genenetwork2 - GeneNetwork (2nd generation)

Age	Commit message (Collapse)	Author
2020-11-24	Added html/css for new "Filter Samples by Value" feature and changed a ↵	zsloan
	couple class names to make more sense for being shared between both this feature and "Block Samples by Index"
2020-11-24	solve issues to do with decoding in python3	Alexander Kabui

2020-11-23	Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing	zsloan

2020-11-23	Changed correlation matrix cells for traits with zero shared samples to ↵	zsloan
	instead say N/A and be a shade of grey
2020-11-21	Merge pull request #488 from ↵	BonfaceKilz
	BonfaceKilz/feature/fetch-md-files-from-gh-docs-repo Feature/fetch md files from gh docs repo
2020-11-21	Use docker image with markdown packaged	BonfaceKilz
	* .github/workflows/main.yml (jobs): [container]: Use image that is on python3-genenetwork "ad741c1" which has python-markdown packaged.
2020-11-20	Replace mockobject with dataclasses	BonfaceKilz
	* wqflask/tests/unit/wqflask/test_markdown_routes.py (MockRequests404): Use dataclasses. (MockRequests200): Ditto.
2020-11-20	Update tests to use new gn2-docs url	BonfaceKilz

2020-11-20	Replace mistunes with markdown library	BonfaceKilz
	* wqflask/wqflask/markdown_routes.py (render_markdown): Use markdown library instead of mistunes.
2020-11-20	Point url for fetching md content to gn-docs repo	BonfaceKilz
	* wqflask/wqflask/markdown_routes.py (render_markdown): Use gn-docs URL to fetch markdown content.
2020-11-20	Remove glossary markdown template	BonfaceKilz
	* wqflask/wqflask/static/markdown/: Delete folder. Files moved to https://github.com/genenetwork/gn-docs
2020-11-19	Removed 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)
2020-11-18	Fixed issue where the cofactor trait descriptions didn't work correctly	zsloan
	for genotype/snp cofactors (the code previously only accounted for probeset/phenotype cofactors, so it was treating genotypes/snps like phenotype traits)
2020-11-18	Changed default Low/High colors for the correlation scatterplot cofactor	zsloan
	coloring to Blue/Red respectively (was originally Light Grey/Black)
2020-11-18	Added some jquery closing the "Add To Collection" colorbox window after	zsloan
	its form is submitted
2020-11-18	Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing	zsloan

2020-11-18	Fixed issue that was causing scatterplot cofactors to not work if the	zsloan
	cofactors were genotypes (because it tried to get the "description_display" which doesn't exist for genotype traits)
2020-11-18	Removed console.log and commented out statements from	zsloan
	get_traits_from_collection.js
2020-11-18	Fixed "back_to_collections" function in get_traits_from_collection.js	zsloan
	(function that lets you return from viewing a collection to viewing the list of collections when selecting cofactors for scatterplot)
2020-11-18	Merge pull request #481 from Alexanderlacuna/test-SampleList	BonfaceKilz
	Test sample list
2020-11-18	use f strings in marker_regression/qtlreaper_mapping.py	Alexanderlacuna

2020-11-18	use f strings in marker_regression/plink_mapping	Alexanderlacuna

2020-11-17	use better function names	Alexanderlacuna

2020-11-16	update refactored natural_sort function in show_trait/SampleList.py	Alexanderlacuna

2020-11-13	Switched to using f-strings instead of the older method of string	zsloan
	formatting
2020-11-13	Switched to using boolean casting to check if various trait attributes	zsloan
	exist
2020-11-13	- Added Show/Hide Columns options and included the trait_list.css file	zsloan
	which including styling for said options - Changed some column widths to avoid text wrapping
2020-11-13	Added some css to trait_list.css restyling the "show/hide column"	zsloan
	buttons when they're active. Not really pleased with the result, but styling a button to look depressed is a pain
2020-11-13	Changed some if/else statements to just initializing the variables + the	zsloan
	if statement and fixed "lrs_location" to "location" for target genotypes
2020-11-13	Added cdn imports for fontawesome to correlation page and changed	zsloan
	superscript i's to fontawesome icons for the glossary links in column headers
2020-11-13	Replaced superscript i's for glossary links in search result table	zsloan
	headers with fontawesome icons
2020-11-12	Import fontawesome css/js and used its info character for glossary links on ↵	zsloan
	search results page
2020-11-12	Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵	zsloan
	feature/corr_table_changes
2020-11-12	Substituted -log(p) with -logP as mentioned in Rob's e-mail	zsloan

2020-11-12	Show Mb positions to 6 decimal places in mapping results table	zsloan

2020-11-12	refactor code	Alexanderlacuna

2020-11-12	add pep8 fixes in marker_regression/gemma_mapping.py	Alexanderlacuna

2020-11-12	add test for parse gemma output in marker_regression/gemma_mapping.py	Alexanderlacuna

2020-11-12	modify tests for marker regression	Alexanderlacuna

2020-11-11	add tests for marker_regression/rqtl_mapping.py	Alexanderlacuna

2020-11-11	add tests for marker_regression/qtlreaper_mapping.py	Alexanderlacuna

2020-11-11	add tests for marker_regression/run_mapping.py	Alexanderlacuna

2020-11-11	add tests for marker_regression/gemma_mapping.py	Alexanderlacuna

2020-11-11	Merge branch 'testing' of github.com:genenetwork/genenetwork2 into testing	zsloan

2020-11-11	Added Bonface to the footer	zsloan

2020-11-11	Changed some column widths and removed the width for description so it can ↵	zsloan
	vary with page width
2020-11-11	- Fixed an issue causing the phenotype abbreviation to not be displayed ↵	zsloan
	properly in correlation results - Set default description to N/A when there's no trait description for phenotype traits
2020-11-11	Switched checking if a trait is confidential to checking if it has a pubmed ↵	zsloan
	ID for the purposes of showing pre-publication abbreviation/description
2020-11-11	Merge pull request #477 from BonfaceKilz/feature/add-glossary-page	BonfaceKilz
	Feature/add glossary page
2020-11-11	Merge branch 'testing' of github.com:genenetwork/genenetwork2 into ↵	BonfaceKilz
	feature/add-glossary-page