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2021-06-17minor fixAlexander Kabui
2021-06-17pep8 formattingAlexander Kabui
2021-06-17add query for fetching probeset dataAlexander Kabui
2021-06-17doc: Add results of investing rpy2 blocking issue in gn2BonfaceKilz
2021-06-16Fixed reference to target_trait['lrs_location'] that should have been ↵zsloan
target_trait['location'] for correlations against genotypes
2021-06-16Changed the function jsonable in trait.py to return a couple extra fields + ↵zsloan
take dataset as an optional argument (to avoid having to pointlessly create it)
2021-06-16Added function as_dict to data_set.py for situations where we don't want to ↵zsloan
pass around the whole dataset object
2021-06-16Changed set_other_template_vars to set_template_varszsloan
2021-06-16Rewrote show_corr_results.py to remove all code calculating correlations ↵zsloan
(that was moved to correlation_gn3_api.py, which will probably be renamed at some point) and only include the code generating the table JSON and some template variables
2021-06-16Added compute_all as parameter to compute_correlation and keyword arguments ↵zsloan
to docstring
2021-06-16Changed correlation page template to account for differences in the output ↵zsloan
returned from the GN3 API correlation code
2021-06-16Changed views.py to call the correlation code using the GN3 API + a function ↵zsloan
in show_corr_results for setting other template vars (might change this later)
2021-06-15Use markdown from Github for Newszsloan
2021-06-15Commented out Biweight Midcorrelation option on trait page, since it uses ↵zsloan
rpy2 and is currently disabled
2021-06-15Commented out WGCNA/CTL imports and endpoints since they import rpy2zsloan
2021-06-15Commented out WGCNA and CTL Analysis buttons from tool_buttons.html since ↵zsloan
they use rpy2
2021-06-15Commented out rpy2 code and import from show_corr_results.pyzsloan
2021-06-15Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2021-06-15Fix issue where column values were used as str instead of bytes; pretty sure ↵zsloan
this was introduced by Python3
2021-06-15Webinars have been added to tutorials.htmlacentenoArthur Centeno
2021-06-15Merge branch 'testing' of github.com:genenetwork/genenetwork2 into acentenoArthur Centeno
2021-06-15Adding new content to tutorials.htmlArthur Centeno
2021-06-14Temporarily return None for tissue correlation and remove rpy2 importszsloan
2021-06-14Removed unused rpy code from show_corr_results.pyzsloan
2021-06-14Comment out PCA code and remove rpy2 imports in correlation matrix codezsloan
2021-06-08Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2021-06-08Changed StringIO to BytesIO since it apparently needs to be useed with ↵zsloan
ZipFile writestr in Python 3
2021-06-08Fix issue where some groups apparently don't have samplelistszsloan
2021-06-08templates: edit_trait: Display edited fields for every modificationBonfaceKilz
2021-06-07Changed the padding for the checkbox cells in the search result page and ↵zsloan
changed the width of the checkbox cell to be smaller
2021-06-07Change padding for checkbox cells + removed set widths for Dataset and ↵zsloan
Description columns (so they can adjust with the window width) and increased the amount of text displayed
2021-06-07Define the table and then do the_table.draw() to fix issue where column ↵zsloan
headers sometimes aren't aligned with rows + change width of checkbox column
2021-06-07Define the table and then do the_table.draw() to fix issue where column ↵zsloan
headers sometimes aren't aligned with rows + change width of checkbox column
2021-06-07Merge pull request #584 from zsloan/feature/add_scroller_gsearchzsloan
Feature/add scroller gsearch
2021-06-07templates: edit_trait: Display diffs as a tableBonfaceKilz
2021-06-07wqflask: views: Pass diffs to template for further processingBonfaceKilz
2021-06-07wqflask: views: Re-order imports and remove dead commentsBonfaceKilz
2021-06-07wqflask: views: Insert data into metadata_audit tableBonfaceKilz
2021-06-07wqflask: views: Replace "simplejson" with "json"BonfaceKilz
2021-06-07wqflask: views: Remove null-check for formsBonfaceKilz
Right now, only changed data is submitted from JavaScript.
2021-06-07templates: edit_trait: Use correct name for text-area fieldBonfaceKilz
2021-06-07templates: edit_trait: Add hidden inputs that contain old valuesBonfaceKilz
2021-06-07Update class docstringjgart
Author: jgart <jgart@dismail.de> Date: Fri Jun 4 22:12:35 2021 +0000
2021-06-04Set widths for column in gene global search + set min-width for table as a wholezsloan
2021-06-03Change LRS scores of 0.000 to N/A since they're listed wrong in the DB + fix ↵zsloan
issue where locus_chr and locus_mb pointing to the wrong positions in the query results
2021-06-03Changed gsearch_pheno template to use Scroller and also set column widthszsloan
2021-06-03Implemented Scroller with gene global search; for the time being this ↵zsloan
disables the server-side processing, since that was assuming pagination and caused slow-downs when scrolling or sorting (likely because it's acting as if the full list of results are one page)
2021-06-03Made the code for setting some trait fields (like additive, mean, ↵zsloan
max_lrs_text) clearer and more consistent, and fixed issue where an error would be thrown if this_trait['locus_chr'] or this_trait['locus_mb'] was None (it's unnecessary to pass those values to the template to begin with, since they're just used to set this_trait['max_lrs_text']
2021-06-01Fixed issue that caused attribute alignments to be off by one positionzsloan
2021-06-01Made Genotype drop-down a little wider, since the genotype file names can be ↵zsloan
longer
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