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2021-09-22Cleanup code...Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Remove unnecessary console.log(...) statements that were used in development * Re-arrange the html elements * Rename element id Frederick Muriuki Muriithi
2021-09-22Test heatmap creation from serialized figure...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. Frederick Muriuki Muriithi
2021-09-20Returned the GN1 url to gn1.genenetwork.org since it's apparently working wel...zsloan
2021-09-20Removed the reaper_version selection option, since original qtlreaper is no l...zsloan
2021-09-20Added back the option to edit privileges on trait pages, since the metadata e...zsloan
2021-09-20Prevent the default submit action...Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi * Prevent the default submit action. Frederick Muriuki Muriithi
2021-09-20Fix id used.Frederick Muriuki Muriithi
2021-09-20Move "Clustered Heatmap" button to separate form...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. Frederick Muriuki Muriithi
2021-09-20Implement proof-of-concept code to submit data...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. Frederick Muriuki Muriithi
2021-09-20Provide UI elements for clustered heatmap generation...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. Frederick Muriuki Muriithi
2021-09-16wqflask: views: Redirect to the correct URL after phenotype updateBonfaceKilz
2021-09-14Replace / with _ in the mapping results filename, due to / causing issues wit...zsloan
2021-09-14Replace / with _ in the file hashes in rqtl_mapping.py, since they get transl...zsloan
2021-09-13Change mapping export filename to use the path passed from run_mapping, inste...zsloan
2021-09-13Change mapping export filename to use the trait hashzsloan
2021-09-13Add trait name and trait hash to exported mapping resultszsloan
2021-09-13Include some extra metadata in the mapping page details (in addition to the f...zsloan
2021-09-13Change Genotype File text to only show the meaningful genotype deescriptionzsloan
2021-09-13Temporarily point the View in GN1 button to gn1-lily.genenetwork.org since so...zsloan
2021-09-11Add Jupyter Notebook Launcher to Tools dropdown menujgart
2021-09-10Fix issue with the way the template was checking if genofile_string was set; ...zsloan
2021-09-10Removed encoding, since it's apparently not needed since the Python 3 switcho...zsloan
2021-09-09Merge pull request #600 from zsloan/feature/add_more_mapping_metadata...Feature/add more mapping metadatazsloan
2021-09-09Change trait name to display name in the metadata at the top of the page (so ...zsloan
2021-09-09Replaced trait name with trait display name in display_mapping_results so the...zsloan
2021-09-07Add trait hash and datetime to mapping figurezsloan
2021-09-07Add timer to loading page to track how long the process has been runningzsloan
2021-09-05Fixed issue that caused sample data to not be fetched correctly; there's some...zsloan
2021-09-03Allow categorical_var_list to be passed as a template variablezsloan
2021-09-03Fix issue that caused javascript to not work on the R/qtl mapping result page...zsloan
2021-09-03Fix issue where values written to phenotype file for R/qtl sometimes had trai...zsloan
2021-08-25Fix issue where correlation results weren't included parents/f1szsloan
2021-08-25Fixed issue in get_diff_of_vals that caused the diff to be calculated wrong (...zsloan
2021-08-25Add map scale option that was missing for groups with only a single genotype ...zsloan
2021-08-25Fix issue that could cause an error when doing cM mappingzsloan
2021-08-25Fix issue that could cause mapping_scale to not be set correctly in show_trai...zsloan
2021-08-24README: on installing GN2Pjotr Prins
2021-08-24README: minor editsPjotr Prins
2021-08-24README: install with guix profilePjotr Prins
2021-08-23Merge pull request #599 from zsloan/bug/fix_mapping_recompute_issue...Bug/fix mapping recompute issuezsloan
2021-08-23Removed unused variable from list of 'wanted' variables for mappingzsloan
2021-08-23Fixed issue with the way categorical_vars and perm_strata were being passed t...zsloan
2021-08-23Account for situations where the minimum permutation value is also above webq...zsloan
2021-08-23Fix get_perm_strata to usethe Ids for case attributes instead of names + allo...zsloan
2021-08-23Fix the way categorical_var_list is set to account for case attribute Ids bei...zsloan
2021-08-23Include categorical_vars in mapping_results.html so they're included when rec...zsloan
2021-08-23For some reason sample_data was being set twice, and the second time used a t...zsloan
2021-08-20Fixed some logic in trait.py that could cause a problem if a dataset_name was...zsloan
2021-08-20Fix issue where attempting to get the diff of vals for Temp traits was causin...zsloan
2021-08-20startup_config.py: Add DebugToobarExtension for wsgi DEBUG mode...* wqflask/utility/startup_config.py (app_config): Add DebugToolbarExtension BonfaceKilz
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