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TS migration. #2288. (#2328)

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* Added TS. Updated build and linting config. Added types.

* [ts-migrate][.] Rename files from JS/JSX to TS/TSX

Co-authored-by: ts-migrate <>

* [ts-migrate][.] Run TS Migrate

Co-authored-by: ts-migrate <>

* Corrected files mangled by ts-migrate.

* Updated lint config, minor linting.

* Re-enabled Husky.

* Updated tests and config.

* Reverted webpack devtool config.

* Removed obsolete snapshots.

* Added annotations snap.

* Updated tsconfig includes wrt linting.

* Removed ts-migrate.

Co-authored-by: Timmy Huang <tihuan@users.noreply.github.com>
This commit is contained in:
Mim Hastie
2021-07-26 20:18:17 +00:00
committed by GitHub
co-authored by ts-migrate Timmy Huang
parent 7328cbdbd5
commit 934cc5c69b
206 changed files with 4719 additions and 2085 deletions
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client/src/annoMatrix/views.js
-176
View File
@@ -1,176 +0,0 @@
/* eslint-disable max-classes-per-file -- Classes are interrelated*/
/*
Views on the annomatrix. all API here is defined in viewCreators.js and annoMatrix.js.
*/
import clip from "../util/clip";
import AnnoMatrix from "./annoMatrix";
import { _whereCacheCreate } from "./whereCache";
import { _isContinuousType, _getColumnSchema } from "./schema";
class AnnoMatrixView extends AnnoMatrix {
constructor(viewOf, rowIndex = null) {
const nObs = rowIndex ? rowIndex.size() : viewOf.nObs;
super(viewOf.schema, nObs, viewOf.nVar, rowIndex || viewOf.rowIndex);
this.viewOf = viewOf;
this.isView = true;
}
addObsAnnoCategory(col, category) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = this.viewOf.addObsAnnoCategory(col, category);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
async removeObsAnnoCategory(col, category, unassignedCategory) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = await this.viewOf.removeObsAnnoCategory(
col,
category,
unassignedCategory
);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
dropObsColumn(col) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = this.viewOf.dropObsColumn(col);
newAnnoMatrix._cache.obs = this._cache.obs.dropCol(col);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
addObsColumn(colSchema, Ctor, value) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = this.viewOf.addObsColumn(colSchema, Ctor, value);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
renameObsColumn(oldCol, newCol) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = this.viewOf.renameObsColumn(oldCol, newCol);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
async setObsColumnValues(col, rowLabels, value) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = await this.viewOf.setObsColumnValues(
col,
rowLabels,
value
);
newAnnoMatrix._cache.obs = this._cache.obs.dropCol(col);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
async resetObsColumnValues(col, oldValue, newValue) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = await this.viewOf.resetObsColumnValues(
col,
oldValue,
newValue
);
newAnnoMatrix._cache.obs = this._cache.obs.dropCol(col);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
addEmbedding(colSchema) {
const newAnnoMatrix = this._clone();
newAnnoMatrix.viewOf = this.viewOf.addEmbedding(colSchema);
newAnnoMatrix.schema = newAnnoMatrix.viewOf.schema;
return newAnnoMatrix;
}
}
class AnnoMatrixMapView extends AnnoMatrixView {
/*
A view which knows how to transform its data.
*/
constructor(viewOf, mapFn) {
super(viewOf);
this.mapFn = mapFn;
}
async _doLoad(field, query) {
const df = await this.viewOf._fetch(field, query);
const dfMapped = df.mapColumns((colData, colIdx) => {
const colLabel = df.colIndex.getLabel(colIdx);
const colSchema = _getColumnSchema(this.schema, field, colLabel);
return this.mapFn(field, colLabel, colSchema, colData, df);
});
const whereCacheUpdate = _whereCacheCreate(
field,
query,
dfMapped.colIndex.labels()
);
return [whereCacheUpdate, dfMapped];
}
}
export class AnnoMatrixClipView extends AnnoMatrixMapView {
/*
A view which is a clipped transformation of its parent
*/
constructor(viewOf, qmin, qmax) {
super(viewOf, (field, colLabel, colSchema, colData, df) =>
_clipAnnoMatrix(field, colLabel, colSchema, colData, df, qmin, qmax)
);
this.isClipped = true;
this.clipRange = [qmin, qmax];
Object.seal(this);
}
}
export class AnnoMatrixRowSubsetView extends AnnoMatrixView {
/*
A view which is a subset of total rows.
*/
constructor(viewOf, rowIndex) {
super(viewOf, rowIndex);
Object.seal(this);
}
async _doLoad(field, query) {
const df = await this.viewOf._fetch(field, query);
// don't try to row-subset the var dimension.
if (field === "var") {
return [null, df];
}
const dfSubset = df.subset(null, null, this.rowIndex);
const whereCacheUpdate = _whereCacheCreate(
field,
query,
dfSubset.colIndex.labels()
);
return [whereCacheUpdate, dfSubset];
}
}
/*
Utility functions below
*/
function _clipAnnoMatrix(field, colLabel, colSchema, colData, df, qmin, qmax) {
/* only clip obs and var scalar columns */
if (field !== "obs" && field !== "X") return colData;
if (!_isContinuousType(colSchema)) return colData;
if (qmin < 0) qmin = 0;
if (qmax > 1) qmax = 1;
if (qmin === 0 && qmax === 1) return colData;
const quantiles = df.col(colLabel).summarize().percentiles;
const lower = quantiles[100 * qmin];
const upper = quantiles[100 * qmax];
const clippedData = clip(colData.slice(), lower, upper, Number.NaN);
return clippedData;
}
/* eslint-enable max-classes-per-file -- enable*/