Commit Graph

78 Commits

Author SHA1 Message Date
Colin Megill
e50fd8b881 Animate list items on name change (#1008)
* animate list items

* fix comment
2019-11-04 14:09:16 -05:00
Bruce Martin
e581dec8f5 release 0.12.0 (#981) 2019-10-08 12:34:21 -07:00
Bruce Martin
3660a6cc27 Experimental - manual annotations (#837)
* icons, partway

* redux for values

* onChange

* cancel

* annotations lifecycle for category names

* copy categorical

* edit category

* add Dataframe.withColsFrom

* render user annotations; default add/delete annotation category

* add label name to actions

* category name edit

* error checking improvements

* change schema field isUserAnnotation to writable

* always have an unassigned label; implement delete label

* implement add new label and edit label name

* label current cell selection

* fix select exact bug in crossfilter

* clean up categorical reducer

* fix tests

* remove debugging printf

* implement subset/reset for user annotations

* undo redo support for user annotations

* remove duplicate button from categories

* add modal

* remove obsolete duplicate annotation reducers

* remove old debugging printf

* connect modal to annotation create and dup

* initial full-stack wiring

* finish up end-to-end wiring

* fix existing unit tests

* fix pytests to match new schema API

* remove debugging printfs

* add label file rotation

* remove obsolete comment

* add fbs encode/decode tests

* add tests for writable annotations

* simplify code

* fix hashing bug with FBS encoding

* lint

* fix smoke tests

* improve error checking in Dataframe.withColsFrom

* add unit test for Dataframe.withColsFrom

* add unit test for Dataframe.columns and Dataframe.renameCol

* fix bug in FBS encode, add better error checks, refactor

* add FBS encode/decode test

* add clarifying comment

* clean up action type names; fix state inconsistency in crossfilter update

* change autosave timer to 2.5sec

* sort categorical metadata render order so it remains consistent

* add temporary autogenerated label for add-new-label operation

* fix hover-over label menu interference with cell highlighting

* remove debugging code

* add missing reducer cases & fix typo

* make dataframe memoize more general purpose

* add dev mode for annos

* fix error on select duplicate

* handle zero occupancy categories

* correctly maintain unclipped AND clipped world

* correctly handle zero length FBS matrix and label files

* ensure all writable categorical schema contains an unassigned category

* handle case where building occupancy stack for category with no members

* dialog for creating label, disable button if duplicate or empty

* visually separate writeable

* edit category

* fix edit category name

* remove debugging code

* fix edit annotation label

* visually define unassigned, change options

* Pull in requirements.txt from `master`

* label currently selected cells

* duplicate label

* lint

* fix pytest merge issues

* rename --label-file to --experimental-label-file

* remove debugging console log

* spelling error fix; fix bug found in PR review.

* lint
2019-09-18 07:33:41 -04:00
Bruce Martin
ab2c423006 JS package updates (#922) 2019-09-17 09:36:47 -07:00
Bruce Martin
78a43402cb package dep update (#905) 2019-08-28 09:11:10 -07:00
Bruce Martin
0f36b49840 Graph/scatterplot improvements (#893)
* many graph/scatterplot fixes: 722, 882, 758, 886

* fix e2e test breakage caused by graph transform work

* convert webgl point shaders to use flags rather than explicit point size

* remove unused packages from dependencies

* fix typo in regl prop name

* factor common code into util helper file

* legibility tweaks
2019-08-22 20:56:05 -07:00
Colin Megill
d16a69e158 bump version to 0.11.0 (#850)
* bump version to 0.11.0

* manually fix version number
2019-07-16 14:27:41 -04:00
Colin Megill
777214cc14 upgrade lodash (#844) 2019-07-11 18:35:57 -04:00
Bruce Martin
ca9a6796d8 release 0.10.1 (#797) 2019-05-30 13:44:42 -07:00
Bruce Martin
c6252825f3 release 0.10.0 (#794) 2019-05-29 16:55:43 -07:00
Bruce Martin
fcc05f6a00 coordinate system fixes for embedded graph (#768)
* change pan speed to 1 per issue #722

* correct handle scaling of graph when aspect ratio less than one

* add package lock

* add invert to our scale functions

* correctly transform to/from gl coordinates

* remove unused import

* fix naming of import

* update smoke tests
2019-05-20 14:22:41 -07:00
Bruce Martin
de3407d875 change scripts to support windows (#775) 2019-05-20 11:42:57 -07:00
Bruce Martin
1fa4838863 npm (js) package dependency updates (#765)
* JS package dependency updates

* additional package updates

* more package version updates

* more js package updates

* more JS dependency updates
2019-05-20 10:11:49 -07:00
Charlotte Weaver
d522cc8f91 Add clipping test to smoke tests (#757)
* Add clipping test to smoke tests

* devtools on in debug
2019-05-09 15:31:55 -07:00
Bruce Martin
846b8d15bd lodash cleanup (#747)
* add own range() function

* lodash cleanup

* remove redundant fill range implementations

* remove use of _.get

* sync test babel config with build

* update tests to match new range implementation
2019-05-06 20:28:32 -04:00
Charlotte Weaver
c12cb2424a release bugfix (#749)
* add __init__.py

* bump version
2019-05-06 10:16:36 -07:00
Bruce Martin
1471d6b214 release 0.9.0 (#746) 2019-05-04 08:41:56 -07:00
Sidney Bell
a08e19bbd0 Clip continuous values based on percentile cutoffs (#672)
* Add numeric inputs for percentiles

* Define initial values for percentile cutoffs in world reducer

* add percentil to crossfilter dimensions

* worldEqUniverse now handles cloned worlds

* add Dataframe.mapColumns

* Wire up handlers for percentile inputs

* World reducer and stateManager know about continuousPercentileMin/Max

* Create world as universe clone (not pointer) to avoid clobbering vals

* Define basic actions for setting continuousPercentileMin/Max

* Under the hood, deal with percentiles between 0 and 1

* Move percentile inputs to visualization settings menu

* Fix padding for undo/redo buttons

* Trigger world rebuild from percentile actions

* BROKEN - pseudocode for clamping dataframe by percentiles upon world rebuild

* fix error handling on clip quantiles; start world clipping implementation

* more unclipped reorg

* rename crossfilter.percentile to quantile

* simplify schema access

* update continuous legend when scale changes

* update color cache when clip changes

* clip obs annotations and var data when clip quantile changes

* use own fromEntries

* fix tests

* stable non-finite float sort/search

* clarify comments

* fix syntax typo

* use new stand-alone clip

* clip expresssion data

* add select tests for non-finite scalars

* basic styles

* clip UI now requires explicit commit

* reset enable/disable accounts for clip percentiles

* better error messages

* fix bug in undo interaction with programatic min brush selection

* small refactoring

* support clipping of int data

* do not perform unnecessary summarizations

* improve caching of dataframe compiled columns

* add percentile precompute to Dataframe.summarize

* use Dataframe.summarize for clip percentiles

* remove obsolete quantile code from corssfilter

* histogram scale and label Y axis, add unclipped X range labels

* layout tweaks

* scatterplot now updates when clip changes

* improve comments

* remove debugging comment

* rework clip number entry validation for usability

* ui tweaks to histogram colors and layout

* enable undo/redo for clip user action

* refine UI on clip value entry

* api cleanup

* update confusing comment

* clarify purpose of isValidDigitKeyEvent

* fix misleading comment

* apply appropriate button-group classes; do not mix span and div

* variable name and comment changes suggested in PR review

* rename sort to sortArray; remove unused and dead code path

* naming changes suggested in PR review

* code review improvements for clarity

* more small changes from PR review

* lint fixes for PR review

* fix spelling error

* clarify that function performs in-place modification of world

* add comment to clarify intent of range operation

* fix bad indents in comments

* clean up __columnsAccessor comments and code

* improve comments around clipPredicate

* field name consistency

* improve comment on quantiles params
2019-04-30 16:20:10 -07:00
Colin Megill
b878b0f93c Gene typeahead stale state (#714)
* reimplementing suggest

* resolve stale state
2019-04-17 14:03:10 -04:00
Charlotte Weaver
c9a8e3ea42 Add manual UX tests (#699) 2019-04-08 13:23:17 -07:00
Charlotte Weaver
ce8326ddea bump version (#684) 2019-04-01 14:42:22 -07:00
Charlotte Weaver
5d4b11d287 Better smoke tests (#669) 2019-03-28 16:47:42 -07:00
Bruce Martin
9420abfacc add Babel support for JS optioning chaining and nullish coallescing operators (#664) 2019-03-22 14:51:51 -07:00
Bruce Martin
d8e3721846 bumpversion to 0.7.0 (#623) 2019-03-01 12:25:30 -08:00
Charlotte Weaver
2bae696986 Smoke tests (#604)
smoke tests
2019-02-27 15:46:58 -08:00
Charlotte Weaver
4e67c645f8 bumped version (#602)
0.6.0 was burned on pypi
2019-02-14 10:00:16 -08:00
Charlotte Weaver
8b28d51dfa bump version (#601) 2019-02-13 16:29:14 -08:00
Bruce Martin
6f464f4f92 package dependency updates (#585)
* lint

* update dev-related package dependencies
2019-02-06 12:57:09 -08:00
Charlotte Weaver
d31c05c970 Add backed script to package.json (#566)
* QOL script for FE devs to get & launch the backend

* ensure python3.6

* changed name to backend-dev
2019-01-29 11:41:05 -08:00
Charlotte Weaver
ecaa32cfb2 bump version (#563) 2019-01-17 17:14:44 -08:00
Charlotte Weaver
b02361a6bf bump version (#560) 2019-01-17 16:54:25 -08:00
Bruce Martin
b90447c387 binary wire format with flatbuffers (#509)
* first flatbuffer schema

* do not lint auto-generated files

* add flatbuffers package

* add flatbuffer module

* wire up /data/X/T route

* use flatbuffers for matrix data fetc

* clarity and comments

* add flatbuffer layout route

* clean up obsolete code

* fix tests

* move flake8 config to setup.cfg

* add comments

* lint

* rework layout routes for fbs

* add more type support to fbs

* lint

* add flatbuffer support for annotations

* function name improvements

* fix botched merge with master

* remove unused import

* route cleanup for flatbuffers

* rename function for clarity

* add missing globals to Jest tests

* fix client JS tests

* fix routes for Python tests

* comments for clarity

* non-finite floating point hardening

* more non-finite number handling

* lint

* fix tests for summarizeAnnotations

* harden diffexp calculation against FP errors

* cleanup unused code

* lint

* add encoding tests for flatbuffers

* application type specified as strings

* fix spelling error

* improve variable names

* add note about documentation gap

* rename FBS DataFrame to Matrix
2019-01-09 14:26:05 -08:00
Colin Megill
a297ea30e2 bump version (#518) 2018-12-17 14:30:34 -05:00
Colin Megill
0ef6c36f4c Cluster Occupancy (n dim cube) (#513)
* create occupancy component

* occupancy working

* centering, width, flex spacing

* add is-number

* extend sort to cover string + int

* proof of concept sorted occupancy

* handle undefined occupancy entry, cleanup

* only render occupancy when colorby is cat

* cleanup unused vars

* cleanup
2018-12-17 14:19:48 -05:00
Bruce Martin
95fd20b405 bump version to 0.3 (#498) 2018-12-05 14:35:17 -08:00
Colin Megill
00b9a8fa72 Fuzzy search on genes (#473)
* proof of concept blueprint typeahead

* poc with fuzzysearch lib

* typeahead adds gene on enter

* add gene on menu click

* typeahead clears correctly

* cleanup
2018-11-28 09:50:02 -08:00
Charlotte Weaver
28f5263c88 bump version (#475) 2018-11-27 15:43:19 -08:00
Charlotte Weaver
0c26f227fe bump version (#470) 2018-11-26 15:38:47 -08:00
Charlotte Weaver
f2612707bb bumped version (#466) 2018-11-26 11:42:56 -08:00
Charlotte Weaver
2b5094665f version 0.2.0 (#456) 2018-11-16 15:12:54 -08:00
Charlotte Weaver
1a5f49239a Release 0.0.4 (#447)
* 0.0.3 bump

* release 0.0.4
2018-11-15 16:43:59 -08:00
Charlotte Weaver
bc0cecbd1c Release Test (#427)
* bump-update

* Release Test!
2018-11-14 11:03:52 -08:00
Bruce Martin
6916aec6c3 update package dependencies (#417) 2018-11-07 13:58:21 -08:00
Colin Megill
df671192be Begin integrating blueprint (#359)
* toast test

* modify webpack build to allow for global CSS; use CSS modules to scope component styling

* remove heatmap

* add label to index resets

* swapping out buttons for blueprint

* adding constants to globals

* swapping out blueprint buttons

* title position, sidebar improvements

* sidebar styles

* adding toasts for validation errors

* zebra section trial

* integrating blueprint, switching buttons over, breaking out scatter

* clean up console
2018-10-22 15:46:37 -04:00
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
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
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
19f2728a18 Bkmartinjr/state mgr tests (#298)
Jest tests for part of util/stateManager

* reorganize test directories

* lint

* add Jest config to eslint

* add Jest config to eslint

* lint

* fix babel configuration for tests

* start at kvCache tests

* reorganize test directories

* lint

* add Jest config to eslint

* add Jest config to eslint

* lint

* fix babel configuration for tests

* start at kvCache tests

* fix cache flush bug manifest by new test cases

* new kvCache tests

* skeletal universe test

* fix race in test case

* more universe test cases
2018-10-04 17:41:26 -07:00
Bruce Martin
f0d9d873be Fix jest test suites (#268)
* CRLF to LF

* add babel-jest

* use ES6 style imports

* fix bugs manifest by test suite

* add babel test config
2018-09-27 17:52:17 -07:00