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2020-12-02Added index to search result exportzsloan
2020-11-25Merge pull request #489 from Alexanderlacuna/fix-referencesBonfaceKilz
Fix broken UI
2020-11-24solve issues to do with decoding in python3Alexander Kabui
2020-11-23Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-11-23Changed correlation matrix cells for traits with zero shared samples to ↵zsloan
instead say N/A and be a shade of grey
2020-11-21Merge pull request #488 from ↵BonfaceKilz
BonfaceKilz/feature/fetch-md-files-from-gh-docs-repo Feature/fetch md files from gh docs repo
2020-11-21Use docker image with markdown packagedBonfaceKilz
* .github/workflows/main.yml (jobs): [container]: Use image that is on python3-genenetwork "ad741c1" which has python-markdown packaged.
2020-11-20Replace mockobject with dataclassesBonfaceKilz
* wqflask/tests/unit/wqflask/test_markdown_routes.py (MockRequests404): Use dataclasses. (MockRequests200): Ditto.
2020-11-20Update tests to use new gn2-docs urlBonfaceKilz
2020-11-20Replace mistunes with markdown libraryBonfaceKilz
* wqflask/wqflask/markdown_routes.py (render_markdown): Use markdown library instead of mistunes.
2020-11-20Point url for fetching md content to gn-docs repoBonfaceKilz
* wqflask/wqflask/markdown_routes.py (render_markdown): Use gn-docs URL to fetch markdown content.
2020-11-20Remove glossary markdown templateBonfaceKilz
* wqflask/wqflask/static/markdown/: Delete folder. Files moved to https://github.com/genenetwork/gn-docs
2020-11-19Removed lines that check that all traits are part of the same group,zsloan
since it might be the case in the future that different groups still share sample names (and it's not really necessary since we check how many samples are shraed between each individual pair of traits)
2020-11-18Fixed issue where the cofactor trait descriptions didn't work correctlyzsloan
for genotype/snp cofactors (the code previously only accounted for probeset/phenotype cofactors, so it was treating genotypes/snps like phenotype traits)
2020-11-18Changed default Low/High colors for the correlation scatterplot cofactorzsloan
coloring to Blue/Red respectively (was originally Light Grey/Black)
2020-11-18Added some jquery closing the "Add To Collection" colorbox window afterzsloan
its form is submitted
2020-11-18Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-11-18Fixed issue that was causing scatterplot cofactors to not work if thezsloan
cofactors were genotypes (because it tried to get the "description_display" which doesn't exist for genotype traits)
2020-11-18Removed console.log and commented out statements fromzsloan
get_traits_from_collection.js
2020-11-18Fixed "back_to_collections" function in get_traits_from_collection.jszsloan
(function that lets you return from viewing a collection to viewing the list of collections when selecting cofactors for scatterplot)
2020-11-18Merge pull request #481 from Alexanderlacuna/test-SampleListBonfaceKilz
Test sample list
2020-11-16update refactored natural_sort function in show_trait/SampleList.pyAlexanderlacuna
2020-11-12Import fontawesome css/js and used its info character for glossary links on ↵zsloan
search results page
2020-11-12Substituted -log(p) with -logP as mentioned in Rob's e-mailzsloan
2020-11-12Show Mb positions to 6 decimal places in mapping results tablezsloan
2020-11-11Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testingzsloan
2020-11-11Added Bonface to the footerzsloan
2020-11-11Merge pull request #477 from BonfaceKilz/feature/add-glossary-pageBonfaceKilz
Feature/add glossary page
2020-11-11Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵BonfaceKilz
feature/add-glossary-page
2020-11-11Update image widthBonfaceKilz
2020-11-11Add basic markdown stylingBonfaceKilz
* wqflask/wqflask/static/new/css/markdown.css: New file. * wqflask/wqflask/templates/glossary.html: add markdown id to markdown container.
2020-11-10Changed logic for creating temp trait SampleList to account for both traits ↵zsloan
encoded as bytes and traits encoded as strings, since temp traits created before and after the Python 3 switchover will have different encoding
2020-11-10Fixed issue where strain values in bytes needed to be decoded when loading a ↵zsloan
Temp trait
2020-11-10Changed "BXD-Harvested" to "BXD-Longevity" since that group was renamed and ↵zsloan
using the wrong name was causing correlations to not work.
2020-11-10Add missing links and some markdown formatting(underline, bold)BonfaceKilz
* wqflask/wqflask/static/markdown/glossary.md: Update file.
2020-11-06Removed the page selection from the top of the table because it created an ↵zsloan
awkward gap between the column show/hide buttons and the table, and this table will be changed to use Scroller instead of paging soon regardless
2020-11-06Changed the show/hide column buttons to use DataTables API + a few other ↵zsloan
changes (for some reason none of my changes could be pushed from one of my local branches to origin/testing, so they're combined in this commit) - Fixed a couple column header glossary links to point to GN1 - Added trait_list.css for styling a couple elements common to similar pages (like correlations or view collection)
2020-11-06Added min-width for the divs containing the analysis tools and table ↵zsloan
options, since they would look weird if the window shrunk below a certain width Also made some indentation more consistent
2020-11-06Added new css file for pages that have trait list tables (not sure what else ↵zsloan
to call them, but pages like search results, view collection, and correlation results)
2020-11-06Increased the min-width for the show_trait page container div for all the ↵zsloan
accordion sections, since previously it could get too narrow and cause text to extend beyong the borders of each accordion area
2020-11-06After I changed some class names in the trait page to use - instead of _ (to ↵zsloan
keep naming consistent) I forgot to change the references in show_trait_mapping_tools.js (which broke the functionality of clicking a tab doing mapping)
2020-11-06remove whitespaceAlexanderlacuna
2020-11-06modify natural_sort and return list to avoid having side effectAlexanderlacuna
2020-11-06modify tests to for changes in the natural sort functionAlexanderlacuna
2020-11-06fix typoAlexanderlacuna
2020-11-05remove duplicatesAlexanderlacuna
2020-11-05add test for samplelist and show_traitAlexanderlacuna
2020-11-04Merge pull request #480 from zsloan/bug/correlation_sort_fixzsloan
Fix sorting on the Tissue and Literature r/rho columns in correlation page
2020-11-04Changed numeric-html sorting for the Tissue/Lit r columns to ↵zsloan
natural-minus-na so it deals with the "--" values * wqflask/wqflask/templates/correlation_page.html - Replaced numeric-html sorting with natural-minus-na for the lit/tissue r columns
2020-11-04Use new glossary link from glossary_blueprint in html templatesBonfaceKilz
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