Age | Commit message (Collapse) | Author |
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show_trait.css, replaced _ with - in class names, and changed the checkbox table cell styling to better center it
* 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
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unnecessary with the scroller changes that move the table initialization to a separate file)
* wqflask/wqflask/templates/show_trait.html - Replaced underscores with - in class names
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other divs that only have the styling of being inline
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* wqflask/wqflask/templates/show_trait_edit_data.html - replaced underscores with -
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reaper mapping
* wqflask/wqflask/templates/show_trait_mapping_tools.html - Mistakenly reversed true/false in the reaper Interval Map option
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some styling to be more simple/consistent and deal better with different screen sizes
* 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
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their width set in the same way as other sections of the correlation/mapping options
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* 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
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styling in the template
* 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
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pixels in the name since that might change later
* 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
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issue where not all figures had "Select Group:" before the group selection drop-down
* 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
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* 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
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* 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
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Some trait page width changes
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CSS file instead of setting it as a style in initialize_show_trait_tables.js
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Change some column widths/headers in search and view collection pages
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collections table + changed "Max LRS" column header to "High P"
* 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"
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Tests/add extra tests for collections
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* wqflask/wqflask/wgcna/wgcna_analysis.py: Apply pep8
* wqflask/wqflask/collect.py: Ditto
* wqflask/base/trait.py: Ditto
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* wqflask/tests/wqflask/test_collect.py: Add it.
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* 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
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self.datasets property because the group name was used as the key (instead of the group name + "Publish", which is the full dataset name for phenotypes)
* 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
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* 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
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expand/shrink with screen size and make drop-downs a better width
* 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
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descriptions to shrink to a smaller width (but not too small)
* wqflask/wqflask/templates/show_trait.html - Changed width of main container div to 700px
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Checked if owner_id is "none" to avoid an error when trying to access…
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Temp Trait Scatterplot Error Fix
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matrix), append the group name to Temp dataset names so temp traits can be used in scatterplot
* 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
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Made change that should fix error when trying to change page text usi…
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* 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
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Index page dropdown/textarea fix
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with certain window widths
* 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
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* wqflask/wqflask/static/new/javascript/show_trait.js - Replaced "+" with "and" when Invert and another transform are combined and capitalized "Transform"
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* 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
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* 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)
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other JS code and move all local JS code below third-party libraries
* wqflask/wqflask/templates/show_trait.html - Changed order of JS imports
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are no negative values
* wqflask/wqflask/templates/show_trait_transform_and_filter.html - made sqrt option contingent on no negative values
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* 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
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fixed them to take into account blocked samples
* wqflask/wqflask/static/new/javascript/show_trait.js - Changed transform/normalize functions to use DataTables API to fetch and change values and also changed the way that code is structured to avoid a lot of duplicated code
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input elements in the form (so form submission can work with Scroller)
* wqflask/wqflask/static/new/javascript/show_trait.js - Added function "get_table_contents_for_form_submit" that is called with submit_special (that is called for correlations and mapping from the trait page)
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and show_trait_mapping_tools.js. The latter now just calls the function from the former
* wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js - Everything in this file was previously inside its own function, which made its functions unable to access the functions from show_trait.js (and necessitated it having its own "copy" of the submit_special function
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resource manager page with newly added datasets
* wqflask/wqflask/resource_manager.py - Only get owner user info conditional on owner_id not being "none" (which it will be by default for newly added datasets). Previously it would throw an error due to "owner_info" being None
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corr_matrix_error_fix
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shared samples are < 2 instead of 0; this fixed the error when running
the correlation matrix, but results in the PCA traits having no values
* wqflask/wqflask/correlation_matrx/show_corr_matrix.py - changed
"if num_overlap == 0" to "if num_overlap < 2" because correlations can't
be run if there are fewer than 2 shared samples (and previously would
throw an error if there was exactly 1 shared sample)
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