* add simple error message helper
* port all label name pickers to use the new LabelInput component
* use pure components where possible
* cleanup
* more cleanup
* lint
* change new label prompt
* Add smoke test for annotations features
* Do not save during annotations tests
* Fix botched rebase in dev guidelines
* Revert "Do not save during annotations tests"
This reverts commit f0bd970bb2.
* Respond to feedback from @bkmartinjr
* add sample ontologies file
* add ontologies reducer
* Move select category to own component
* Dialog and Input factored out
* refactoring categorical, partway
* validationn
* anno
* suggest populates input
* frontend for ontology working
* initial implementation of back-end support for ontologies
* edit is now dialog again
* autosuggest working on edit
* part way through create arbitrary label
* handle choice in function
* pass duplicate cat prop
* editing works
* update test to match new CLI params
* fix occupancy alignment
* edit category as dialogue
* secondary button
* remove stubbed out ontologies
* add label setting upon new label creation
* Update legal characters for labels (#1119)
* Allow any term in the ontology (bypass legal name check)
* Add hyphens and parens to legal characters in names
* improve performance for large ontologies
* correctly handle case where ontologies are disabled
* fix logic error in CLI
Co-authored-by: Bruce Martin <bruce@chanzuckerberg.com>
* PR cleanup 1
* lint
* validate user generated labels
* finish hooking up connected suggest component
* protect against undefined callbacks
* Fix illegal characters error message
* break out npm run commands
* fix error detection on label edit
Co-authored-by: Bruce Martin <bruce@chanzuckerberg.com>
Co-authored-by: Sidney Bell <sidneymbell@users.noreply.github.com>
* refactor reducer to no longer support hover state and hold many labels
* refactor to generate centroidCoordinates for all values of a category
* create hash for function and memoize export
* create button to display all labels for a category
* clear state
* create label for each thing
* calculate on each value
* change to in place modification of map
* switch to for loop with iterator instead of forEach
* use map from centroidLabel instead of creating copy
* adapt for map
* utilize tarrays
* begin documentation
* disable centroids if in zoom mode
* clean up
* persist uncalc coordinates
* document
* clean up and document
* cleanup and document
* fix
* fix undefined labels and document changes
* fix first element skip
* fix conditional recalc
* rename centroidLabel -> centroidLabels
* break out dilation on hover to new reducer
* numerous styling changes for readability
* change centroid icon
* remove colorAccessor from parameters
* recalc centroids on world change
* make label toggle undoable
* remove unused import
* highlight labels on hover
* remove special characters from svg id
* lighten backdrop
* only generate new centroids if they pre-exist
* fix issue with spaces in catagorical value name
* add label buttons to menubar
* change reducer to use colorAccessor and have single toggle
* fix check to see if svg should be rendered
* move svg overlays onto a single svg layer
* dilate on label hover
* remove logs
* allow centroid to update along side regl renders
* allow actions to pass through svg if in zoom mode
* remove artifact from circle
* remove comment
* remove disabling of centroid button
* fix conditional map to screen
* make styling label conditions stricter
* prettier
* refactor onto master
* refactor computePointFlags() to use pointDilation store
* notify when viewport changes
* move svg attributes out of lasso setup and prevent rerenders/writes
* begin playing with transform matrix
* first solution for camera interaction
* create transform using nested groups
* semi-working method using nested groups with transforms
* inversely scale text
* properly do final transform
* cleanup dead / test code
* reinstate original functionality
* breakout centroid labels labels into separate component
* default toggle on for testing
* separate lasso and centroid layers
* remove unnecessary attributes, working hover
* dilation on label hover
* fix dilation on scatterplot
* add dilation on label hover
* break overlay into separate component
* make overlay agnostic to children
* move label mouse actions to centroidlabels component, add overlay state
* remove lasso on switch to camera
* disallow user selection
* fix reducer
* fix subset with continuous color error
* reset labels on color by continuous
* revert centroids on by default
* refactor for nested restructuring
* remove update checking
* remove unused method
* readd deleted hover delay
* remove old centroid setup
* remove centroid from undoable
* cleanup dead code
* remove dead code
* rollback unnecessary changes
* begin adding annotation functionality
* add annotation functionality
* add reset and undo functionality
* change centroids on layout change
* don't create label for unassigned
* add comment pointing out POI for performance
* touch up matrix transform comment
* add comment explaining coordinate space and children's assumed space
* remove dead code
* switch to pure component
* connect centroidLabels to redux
* clean up camera check and null result
* tool tip change
* rename centroid toggle and the like
* fix the misalignment of buttons, also make blueprint use consistent
* fix comment spelling mistakes
* introduce variable for cleaner logic expressions and state assignment
* alter tooltip text to back color by interaction
* remove manual iterator manipulation for forEach()
* remove debounce
* nit fix
* tooltip wording fix
* lint
* rename config param label-file
* annotations rework - CLI params, file naming and backups
* lint
* improve cli option error checks
* enable session cookies
* enable session cookies
* add session id
* name annotations file in multi-dataset and multi-user safe manner
* pass data user hash to front-end
* add annotation collection name support to front-end
* add constant for annotation data collection name
* parameterize annotation collection name; make it sticky in the session
* clarify comments
* hard wire a temporary data collection name for testing
* prettier
* test comment
* package command
* set annotations filename dialog
* name and hash are visible
* wire up data collection capture
* anno error states
* label validation should not treat empty string as error
* disable Submit if no label or category entered
* edit category name error states
* flex start
* pr cleanup
* label name validation fixes
* PR comment responses
* cache common results to reduce jank
* add util function in support of annotation labelling
* enable/disable annotation edit menus per issue 972; improve formatting
* PR review requests
* tweak overflow and add truncation
* remove log
* alter char limit to evenly space around occupancy
* use global hover delay
* create constants for truncation lengths and fix truncation on self color
* create globals for short and long sidebar value length
* fix alignment
* create quick delay global
* enable centroid
* introduce new sizing
* scale point size based off hovered category
* add styling
* fix margins
* disable centroid labels
* remove unused code and add detail to comment
* remove cell dilation on selection toggle
* move hover to name label
* hover on value except for checkbox
* add border radius to value
* comment
* add histogram functionality to Dataframe; port category occupancy to use it
* fix binning and create histogram for continous by catagorical
* Remove unnecessary logs
* Begin work on KDE
* Replace broken KDE with working histogram
* Define domain and range based on data from histogram
* Fix occupancy
* Add continuous obs and switch to canvas
* Stop value from always rerendering
* clear before render
* Clear canvas on render
* refactor categorical occupancy to canvas
* Remove log
* simplify finding max
* refactor kde->histogram and occupancy->bins
* refactor svg -> canvas
* rename to occupancy stack
* create popup
* add metadata and categorical values to popup
* fix overflow
* remove zeros info
* style graph
* fix shouldComponentUpdate to look for world changes
* change categorySelected -> categoryValueSelected
* refactor out render
* remove comment
* conditionally have bottom border
* remove diff comp
* remove comments
* remove unnecessary mapping
* Add comments describing drawing functions
* comments
* flip comparison order
* remove logging
* move default to parameter
* move defaults to parameter
* disable popover if not showing histogram
* fix wording and styling
* add line break
* Connect mouse over events to reducer actions
* Change Styling on hover
* Rename reducer actions to be more descriptive
* Reorder reducer in cascade
* Create centroid calculation util
* Whitespace
* Typo fix, use correct action
* Create centroid calc util
* Create centroid svg setup
* Refactor existing svg layer to toolSVG
* Change calcCentroid signature and centroidXY to match mapPointToScreen
* Add id and styling
* Run prettier
* Set z-index to 999
* Draw the label
* Introduce the centroid SVG, refactor code to allow both SVG layers
* Add text label and compute radius based on population
* Implement optional chaining
* Update font family
* Optimize calcMeanCentroid()
* Create and utilize calcMedianCentroid()
* Remove mass circle from label
* Remove styling change on hover
* Remove reducer action logs
* Prettier
* Swap out binds for arrow functions
* Style text
* switch from selectAll() to select()
* Reflect centroid container's purpose in id
* Remove mass from the output
* Swap to obj
* Add finite check
* Don't draw centroid if no finite values
* Fix finite check
* Remove log
* Toggle label coloring based on colorBy state
* Pass cursor events through centroid svg
* 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
* immutable crossfilter
* first cut at reducer refactor with cascade model
* add initial redo/undo implementation
* small optimization
* integrate expression with history
* add tests for new reducers and fix a couple of small initialization bugs
* treat tiny lasso selections as a clear
* better function name for clarity
* fix undo for differential expression
* remove logging
* fix regression due to bad merge
* cleanup and comments for clarity
* improve undoable configuration for flexibility
* fix stale comments
* remove debugging code from production build
* rename categoricalSelectionState
* rename file
* improve comments
* initial dataframe commit
* initial dataframe port of core app
* rename variables for clarity
* remove unused import
* comment out unused code
* fix array handling bug in crossfilter dimension creation
* allow creation of empty dataframes
* handle non-existent columns
* handle non-existent columns
* revise tests for new dataframe
* comments for clarity
* comments for clarity
* generate bulk add placeholder with real gene names
* fix bug in gene name adding
* more dataframe unit tests
* fix bug - subset from current world, not universe
* put cut and pasted code into a single function
* improve caching of crossfilter
* remove cascading update bug from graph
* more performance work
* improve state handling for scatterplot
* performance optimization of critical path
* add column summarization
* dataframe utils
* add callOnceLazy
* fix tests
* minor updates found during review
* fix misspelling
* remove RESTv02 from function names
* comment cleanup
* cut/icut col parameter defaults to null
* break up large test
* improve tests and comments on dataframe at/has functions
* 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
Bruce Martin