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Author SHA1 Message Date
Charlotte Weaver efb55a6332 Renaming bind-all option to listen-all (#353) 
See discussion here https://docs.google.com/document/d/1tcAvODhdlUUAOJPHoGQB3fWOPmnw3XjK7MVhDRwNUnk/edit#
 2018-10-19 15:26:19 -07:00
Charlotte Weaver 2a3577f32b flask debug as hidden option (#352) 
* Remove flask debug flag

* Add debug flag as a hidden option to keep reload on change for developers
 2018-10-19 10:24:15 -07:00
Bruce Martin 5dea303bcd handle case of excessively large number of options in categorical met… (#350) 
* handle case of excessively large number of options in categorical metadata
* move max category options count into globals
 2018-10-18 18:07:39 -07:00
Charlotte Weaver 06f402ab0a Do not calculate layout, used saved layout instead (#343) 
* Do not calculate layout, used saved layout instead

See for rationale: https://docs.google.com/document/d/1HJFvbdDHxxgkCW0DZzdTZ9CUMgc2ef2rQFukATBQWvE/edit

* Error handling for when layout has not been precomputed

* Server error (500) not client error (400) for unprepared data
 2018-10-18 11:51:38 -07:00
Bruce Martin 2616b5c185 finish tests for world (#340) 
* Create Release_Validation_Recipe.md

* nameCreators test and better error handling

* add test for createObsDimensionMap

* add last set of tests for world module
 2018-10-18 09:54:57 -07:00
fionagriffin f33a3cd1a3 Create Release_Validation_Recipe.md (#337) 2018-10-18 09:27:32 -07:00
Charlotte Weaver 7c8b89eba3 Launch browser to cellxgene (#325) 
* Launch browser to cellxgene

Also added  --no-launch command line parameter

* Don't launch browser for tests

* rename no-launch to no-open

* Rejigger -no-open to positive destination

so later logic looks cleaner
 2018-10-17 16:46:56 -07:00
Bruce Martin f9f43c42c0 more lint - components (#336) 
* more lint

* fix typo introduced in delinting

* more lint

* remove dead code

* lint fixes

* lint
 2018-10-17 07:17:51 -07:00
Colin Megill 952578680a Remove heatmap, add diffexp info to histograms (#339) 
* Create Release_Validation_Recipe.md

* compose middle ware for redux devtools

* update package.json and lock

* remove heatmap, add to left side bar

* redux devtools extension
 2018-10-16 16:29:20 -07:00
Bruce Martin 76ec29734a Performance work (#334) 
* range encode filter range lists

* speed up data load

* add comment on scanpy read params

* update to latest scanpy/anndata

* performance improvments in data loading

* fix typo

* work around scanpy bug

* remove debugging print statements
 2018-10-16 15:49:40 -07:00
Bruce Martin 6b0aafd27c package dependency cleanup (#330) 
* update npm packages.  babel 7, redux 4, etc

* remove obsolete babel config file

* use correct icons
 2018-10-15 17:36:13 -07:00
Colin Megill 65f5244ff7 add name getter to world test 2018-10-15 11:20:52 -07:00
Colin Megill e7642e6a8f remove log 2018-10-15 11:20:52 -07:00
Colin Megill 8114d7565a dispose and delete 2018-10-15 11:20:52 -07:00
Colin Megill 8e08534d42 user defined gene 2018-10-15 11:20:52 -07:00
Colin Megill 2b77f8146b namespacing 2018-10-15 11:20:52 -07:00
Colin Megill e1a437514e clean up log 2018-10-15 11:20:52 -07:00
Colin Megill 48fa221ad9 diffexp, regraph, brush 2018-10-15 11:20:52 -07:00
Colin Megill fff331e1f0 stub additional validation for gene name 2018-10-15 11:20:52 -07:00
Colin Megill 8d07b400be adding and removing user defined genes 2018-10-15 11:20:52 -07:00
Colin Megill 5b2c07f105 clear differential reducer 2018-10-15 11:20:52 -07:00
Colin Megill ca35ae0b40 cleanup in histogram 2018-10-15 11:20:52 -07:00
Colin Megill 1cf9fc76b0 break out differential genes from user defined 2018-10-15 11:20:52 -07:00
Colin Megill a42f9f83f5 clear differential expression button interface 2018-10-15 11:20:52 -07:00
Colin Megill 9de44e6fd4 clear differential expression reducer 2018-10-15 11:20:52 -07:00
Colin Megill ca37483447 remove old heatmap webgl code 2018-10-15 11:20:52 -07:00
Colin Megill dd1b9229fc access varDataCache with kvCache.get 2018-10-15 11:20:52 -07:00
Colin Megill 73f55cb9f8 obs index to index 2018-10-15 11:20:52 -07:00
Colin Megill 8aa75458ed brushable histogram renders genes 2018-10-15 11:20:52 -07:00
Colin Megill 0c8f4ed824 rename to createVarDimension 2018-10-15 11:20:52 -07:00
Colin Megill 5165297e2a position tweak 2018-10-15 11:20:52 -07:00
Colin Megill 9c8e0e76ad remove export 2018-10-15 11:20:52 -07:00
Colin Megill 693dc7be12 switch to roboto condensed for space 2018-10-15 11:20:52 -07:00
Colin Megill 090bad040e worldIndex returns NaN 2018-10-15 11:20:52 -07:00
Colin Megill a297956e69 add world helper method for var 2018-10-15 11:20:52 -07:00
Colin Megill b0603dbed7 create dimension for arbitrary gene 2018-10-15 11:20:52 -07:00
Colin Megill 30069c0e66 export request genes action for use from components 2018-10-15 11:20:52 -07:00
Colin Megill 2c74291ee9 add gene expression section to left sidebar 2018-10-15 11:20:52 -07:00
Bruce Martin 329cf64a49 remove webpack hot load, react hot load and react redbox (#326) 
Fixes #176 and #290
 2018-10-15 08:47:15 -07:00
Bruce Martin c7e6f54450 cleanup middleware pre-ship (mostly lint) (#329) 
Fixes #180

URL middleware unused, but retained in expectation that we will need it shortly.
Fixed a bit of lint, mostly by reformatting or commenting out currently unused code.
 2018-10-15 08:45:34 -07:00
Bruce Martin bf0154ada6 add current front-end dependencies to documentation (#328) 
Add current front-end dependencies to document, highlighting minimum required support for routes.
 2018-10-14 08:06:51 -07:00
Bruce Martin dcb3f6e901 fix inconsistent definition of layout route; update intro to match state of spec (#324) 
Pre-release cleanup

intro updated to match state of spec
fix PUT/POST inconsistency for /layout route
bug/errata request process defined

Fixes #127
 2018-10-12 11:44:21 -07:00
Charlotte Weaver 2e9d576890 Correct capitalization in swagger template (#320) 2018-10-11 16:43:26 -07:00
Charlotte Weaver 3229babd14 Add caching back in (#312) 
* Add caching back in

Works now against filter instead of dataframe view

* Layout cache and move post->put

* Fix tests
 2018-10-11 16:29:46 -07:00
Charlotte Weaver b90292ce4c Bump interactive limits (#319) 2018-10-11 15:56:58 -07:00
Charlotte Weaver 210787cb5d Filter in engine (#307) 
* Add empty filter case

* Filtering dataframes moved to engine instead of rest

* minor changes from PR review

* Minor fixes from PR review

Pass {} instead of none if no filter
chain exceptions
typos
 2018-10-11 15:23:31 -07:00
Bruce Martin ee0b066eb6 remove obsolete schema from example data (#315) 2018-10-11 13:02:28 -07:00
Bruce Martin ab76c57fdb updated anndata dependency version (#314) 
Update Python requirements.txt to include correct anndata version
 2018-10-11 13:02:07 -07:00
Bruce Martin b77d7b14b5 bkmartinjr/world tests (#306) 
First cut at test for stateManager/world. Test data for REST responses factored out into separate file for shared use by Universe and World tests. Also cleaned up some debugging code.
 2018-10-10 18:05:19 -07:00
Bruce Martin aea934bb6d remove dead code and lint (#310) 
remove dead code from client/src/frameworks
delint various files
 2018-10-10 18:04:43 -07:00