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2020-10-22Merge pull request #460 from zsloan/move_styling_to_css...Move styling to csszsloan
2020-10-21Removed code setting the maximum tick value to 1.15* the max LRS/LOD if permu...zsloan
2020-10-21Ensured all Y axis ticks in the mapping figure are below the top of the figur......* wqflask/wqflask/marker_regression/display_mapping_results.py - Set LRS_LOD_Max (the top tick value) as the maximum value between the significant value (if permutations are used) and the max LRS/LOD value; previously it would set it as the significant value * 1.1 if the significant value exists and is higher than the max LRS/LOD value. zsloan
2020-10-20Fixing typo in JS code where "attribute_start_pos" said "attribute_start_post"zsloan
2020-10-20Fixed some problems with the previous attempt at resolving conflicts before m...zsloan
2020-10-20Merge branch 'testing' into move_styling_to_csszsloan
2020-10-20Added classes to replace styling in show_trait_edit_data.html to show_trait.c......* wqflask/wqflask/static/new/css/show_trait.css - Moved show_trait_edit_data.html styling to this file and changes padding for the checkbox table cell to better center it; for some reason text-align: center wasn't working and it specifically needed left-padding * wqflask/wqflask/static/new/javascript/show_trait.js - Replaced underscores with - in class names * wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js - Replaced underscores with - in class names zsloan
2020-10-20Replaced _ with - in class names (though this change will end up being unnece......* wqflask/wqflask/templates/show_trait.html - Replaced underscores with - in class names zsloan
2020-10-20Replaced one class name with a more generic "inline-div" since there are othe...zsloan
2020-10-20Made class names consistently use - instead of _ in show_trait_edit_data.html...* wqflask/wqflask/templates/show_trait_edit_data.html - replaced underscores with - zsloan
2020-10-20Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-10-19Merge branch 'testing' into scroller_testingzsloan
2020-10-15Fixed issue that caused interval map setting to not work correctly for reaper......* wqflask/wqflask/templates/show_trait_mapping_tools.html - Mistakenly reversed true/false in the reaper Interval Map option zsloan
2020-10-15Replaced the styling in show_trait_mapping_tools.html with CSS and changed so......* wqflask/wqflask/marker_regression/run_mapping.py - "manhattan_plot" is now passed as lower-case "true"/"false" to match the case of other boolean options * wqflask/wqflask/static/new/css/show_trait.css - Added classes for the styling in show_trait_mapping_tools.html * wqflask/wqflask/static/new/javascript/get_covariates_from_collection.js - Changed class name "selected_covariates" to "selected-covariates" to match class naming scheme * wqflask/wqflask/static/new/javascript/show_trait.js - Changed class name "selected_covariates" to "selected-covariates" to match class naming scheme * wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js - Changed class names from using underscore to useing "-" to match class naming scheme * wqflask/wqflask/templates/show_trait_mapping_tools.html - Replaced styling with class names and changed some styling to be more simple/consistent zsloan
2020-10-15Put the correlation descriptions inside of a div so that they could have thei...zsloan
2020-10-15Replaced styling from show_trait_transform_and_filter.html with CSS...* wqflask/wqflask/static/new/css/show_trait.css - Added styles for elements in show_trait_transform_and_filter.html * wqflask/wqflask/templates/show_trait_transform_and_filter.html - Replaced styling in template with classes zsloan
2020-10-14Removed some commented out HTMLzsloan
2020-10-14Converted show_trait_calculate_correlations.html to use CSS instead of stylin......* wqflask/wqflask/static/new/css/show_trait.css - Added styling for elements in show_trait_calculate_correlations.html and changed a few existing class names to be more reasonable * wqflask/wqflask/templates/show_trait.html - Changed the class name for the main div * wqflask/wqflask/templates/show_trait_calculate_correlations.html - Substituted direct styling with CSS and changing some styling to make the correlation method descriptions keep a reasonable width and position * wqflask/wqflask/templates/show_trait_statistics.html - Changed some class names to be better zsloan
2020-10-14Changed a couple class names because it's probably dumb to include the pixels......* wqflask/wqflask/static/new/css/show_trait.css - Changed a couple class names * wqflask/wqflask/templates/show_trait_statistics.html - Changed a couple class names zsloan
2020-10-14Moved show_trait_statistics.html styling to show_trait.css and fixed a minor ......* wqflask/wqflask/static/new/css/show_trait.css - Moved styling from show_trait_statistic.html here * wqflask/wqflask/templates/show_trait_statistics.html - Replaced styling with classes, removed some unnecessary/unused styling, and added some missing label text zsloan
2020-10-13Added styling from show_trait_details.html to show_trait.css...* wqflask/wqflask/static/new/css/show_trait.css - Added the bottom margin styling for the div containing the buttons * wqflask/wqflask/templates/show_trait_details.html - Removed some unnecessary styling and moved the styling for .btn_toolbar to show_trait.css zsloan
2020-10-13Changed styling in show_trait.html to use CSS instead...* wqflask/wqflask/static/new/css/main.css - Added CSS for min-height in table cells with checkboxes, since this would apply to all tables throughout the site * wqflask/wqflask/static/new/css/show_trait.css - Added CSS for styling that was previous in show_trait.html * wqflask/wqflask/templates/show_trait.html - Replaced directly styling with classes zsloan
2020-10-13Merge branch 'testing', remote-tracking branch 'origin' into move_styling_to_csszsloan
2020-10-13Merge pull request #456 from zsloan/misc_rob_changes...Some trait page width changeszsloan
2020-10-13Added right-alignment for trait_value_input text fields in sample table to CS...zsloan
2020-10-13Merge pull request #459 from zsloan/table_width_changes...Change some column widths/headers in search and view collection pageszsloan
2020-10-09Change some column and overall table widths for search result table and view ......* wqflask/wqflask/templates/collections/view.html - changed column widths and "Max LRS" header to "High P" * wqflask/wqflask/templates/search_result_page.html - changed column widths and "Max LRS" header to "High P" zsloan
2020-10-09Merge pull request #458 from BonfaceKilz/tests/add-extra-tests-for-collections...Tests/add extra tests for collectionsBonfaceKilz
2020-10-09Apply PEP 8 to buffer...* wqflask/wqflask/wgcna/wgcna_analysis.py: Apply pep8 * wqflask/wqflask/collect.py: Ditto * wqflask/base/trait.py: Ditto BonfaceKilz
2020-10-09Add test for process_traits from collections.py...* wqflask/tests/wqflask/test_collect.py: Add it. BonfaceKilz
2020-10-08Fixed remaining issue that applies to all dataset types...* wqflask/base/data_set.py - Fixed issue where there was an error when trying to take the len of the query results when there were no results zsloan
2020-10-08Fixed issue where new phenotype groups wouldn't be saved to the self.datasets......* wqflask/base/data_set.py - Set "group_name" as a separate variable from "name" to avoid it being used as the key in self.datasets zsloan
2020-10-08Allowed mapping method description text to shrink with screen size...* wqflask/wqflask/templates/show_trait_mapping_tools.html - Removed the "col-xs-_" class to allow the div containing mapping description text to shrink with screen size zsloan
2020-10-08Adjusted some widths/classes to allow correlation description text to expand/......* wqflask/wqflask/templates/show_trait_calculate_correlations.html - Adjusted widths of drop-down divs and removed the col-width class from the description div (the right side) so it can shrink wqwith screen size zsloan
2020-10-08Changed the min-width of trait page main div in order to allow trait descript......* wqflask/wqflask/templates/show_trait.html - Changed width of main container div to 700px zsloan
2020-10-08Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-10-08Merge pull request #452 from zsloan/authentication_bug_fix...Checked if owner_id is "none" to avoid an error when trying to access…zsloan
2020-10-08Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-10-08Merge pull request #455 from zsloan/temp_trait_scatterplot_fix...Temp Trait Scatterplot Error Fixzsloan
2020-10-08When generating links to correlation scatterplots (in corr results and corr m......* wqflask/wqflask/correlation/corr_scatter_plot.py - Create the dataset object using the group name included with Temp dataset names (which take the form "Temp_(group_name)") * wqflask/wqflask/templates/correlation_matrix.html - Change scatterplot links to include the group name if the dataset name is "Temp" * wqflask/wqflask/templates/correlation_page.html - Change scatterplot links to include the group name if the dataset name is "Temp" + a couple minor style changes zsloan
2020-10-06Merge pull request #454 from zsloan/update_docs_fix...Made change that should fix error when trying to change page text usi…zsloan
2020-10-06Made change that should fix error when trying to change page text using ckeditor...* wqflask/wqflask/docs.py - Changed query to include casting as binary to deal with certain unicode characters in ckeditor pages * wqflask/wqflask/views.py - Imported update_text from Docs since it previously wasn't updated, causing an error when attempting to update text zsloan
2020-10-06Merge pull request #453 from zsloan/index_page_textarea_fix...Index page dropdown/textarea fixzsloan
2020-10-06Fixed issue where drop-down arrows and textarea corners couldn't be clicked w......* wqflask/wqflask/templates/index_page_orig.html - Changed the left/right div's padding to prevent them from overlapping and changed the textareas' styles to make them only expandable vertically zsloan
2020-10-05Replaced "+" with "and" in transform text...* wqflask/wqflask/static/new/javascript/show_trait.js - Replaced "+" with "and" when Invert and another transform are combined and capitalized "Transform" zsloan
2020-10-05Changed the way tranform functions work...* wqflask/wqflask/static/new/javascript/show_trait.js - Changed transform options to only apply to original values, with the exception of the "invert" transform and rows where the value was set to "x" - Only run "check_if_zero_to_one_vals" once on page load instead of running it every time a transform is run - Changed Transform text to reflect when there's a combination of Invert and some other transform - Updated Reset function to use DataTables API zsloan
2020-10-05Simplified if statements...* wqflask/wqflask/static/new/javascript/initialize_show_trait_tables.js - simplified if statements to just say if(js_data.se_exists) instead of if(js_data.se_exists === true) zsloan
2020-10-05Changed order of JS imports to both make DataTables objects available to all ......* wqflask/wqflask/templates/show_trait.html - Changed order of JS imports zsloan
2020-10-05Added square root to the transform functions that are only active if there ar......* wqflask/wqflask/templates/show_trait_transform_and_filter.html - made sqrt option contingent on no negative values zsloan
2020-10-05Fixed issue that was causing SE column to not show up in the trait page table...* wqflask/wqflask/static/new/javascript/initialize_show_trait_tables.js - Apparently "true" in js_data was a boolean instead of a string, so the previous if statements weren't working properly zsloan
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