| Age | Commit message (Expand) | Author |
|---|---|---|
| 2020-10-09 | Change 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 |
| 2020-10-09 | Merge pull request #458 from BonfaceKilz/tests/add-extra-tests-for-collections...Tests/add extra tests for collections | BonfaceKilz |
| 2020-10-09 | Apply PEP 8 to buffer...* wqflask/wqflask/wgcna/wgcna_analysis.py: Apply pep8 * wqflask/wqflask/collect.py: Ditto * wqflask/base/trait.py: Ditto | BonfaceKilz |
| 2020-10-09 | Add test for process_traits from collections.py...* wqflask/tests/wqflask/test_collect.py: Add it. | BonfaceKilz |
| 2020-10-09 | Fix export function on traits and analysis page...* wqflask/wqflask/views.py (export_trait_excel): Write data as bytes instead of strings. See: https://stackoverflow.com/questions/32075135/python-3-in-memory-zipfile-error-string-argument-expected-got-bytes * wqflask/wqflask/show_trait/export_trait_data.py: Convert cmp function into a key function. | BonfaceKilz |
| 2020-10-09 | Update base64 conversion | BonfaceKilz |
| 2020-10-09 | Replace string concat("+") with python3's f-string | BonfaceKilz |
| 2020-10-09 | Replace "ncores" with "nthreads" param to r_CTLscan | BonfaceKilz |
| 2020-10-09 | Use built-in array as a named import...* wqflask/wqflask/wgcna/wgcna_analysis.py (WGCNA.render_image): Use named import method. This is a workaround for using explicitly using "array" which conflicts with something else in the namespace. | BonfaceKilz |
| 2020-10-09 | Update base64 conversion...* wqflask/wqflask/wgcna/wgcna_analysis.py (WGCNA.render_image): Use Python3's base64 library from the stdlib to perform conversion. * wqflask/wqflask/ctl/ctl_analysis.py (CTL.loadImage): Ditto. | BonfaceKilz |
| 2020-10-09 | Convert cmp function into a key function...* wqflask/wqflask/correlation_matrix/show_corr_matrix.py (sortEigenVectors): Convert the comparison function into a key function. See: https://docs.python.org/3/howto/sorting.html#the-old-way-using-the-cmp-parameter | BonfaceKilz |
| 2020-10-09 | Apply PEP-8 formatting | BonfaceKilz |
| 2020-10-08 | Fixed 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 |
| 2020-10-08 | Fixed 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 |
| 2020-10-08 | Allowed 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 |
| 2020-10-08 | Adjusted 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 |
| 2020-10-08 | Changed 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 |
| 2020-10-08 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan |
| 2020-10-08 | Merge pull request #452 from zsloan/authentication_bug_fix...Checked if owner_id is "none" to avoid an error when trying to access… | zsloan |
| 2020-10-08 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing | zsloan |
| 2020-10-08 | Merge pull request #455 from zsloan/temp_trait_scatterplot_fix...Temp Trait Scatterplot Error Fix | zsloan |
| 2020-10-08 | When 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 |
| 2020-10-06 | Merge pull request #454 from zsloan/update_docs_fix...Made change that should fix error when trying to change page text usi… | zsloan |
| 2020-10-06 | Made 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 |
| 2020-10-06 | Merge pull request #453 from zsloan/index_page_textarea_fix...Index page dropdown/textarea fix | zsloan |
| 2020-10-06 | Fixed 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 |
| 2020-10-05 | Replaced "+" 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 |
| 2020-10-05 | Changed 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 |
| 2020-10-05 | Simplified 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 |
| 2020-10-05 | Changed order of JS imports to both make DataTables objects available to all ......* wqflask/wqflask/templates/show_trait.html - Changed order of JS imports | zsloan |
| 2020-10-05 | Added 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 |
| 2020-10-05 | Fixed 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 |
| 2020-10-02 | Converted transform functions to use DataTables API to work with scroller + f......* 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 | zsloan |
| 2020-10-02 | Added function that pulls input data out of table and inserts it as hidden in......* 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) | zsloan |
| 2020-10-02 | There were two copies of the "submit_special" function in both show_trait.js ......* 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 | zsloan |
| 2020-10-02 | Checked if owner_id is "none" to avoid an error when trying to access the res......* 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 | zsloan |
| 2020-10-02 | Ignore utf-8 encoding errors...* wqflask/base/trait.py (retrieve_trait_info): Add extra param to ignore errors such as: "utf-8 codec can't decode byte 0xb5 in position 0: invalid start byte" thrown in Python3. | BonfaceKilz |
| 2020-10-02 | Split author's list into it's own variable...* wqflask/wqflask/templates/correlation_page.html: Ditto. Prevents jinja from throwing an error due to compaing a list type with an int. | BonfaceKilz |
| 2020-10-02 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into build/pyth... | BonfaceKilz |
| 2020-10-02 | Apply PEP 8 formatting | BonfaceKilz |
| 2020-10-02 | Cast variable properly to avoid type exceptions...* wqflask/wqflask/marker_regression/run_mapping.py: See 94c36c8c. | BonfaceKilz |
| 2020-10-02 | Replace is_integer with isinstance when checking for an int value | BonfaceKilz |
| 2020-10-02 | Update natural_sort function...* wqflask/wqflask/show_trait/SampleList.py (natural_sort): Add new function. (SampleList.get_attributes): Use new sort function to do natural_sort. | BonfaceKilz |
| 2020-10-02 | Remove unnecessary commented out blocks...* wqflask/wqflask/show_trait/SampleList.py: See above. | BonfaceKilz |
| 2020-10-02 | Cast "previous_chr" to an int...* wqflask/wqflask/marker_regression/gemma_mapping.py (parse_loco_output): Cast "previous_chr" to an int which prevents the error "Python typeerror: ‘>’ not supported between instances of ‘str’ and ‘int’" from being thrown. The error is **only** thrown in Python3. | BonfaceKilz |
| 2020-10-01 | Merge branch 'testing' of github.com:genenetwork/genenetwork2 into corr_matri... | zsloan |
| 2020-10-01 | Convert trait attributes to utf-8 strings if they were bytes | BonfaceKilz |
| 2020-10-01 | Make object JSON serializable...* wqflask/wqflask/search_results.py (SearchResultPage.gen_search_result): Some of the items is self.trait_list are in bytes, and *json.loads* can't serialize bytes into JSON. | BonfaceKilz |
| 2020-09-30 | Changed the logic for adding 0 to the PCA results to do so when the...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) | zsloan |
| 2020-09-30 | Added "natural-minus-na" sorting for relevant columns in the correlation...page * wqflask/wqflask/templates/correlation_page.html - Added natural-minus-na type to columns that can contain N/A values, since I apparently forgot to add it to this table before | zsloan |
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