| 2021-08-23 | Fixed issue with the way categorical_vars and perm_strata were being passed ↵ | zsloan | |
| to the template | |||
| 2021-08-23 | Account for situations where the minimum permutation value is also above ↵ | zsloan | |
| webqtlConfig.MAXLRS; previously threw an error | |||
| 2021-08-23 | Fix get_perm_strata to usethe Ids for case attributes instead of names + ↵ | zsloan | |
| allow perm_strata to be passed to the template | |||
| 2021-08-23 | Fix the way categorical_var_list is set to account for case attribute Ids ↵ | zsloan | |
| being keys now instead of names | |||
| 2021-08-23 | Include categorical_vars in mapping_results.html so they're included when ↵ | zsloan | |
| recomputing | |||
| 2021-08-23 | For some reason sample_data was being set twice, and the second time used a ↵ | zsloan | |
| test function that does not exclude parents/f1s (causing the N to be wrong if parents/f1s exist) | |||
| 2021-08-20 | Fixed some logic in trait.py that could cause a problem if a dataset_name ↵ | zsloan | |
| was passed that wasn't Temp | |||
| 2021-08-20 | Fix issue where attempting to get the diff of vals for Temp traits was ↵ | zsloan | |
| causing an error | |||
| 2021-08-20 | startup_config.py: Add DebugToobarExtension for wsgi DEBUG mode | BonfaceKilz | |
| * wqflask/utility/startup_config.py (app_config): Add DebugToolbarExtension | |||
| 2021-08-19 | Change color for Submit button when selecting covariates + move Back button ↵ | zsloan | |
| to the far right | |||
| 2021-08-19 | Fixed R/qtl 'select covariates' buttons to be the same as the changed ones ↵ | zsloan | |
| for GEMMA | |||
| 2021-08-19 | Fixed issue in JS that caused filter_by_value to not work for case attributes | zsloan | |
| 2021-08-19 | Fixed the way the drop-down for Filter by Value set values for the case ↵ | zsloan | |
| attributes | |||
| 2021-08-19 | Added type='button' to the mapping compute buttons in order to prevent them ↵ | zsloan | |
| from being submitted twice | |||
| 2021-08-19 | Add hash of vals and diff of vals to template_vars passed to loading page in ↵ | zsloan | |
| views.py | |||
| 2021-08-19 | Fix issues caused by the attribute keys being ids instead of names + fix ↵ | zsloan | |
| issue caused by an attribute cell being empty | |||
| 2021-08-19 | Exclude attributes with only one distinct value as well | zsloan | |
| 2021-08-19 | Removed some unnecessary empty lines from loading.html JS | zsloan | |
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