From 5267e31f25083842e7a2853f6c99d1a2a323e241 Mon Sep 17 00:00:00 2001 From: martinRenou Date: Fri, 15 Sep 2023 16:05:18 +0200 Subject: [PATCH 01/11] JupyterLab 4 Lumino 2 ipywidgets 8 --- .github/workflows/benchmark.yml | 12 +- beakerx_tabledisplay/MANIFEST.in | 1 - .../beakerx_tabledisplay/__init__.py | 1 - .../beakerx_tabledisplay/commands.py | 10 +- .../beakerx_tabledisplay/handlers.py | 37 - beakerx_tabledisplay/js/.yarnrc.yml | 2 + beakerx_tabledisplay/js/package.json | 35 +- .../js/src/dataGrid/BeakerXDataGrid.ts | 10 +- .../highlighter/HighlighterManager.ts | 6 +- .../dataGrid/model/BeakerXDataGridModel.ts | 14 +- .../js/src/dataGrid/row/RowManager.ts | 55 +- .../js/src/dataGrid/store/BeakerXDataStore.ts | 2 +- .../src/dataGrid/store/datastore/bplustree.ts | 1525 ++ .../src/dataGrid/store/datastore/datastore.ts | 1074 + .../js/src/dataGrid/store/datastore/field.ts | 269 + .../js/src/dataGrid/store/datastore/fields.ts | 115 + .../js/src/dataGrid/store/datastore/index.ts | 20 + .../src/dataGrid/store/datastore/listfield.ts | 736 + .../src/dataGrid/store/datastore/mapfield.ts | 413 + .../js/src/dataGrid/store/datastore/record.ts | 92 + .../dataGrid/store/datastore/registerfield.ts | 336 + .../js/src/dataGrid/store/datastore/schema.ts | 53 + .../dataGrid/store/datastore/serveradapter.ts | 66 + .../js/src/dataGrid/store/datastore/table.ts | 555 + .../src/dataGrid/store/datastore/textfield.ts | 749 + .../src/dataGrid/store/datastore/utilities.ts | 287 + .../js/src/jupyterlab-plugin.ts | 12 +- beakerx_tabledisplay/js/yarn.lock | 19322 ++++++++-------- beakerx_tabledisplay/pyproject.toml | 6 +- beakerx_tabledisplay/setup.py | 4 +- configuration.yml | 2 +- ui-tests/README.md | 22 +- ui-tests/package.json | 2 +- 33 files changed, 16633 insertions(+), 9212 deletions(-) delete mode 100644 beakerx_tabledisplay/beakerx_tabledisplay/handlers.py create mode 100644 beakerx_tabledisplay/js/.yarnrc.yml create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/bplustree.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/datastore.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/field.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/fields.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/index.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/listfield.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/mapfield.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/record.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/registerfield.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/schema.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/serveradapter.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/table.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/textfield.ts create mode 100644 beakerx_tabledisplay/js/src/dataGrid/store/datastore/utilities.ts diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml index 9c7fba2..678ec17 100644 --- a/.github/workflows/benchmark.yml +++ b/.github/workflows/benchmark.yml @@ -97,15 +97,15 @@ jobs: - name: Install browser working-directory: ui-tests run: | - yarn install + jlpm install # Install only Chromium browser - yarn playwright install chromium + jlpm playwright install chromium - name: Execute benchmark tests on reference continue-on-error: true working-directory: ui-tests run: | - yarn run test -u + jlpm run test -u # Second run the benchmark on the new reference - name: Checkout latest version @@ -127,15 +127,15 @@ jobs: - name: Install browser working-directory: ui-tests run: | - yarn install + jlpm install # Install only Chromium browser - yarn playwright install chromium + jlpm playwright install chromium - name: Execute benchmark tests on PR continue-on-error: true working-directory: ui-tests run: | - yarn run test + jlpm run test - name: Generate the report env: diff --git a/beakerx_tabledisplay/MANIFEST.in b/beakerx_tabledisplay/MANIFEST.in index a880e9f..f6dc224 100644 --- a/beakerx_tabledisplay/MANIFEST.in +++ b/beakerx_tabledisplay/MANIFEST.in @@ -20,4 +20,3 @@ global-exclude *.pyc global-exclude *.pyo global-exclude .git global-exclude .ipynb_checkpoints - diff --git a/beakerx_tabledisplay/beakerx_tabledisplay/__init__.py b/beakerx_tabledisplay/beakerx_tabledisplay/__init__.py index 1928ba7..c616468 100644 --- a/beakerx_tabledisplay/beakerx_tabledisplay/__init__.py +++ b/beakerx_tabledisplay/beakerx_tabledisplay/__init__.py @@ -14,7 +14,6 @@ from ._version import version_info, __version__ from .commands import beakerx_parse -from .handlers import load_jupyter_server_extension from .tabledisplay import * from .tableitems import * from .object import beakerx_tabledisplay diff --git a/beakerx_tabledisplay/beakerx_tabledisplay/commands.py b/beakerx_tabledisplay/beakerx_tabledisplay/commands.py index 7a5ff29..1ffeb83 100644 --- a/beakerx_tabledisplay/beakerx_tabledisplay/commands.py +++ b/beakerx_tabledisplay/beakerx_tabledisplay/commands.py @@ -16,7 +16,6 @@ import sys import beakerx_tabledisplay -from notebook import notebookapp as app from .install import install, uninstall @@ -39,16 +38,11 @@ def uninstall_subparser(subparser): return subparser -def run_jupyter(jupyter_commands): - app.launch_new_instance(jupyter_commands) - - def init_parser(): parser = argparse.ArgumentParser() parser.add_argument('-v', '--version', action='version', version=beakerx_tabledisplay.__version__) - parser.set_defaults(func=run_jupyter) subparsers = parser.add_subparsers() install_subparser(subparsers) @@ -59,9 +53,7 @@ def init_parser(): def beakerx_parse(): parser = init_parser() args, jupyter_commands = parser.parse_known_args() - if args.func == run_jupyter: - args.func(jupyter_commands) - elif not jupyter_commands: + if not jupyter_commands: args.func(args) else: parser.parse_args(jupyter_commands) diff --git a/beakerx_tabledisplay/beakerx_tabledisplay/handlers.py b/beakerx_tabledisplay/beakerx_tabledisplay/handlers.py deleted file mode 100644 index e554056..0000000 --- a/beakerx_tabledisplay/beakerx_tabledisplay/handlers.py +++ /dev/null @@ -1,37 +0,0 @@ -# Copyright 2019 TWO SIGMA OPEN SOURCE, LLC -# -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at -# -# http://www.apache.org/licenses/LICENSE-2.0 -# -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. -import json - -import beakerx_tabledisplay -from notebook.base.handlers import APIHandler -from notebook.utils import url_path_join -from tornado import web - - -class VersionHandler(APIHandler): - def data_received(self, chunk): - pass - - @web.authenticated - def get(self): - data = {'version': beakerx_tabledisplay.__version__} - self.finish(json.dumps(data)) - - -def load_jupyter_server_extension(nbapp): - web_app = nbapp.web_app - host_pattern = '.*$' - version_route_pattern = url_path_join(web_app.settings['base_url'], '/version') - web_app.add_handlers(host_pattern, [(version_route_pattern, VersionHandler)]) - nbapp.log.info("[beakerx_tabledisplay] enabled") diff --git a/beakerx_tabledisplay/js/.yarnrc.yml b/beakerx_tabledisplay/js/.yarnrc.yml new file mode 100644 index 0000000..35f85e3 --- /dev/null +++ b/beakerx_tabledisplay/js/.yarnrc.yml @@ -0,0 +1,2 @@ +nodeLinker: node-modules +enableImmutableInstalls: false diff --git a/beakerx_tabledisplay/js/package.json b/beakerx_tabledisplay/js/package.json index 1532baf..d68f7b3 100644 --- a/beakerx_tabledisplay/js/package.json +++ b/beakerx_tabledisplay/js/package.json @@ -20,14 +20,14 @@ "url": "https://github.com/twosigma/beakerx_tabledisplay.git" }, "scripts": { - "build": "yarn run clean && yarn run build:css && yarn run build:js && webpack", - "build:labextension": "yarn run build && jupyter labextension build .", - "build:labextension:dev": "yarn run build && jupyter labextension build --development True .", + "build": "jlpm run clean && jlpm run build:css && jlpm run build:js && webpack && jlpm run build:labextension", + "build:labextension": "jupyter labextension build .", + "build:labextension:dev": "jupyter labextension build --development True .", "build:css": "sass sass/table_display.scss css/table_display.css", "build:js": "tsc", "watch:js": "tsc --watch", "watch:webpack": "webpack --watch --progress", - "prepublish": "yarn run build", + "prepublish": "jlpm run build", "test": "karma start --single-run", "clean": "rimraf lib css dist ../beakerx_tabledisplay/labextension", "lint": "eslint src/ --ext .ts", @@ -36,8 +36,8 @@ "prettier:fix": "prettier --check src/**/*.{ts,js} --write" }, "devDependencies": { - "@jupyterlab/builder": "^3.2.5", - "@jupyter-widgets/controls": "^3.0.0", + "@jupyter-widgets/controls": "^5", + "@jupyterlab/builder": "^4", "@types/chai": "^4.2.11", "@types/expect.js": "^0.3.29", "@types/mocha": "^7.0.2", @@ -63,6 +63,7 @@ "karma-webpack": "^4.0.2", "mocha": "^7.1.2", "prettier": "^2.0.5", + "rimraf": "^5.0.1", "sass": "^1.26.5", "sass-loader": "^8.0.2", "sinon": "^9.0.2", @@ -70,23 +71,23 @@ "style-loader": "^1.2.1", "to-string-loader": "^1.1.6", "ts-loader": "^7.0.4", - "typescript": "^3.8.3", + "typescript": "^5", "url-loader": "^4.1.0", "webpack": "^5", "webpack-cli": "^4" }, "dependencies": { - "@jupyterlab/application": "^3.2.5", - "@jupyter-widgets/base": "^4.0.0", - "@lumino/algorithm": "^1.3.3", - "@lumino/commands": "^1.11.3", - "@lumino/coreutils": "^1.5.3", - "@lumino/datagrid": "^0.18.0", + "@jupyter-widgets/base": "^4 || ^5 || ^6", + "@jupyterlab/application": "^4", + "@lumino/algorithm": "^2", + "@lumino/commands": "^2", + "@lumino/coreutils": "^2", + "@lumino/datagrid": "^2", "@lumino/datastore": "^0.11.0", - "@lumino/disposable": "^1.4.3", - "@lumino/messaging": "^1.4.3", - "@lumino/signaling": "^1.4.3", - "@lumino/widgets": "^1.14.0", + "@lumino/disposable": "^2", + "@lumino/messaging": "^2", + "@lumino/signaling": "^2", + "@lumino/widgets": "^2", "d3-scale": "2", "file-loader": "^6.0.0", "katex": "^0.11.1", diff --git a/beakerx_tabledisplay/js/src/dataGrid/BeakerXDataGrid.ts b/beakerx_tabledisplay/js/src/dataGrid/BeakerXDataGrid.ts index 1743c81..8a0101f 100644 --- a/beakerx_tabledisplay/js/src/dataGrid/BeakerXDataGrid.ts +++ b/beakerx_tabledisplay/js/src/dataGrid/BeakerXDataGrid.ts @@ -51,9 +51,7 @@ declare global { } export class BeakerXDataGrid extends DataGrid { - id: string; store: BeakerXDataStore; - dataModel: BeakerXDataGridModel; highlighterManager: HighlighterManager; columnManager: ColumnManager; columnPosition: ColumnPosition; @@ -115,6 +113,14 @@ export class BeakerXDataGrid extends DataGrid { this.columnManager.createColumnMenus(); } + get dataModel(): BeakerXDataGridModel { + return super.dataModel as BeakerXDataGridModel; + } + + set dataModel(value: BeakerXDataGridModel) { + super.dataModel = value; + } + scrollTo(x: number, y: number): void { super.scrollTo(x, y); if (this.tableDisplayView.canLoadMore() && this.maxScrollY <= y) { diff --git a/beakerx_tabledisplay/js/src/dataGrid/highlighter/HighlighterManager.ts b/beakerx_tabledisplay/js/src/dataGrid/highlighter/HighlighterManager.ts index 3b51418..c44d1ec 100644 --- a/beakerx_tabledisplay/js/src/dataGrid/highlighter/HighlighterManager.ts +++ b/beakerx_tabledisplay/js/src/dataGrid/highlighter/HighlighterManager.ts @@ -14,7 +14,7 @@ * limitations under the License. */ -import { each, filter, iter, toArray } from '@lumino/algorithm'; +import { each, filter, toArray } from '@lumino/algorithm'; import { CellRenderer } from '@lumino/datagrid'; import { Theme } from '../../utils/Theme'; import { BeakerXDataGrid } from '../BeakerXDataGrid'; @@ -95,7 +95,7 @@ export class HighlighterManager { getColumnHighlighters(column, highlighterType?: HIGHLIGHTER_TYPE): Highlighter[] { return toArray( - filter(iter(this.highlighters), (highlighter: Highlighter) => { + filter(this.highlighters, (highlighter: Highlighter) => { return highlighterType ? highlighter.column === column && highlighter.state.type === highlighterType : highlighter.column === column; @@ -174,7 +174,7 @@ export class HighlighterManager { let background = Theme.DEFAULT_COLOR; const column = this.dataGrid.getColumn(config); - each(iter(this.highlighters), (highlighter) => { + each(this.highlighters, (highlighter: Highlighter) => { if (highlighter.column === column || highlighter.state.style === HIGHLIGHTER_STYLE.FULL_ROW) { background = highlighter.getBackgroundColor(config); } diff --git a/beakerx_tabledisplay/js/src/dataGrid/model/BeakerXDataGridModel.ts b/beakerx_tabledisplay/js/src/dataGrid/model/BeakerXDataGridModel.ts index 8abe91f..b71875e 100644 --- a/beakerx_tabledisplay/js/src/dataGrid/model/BeakerXDataGridModel.ts +++ b/beakerx_tabledisplay/js/src/dataGrid/model/BeakerXDataGridModel.ts @@ -14,7 +14,6 @@ * limitations under the License. */ -import { iter, MapIterator } from '@lumino/algorithm'; import { DataModel } from '@lumino/datagrid'; import { ColumnManager } from '../column/ColumnManager'; import { COLUMN_TYPES } from '../column/enums'; @@ -22,7 +21,6 @@ import { DataFormatter } from '../DataFormatter'; import { ALL_TYPES } from '../dataTypes'; import { IColumn } from '../interface/IColumn'; import { IDataGridModelState } from '../interface/IDataGridModelState'; -import { DataGridRow } from '../row/DataGridRow'; import { RowManager } from '../row/RowManager'; import { BeakerXDataStore } from '../store/BeakerXDataStore'; import { DataGridAction } from '../store/DataGridAction'; @@ -167,12 +165,14 @@ export class BeakerXDataGridModel extends DataModel { this.reset(); } - getColumnValuesIterator(column: IColumn): MapIterator { - if (column.type === COLUMN_TYPES.index) { - return new MapIterator(iter(this.rowManager.rows), (row) => row.index); + *getColumnValuesIterator(column: IColumn): Generator { + for (const row of this.rowManager.rows) { + if (column.type === COLUMN_TYPES.index) { + yield row.index; + } else { + yield row.getValue(column.index); + } } - - return new MapIterator(iter(this.rowManager.rows), (row) => row.getValue(column.index)); } setHeaderTextVertical(headersVertical: boolean) { diff --git a/beakerx_tabledisplay/js/src/dataGrid/row/RowManager.ts b/beakerx_tabledisplay/js/src/dataGrid/row/RowManager.ts index 2005dac..2179e4c 100644 --- a/beakerx_tabledisplay/js/src/dataGrid/row/RowManager.ts +++ b/beakerx_tabledisplay/js/src/dataGrid/row/RowManager.ts @@ -14,19 +14,19 @@ * limitations under the License. */ -import { filter, iter, MapIterator, toArray } from '@lumino/algorithm'; +import { filter, toArray } from '@lumino/algorithm'; import { Theme } from '../../utils/Theme'; import { ColumnFilter } from '../column/ColumnFilter'; import { ColumnManager } from '../column/ColumnManager'; import { DataGridColumn } from '../column/DataGridColumn'; import { COLUMN_TYPES, SORT_ORDER } from '../column/enums'; -// import { selectFontColor, selectValues } from '../model/selectors'; import { BeakerXDataStore } from '../store/BeakerXDataStore'; import { DataGridCellValue } from './DataGridCellValue'; import { DataGridRow } from './DataGridRow'; export class RowManager { - rowsIterator: MapIterator; + _cellValues: any[]; + _hasIndex = false; rows: DataGridRow[]; filterExpression: string; expressionVars: string; @@ -45,12 +45,12 @@ export class RowManager { this.rows = []; this.sortedBy = null; this.columnManager = null; - this.rowsIterator = null; } createRows(store: BeakerXDataStore, hasIndex) { - const cellValues = this.createCellValue(store); - hasIndex ? this.createRowsWithIndex(cellValues) : this.createRowsWithGeneratedIndex(cellValues); + this._cellValues = this.createCellValue(store); + this._hasIndex = hasIndex; + this.resetRows(); } private createCellValue(store: BeakerXDataStore) { @@ -79,21 +79,34 @@ export class RowManager { } } - createRowsWithGeneratedIndex(data) { - this.rowsIterator = new MapIterator( - iter(data), - (values, index) => new DataGridRow(index, values), - ); - this.rows = toArray(this.rowsIterator.clone()); + get rowsIterator(): Generator { + return this._rowsIterator(); + } + + private *_rowsIterator() { + if (this._hasIndex) { + for (const values of this._cellValues) { + yield new DataGridRow(values[0].value, values.slice(1)); + } + } else { + let index = 0; + for (const values of this._cellValues) { + yield new DataGridRow(index, values); + index++; + } + } } - createRowsWithIndex(data) { - this.rowsIterator = new MapIterator( - iter(data), - (values) => new DataGridRow(values[0].value, values.slice(1)), + applyFilterToRows(evalFn, formatFns) { + this.rows = toArray( + filter(this.rowsIterator, (row) => + evalFn ? evalFn(row, formatFns) : this.evaluateFilterExpression(row, formatFns), + ), ); + } - this.rows = toArray(this.rowsIterator.clone()); + resetRows() { + this.rows = toArray(this.rowsIterator); } keepSorting() { @@ -192,7 +205,7 @@ export class RowManager { this.createFilterExpression(); if (!this.filterExpression) { - this.rows = toArray(this.rowsIterator.clone()); + this.resetRows(); this.columnManager.dataGrid.resize(); return; @@ -203,11 +216,7 @@ export class RowManager { formatFns[COLUMN_TYPES.body] = columns[COLUMN_TYPES.body].map((column) => column.formatFn); try { - this.rows = toArray( - filter(this.rowsIterator.clone(), (row) => - evalFn ? evalFn(row, formatFns) : this.evaluateFilterExpression(row, formatFns), - ), - ); + this.applyFilterToRows(evalFn, formatFns); this.sortedBy && this.sortByColumn(this.sortedBy); this.columnManager.dataGrid.resize(); // eslint-disable-next-line no-empty diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/BeakerXDataStore.ts b/beakerx_tabledisplay/js/src/dataGrid/store/BeakerXDataStore.ts index 7be0f53..f990f26 100644 --- a/beakerx_tabledisplay/js/src/dataGrid/store/BeakerXDataStore.ts +++ b/beakerx_tabledisplay/js/src/dataGrid/store/BeakerXDataStore.ts @@ -18,7 +18,6 @@ import * as moment from 'moment-timezone/builds/moment-timezone-with-data'; import {COLUMN_TYPES, SORT_ORDER} from '../column/enums'; import {ALL_TYPES, getDisplayType, getTypeByName} from '../dataTypes'; import {IDataGridModelState} from '../interface/IDataGridModelState'; -import {Datastore, Fields} from "@lumino/datastore"; import {IColumnPosition, IColumnState} from "../interface/IColumn"; import {BeakerXDataGridModel} from "../model/BeakerXDataGridModel"; import {DEFAULT_PAGE_LENGTH, TIME_UNIT_FORMATS} from "../consts"; @@ -37,6 +36,7 @@ import { UPDATE_MODEL_VALUES } from "../model/BeakerXDataGridModel"; import {IHighlighterState} from "../interface/IHighlighterState"; +import {Datastore, Fields} from "./datastore"; const DEFAULT_INDEX_COLUMN_NAME = ''; diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/bplustree.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/bplustree.ts new file mode 100644 index 0000000..1d84a3a --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/bplustree.ts @@ -0,0 +1,1525 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { + ArrayExt, + each +} from '@lumino/algorithm'; + +/** + * A generic B+ tree. + * + * #### Notes + * Most operations have `O(log32 n)` or better complexity. + */ +export class BPlusTree { + /** + * Construct a new B+ tree. + * + * @param cmp - The item comparison function for the tree. + */ + constructor(cmp: (a: T, b: T) => number) { + this.cmp = cmp; + } + + /** + * The item comparison function for the tree. + * + * #### Complexity + * `O(1)` + */ + readonly cmp: (a: T, b: T) => number; + + /** + * Whether the tree is empty. + * + * #### Complexity + * `O(1)` + */ + get isEmpty(): boolean { + return this._root.size === 0; + } + + /** + * The size of the tree. + * + * #### Complexity + * `O(1)` + */ + get size(): number { + return this._root.size; + } + + /** + * The first item in the tree. + * + * This is `undefined` if the tree is empty. + * + * #### Complexity + * `O(log32 n)` + */ + get first(): T | undefined { + let node = Private.firstLeaf(this._root); + return node.size > 0 ? node.items[0] : undefined; + } + + /** + * The last item in the tree. + * + * This is `undefined` if the tree is empty. + * + * #### Complexity + * `O(log32 n)` + */ + get last(): T | undefined { + let node = Private.lastLeaf(this._root); + return node.size > 0 ? node.items[node.size - 1] : undefined; + } + + /** + * Create an iterator over the items in the tree. + * + * @returns A new iterator starting with the first item. + * + * #### Complexity + * `O(log32 n)` + */ + iter(): Iterator { + return Private.iterItems(this._root); + } + + /** + * Create a reverse iterator over the items in the tree. + * + * @returns A new iterator starting with the last item. + * + * #### Complexity + * `O(log32 n)` + */ + retro(): Private.RetroIterator { + return Private.retroItems(this._root); + } + + /** + * Create an iterator for a slice of items in the tree. + * + * @param start - The index of the first item, inclusive. This + * should be `< stop`. Negative values are taken as an offset + * from the end of the tree. The default is `0`. + * + * @param stop - The index of the last item, exclusive. This + * should be `> start`. Negative values are taken as an offset + * from the end of the tree. The default is `size`. + * + * @returns A new iterator starting with the specified item. + * + * #### Complexity + * `O(log32 n)` + */ + slice(start?: number, stop?: number): Private.ForwardIterator { + return Private.sliceItems(this._root, start, stop); + } + + /** + * Create a reverse iterator for a slice of items in the tree. + * + * @param start - The index of the first item, inclusive. This + * should be `> stop`. Negative values are taken as an offset + * from the end of the tree. The default is `size - 1`. + * + * @param stop - The index of the last item, exclusive. This + * should be `< start`. Negative values are taken as an offset + * from the end of the tree. The default is `-size - 1`. + * + * @returns A new reverse iterator starting with the specified item. + * + * #### Complexity + * `O(log32 n)` + */ + retroSlice(start?: number, stop?: number): Private.RetroIterator { + return Private.retroSliceItems(this._root, start, stop); + } + + /** + * Get the item at a particular index. + * + * @param index - The index of the item of interest. Negative + * values are taken as an offset from the end of the tree. + * + * @returns The item at the specified index, or `undefined` if + * the index is out of range. + * + * #### Complexity + * `O(log32 n)` + */ + at(index: number): T | undefined { + return Private.itemAt(this._root, index); + } + + /** + * Test whether the tree has an item which matches a key. + * + * @param key - The key of interest. + * + * @param cmp - A function which compares an item against the key. + * + * @returns `true` if the tree has an item which matches the given + * key, `false` otherwise. + * + * #### Complexity + * `O(log32 n)` + */ + has(key: U, cmp: (item: T, key: U) => number): boolean { + return Private.hasItem(this._root, key, cmp); + } + + /** + * Get the index of an item which matches a key. + * + * @param key - The key of interest. + * + * @param cmp - A function which compares an item against the key. + * + * @returns The index of the item which matches the given key. A + * negative value means that a matching item does not exist in + * the tree, but if one did it would reside at `-index - 1`. + * + * #### Complexity + * `O(log32 n)` + */ + indexOf(key: U, cmp: (item: T, key: U) => number): number { + return Private.indexOf(this._root, key, cmp); + } + + /** + * Get the item which matches a key. + * + * @param item - The key of interest. + * + * @param cmp - A function which compares an item against the key. + * + * @returns The item which matches the given key, or `undefined` if + * the tree does not have a matching item. + * + * #### Complexity + * `O(log32 n)` + */ + get(key: U, cmp: (item: T, key: U) => number): T | undefined { + return Private.getItem(this._root, key, cmp); + } + + /** + * Assign new items to the tree, replacing all current items. + * + * @param items - The items to assign to the tree. + * + * #### Complexity + * `O(n log32 n)` + */ + assign(items: IterableIterator): void { + this.clear(); + this.update(items); + } + + /** + * Insert an item into the tree. + * + * @param item - The item of interest. + * + * @returns If the given item matches an existing item in the tree, + * the given item will replace it, and the existing item will be + * returned. Otherwise, this method returns `undefined`. + * + * #### Complexity + * `O(log32 n)` + */ + insert(item: T): T | undefined { + let existing = Private.insertItem(this._root, item, this.cmp); + this._root = Private.maybeSplitRoot(this._root); + return existing; + } + + /** + * Update the tree with multiple items. + * + * @param items - The items to insert into the tree. + * + * #### Complexity + * `O(k log32 n)` + */ + update(items: IterableIterator): void { + each(items, item => { + this.insert(item); + }); + } + + /** + * Delete an item which matches a particular key. + * + * @param key - The key of interest. + * + * @param cmp - A function which compares an item against the key. + * + * @returns The item removed from the tree, or `undefined` if no + * item matched the given key. + * + * #### Complexity + * `O(log32 n)` + */ + delete(key: U, cmp: (item: T, key: U) => number): T | undefined { + let item = Private.deleteItem(this._root, key, cmp); + this._root = Private.maybeExtractRoot(this._root); + return item; + } + + /** + * Remove an item at a particular index. + * + * @param index - The index of the item to remove. Negative + * values are taken as an offset from the end of the tree. + * + * @returns The item removed from the tree, or `undefined` if + * the given index is out of range. + * + * #### Complexity + * `O(log32 n)` + */ + remove(index: number): T | undefined { + let item = Private.removeItem(this._root, index); + this._root = Private.maybeExtractRoot(this._root); + return item; + } + + /** + * Clear the contents of the tree. + * + * #### Complexity + * `O(n)` + */ + clear(): void { + Private.clear(this._root); + this._root = new Private.LeafNode(); + } + + private _root: Private.Node = new Private.LeafNode(); +} + +/** + * The namespace for the `BPlusTree` class statics. + * + * @deprecated This namespace will be removed in @lumino/collections@^2.0.0 + */ +export namespace BPlusTree { + /** + * Create a new B+ tree populated with the given items. + * + * @param items - The items to add to the tree. + * + * @param cmp - The item comparison function for the tree. + * + * @returns A new B+ tree populated with the given items. + * + * #### Complexity + * `O(n log32 n)` + */ + export function from( + items: IterableIterator, + cmp: (a: T, b: T) => number + ): BPlusTree { + let tree = new BPlusTree(cmp); + tree.assign(items); + return tree; + } +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * A const enum of the B+ tree node types. + */ + export const enum NodeType { + Branch, + Leaf + } + + /** + * A branch node in a B+ tree. + */ + export class BranchNode { + /** + * The left-most item of each child subtree. + */ + readonly items: T[] = []; + + /** + * The cumulative sizes of each child subtree. + */ + readonly sizes: number[] = []; + + /** + * The child nodes of this branch node. + */ + readonly children: Node[] = []; + + /** + * The discriminated type of the node. + */ + get type(): NodeType.Branch { + return NodeType.Branch; + } + + /** + * The total number of items in the subtree. + */ + get size(): number { + return this.sizes[this.sizes.length - 1]; + } + + /** + * The tree width of the node. + */ + get width(): number { + return this.children.length; + } + } + + /** + * A leaf node in a B+ tree. + */ + export class LeafNode { + /** + * The next sibling leaf node of this leaf node. + */ + next: LeafNode | null = null; + + /** + * The previous sibling leaf node of this leaf node. + */ + prev: LeafNode | null = null; + + /** + * The items of the leaf. + */ + readonly items: T[] = []; + + /** + * The discriminated type of the node. + */ + get type(): NodeType.Leaf { + return NodeType.Leaf; + } + + /** + * The total number of items in the leaf. + */ + get size(): number { + return this.items.length; + } + + /** + * The tree width of the node. + */ + get width(): number { + return this.items.length; + } + } + + /** + * A type alias for the B+ tree nodes. + */ + export type Node = BranchNode | LeafNode; + + /** + * Get the first leaf node in the tree. + * + * @param node - The root node of interest. + * + * @returns The first leaf node in the tree. + * + * #### Complexity + * `O(log32 n)` + */ + export function firstLeaf(node: Node): LeafNode { + while (node.type === NodeType.Branch) { + node = node.children[0]; + } + return node; + } + + /** + * Get the last leaf node in the tree. + * + * @param node - The root node of interest. + * + * @returns The last leaf node in the tree. + * + * #### Complexity + * `O(log32 n)` + */ + export function lastLeaf(node: Node): LeafNode { + while (node.type === NodeType.Branch) { + node = node.children[node.children.length - 1]; + } + return node; + } + + /** + * Create a forward iterator for the items in the tree. + * + * @param node - The root node of interest. + * + * @returns A new forward iterator starting with the first item. + * + * #### Complexity + * `O(log32 n)` + */ + export function iterItems(node: Node): ForwardIterator { + let leaf = firstLeaf(node); + return new ForwardIterator(leaf, 0, -1); + } + + /** + * Create a reverse iterator for the items in the tree. + * + * @param node - The root node of interest. + * + * @returns A new reverse iterator starting with the last item. + * + * #### Complexity + * `O(log32 n)` + */ + export function retroItems(node: Node): RetroIterator { + let leaf = lastLeaf(node); + return new RetroIterator(leaf, leaf.size - 1, -1); + } + + /** + * Create an iterator for a slice of items in the tree. + * + * @param node - The root node of interest. + * + * @param start - The index of the first item, inclusive. This + * should be `< stop`. Negative values are taken as an offset + * from the end of the tree. The default is `0`. + * + * @param stop - The index of the last item, exclusive. This + * should be `> start`. Negative values are taken as an offset + * from the end of the tree. The default is `size`. + * + * @returns A new iterator starting with the specified item. + * + * #### Complexity + * `O(log32 n)` + */ + export function sliceItems( + node: Node, + start?: number, + stop?: number + ): ForwardIterator { + // Normalize the start index. + if (start === undefined) { + start = 0; + } else if (start < 0) { + start = Math.max(0, start + node.size); + } else { + start = Math.min(start, node.size); + } + + // Normalize the stop index. + if (stop === undefined) { + stop = node.size; + } else if (stop < 0) { + stop = Math.max(0, stop + node.size); + } else { + stop = Math.min(stop, node.size); + } + + // Compute effective count. + let count = Math.max(0, stop - start); + + // Bail early if there is nothing to iterate. + if (count === 0) { + return new ForwardIterator(null, 0, 0); + } + + // Find the starting leaf node and local index. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByIndex(node.sizes, start); + if (i > 0) start -= node.sizes[i - 1]; + node = node.children[i]; + } + + // Return the forward iterator for the range. + return new ForwardIterator(node, start, count); + } + + /** + * Create a reverse iterator for a slice of items in the tree. + * + * @param node - The root node of interest. + * + * @param start - The index of the first item, inclusive. This + * should be `> stop`. Negative values are taken as an offset + * from the end of the tree. The default is `size - 1`. + * + * @param stop - The index of the last item, exclusive. This + * should be `< start`. Negative values are taken as an offset + * from the end of the tree. The default is `-size - 1`. + * + * @returns A new reverse iterator starting with the specified item. + * + * #### Complexity + * `O(log32 n)` + */ + export function retroSliceItems( + node: Node, + start?: number, + stop?: number + ): RetroIterator { + // Normalize the start index. + if (start === undefined) { + start = node.size - 1; + } else if (start < 0) { + start = Math.max(-1, start + node.size); + } else { + start = Math.min(start, node.size - 1); + } + + // Normalize the stop index. + if (stop === undefined) { + stop = -1; + } else if (stop < 0) { + stop = Math.max(-1, stop + node.size); + } else { + stop = Math.min(stop, node.size - 1); + } + + // Compute the effective count. + let count = Math.max(0, start - stop); + + // Bail early if there is nothing to iterate. + if (count === 0) { + return new RetroIterator(null, 0, 0); + } + + // Find the starting leaf node and local index. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByIndex(node.sizes, start); + if (i > 0) start -= node.sizes[i - 1]; + node = node.children[i]; + } + + // Return the retro iterator for the range. + return new RetroIterator(node, start, count); + } + + /** + * Get the item at the specified index. + * + * @param node - The root node of interest. + * + * @param index - The index of the item of interest. Negative + * values are taken as an offset from the end of the tree. + * + * @returns The item at the specified index, or `undefined` if + * the index is out of range. + * + * #### Complexity + * `O(log32 n)` + */ + export function itemAt(node: Node, index: number): T | undefined { + // Wrap negative indices. + if (index < 0) { + index += node.size; + } + + // Bail early if the index is out of range. + if (index < 0 || index >= node.size) { + return undefined; + } + + // Find the containing leaf node and local index. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByIndex(node.sizes, index); + if (i > 0) index -= node.sizes[i - 1]; + node = node.children[i]; + } + + // Return the item at the specified index. + return node.items[index]; + } + + /** + * Test whether the tree contains an item which matches a key. + * + * @param node - The root node of interest. + * + * @param key - The key of interest. + * + * @param cmp - The key comparison function. + * + * @returns Whether the tree contains a matching item. + * + * #### Complexity + * `O(log32 n)` + */ + export function hasItem( + node: Node, + key: U, + cmp: (item: T, key: U) => number + ): boolean { + // Find the containing leaf node. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByKey(node.items, key, cmp); + node = node.children[i]; + } + + // Find the key index. + let i = findKeyIndex(node.items, key, cmp); + + // Return whether or not the node contains a matching item. + return i >= 0; + } + + /** + * Get the index of the item which matches a key. + * + * @param node - The node of interest. + * + * @param key - The key of interest. + * + * @param cmp - The key comparison function. + * + * @returns The index of the item which matches the given key. A + * negative value means that a matching item does not exist in + * the tree, but if one did it would reside at `-index - 1`. + * + * #### Complexity + * `O(log32 n)` + */ + export function indexOf( + node: Node, + key: U, + cmp: (item: T, key: U) => number + ): number { + // Set up the global index. + let index = 0; + + // Find the containing leaf node and global index. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByKey(node.items, key, cmp); + if (i > 0) index += node.sizes[i - 1]; + node = node.children[i]; + } + + // Find the key index. + let i = findKeyIndex(node.items, key, cmp); + + // Return the final computed index. + return i >= 0 ? index + i : -index + i; + } + + /** + * Get the item for a particular key. + * + * @param node - The node of interest. + * + * @param key - The key of interest. + * + * @param cmp - The key comparison function. + * + * @returns The item for the specified key, or `undefined` if + * the tree does not have a matching item for the key. + * + * #### Complexity + * `O(log32 n)` + */ + export function getItem( + node: Node, + key: U, + cmp: (item: T, key: U) => number + ): T | undefined { + // Find the containing leaf node. + while (node.type === NodeType.Branch) { + let i = findPivotIndexByKey(node.items, key, cmp); + node = node.children[i]; + } + + // Find the key index. + let i = findKeyIndex(node.items, key, cmp); + + // Return the item for the given key. + return i >= 0 ? node.items[i] : undefined; + } + + /** + * Insert an item into the tree. + * + * @param node - The root node of interest. + * + * @param item - The item of interest. + * + * @param cmp - The item comparison function. + * + * @returns If the given item matches an existing item in the tree, + * the given item will replace it, and the existing item will be + * returned. Otherwise, this function returns `undefined`. + * + * #### Complexity + * `O(log32 n)` + * + * #### Notes + * The root may be overfull after calling this function. + */ + export function insertItem( + node: Node, + item: T, + cmp: (a: T, b: T) => number + ): T | undefined { + // Handle leaf nodes first. + if (node.type === NodeType.Leaf) { + // Find the index for the given item. + let i = findKeyIndex(node.items, item, cmp); + + // Fetch the existing item and insert the new item. + let existing: T | undefined; + if (i >= 0) { + existing = node.items[i]; + node.items[i] = item; + } else { + existing = undefined; + ArrayExt.insert(node.items, -i - 1, item); + } + + // Return the existing item. + return existing; + } + + // Find the pivot index for the insert. + let i = findPivotIndexByKey(node.items, item, cmp); + + // Fetch the pivot child. + let child = node.children[i]; + + // Fetch the current size of the child. + let prevSize = child.size; + + // Recursively insert the item into the child. + let existing = insertItem(child, item, cmp); + + // Fetch the updated size of the child. + let currSize = child.size; + + // Update the item state of the branch. + node.items[i] = child.items[0]; + + // Bail early if the child size did not change. + if (prevSize === currSize) { + return existing; + } + + // Split the child if it's overfull. + if (child.width > MAX_NODE_WIDTH) { + let next = splitNode(child); + ArrayExt.insert(node.children, i + 1, next); + ArrayExt.insert(node.items, i + 1, next.items[0]); + } + + // Update the dirty sizes of the branch. + updateSizes(node, i); + + // Return the existing item. + return existing; + } + + /** + * Delete an item in the tree. + * + * @param node - The node of interest. + * + * @param key - The key of interest. + * + * @param cmp - The key comparison function. + * + * @returns The deleted item or `undefined`. + * + * #### Complexity + * `O(log32 n)` + * + * #### Notes + * The root may be underfull after calling this function. + */ + export function deleteItem( + node: Node, + key: U, + cmp: (item: T, key: U) => number + ): T | undefined { + // Handle leaf nodes first. + if (node.type === NodeType.Leaf) { + // Find the index for the given key. + let i = findKeyIndex(node.items, key, cmp); + + // Bail early if the item does not exist. + if (i < 0) { + return undefined; + } + + // Remove the item at the computed index. + return ArrayExt.removeAt(node.items, i); + } + + // Find the pivot index for the delete. + let i = findPivotIndexByKey(node.items, key, cmp); + + // Fetch the pivot child. + let child = node.children[i]; + + // Fetch the current size of the child. + let prevSize = child.size; + + // Recursively remove the item from the child. + let item = deleteItem(child, key, cmp); + + // Fetch the updated size of the child. + let currSize = child.size; + + // Bail early if the child size did not change. + if (prevSize === currSize) { + return item; + } + + // Update the item state of the branch. + node.items[i] = child.items[0]; + + // Join the child if it's underfull. + if (child.width < MIN_NODE_WIDTH) { + i = joinChild(node, i); + } + + // Update the dirty sizes of the branch. + updateSizes(node, i); + + // Return the deleted item. + return item; + } + + /** + * Remove an item from the tree. + * + * @param node - The node of interest. + * + * @param index - The index of interest. + * + * @returns The removed item or `undefined`. + * + * #### Complexity + * `O(log32 n)` + * + * #### Notes + * The root may be underfull after calling this function. + */ + export function removeItem(node: Node, index: number): T | undefined { + // Wrap negative indices. + if (index < 0) { + index += node.size; + } + + // Bail early if the index is out of range. + if (index < 0 || index >= node.size) { + return undefined; + } + + // Handle leaf nodes first. + if (node.type === NodeType.Leaf) { + return ArrayExt.removeAt(node.items, index); + } + + // Find the pivot index for the remove. + let i = findPivotIndexByIndex(node.sizes, index); + if (i > 0) index -= node.sizes[i]; + + // Fetch the pivot child. + let child = node.children[i]; + + // Recursively remove the item from the child. + let item = removeItem(child, index); + + // Update the item state of the branch. + node.items[i] = child.items[0]; + + // Join the child if it's underfull. + if (child.width < MIN_NODE_WIDTH) { + i = joinChild(node, i); + } + + // Update the dirty sizes of the branch. + updateSizes(node, i); + + // Return the removed item. + return item; + } + + /** + * Recursively clear the contents of a node. + * + * @param node - The node of interest. + * + * #### Complexity + * `O(n)` + */ + export function clear(node: Node): void { + if (node.type === NodeType.Branch) { + each(node.children, clear); + node.children.length = 0; + node.sizes.length = 0; + node.items.length = 0; + } else { + node.items.length = 0; + node.next = null; + node.prev = null; + } + } + + /** + * Split a root node and create a new root, if needed. + * + * @param node - The root node of interest. + * + * @returns The new root node. + */ + export function maybeSplitRoot(node: Node): Node { + // Bail early if the current root is not overfull. + if (node.width <= MAX_NODE_WIDTH) { + return node; + } + + // Create a new root branch node. + let root = new BranchNode(); + + // Split the node to the right and create a new sibling. + let next = splitNode(node); + + // Add the sizes to the root. + root.sizes[0] = node.size; + root.sizes[1] = node.size + next.size; + + // Add the children to the root. + root.children[0] = node; + root.children[1] = next; + + // Add the items to the root. + root.items[0] = node.items[0]; + root.items[1] = next.items[0]; + + // Return the new root node. + return root; + } + + /** + * Extract a single node child as a new root, if needed. + * + * @param node - The root node of interest. + * + * @returns The new root node. + */ + export function maybeExtractRoot(node: Node): Node { + // Bail early if the node it already a leaf. + if (node.type === NodeType.Leaf) { + return node; + } + + // Bail early if the branch has more than one child. + if (node.children.length > 1) { + return node; + } + + // Extract the sole remaining child as the new root. + let root = node.children.pop()!; + + // Clear the rest of the node state. + clear(node); + + // Return the new root. + return root; + } + + /** + * The maximum width for a node in the tree. + */ + const MAX_NODE_WIDTH = 32; + + /** + * The minimum width for a node in the tree. + */ + const MIN_NODE_WIDTH = MAX_NODE_WIDTH >> 1; + + /** + * A forward iterator for a B+ tree. + */ + export class ForwardIterator { + /** + * Construct a new forward iterator. + * + * @param node - The first leaf node in the chain. + * + * @param index - The local index of the first item. + * + * @param count - The number of items to iterate. A value `< 0` + * will iterate all available items. + */ + constructor(node: LeafNode | null, index: number, count: number) { + this._node = node; + this._index = index; + this._count = count; + } + + /** + * Create an independent clone of the iterator. + * + * @returns A new independent clone of the iterator. + */ + clone(): ForwardIterator { + return new ForwardIterator(this._node, this._index, this._count); + } + + /** + * Get the next value from the iterator. + * + * @returns The next value from the iterator, or `undefined`. + */ + next(): IteratorResult { + if (this._node === null || this._count === 0) { + return { + done: true, + value: undefined + }; + } + if (this._index >= this._node.size) { + this._node = this._node.next; + this._index = 0; + return this.next(); + } + if (this._count > 0) { + this._count--; + } + return { + done: false, + value: this._node.items[this._index++] + }; + } + + private _index: number; + private _count: number; + private _node: LeafNode | null; + } + + /** + * A reverse iterator for a B+ tree. + */ + export class RetroIterator { + /** + * Construct a new retro iterator. + * + * @param node - The last leaf node in the chain. + * + * @param index - The local index of the last item. + * + * @param count - The number of items to iterate. A value `< 0` + * will iterate all available items. + */ + constructor(node: LeafNode | null, index: number, count: number) { + this._node = node; + this._index = index; + this._count = count; + } + + /** + * Get an iterator over the object's values. + * + * @returns An iterator which yields the object's values. + */ + iter(): RetroIterator { + return this; + } + + /** + * Create an independent clone of the iterator. + * + * @returns A new independent clone of the iterator. + */ + clone(): RetroIterator { + return new RetroIterator(this._node, this._index, this._count); + } + + /** + * Get the next value from the iterator. + * + * @returns The next value from the iterator, or `undefined`. + */ + next(): T | undefined { + if (this._node === null || this._count === 0) { + return undefined; + } + if (this._index >= this._node.size) { + this._index = this._node.size - 1; + } + if (this._index < 0) { + this._node = this._node.prev; + this._index = this._node ? this._node.size - 1 : -1; + return this.next(); + } + if (this._count > 0) { + this._count--; + } + return this._node.items[this._index--]; + } + + private _index: number; + private _count: number; + private _node: LeafNode | null; + } + + /** + * Find the pivot index for a particular local index. + */ + function findPivotIndexByIndex(sizes: number[], index: number): number { + let n = sizes.length; + for (let i = 0; i < n; ++i) { + if (sizes[i] > index) { + return i; + } + } + return n - 1; + } + + /** + * Find the pivot index for a particular key. + */ + function findPivotIndexByKey( + items: T[], + key: U, + cmp: (item: T, key: U) => number + ): number { + let n = items.length; + for (let i = 1; i < n; ++i) { + if (cmp(items[i], key) > 0) { + return i - 1; + } + } + return n - 1; + } + + /** + * Find the key index for a particular key. + */ + function findKeyIndex( + items: T[], + key: U, + cmp: (item: T, key: U) => number + ): number { + let n = items.length; + for (let i = 0; i < n; ++i) { + let c = cmp(items[i], key); + if (c === 0) { + return i; + } + if (c > 0) { + return -i - 1; + } + } + return -n - 1; + } + + /** + * Update the sizes of a branch node starting at the given index. + */ + function updateSizes(node: BranchNode, i: number): void { + let { sizes, children } = node; + let last = i > 0 ? sizes[i - 1] : 0; + for (let n = children.length; i < n; ++i) { + last = sizes[i] = last + children[i].size; + } + sizes.length = children.length; + } + + /** + * Split a node and return its new next sibling. + * + * @param node - The node of interest. + * + * @returns The new next sibling node. + */ + function splitNode(node: Node): Node { + // Handle leaf nodes first. + if (node.type === NodeType.Leaf) { + // Create the new sibling leaf node. + let next = new LeafNode(); + + // Move the items to the new sibling. + let v1 = node.items; + let v2 = next.items; + for (let i = MIN_NODE_WIDTH, n = v1.length; i < n; ++i) { + v2.push(v1[i]); + } + v1.length = MIN_NODE_WIDTH; + + // Patch up the sibling links. + if (node.next) node.next.prev = next; + next.next = node.next; + next.prev = node; + node.next = next; + + // Return the new next sibling. + return next; + } + + // Create the new sibling branch node. + let next = new BranchNode(); + + // Move the children to the new sibling. + let c1 = node.children; + let c2 = next.children; + for (let i = MIN_NODE_WIDTH, n = c1.length; i < n; ++i) { + c2.push(c1[i]); + } + c1.length = MIN_NODE_WIDTH; + + // Move the items to the new sibling. + let v1 = node.items; + let v2 = next.items; + for (let i = MIN_NODE_WIDTH, n = v1.length; i < n; ++i) { + v2.push(v1[i]); + } + v1.length = MIN_NODE_WIDTH; + + // Update the dirty sizes of the nodes. + updateSizes(node, MIN_NODE_WIDTH); + updateSizes(next, 0); + + // Return the new next sibling. + return next; + } + + /** + * Join a child node of a branch with one of its siblings. + * + * @param node - The branch node of interest. + * + * @param i - The index of the child node of interest. + * + * @returns The first modified index. + * + * #### Notes + * This may cause the branch to become underfull. + */ + function joinChild(node: BranchNode, i: number): number { + // Fetch the child to be joined. + let child = node.children[i]; + + // Fetch the relevant sibling. + let sibling = i === 0 ? node.children[i + 1] : node.children[i - 1]; + + // Compute the flags which control the join behavior. + let hasNext = i === 0; + let isLeaf = child.type === NodeType.Leaf; + let hasExtra = sibling.width > MIN_NODE_WIDTH; + + // Join case #1: steal from next sibling leaf + if (isLeaf && hasExtra && hasNext) { + // Cast the children as leaves. + let c = child as LeafNode; + let s = sibling as LeafNode; + + // Steal an item. + c.items.push(s.items.shift()!); + + // Update the branch items. + node.items[i + 1] = s.items[0]; + + // Return the first modified index. + return i; + } + + // Join case #2: steal from previous sibling leaf + if (isLeaf && hasExtra && !hasNext) { + // Cast the children as leaves. + let c = child as LeafNode; + let s = sibling as LeafNode; + + // Steal an item. + c.items.unshift(s.items.pop()!); + + // Update the branch items. + node.items[i] = c.items[0]; + + // Return the first modified index. + return i - 1; + } + + // Join case #3: merge with next sibling leaf + if (isLeaf && !hasExtra && hasNext) { + // Cast the children as leaves. + let c = child as LeafNode; + let s = sibling as LeafNode; + + // Merge items. + s.items.unshift(...c.items); + + // Remove the old branch child. + ArrayExt.removeAt(node.children, i); + + // Remove the stale branch item. + ArrayExt.removeAt(node.items, i + 1); + + // Patch up the sibling links. + if (c.prev) c.prev.next = s; + s.prev = c.prev; + + // Clear the original child. + clear(c); + + // Return the first modified index. + return i; + } + + // Join case #4: merge with previous sibling leaf + if (isLeaf && !hasExtra && !hasNext) { + // Cast the children as leaves. + let c = child as LeafNode; + let s = sibling as LeafNode; + + // Merge items. + s.items.push(...c.items); + + // Remove the old branch child. + ArrayExt.removeAt(node.children, i); + + // Remove the stale branch item. + ArrayExt.removeAt(node.items, i); + + // Patch up the sibling links. + if (c.next) c.next.prev = s; + s.next = c.next; + + // Clear the original child. + clear(c); + + // Return the first modified index. + return i - 1; + } + + // Join case #5: steal from next sibling branch + if (!isLeaf && hasExtra && hasNext) { + // Cast the children to branches. + let c = child as BranchNode; + let s = sibling as BranchNode; + + // Steal a child from the next sibling. + c.children.push(s.children.shift()!); + + // Steal an item from the next sibling. + c.items.push(s.items.shift()!); + + // Update the branch items. + node.items[i + 1] = s.items[0]; + + // Update the sibling sizes. + updateSizes(c, c.width - 1); + updateSizes(s, 0); + + // Return the first modified index. + return i; + } + + // Join case #6: steal from previous sibling branch + if (!isLeaf && hasExtra && !hasNext) { + // Cast the children to branches. + let c = child as BranchNode; + let s = sibling as BranchNode; + + // Steal a child from the previous sibling. + c.children.unshift(s.children.pop()!); + + // Steal an item from the previous sibling. + c.items.unshift(s.items.pop()!); + + // Update the branch items. + node.items[i] = c.items[0]; + + // Update the sibling sizes. + updateSizes(c, 0); + updateSizes(s, s.width - 1); + + // Return the first modified index. + return i - 1; + } + + // Join case #7: merge with next sibling branch + if (!isLeaf && !hasExtra && hasNext) { + // Cast the children to branches. + let c = child as BranchNode; + let s = sibling as BranchNode; + + // Merge the children with the next sibling. + s.children.unshift(...c.children); + + // Merge the items with the next sibling. + s.items.unshift(...c.items); + + // Remove the old branch child. + ArrayExt.removeAt(node.children, i); + + // Remove the stale branch item. + ArrayExt.removeAt(node.items, i + 1); + + // Update the sibling sizes. + updateSizes(s, 0); + + // Clear the original child but, not its children. + c.children.length = 0; + clear(c); + + // Return the first modified index. + return i; + } + + // Join case #8: merge with previous sibling branch + if (!isLeaf && !hasExtra && !hasNext) { + // Cast the children to branches. + let c = child as BranchNode; + let s = sibling as BranchNode; + + // Merge the children with the previous sibling. + s.children.push(...c.children); + + // Merge the items with the previous sibling. + s.items.push(...c.items); + + // Remove the old branch child. + ArrayExt.removeAt(node.children, i); + + // Remove the stale branch item. + ArrayExt.removeAt(node.items, i); + + // Update the sibling sizes. + updateSizes(s, 0); + + // Clear the original child, but not its children. + c.children.length = 0; + clear(c); + + // Return the first modified index. + return i - 1; + } + + // One of the above cases must match. + throw 'unreachable'; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/datastore.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/datastore.ts new file mode 100644 index 0000000..bb84e7e --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/datastore.ts @@ -0,0 +1,1074 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2019, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { + map, + StringExt +} from '@lumino/algorithm'; + +import { LinkedList } from '@lumino/collections'; + +import { DisposableDelegate, IDisposable } from '@lumino/disposable'; + +import { + ConflatableMessage, + IMessageHandler, + Message, + MessageLoop +} from '@lumino/messaging'; + +import { ISignal, Signal } from '@lumino/signaling'; + +import { Record } from './record'; + +import { Schema, validateSchema } from './schema'; + +import { IServerAdapter } from './serveradapter'; + +import { Table } from './table'; + +import { createDuplexId } from './utilities'; + +import { BPlusTree } from './bplustree'; + +/** + * A multi-user collaborative datastore. + * + * #### Notes + * A store is structured in a maximally flat way using a hierarchy + * of tables, records, and fields. Internally, the object graph is + * synchronized among all users via CRDT algorithms. + * + * https://en.wikipedia.org/wiki/Conflict-free_replicated_data_type + * https://hal.inria.fr/file/index/docid/555588/filename/techreport.pdf + */ +export class Datastore + implements IDisposable, IMessageHandler { + /** + * Create a new datastore. + * + * @param options - The options for creating the datastore + * + * @returns A new datastore table. + * + * @throws An exception if any of the schema definitions are invalid. + */ + static create(options: Datastore.IOptions): Datastore { + let { schemas } = options; + // Throws an error for invalid schemas: + Private.validateSchemas(schemas); + + let context = { + inTransaction: false, + transactionId: '', + version: 0, + storeId: options.id, + change: {}, + patch: {} + }; + + let tables = new BPlusTree>(Private.recordCmp); + if (options.restoreState) { + // If passed state to restore, pass the intital state to recreate each + // table + let state = JSON.parse(options.restoreState); + tables.assign( + map(schemas, s => { + return Table.recreate(s, context, state[s.id] || []); + }) + ); + } else { + // Otherwise, simply create a new, empty table + tables.assign( + map(schemas, s => { + return Table.create(s, context); + }) + ); + } + + return new Datastore(context, tables, options.adapter); + } + + /** + * Dispose of the resources held by the datastore. + */ + dispose(): void { + // Bail if already disposed. + if (this._disposed) { + return; + } + this._disposed = true; + Signal.clearData(this); + + this._adapter = null; + } + + /** + * Whether the datastore has been disposed. + */ + get isDisposed(): boolean { + return this._disposed; + } + + /** + * A signal emitted when changes are made to the store. + * + * #### Notes + * This signal is emitted either at the end of a local mutation, + * or after a remote mutation has been applied. The storeId can + * be used to determine its source. + * + * The payload represents the set of local changes that were made + * to bring the store to its current state. + * + * #### Complexity + * `O(1)` + */ + get changed(): ISignal { + return this._changed; + } + + /** + * The unique id of the store. + * + * #### Notes + * The id is unique among all other collaborating peers. + * + * #### Complexity + * `O(1)` + */ + get id(): number { + return this._context.storeId; + } + + /** + * Whether a transaction is currently in progress. + * + * #### Complexity + * `O(1)` + */ + get inTransaction(): boolean { + return this._context.inTransaction; + } + + /** + * The current version of the datastore. + * + * #### Notes + * This version is automatically increased for each transaction + * to the store. However, it might not increase linearly (i.e. + * it might make jumps). + * + * #### Complexity + * `O(1)` + */ + get version(): number { + return this._context.version; + } + + /** + * Get the table for a particular schema. + * + * @param schema - The schema of interest. + * + * @returns The table for the specified schema. + * + * @throws An exception if no table exists for the given schema. + * + * #### Complexity + * `O(log32 n)` + */ + get(schema: S): Table { + let t = this._tables.get(schema.id, Private.recordIdCmp); + if (t === undefined) { + throw new Error(`No table found for schema with id: ${schema.id}`); + } + return t as Table; + } + + /** + * Begin a new transaction in the store. + * + * @returns The id of the new transaction + * + * @throws An exception if a transaction is already in progress. + * + * #### Notes + * This will allow the state of the store to be mutated + * thorugh the `update` method on the individual tables. + * + * After the updates are completed, `endTransaction` should + * be called. + */ + beginTransaction(): string { + let newVersion = this._context.version + 1; + let id = this._transactionIdFactory(newVersion, this.id); + this._initTransaction(id, newVersion); + MessageLoop.postMessage(this, new ConflatableMessage('transaction-begun')); + return id; + } + + /** + * Completes a transaction. + * + * #### Notes + * This completes a transaction previously started with + * `beginTransaction`. If a change has occurred, the + * `changed` signal will be emitted. + */ + endTransaction(): void { + this._finalizeTransaction(); + let { patch, change, storeId, transactionId, version } = this._context; + // Possibly broadcast the transaction to collaborators. + if (this._adapter && !Private.isPatchEmpty(patch)) { + this._adapter.broadcast({ + id: transactionId, + storeId, + patch, + version + }); + } + // Add the transation to the cemetery to indicate it is visible. + this._cemetery[transactionId] = 1; + // Emit a change signal + if (!Private.isChangeEmpty(this._context.change)) { + this._changed.emit({ + storeId, + transactionId, + type: 'transaction', + change + }); + } + } + + /** + * Handle a message. + */ + processMessage(msg: Message): void { + switch (msg.type) { + case 'transaction-begun': + if (this._context.inTransaction) { + console.warn( + `Automatically ending transaction (did you forget to end it?): ${this._context.transactionId}` + ); + this.endTransaction(); + } + break; + case 'queued-transaction': + this._processQueue(); + break; + default: + break; + } + } + + /** + * Undo a patch that was previously applied. + * + * @param transactionId - The transaction to undo. + * + * @returns A promise which resolves when the action is complete. + * + * @throws An exception if `undo` is called during a mutation, or if no + * server adapter has been set for the datastore. + * + * #### Notes + * If changes are made, the `changed` signal will be emitted before + * the promise resolves. + */ + undo(transactionId: string): Promise { + if (!this._adapter) { + throw Error('No server adapter has been set for the datastore'); + } + if (this.inTransaction) { + throw Error('Cannot undo during a transaction'); + } + return this._adapter.undo(transactionId); + } + + /** + * Redo a patch that was previously undone. + * + * @param transactionId - The transaction to redo. + * + * @returns A promise which resolves when the action is complete. + * + * @throws An exception if `redo` is called during a mutation, or if no + * server adapter has been set for the datastore. + * + * #### Notes + * If changes are made, the `changed` signal will be emitted before + * the promise resolves. + */ + redo(transactionId: string): Promise { + if (!this._adapter) { + throw Error('No server adapter has been set for the datastore'); + } + if (this.inTransaction) { + throw Error('Cannot redo during a transaction'); + } + return this._adapter.redo(transactionId); + } + + /** + * The handler for broadcasting transactions to peers. + */ + get adapter(): IServerAdapter | null { + return this._adapter; + } + + /** + * Create a new datastore. + * + * @param id - The unique id of the datastore. + * @param tables - The tables of the datastore. + */ + private constructor( + context: Datastore.Context, + tables: BPlusTree>, + adapter?: IServerAdapter, + transactionIdFactory?: Datastore.TransactionIdFactory + ) { + this._context = context; + this._tables = tables; + this._adapter = adapter || null; + this._transactionIdFactory = transactionIdFactory || createDuplexId; + if (this._adapter) { + this._adapter.onRemoteTransaction = this._onRemoteTransaction.bind(this); + this._adapter.onUndo = this._onUndo.bind(this); + this._adapter.onRedo = this._onRedo.bind(this); + } + } + + /** + * Handle a transaction from the server adapter. + */ + private _onRemoteTransaction(transaction: Datastore.Transaction): void { + this._processTransaction(transaction, 'transaction'); + } + + /** + * Handle an undo from the server adapter. + */ + private _onUndo(transaction: Datastore.Transaction): void { + this._processTransaction(transaction, 'undo'); + } + + /** + * Handle a redo from the server adapter. + */ + private _onRedo(transaction: Datastore.Transaction): void { + this._processTransaction(transaction, 'redo'); + } + + /** + * Apply a transaction to the datastore. + * + * @param transactionApplication - The data of the transaction. + * + * @throws An exception if `processTransaction` is called during a mutation. + * + * #### Notes + * If changes are made, the `changed` signal will be emitted. + */ + private _processTransaction( + transaction: Datastore.Transaction, + type: Datastore.TransactionType + ): void { + let { storeId, patch } = transaction; + + try { + this._initTransaction( + transaction.id, + Math.max(this._context.version, transaction.version) + ); + } catch (e) { + // Already in a transaction. Put the transaction in the queue to apply + // later. + this._queueTransaction(transaction, type); + return; + } + let change: Datastore.MutableChange = {}; + try { + Object.keys(patch).forEach((schemaId) => { + const tablePatch = patch[schemaId]; + let table = this._tables.get(schemaId, Private.recordIdCmp); + if (table === undefined) { + console.warn( + `Missing table for schema id '${schemaId}' in transaction '${transaction.id}'` + ); + this._finalizeTransaction(); + return; + } + if (type === 'transaction' || type === 'redo') { + let count = this._cemetery[transaction.id]; + if (count === undefined) { + this._cemetery[transaction.id] = 1; + change[schemaId] = Table.patch(table, tablePatch); + return; + } + this._cemetery[transaction.id] = count + 1; + // If the transaction is just now positive, apply it to the store. + if (this._cemetery[transaction.id] === 1) { + change[schemaId] = Table.patch(table, tablePatch); + return; + } + } else { + let count = this._cemetery[transaction.id]; + if (count === undefined) { + this._cemetery[transaction.id] = -1; + return; + } + this._cemetery[transaction.id] = count - 1; + // If the transaction hasn't already been unapplied, do so. + if (this._cemetery[transaction.id] === 0) { + change[schemaId] = Table.unpatch(table, tablePatch); + } + } + }); + } finally { + this._finalizeTransaction(); + } + if (!Private.isChangeEmpty(change)) { + this._changed.emit({ + storeId, + transactionId: transaction.id, + type, + change + }); + } + } + + /** + * Queue a transaction for later application. + * + * @param transaction - the transaction to queue. + */ + private _queueTransaction( + transaction: Datastore.Transaction, + type: Datastore.TransactionType + ): void { + this._transactionQueue.addLast([transaction, type]); + MessageLoop.postMessage(this, new ConflatableMessage('queued-transaction')); + } + + /** + * Process all transactions currently queued. + */ + private _processQueue(): void { + let queue = this._transactionQueue; + // If the transaction queue is empty, bail. + if (queue.isEmpty) { + return; + } + + // Add a sentinel value to the end of the queue. The queue will + // only be processed up to the sentinel. Transactions added during + // this cycle will execute on the next cycle. + let sentinel = {}; + queue.addLast(sentinel as any); + + // Enter the processing loop. + // eslint-disable-next-line no-constant-condition + while (true) { + // Remove the first transaction in the queue. + let [transaction, type] = queue.removeFirst()!; + + // If the value is the sentinel, exit the loop. + if (transaction === sentinel) { + return; + } + + // Apply the transaction. + this._processTransaction(transaction, type); + } + } + + /** + * Reset the context state for a new transaction. + * + * @param id - The id of the new transaction. + * @param newVersion - The version of the datastore after the transaction. + * + * @throws An exception if a transaction is already in progress. + */ + private _initTransaction(id: string, newVersion: number): void { + let context = this._context as Private.MutableContext; + if (context.inTransaction) { + throw new Error( + `Already in a transaction: ${this._context.transactionId}` + ); + } + context.inTransaction = true; + context.change = {}; + context.patch = {}; + context.transactionId = id; + context.version = newVersion; + } + + /** + * Finalize the context state for a transaction in progress. + * + * @throws An exception if no transaction is in progress. + */ + private _finalizeTransaction(): void { + let context = this._context as Private.MutableContext; + if (!context.inTransaction) { + throw new Error('No transaction in progress.'); + } + context.inTransaction = false; + } + + private _adapter: IServerAdapter | null; + private _cemetery: { [id: string]: number } = {}; + private _disposed = false; + private _tables: BPlusTree>; + private _context: Datastore.Context; + private _changed = new Signal(this); + private _transactionIdFactory: Datastore.TransactionIdFactory; + private _transactionQueue = new LinkedList< + [Datastore.Transaction, Datastore.TransactionType] + >(); +} + +/** + * The namespace for the `Datastore` class statics. + */ +export namespace Datastore { + /** + * A type alias for kinds of transactions. + */ + export type TransactionType = 'transaction' | 'undo' | 'redo'; + + /** + * An options object for initializing a datastore. + */ + export interface IOptions { + /** + * The unique id of the datastore. + */ + id: number; + + /** + * The table schemas of the datastore. + */ + schemas: ReadonlyArray; + + /** + * An optional handler for broadcasting transactions to peers. + */ + adapter?: IServerAdapter; + + /** + * An optional transaction id factory to override the default. + */ + transactionIdFactory?: TransactionIdFactory; + + /** + * Initialize the state to a previously serialized one. + */ + restoreState?: string; + } + + /** + * The arguments object for the store `changed` signal. + */ + export interface IChangedArgs { + /** + * Whether the change was generated by transaction, undo, or redo. + */ + readonly type: TransactionType; + + /** + * The transaction id associated with the change. + */ + readonly transactionId: string; + + /** + * The id of the store responsible for the change. + */ + readonly storeId: number; + + /** + * A mapping of schema id to table change set. + */ + readonly change: Change; + } + + /** + * A type alias for a store change. + */ + export type Change = { + readonly [schemaId: string]: Table.Change; + }; + + /** + * A type alias for a store patch. + */ + export type Patch = { + readonly [schemaId: string]: Table.Patch; + }; + + /** + * @internal + */ + export type MutableChange = { + [schemaId: string]: Table.MutableChange; + }; + + /** + * @internal + */ + export type MutablePatch = { + [schemaId: string]: Table.MutablePatch; + }; + + /** + * An object representing a datastore transaction. + */ + export type Transaction = { + /** + * The id of the transaction. + */ + readonly id: string; + + /** + * The id of the store responsible for the transaction. + */ + readonly storeId: number; + + /** + * The patch data of the transaction. + */ + readonly patch: Patch; + + /** + * The version of the source datastore. + */ + readonly version: number; + }; + + /** + * @internal + */ + export type Context = Readonly; + + /** + * A factory function for generating a unique transaction id. + */ + export type TransactionIdFactory = ( + version: number, + storeId: number + ) => string; + + /** + * A helper function to wrap an update to the datastore in calls to + * `beginTransaction` and `endTransaction`. + * + * @param datastore: the datastore to which to apply the update. + * + * @param update: A function that performs the update on the datastore. + * The function is called with a transaction id string, in case the + * user wishes to store the transaction ID for later use. + * + * @returns the transaction ID. + * + * #### Notes + * If the datastore is already in a transaction, this does not attempt + * to start a new one, and returns an empty string for the transaction + * id. This allows for transactions to be composed a bit more easily. + */ + export function withTransaction( + datastore: Datastore, + update: (id: string) => void + ): string { + let id = ''; + if (!datastore.inTransaction) { + id = datastore.beginTransaction(); + } + try { + update(id); + } finally { + if (id) { + datastore.endTransaction(); + } + } + return id; + } + + /** + * A base type for describing the location of data in a datastore, + * to be consumed by some object. The only requirement is that it + * has a datastore object. Objects extending from this will, in general, + * have some combination of table, record, and field locations. + */ + export type DataLocation = { + /** + * The datastore in which the data is contained. + */ + datastore: Datastore; + }; + + /** + * An interface for referring to a specific table in a datastore. + */ + export type TableLocation = { + /** + * The schema in question. This schema must exist in the datastore, + * or an error may result in its usage. + */ + schema: S; + }; + + /** + * An interface for referring to a specific record in a datastore. + */ + export type RecordLocation = TableLocation & { + /** + * The record in question. + */ + record: string; + }; + + /** + * An interface for referring to a specific field in a datastore. + * + * #### Notes + * The field must exist in the schema. + */ + export type FieldLocation< + S extends Schema, + F extends keyof S['fields'] + > = RecordLocation & { + /** + * The field in question. + */ + field: F; + }; + + /** + * Get a given table by its location. + * + * @param datastore: the datastore in which the table resides. + * + * @param loc: The table location. + * + * @returns the table. + */ + export function getTable( + datastore: Datastore, + loc: TableLocation + ): Table { + return datastore.get(loc.schema); + } + + /** + * Get a given record by its location. + * + * @param datastore: the datastore in which the record resides. + * + * @param loc: The record location. + * + * @returns the record, or undefined if it does not exist. + */ + export function getRecord( + datastore: Datastore, + loc: RecordLocation + ): Record.Value | undefined { + return datastore.get(loc.schema).get(loc.record); + } + + /** + * Get a given field by its location. + * + * @param datastore: the datastore in which the field resides. + * + * @param loc: the field location. + * + * @returns the field in question. + * + * #### Notes + * This will throw an error if the record does not exist in the given table. + */ + export function getField( + datastore: Datastore, + loc: FieldLocation + ): S['fields'][F]['ValueType'] { + const record = datastore.get(loc.schema).get(loc.record); + if (!record) { + throw Error(`The record ${loc.record} could not be found`); + } + return record[loc.field]; + } + + /** + * Update a table. + * + * @param datastore: the datastore in which the table resides. + * + * @param loc: the table location. + * + * @param update: the update to the table. + * + * #### Notes + * This does not begin a transaction, so usage of this function should be + * combined with `beginTransaction`/`endTransaction`, or `withTransaction`. + */ + export function updateTable( + datastore: Datastore, + loc: TableLocation, + update: Table.Update + ): void { + let table = datastore.get(loc.schema); + table.update(update); + } + + /** + * Update a record in a table. + * + * @param datastore: the datastore in which the record resides. + * + * @param loc: the record location. + * + * @param update: the update to the record. + * + * #### Notes + * This does not begin a transaction, so usage of this function should be + * combined with `beginTransaction`/`endTransaction`, or `withTransaction`. + */ + export function updateRecord( + datastore: Datastore, + loc: RecordLocation, + update: Record.Update + ): void { + let table = datastore.get(loc.schema); + table.update({ + [loc.record]: update + }); + } + + /** + * Update a field in a table. + * + * @param datastore: the datastore in which the field resides. + * + * @param loc: the field location. + * + * @param update: the update to the field. + * + * #### Notes + * This does not begin a transaction, so usage of this function should be + * combined with `beginTransaction`/`endTransaction`, or `withTransaction`. + */ + export function updateField( + datastore: Datastore, + loc: FieldLocation, + update: S['fields'][F]['UpdateType'] + ): void { + let table = datastore.get(loc.schema); + // TODO: this cast may be made unnecessary once microsoft/TypeScript#13573 + // is fixed, possibly by microsoft/TypeScript#26797 lands. + table.update({ + [loc.record]: { + [loc.field]: update + } as Record.Update + }); + } + + /** + * Listen to changes in a table. Changes to other tables are ignored. + * + * @param datastore: the datastore in which the table resides. + * + * @param loc: the table location. + * + * @param slot: a callback function to invoke when the table changes. + * + * @returns an `IDisposable` that can be disposed to remove the listener. + */ + export function listenTable( + datastore: Datastore, + loc: TableLocation, + slot: (source: Datastore, args: Table.Change) => void, + thisArg?: any + ): IDisposable { + // A wrapper change signal connection function. + const wrapper = (source: Datastore, args: Datastore.IChangedArgs) => { + // Ignore changes that don't match the requested record. + if (!args.change[loc.schema.id]) { + return; + } + // Otherwise, call the slot. + const tc = args.change[loc.schema.id]! as Table.Change; + slot.bind(thisArg)(source, tc); + }; + datastore.changed.connect(wrapper); + return new DisposableDelegate(() => { + datastore.changed.disconnect(wrapper); + }); + } + + /** + * Listen to changes in a record in a table. Changes to other tables and + * other records in the same table are ignored. + * + * @param datastore: the datastore in which the record resides. + * + * @param loc: the record location. + * + * @param slot: a callback function to invoke when the record changes. + * + * @returns an `IDisposable` that can be disposed to remove the listener. + */ + export function listenRecord( + datastore: Datastore, + loc: RecordLocation, + slot: (source: Datastore, args: Record.Change) => void, + thisArg?: any + ): IDisposable { + // A wrapper change signal connection function. + const wrapper = (source: Datastore, args: Datastore.IChangedArgs) => { + // Ignore changes that don't match the requested record. + if ( + !args.change[loc.schema.id] || + !args.change[loc.schema.id][loc.record] + ) { + return; + } + // Otherwise, call the slot. + const tc = args.change[loc.schema.id]! as Table.Change; + slot.bind(thisArg)(source, tc[loc.record]); + }; + datastore.changed.connect(wrapper); + return new DisposableDelegate(() => { + datastore.changed.disconnect(wrapper); + }); + } + + /** + * Listen to changes in a fields in a table. Changes to other tables, other + * records in the same table, and other fields in the same record are ignored. + * + * @param datastore: the datastore in which the field resides. + * + * @param loc: the field location. + * + * @param slot: a callback function to invoke when the field changes. + * + * @returns an `IDisposable` that can be disposed to remove the listener. + */ + export function listenField( + datastore: Datastore, + loc: FieldLocation, + slot: (source: Datastore, args: S['fields'][F]['ChangeType']) => void, + thisArg?: any + ): IDisposable { + const wrapper = (source: Datastore, args: Datastore.IChangedArgs) => { + // Ignore changes that don't match the requested field. + if ( + !args.change[loc.schema.id] || + !args.change[loc.schema.id][loc.record] || + !args.change[loc.schema.id][loc.record][loc.field as string] + ) { + return; + } + // Otherwise, call the slot. + const tc = args.change[loc.schema.id]! as Table.Change; + slot.bind(thisArg)(source, tc[loc.record][loc.field]); + }; + datastore.changed.connect(wrapper); + return new DisposableDelegate(() => { + datastore.changed.disconnect(wrapper); + }); + } +} + +namespace Private { + /** + * Validates all schemas, and throws an error if any are invalid. + */ + export function validateSchemas(schemas: ReadonlyArray) { + let errors = []; + for (let s of schemas) { + let err = validateSchema(s); + if (err.length) { + errors.push(`Schema '${s.id}' validation failed: \n${err.join('\n')}`); + } + } + if (errors.length) { + throw new Error(errors.join('\n\n')); + } + } + + /** + * A three-way record comparison function. + */ + export function recordCmp( + a: Table, + b: Table + ): number { + return StringExt.cmp(a.schema.id, b.schema.id); + } + + /** + * A three-way record id comparison function. + */ + export function recordIdCmp( + table: Table, + id: string + ): number { + return StringExt.cmp(table.schema.id, id); + } + + export type MutableContext = { + /** + * Whether the datastore currently in a transaction. + */ + inTransaction: boolean; + + /** + * The id of the current transaction. + */ + transactionId: string; + + /** + * The current version of the datastore. + */ + version: number; + + /** + * The unique id of the datastore. + */ + storeId: number; + + /** + * The current change object of the transaction. + */ + change: Datastore.MutableChange; + + /** + * The current patch object of the transaction. + */ + patch: Datastore.MutablePatch; + }; + + /** + * Checks if a patch is empty. + */ + export function isPatchEmpty(patch: Datastore.Patch): boolean { + return Object.keys(patch).length === 0; + } + + /** + * Checks if a change is empty. + */ + export function isChangeEmpty(change: Datastore.Change): boolean { + return Object.keys(change).length === 0; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/field.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/field.ts new file mode 100644 index 0000000..0ad117e --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/field.ts @@ -0,0 +1,269 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ReadonlyJSONValue } from '@lumino/coreutils'; + +/** + * An abstract base class for datastore field types. + */ +export abstract class Field< + Value extends ReadonlyJSONValue, + Update extends ReadonlyJSONValue, + Metadata extends ReadonlyJSONValue, + Change extends ReadonlyJSONValue, + Patch extends ReadonlyJSONValue +> { + /** + * Construct a new field. + * + * @param options - The options for initializing the field. + */ + constructor(options: Field.IOptions = {}) { + let opts = { description: '', ...options }; + this.description = opts.description; + } + + /** + * The human-readable description of the field. + */ + readonly description: string; + + /** + * The value type for the field. + * + * #### Notes + * This type represents the user-facing value stored in the record. + */ + readonly ValueType: Value; + + /** + * The update type for the field. + * + * #### Notes + * This type represents the data the user passes to the `update` + * method of a table to update the field of a particular record. + */ + readonly UpdateType: Update; + + /** + * The metadata type for the field. + * + * #### Notes + * This type represents extra bookeeping data needed by the field + * to accurately apply updates and patches. + * + * This type extends the `ReadonlyJSONValue` type so that it may + * hold readonly JSON data. However, the metadata is intended to + * be mutated in-place and thus may also contain mutable data. + */ + readonly MetadataType: Metadata; + + /** + * The change type for the field. + * + * #### Notes + * This type represents the user-facing change to the field's value. + */ + readonly ChangeType: Change; + + /** + * The patch type for the field. + * + * #### Notes + * This type represents the system-facing patch to the field's value. + */ + readonly PatchType: Patch; + + /** + * The discriminated type name for the field. + */ + abstract readonly type: string; + + /** + * Create the initial value for the field. + * + * @returns The initial value for the field. + */ + abstract createValue(): Value; + + /** + * Create the metadata for the field. + * + * @returns The metadata for the field. + */ + abstract createMetadata(): Metadata; + + /** + * Apply a user update to the field. + * + * @param args - The arguments for the update. + * + * @returns The result of applying the update. + */ + abstract applyUpdate( + args: Field.UpdateArgs + ): Field.UpdateResult; + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + abstract applyPatch( + args: Field.PatchArgs + ): Field.PatchResult; + + /** + * Unapply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of unapplying the patch. + */ + abstract unapplyPatch( + args: Field.PatchArgs + ): Field.PatchResult; + + /** + * Merge two change objects into a single change object. + * + * @param first - The first change object of interest. + * + * @param second - The second change object of interest. + * + * @returns A new change object which represents both changes. + */ + abstract mergeChange(first: Change, second: Change): Change; + + /** + * Merge two patch objects into a single patch object. + * + * @param first - The first patch object of interest. + * + * @param second - The second patch object of interest. + * + * @returns A new patch object which represents both patches. + */ + abstract mergePatch(first: Patch, second: Patch): Patch; +} + +/** + * The namespace for the `Field` class statics. + */ +export namespace Field { + /** + * An options object for initializing a field. + */ + export interface IOptions { + /** + * The human-readable description of the field. + * + * The default is `''`. + */ + description?: string; + } + + /** + * A type alias for the arguments to an update operation. + */ + export type UpdateArgs = { + /** + * The previous value of the field. + */ + readonly previous: Value; + + /** + * The user update for the field. + */ + readonly update: Update; + + /** + * The metadata for the field. + */ + readonly metadata: Metadata; + + /** + * The datastore version. + */ + readonly version: number; + + /** + * The datastore id. + */ + readonly storeId: number; + }; + + /** + * A type alias for the result of an update operation. + */ + export type UpdateResult = { + /** + * The new value of the field. + */ + readonly value: Value; + + /** + * The user-facing change for the field. + */ + readonly change: Change; + + /** + * The system-facing patch for the field. + */ + readonly patch: Patch; + }; + + /** + * A type alias for the arguments to a patch operation. + */ + export type PatchArgs = { + /** + * The previous value of the field. + */ + readonly previous: Value; + + /** + * The system patch for the field. + */ + readonly patch: Patch; + + /** + * The metadata for the field. + */ + readonly metadata: Metadata; + }; + + /** + * A type alias for the result of a patch operation. + */ + export type PatchResult = { + /** + * The new value of the field. + */ + readonly value: Value; + + /** + * The user-facing change for the field. + */ + readonly change: Change; + }; +} + +/** + * A type alias which is compatible with any field type. + */ +export type AnyField = Field< + ReadonlyJSONValue, + ReadonlyJSONValue, + ReadonlyJSONValue, + ReadonlyJSONValue, + ReadonlyJSONValue +>; diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/fields.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/fields.ts new file mode 100644 index 0000000..1ef2dcf --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/fields.ts @@ -0,0 +1,115 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ReadonlyJSONValue } from '@lumino/coreutils'; + +import { ListField } from './listfield'; + +import { MapField } from './mapfield'; + +import { RegisterField } from './registerfield'; + +import { TextField } from './textfield'; + +/** + * The namespace for the `Fields` factory functions. + */ +export namespace Fields { + /** + * A factory function which creates a boolean register field. + * + * @param options - The options for the field. The default `value` + * option is `false`. + * + * @returns A new boolean register field. + */ + export function Boolean( + options: Partial> = {} + ): RegisterField { + return new RegisterField({ value: false, ...options }); + } + + /** + * A factory function which creates a number register field. + * + * @param options - The options for the field. The default `value` + * option is `0`. + * + * @returns A new number register field. + */ + export function Number( + options: Partial> = {} + ): RegisterField { + return new RegisterField({ value: 0, ...options }); + } + + /** + * A factory function which creates a string register field. + * + * @param options - The options for the field. The default `value` + * option is `''`. + * + * @returns A new string register field. + */ + export function String( + options: Partial> = {} + ): RegisterField { + return new RegisterField({ value: '', ...options }); + } + + /** + * A factory function which creates a list field. + * + * @param options - The options for the field. + * + * @returns A new list field. + */ + export function List( + options: ListField.IOptions = {} + ): ListField { + return new ListField(options); + } + + /** + * A factory function which creates a map field. + * + * @param options - The options for the field. + * + * @returns A new map field. + */ + export function Map( + options: MapField.IOptions = {} + ): MapField { + return new MapField(options); + } + + /** + * A factory function which creates a register field. + * + * @param options - The options for the field. + * + * @returns A new register field. + */ + export function Register( + options: RegisterField.IOptions + ): RegisterField { + return new RegisterField(options); + } + + /** + * A factory function which creates a text field. + * + * @param options - The options for the field. + * + * @returns A new text field. + */ + export function Text(options: TextField.IOptions = {}): TextField { + return new TextField(options); + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/index.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/index.ts new file mode 100644 index 0000000..1188968 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/index.ts @@ -0,0 +1,20 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +export * from './datastore'; +export * from './field'; +export * from './fields'; +export * from './listfield'; +export * from './mapfield'; +export * from './record'; +export * from './registerfield'; +export * from './schema'; +export * from './serveradapter'; +export * from './table'; +export * from './textfield'; diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/listfield.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/listfield.ts new file mode 100644 index 0000000..70d3415 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/listfield.ts @@ -0,0 +1,736 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ArrayExt, StringExt } from '@lumino/algorithm'; + +import { ReadonlyJSONValue } from '@lumino/coreutils'; + +import { Field } from './field'; + +import { createTriplexIds } from './utilities'; + +/** + * A field which represents a collaborative list of values. + */ +export class ListField extends Field< + ListField.Value, + ListField.Update, + ListField.Metadata, + ListField.Change, + ListField.Patch +> { + /** + * Construct a new list field. + * + * @param options - The options for initializing the field. + */ + constructor(options: ListField.IOptions = {}) { + super(options); + } + + /** + * The discriminated type of the field. + */ + get type(): 'list' { + return 'list'; + } + + /** + * Create the initial value for the field. + * + * @returns The initial value for the field. + */ + createValue(): ListField.Value { + return []; + } + + /** + * Create the metadata for the field. + * + * @returns The metadata for the field. + */ + createMetadata(): ListField.Metadata { + return { ids: [], cemetery: {} }; + } + + /** + * Apply a user update to the field. + * + * @param args - The arguments for the update. + * + * @returns The result of applying the update. + */ + applyUpdate( + args: Field.UpdateArgs< + ListField.Value, + ListField.Update, + ListField.Metadata + > + ): Field.UpdateResult< + ListField.Value, + ListField.Change, + ListField.Patch + > { + // Unpack the arguments. + let { previous, update, metadata, version, storeId } = args; + + // Create a clone of the previous value. + let clone = [...previous]; + + // Set up the change and patch arrays. + let change: ListField.ChangePart[] = []; + let patch: ListField.PatchPart[] = []; + + // Coerce the update into an array of splices. + if (Private.isSplice(update)) { + update = [update]; + } + + // Iterate over the update. + for (let splice of update) { + // Apply the splice to the clone. + let obj = Private.applySplice(clone, splice, metadata, version, storeId); + + // Update the change array. + change.push(obj.change); + + // Update the patch array. + patch.push(obj.patch); + } + + // Return the update result. + return { value: clone, change, patch }; + } + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + applyPatch( + args: Field.PatchArgs< + ListField.Value, + ListField.Patch, + ListField.Metadata + > + ): Field.PatchResult, ListField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Create a clone of the previous value. + let clone = [...previous]; + + // Set up the change array. + let change: ListField.ChangePart[] = []; + + // Iterate over the patch. + for (let part of patch) { + // Apply the patch part to the value. + let result = Private.applyPatch(clone, part, metadata); + + // Update the change array. + change.push(...result); + } + + // Return the patch result. + return { value: clone, change }; + } + + /** + * Unapply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of unapplying the patch. + */ + unapplyPatch( + args: Field.PatchArgs< + ListField.Value, + ListField.Patch, + ListField.Metadata + > + ): Field.PatchResult, ListField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Create a clone of the previous value. + let clone = [...previous]; + + // Set up the change array. + let change: ListField.ChangePart[] = []; + + // Iterate over the patch. + for (let part of patch) { + let reversed = { + removedIds: part.insertedIds, + insertedIds: part.removedIds, + removedValues: part.insertedValues, + insertedValues: part.removedValues + }; + // Apply the patch part to the value. + let result = Private.applyPatch(clone, reversed, metadata); + + // Update the change array. + change.push(...result); + } + + // Return the patch result. + return { value: clone, change }; + } + + /** + * Merge two change objects into a single change object. + * + * @param first - The first change object of interest. + * + * @param second - The second change object of interest. + * + * @returns A new change object which represents both changes. + */ + mergeChange( + first: ListField.Change, + second: ListField.Change + ): ListField.Change { + return [...first, ...second]; + } + + /** + * Merge two patch objects into a single patch object. + * + * @param first - The first patch object of interest. + * + * @param second - The second patch object of interest. + * + * @returns A new patch object which represents both patches. + */ + mergePatch( + first: ListField.Patch, + second: ListField.Patch + ): ListField.Patch { + return [...first, ...second]; + } +} + +/** + * The namespace for the `ListField` class statics. + */ +export namespace ListField { + /** + * An options object for initializing a list field. + */ + export interface IOptions + extends Field.IOptions {} + + /** + * A type alias for the list field value type. + */ + export type Value = ReadonlyArray; + + /** + * A type alias for a list field splice. + */ + export type Splice = { + /** + * The index of the splice. + */ + readonly index: number; + + /** + * The number of values to remove. + */ + readonly remove: number; + + /** + * The values to insert. + */ + readonly values: ReadonlyArray; + }; + + /** + * A type alias for the list field update type. + */ + export type Update = + | Splice + | ReadonlyArray>; + + /** + * A type alias for the list field metadata type. + */ + export type Metadata = { + /** + * An array of ids corresponding to the list elements. + */ + readonly ids: Array; + + /** + * The cemetery for concurrently deleted elements. + */ + readonly cemetery: { [id: string]: number }; + }; + + /** + * A type alias for a list field change part. + */ + export type ChangePart = { + /** + * The index of the modification. + */ + readonly index: number; + + /** + * The values that were removed. + */ + readonly removed: ReadonlyArray; + + /** + * The values that were inserted. + */ + readonly inserted: ReadonlyArray; + }; + + /** + * A type alias for the list field change type. + */ + export type Change = ReadonlyArray< + ChangePart + >; + + /** + * A type alias for the list field patch part. + */ + export type PatchPart = { + /** + * The ids that were removed. + */ + readonly removedIds: ReadonlyArray; + + /** + * The values that were removed. + */ + readonly removedValues: ReadonlyArray; + + /** + * The ids that were inserted. + */ + readonly insertedIds: ReadonlyArray; + + /** + * The values that were inserted. + */ + readonly insertedValues: ReadonlyArray; + }; + + /** + * A type alias for the list field patch type. + */ + export type Patch = ReadonlyArray>; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * A type-guard function for a list field update type. + */ + export function isSplice( + value: ListField.Update + ): value is ListField.Splice { + return !Array.isArray(value); + } + + /** + * A type alias for the result of a splice operation. + */ + export type SpliceResult = { + /** + * The user-facing change part for the splice. + */ + readonly change: ListField.ChangePart; + + /** + * The system-facing patch part for the splice. + */ + readonly patch: ListField.PatchPart; + }; + + /** + * Apply a splice to a list field. + * + * @param array - The mutable current value of the field. + * + * @param splice - The splice to apply to the field. + * + * @param metadata - The metadata for the field. + * + * @param version - The current datastore version. + * + * @param storeId - The unique id of the datastore. + * + * @returns The result of the splice operation. + */ + export function applySplice( + array: T[], + splice: ListField.Splice, + metadata: ListField.Metadata, + version: number, + storeId: number + ): SpliceResult { + // Unpack the splice. + let { index, remove, values } = splice; + + // Clamp the index to the array bounds. + if (index < 0) { + index = Math.max(0, index + array.length); + } else { + index = Math.min(index, array.length); + } + + // Clamp the remove count to the array bounds. + let count = Math.min(remove, array.length - index); + + // Fetch the lower and upper identifiers. + let lower = index === 0 ? '' : metadata.ids[index - 1]; + let upper = index === array.length ? '' : metadata.ids[index]; + + // Create the ids for the splice. + let ids = createTriplexIds(values.length, version, storeId, lower, upper); + + // Apply the splice to the ids and values. + let removedIds = spliceArray(metadata.ids, index, count, ids); + let removedValues = spliceArray(array, index, count, values); + + // Create the change object. + let change = { index, removed: removedValues, inserted: values }; + + // Create the patch object. + let patch = { + removedIds, + removedValues, + insertedIds: ids, + insertedValues: values + }; + + // Return the splice result. + return { change, patch }; + } + + /** + * Apply a patch to a list field. + * + * @param value - The mutable current value of the field. + * + * @param patch - The patch part to apply to the field. + * + * @param metadata - The metadata for the field. + * + * @returns The user-facing change array for the patch. + */ + export function applyPatch( + value: T[], + patch: ListField.PatchPart, + metadata: ListField.Metadata + ): ListField.Change { + // Unpack the patch. + let { removedIds, insertedIds, insertedValues } = patch; + + // Set up the change array. + let change: ListField.ChangePart[] = []; + + // Process the removed identifiers, if necessary. + if (removedIds.length > 0) { + // Chunkify the removed identifiers, + // or increment the removed ids in the cemetery. + let chunks = findRemovedChunks(removedIds, metadata); + + // Process the chunks. + while (chunks.length > 0) { + // Pop the last-most chunk. + let { index, count } = chunks.pop()!; + + // Remove the identifiers from the metadata. + metadata.ids.splice(index, count); + + // Remove the values from the array. + let removed = value.splice(index, count); + + // Add the change part to the change array. + change.push({ index, removed, inserted: [] }); + } + } + + // Process the inserted identifiers, if necessary. + if (insertedIds.length > 0) { + // Chunkify the inserted identifiers, or decrement the removed + // ids in the cemetery. + let chunks = findInsertedChunks(insertedIds, insertedValues, metadata); + + // Process the chunks. + while (chunks.length > 0) { + // Pop the last-most chunk. + let { index, ids, values } = chunks.pop()!; + + // Insert the identifiers into the metadata. + spliceArray(metadata.ids, index, 0, ids); + + // Insert the values into the array. + spliceArray(value, index, 0, values); + + // Add the change part to the change array. + change.push({ index, removed: [], inserted: values }); + } + } + + // Return the change array. + return change; + } + + /** + * A type alias for a remove chunk. + */ + type RemoveChunk = { + // The index of the removal. + index: number; + + // The number of elements to remove. + count: number; + }; + + /** + * Convert an array of identifiers into removal chunks. + * + * @param ids - The ids to remove from the metadta. + * + * @param metadata - The metadata for the list field. + * + * @returns The ordered chunks to remove. + * + * #### Notes + * The metadata may be mutated if concurrently removed chunks are encountered. + */ + function findRemovedChunks( + ids: ReadonlyArray, + metadata: ListField.Metadata + ): RemoveChunk[] { + // Set up the chunks array. + let chunks: RemoveChunk[] = []; + + // Set up the iteration index. + let i = 0; + + // Fetch the identifier array length. + let n = ids.length; + + // Iterate over the identifiers to remove. + while (i < n) { + // Find the boundary identifier for the current id. + let j = ArrayExt.lowerBound(metadata.ids, ids[i], StringExt.cmp); + + // If the boundary is at the end of the array, or if the boundary id + // does not match the id we are looking for, then we are dealing with + // a concurrently deleted value. In that case, increment its reference + // in the cemetery and continue processing ids. + if (j === metadata.ids.length || metadata.ids[j] !== ids[i]) { + let count = metadata.cemetery[ids[i]] || 0; + metadata.cemetery[ids[i]] = count + 1; + i++; + continue; + } + + // Set up the chunk index. + let index = j; + + // Set up the chunk count. + let count = 0; + + // Find the extent of the chunk. + while (i < n && StringExt.cmp(ids[i], metadata.ids[j]) === 0) { + count++; + i++; + j++; + } + + // Add the chunk to the chunks array, or bump the id index. + if (count > 0) { + chunks.push({ index, count }); + } else { + i++; + } + } + + // Return the computed chunks. + return chunks; + } + + /** + * A type alias for an insert chunk. + */ + type InsertChunk = { + // The index of the insert. + index: number; + + // The identifiers to insert. + ids: string[]; + + // The values to insert. + values: T[]; + }; + + /** + * Convert arrays of identifiers and values into insert chunks. + * + * @param ids - The ids to be inserted. + * + * @param values - The values to be inserted. + * + * @param metadata - The metadata for the list field. + * + * @returns The ordered chunks to insert. + * + * #### Notes + * The metadata may be mutated if concurrently removed chunks are encountered. + */ + function findInsertedChunks( + ids: ReadonlyArray, + values: ReadonlyArray, + metadata: ListField.Metadata + ): InsertChunk[] { + let indices: number[] = []; + let insertIds: string[] = []; + let insertValues: T[] = []; + + for (let i = 0; i < ids.length; i++) { + // Check if the id has been concurrently deleted. If so, update + // the cemetery, and continue processing without inserting the id. + if (checkCemeteryForInsert(ids[i], metadata.cemetery)) { + continue; + } + + // Add the id to the ids which will be actually inserted. + insertIds.push(ids[i]); + indices.push(ArrayExt.lowerBound(metadata.ids, ids[i], StringExt.cmp)); + insertValues.push(values[i]); + } + return chunkifyInsertions(insertIds, insertValues, indices); + } + + /** + * Consolidate inserted IDs into a set of chunks so that we can splice them + * into the existing value with a minimal number of splices. + * + * @param ids - The ids to be inserted. + * + * @param values - The values to be inserted. Should be the same length as ids. + * + * @param indices - The indices at which to insert the text. Should be the same length as ids. + * + * @returns The ordered chunks to insert. + */ + function chunkifyInsertions( + ids: ReadonlyArray, + values: ReadonlyArray, + indices: ReadonlyArray + ): InsertChunk[] { + // Set up the chunks array. + let chunks: InsertChunk[] = []; + + // Set up the loop over the ids to insert. + let insertIndex: number; + let i = 0; + while (i < ids.length) { + // Reset the insert chunk data + let chunkIds: string[] = []; + let chunkValues: T[] = []; + insertIndex = indices[i]; + + // Find the extent of the chunk + while (indices[i] === insertIndex && i < ids.length) { + chunkIds.push(ids[i]); + chunkValues.push(values[i]); + i++; + } + if (chunkValues.length) { + chunks.push({ index: insertIndex, ids: chunkIds, values: chunkValues }); + } + } + return chunks; + } + + /** + * Check if an id should be inserted, or if it has been concurrently deleted. + * + * @param id - the id to check. + * + * @param cemetery - the cemetery which determines whether the id should be inserted. + * + * @returns whether the id was found, indicating that it shouldn't be inserted. + * + * #### Notes + * If the ID *is* found in the cemetery, its value in the cemetery is decremented, + * reflecting that it is closer to being shown. + */ + function checkCemeteryForInsert( + id: string, + cemetery: { [x: string]: number } + ): boolean { + let count = cemetery[id] || 0; + if (count === 1) { + delete cemetery[id]; + return true; + } + if (count > 1) { + cemetery[id] = count - 1; + return true; + } + return false; + } + + /** + * Splice data into an array. + * + * #### Notes + * This is intentionally similar to Array.splice, but chunks the splices into + * multiple splices so that it does not crash if the number of spliced IDs + * is greater than the maximum number of arguments for a function. + * + * @param arr - the array on which to perform the splice. + * + * @param start - the start index for the splice. + * + * @param deleteCount - how many indices to remove. + * + * @param items - the items to splice into the array. + * + * @returns an array of the deleted elements. + */ + function spliceArray( + arr: T[], + start: number, + deleteCount?: number, + items?: ReadonlyArray + ): ReadonlyArray { + if (!items) { + return arr.splice(start, deleteCount); + } + let size = 100000; + if (items.length < size) { + return arr.splice(start, deleteCount || 0, ...items); + } + let deleted = arr.splice(start, deleteCount); + let n = Math.floor(items.length / size); + let idx = 0; + for (let i = 0; i < n; i++, idx += size) { + arr.splice(start + idx, 0, ...items.slice(idx, idx + size)); + } + arr.splice(start + idx, 0, ...items.slice(idx)); + return deleted; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/mapfield.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/mapfield.ts new file mode 100644 index 0000000..d642d60 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/mapfield.ts @@ -0,0 +1,413 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ArrayExt, StringExt } from '@lumino/algorithm'; + +import { ReadonlyJSONValue } from '@lumino/coreutils'; + +import { Field } from './field'; + +import { createDuplexId } from './utilities'; + +/** + * A field which represents a collaborative key:value map. + */ +export class MapField extends Field< + MapField.Value, + MapField.Update, + MapField.Metadata, + MapField.Change, + MapField.Patch +> { + /** + * Construct a new map field. + * + * @param options - The options for initializing the field. + */ + constructor(options: MapField.IOptions = {}) { + super(options); + } + + /** + * The discriminated type of the field. + */ + get type(): 'map' { + return 'map'; + } + + /** + * Create the initial value for the field. + * + * @returns The initial value for the field. + */ + createValue(): MapField.Value { + return {}; + } + + /** + * Create the metadata for the field. + * + * @returns The metadata for the field. + */ + createMetadata(): MapField.Metadata { + return { ids: {}, values: {} }; + } + + /** + * Apply a user update to the field. + * + * @param args - The arguments for the update. + * + * @returns The result of applying the update. + */ + applyUpdate( + args: Field.UpdateArgs< + MapField.Value, + MapField.Update, + MapField.Metadata + > + ): Field.UpdateResult< + MapField.Value, + MapField.Change, + MapField.Patch + > { + // Unpack the arguments. + let { previous, update, metadata, version, storeId } = args; + + // Create the id for the values. + let id = createDuplexId(version, storeId); + + // Create a clone of the previous value. + let clone = { ...previous }; + + // Set up the previous and current change parts. + let prev: { [key: string]: T | null } = {}; + let curr: { [key: string]: T | null } = {}; + + // Iterate over the update. + for (let key in update) { + // Insert the update value into the metadata. + let value = Private.insertIntoMetadata(metadata, key, id, update[key]); + + // Update the clone with the new value. + if (value === null) { + delete clone[key]; + } else { + clone[key] = value; + } + + // Update the previous change part. + prev[key] = key in previous ? previous[key] : null; + + // Update the current change part. + curr[key] = value; + } + + // Create the change object. + let change = { previous: prev, current: curr }; + + // Create the patch object. + let patch = { id, values: update }; + + // Return the update result. + return { value: clone, change, patch }; + } + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + applyPatch( + args: Field.PatchArgs< + MapField.Value, + MapField.Patch, + MapField.Metadata + > + ): Field.PatchResult, MapField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Unpack the patch. + let { id, values } = patch; + + // Create a clone of the previous value. + let clone = { ...previous }; + + // Set up the previous and current change parts. + let prev: { [key: string]: T | null } = {}; + let curr: { [key: string]: T | null } = {}; + + // Iterate over the values. + for (let key in values) { + // Insert the patch value into the metadata. + let value = Private.insertIntoMetadata(metadata, key, id, values[key]); + + // Update the clone with the new value. + if (value === null) { + delete clone[key]; + } else { + clone[key] = value; + } + + // Update the previous change part. + prev[key] = key in previous ? previous[key] : null; + + // Update the current change part. + curr[key] = value; + } + + // Create the change object. + let change = { previous: prev, current: curr }; + + // Return the patch result. + return { value: clone, change }; + } + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + unapplyPatch( + args: Field.PatchArgs< + MapField.Value, + MapField.Patch, + MapField.Metadata + > + ): Field.PatchResult, MapField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Unpack the patch. + let { id, values } = patch; + + // Create a clone of the previous value. + let clone = { ...previous }; + + // Set up the previous and current change parts. + let prev: { [key: string]: T | null } = {}; + let curr: { [key: string]: T | null } = {}; + + // Iterate over the values. + for (let key in values) { + // Remove the patch value from the metadata. + let value = Private.removeFromMetadata(metadata, key, id); + + // Update the clone with the new value. + if (value === null) { + delete clone[key]; + } else { + clone[key] = value; + } + + // Update the previous change part. + prev[key] = key in previous ? previous[key] : null; + + // Update the current change part. + curr[key] = value; + } + + // Create the change object. + let change = { previous: prev, current: curr }; + + // Return the patch result. + return { value: clone, change }; + } + + /** + * Merge two change objects into a single change object. + * + * @param first - The first change object of interest. + * + * @param second - The second change object of interest. + * + * @returns A new change object which represents both changes. + */ + mergeChange( + first: MapField.Change, + second: MapField.Change + ): MapField.Change { + let previous = { ...second.previous, ...first.previous }; + let current = { ...first.current, ...second.current }; + return { previous, current }; + } + + /** + * Merge two patch objects into a single patch object. + * + * @param first - The first patch object of interest. + * + * @param second - The second patch object of interest. + * + * @returns A new patch object which represents both patches. + */ + mergePatch( + first: MapField.Patch, + second: MapField.Patch + ): MapField.Patch { + return { id: second.id, values: { ...first.values, ...second.values } }; + } +} + +/** + * The namespace for the `MapField` class statics. + */ +export namespace MapField { + /** + * An options object for initializing a map field. + */ + export interface IOptions + extends Field.IOptions {} + + /** + * A type alias for the map field value type. + */ + export type Value = { + readonly [key: string]: T; + }; + + /** + * A type alias for the map field update type. + */ + export type Update = { + readonly [key: string]: T | null; + }; + + /** + * A type alias for the map field metadata type. + */ + export type Metadata = { + /** + * A mapping of key:id-history. + */ + readonly ids: { [key: string]: Array }; + + /** + * A mapping of key:value-history. + */ + readonly values: { [key: string]: Array }; + }; + + /** + * A type alias for the map field change type. + */ + export type Change = { + /** + * The previous values of the changed items. + */ + readonly previous: { readonly [key: string]: T | null }; + + /** + * The current values of the changed items. + */ + readonly current: { readonly [key: string]: T | null }; + }; + + /** + * A type alias for the map field patch type. + */ + export type Patch = { + /** + * The unique id associated with the values. + */ + readonly id: string; + + /** + * The current values of the changed items. + */ + readonly values: { readonly [key: string]: T | null }; + }; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * Insert a value into the map field metadata. + * + * @param metadata - The metadata of interest. + * + * @param key - The key of interest. + * + * @param id - The unique id for the value. + * + * @param value - The value to insert. + * + * @returns The current value for the key. + * + * #### Notes + * If the id already exists, the old value will be overwritten. + */ + export function insertIntoMetadata( + metadata: MapField.Metadata, + key: string, + id: string, + value: T | null + ): T | null { + // Fetch the id and value arrays for the given key. + let ids = metadata.ids[key] || (metadata.ids[key] = []); + let values = metadata.values[key] || (metadata.values[key] = []); + + // Find the insert index for the id. + let i = ArrayExt.lowerBound(ids, id, StringExt.cmp); + + // Overwrite or insert the value as appropriate. + if (i < ids.length && ids[i] === id) { + values[i] = value; + } else { + ArrayExt.insert(ids, i, id); + ArrayExt.insert(values, i, value); + } + + // Return the current value for the key. + return values[values.length - 1]; + } + + /** + * Remove a value from the map field metadata. + * + * @param metadata - The metadata of interest. + * + * @param key - The key of interest. + * + * @param id - The unique id for the value. + * + * @returns The current value for the key, or null if there is no value. + * + * #### Notes + * If the id is not in the metadata, this is a no-op. + */ + export function removeFromMetadata( + metadata: MapField.Metadata, + key: string, + id: string + ): T | null { + // Fetch the id and value arrays for the given key. + let ids = metadata.ids[key] || (metadata.ids[key] = []); + let values = metadata.values[key] || (metadata.values[key] = []); + + // Find the insert index for the id. + let i = ArrayExt.lowerBound(ids, id, StringExt.cmp); + + // Find and remove the index for the id. + if (ids[i] === id) { + ArrayExt.removeAt(ids, i); + ArrayExt.removeAt(values, i); + } + + // Return the current value for the key. + return values.length ? values[values.length - 1] : null; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/record.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/record.ts new file mode 100644 index 0000000..73ca0f8 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/record.ts @@ -0,0 +1,92 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { Schema } from './schema'; + +/** + * A type alias for a datastore record. + */ +export type Record = Record.Base & Record.Value; + +/** + * The namespace for the `Record` type statics. + */ +export namespace Record { + /** + * A type alias for the record base type. + */ + export type Base = { + /** + * The unique id of the record. + */ + readonly $id: string; + + /** + * @internal + * + * The metadata for the record. + */ + readonly '@@metadata': Metadata; + }; + + /** + * A type alias for the record value type. + */ + export type Value = { + readonly [N in keyof S['fields']]: S['fields'][N]['ValueType']; + }; + + /** + * A type alias for the record update type. + */ + export type Update = { + readonly [N in keyof S['fields']]?: S['fields'][N]['UpdateType']; + }; + + /** + * A type alias for the record change type. + */ + export type Change = { + readonly [N in keyof S['fields']]?: S['fields'][N]['ChangeType']; + }; + + /** + * A type alias for the record patch type. + */ + export type Patch = { + readonly [N in keyof S['fields']]?: S['fields'][N]['PatchType']; + }; + + /** + * @internal + * + * A type alias for the record metadata type. + */ + export type Metadata = { + readonly [N in keyof S['fields']]: S['fields'][N]['MetadataType']; + }; + + /** + * @internal + * + * A type alias for the record mutable change type. + */ + export type MutableChange = { + [N in keyof S['fields']]?: S['fields'][N]['ChangeType']; + }; + + /** + * @internal + * + * A type alias for the record mutable patch type. + */ + export type MutablePatch = { + [N in keyof S['fields']]?: S['fields'][N]['PatchType']; + }; +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/registerfield.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/registerfield.ts new file mode 100644 index 0000000..6e089ab --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/registerfield.ts @@ -0,0 +1,336 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ArrayExt, StringExt } from '@lumino/algorithm'; + +import { ReadonlyJSONValue } from '@lumino/coreutils'; + +import { Field } from './field'; + +import { createDuplexId } from './utilities'; + +/** + * A field which represents a collaborative atomic value. + */ +export class RegisterField extends Field< + RegisterField.Value, + RegisterField.Update, + RegisterField.Metadata, + RegisterField.Change, + RegisterField.Patch +> { + /** + * Construct a new register field. + * + * @param options - The options for initializing the field. + */ + constructor(options: RegisterField.IOptions) { + super(options); + this.value = options.value; + } + + /** + * The discriminated type of the field. + */ + get type(): 'register' { + return 'register'; + } + + /** + * The initial value for the field. + */ + readonly value: T; + + /** + * Create the initial value for the field. + * + * @returns The initial value for the field. + */ + createValue(): RegisterField.Value { + return this.value; + } + + /** + * Create the metadata for the field. + * + * @returns The metadata for the field. + */ + createMetadata(): RegisterField.Metadata { + return { ids: [], values: [] }; + } + + /** + * Apply a user update to the field. + * + * @param args - The arguments for the update. + * + * @returns The result of applying the update. + */ + applyUpdate( + args: Field.UpdateArgs< + RegisterField.Value, + RegisterField.Update, + RegisterField.Metadata + > + ): Field.UpdateResult< + RegisterField.Value, + RegisterField.Change, + RegisterField.Patch + > { + // Unpack the arguments. + let { previous, update, metadata, version, storeId } = args; + + // Create the id for the value. + let id = createDuplexId(version, storeId); + + // Insert the update value into the metadata. + let value = Private.insertIntoMetadata(metadata, id, update); + + // Create the change object. + let change = { previous, current: value }; + + // Create the patch object. + let patch = { id, value: update }; + + // Return the result of the update. + return { value, change, patch }; + } + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + applyPatch( + args: Field.PatchArgs< + RegisterField.Value, + RegisterField.Patch, + RegisterField.Metadata + > + ): Field.PatchResult, RegisterField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Insert the patch value into the metadata. + let value = Private.insertIntoMetadata(metadata, patch.id, patch.value); + + // Create the change object. + let change = { previous, current: value }; + + // Return the result of the patch. + return { value, change }; + } + + /** + * Unapply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of unapplying the patch. + */ + unapplyPatch( + args: Field.PatchArgs< + RegisterField.Value, + RegisterField.Patch, + RegisterField.Metadata + > + ): Field.PatchResult, RegisterField.Change> { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Remove the patch value from the metadata. + let value = Private.removeFromMetadata(metadata, patch.id, this.value); + + // Create the change object. + let change = { previous, current: value }; + + // Return the result of the patch. + return { value, change }; + } + + /** + * Merge two change objects into a single change object. + * + * @param first - The first change object of interest. + * + * @param second - The second change object of interest. + * + * @returns A new change object which represents both changes. + */ + mergeChange( + first: RegisterField.Change, + second: RegisterField.Change + ): RegisterField.Change { + return { previous: first.previous, current: second.current }; + } + + /** + * Merge two patch objects into a single patch object. + * + * @param first - The first patch object of interest. + * + * @param second - The second patch object of interest. + * + * @returns A new patch object which represents both patches. + */ + mergePatch( + first: RegisterField.Patch, + second: RegisterField.Patch + ): RegisterField.Patch { + return second; + } +} + +/** + * The namespace for the `RegisterField` class statics. + */ +export namespace RegisterField { + /** + * An options object for initializing a register field. + */ + export interface IOptions + extends Field.IOptions { + /** + * The initial value for the field. + */ + value: T; + } + + /** + * A type alias for the register field value type. + */ + export type Value = T; + + /** + * A type alias for the register field update type. + */ + export type Update = T; + + /** + * A type alias for the register field change type. + */ + export type Change = { + /** + * The previous value of the field. + */ + readonly previous: T; + + /** + * The current value of the field. + */ + readonly current: T; + }; + + /** + * A type alias for the register field patch type. + */ + export type Patch = { + /** + * The unique id for the value. + */ + readonly id: string; + + /** + * The current value of the field. + */ + readonly value: T; + }; + + /** + * A type alias for the register field metadata type. + */ + export type Metadata = { + /** + * An array of id history. + */ + readonly ids: Array; + + /** + * An array of value history. + */ + readonly values: Array; + }; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * Insert a value into the register field metadata. + * + * @param metadata - The metadata of interest. + * + * @param id - The unique id for the value. + * + * @param value - The value to insert. + * + * @returns The current value for the register field. + * + * #### Notes + * If the id already exists, the old value will be overwritten. + */ + export function insertIntoMetadata( + metadata: RegisterField.Metadata, + id: string, + value: T + ): T { + // Unpack the metadata. + let { ids, values } = metadata; + + // Find the insert index for the id. + let i = ArrayExt.lowerBound(ids, id, StringExt.cmp); + + // Overwrite or insert the value as appropriate. + if (i < ids.length && ids[i] === id) { + values[i] = value; + } else { + ArrayExt.insert(ids, i, id); + ArrayExt.insert(values, i, value); + } + + // Return the current value for the register field. + return values[values.length - 1]; + } + + /** + * Remove a value from the register field metadata. + * + * @param metadata - The metadata of interest. + * + * @param id - The unique id for the value. + * + * @param initial - The default value for the field + * + * @returns The current value for the register field. + * + * #### Notes + * If the id does not exist in the metadata, this is a no-op. + */ + export function removeFromMetadata( + metadata: RegisterField.Metadata, + id: string, + initial: T + ): T { + // Unpack the metadata. + let { ids, values } = metadata; + + // Find the remove index for the id. + let i = ArrayExt.lowerBound(ids, id, StringExt.cmp); + if (ids[i] === id) { + ArrayExt.removeAt(ids, i); + ArrayExt.removeAt(values, i); + } + // Return the current value for the register field. + // If there are no values in the metadata, return the default value. + return values.length ? values[values.length - 1] : initial; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/schema.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/schema.ts new file mode 100644 index 0000000..88f4b41 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/schema.ts @@ -0,0 +1,53 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { AnyField } from './field'; + +/** + * A type definition for a table schema. + * + * #### Notes + * The datastore assumes that peers may safely collaborate on tables + * which share the same schema `id`. + * + * The schema `id` must be changed whenever changes are made to the + * schema, or undefined behavior will result. + */ +export type Schema = { + /** + * The unique identifier for the schema. + */ + readonly id: string; + + /** + * The field definitions for the schema. + * + * #### Notes + * Field names cannot begin with `$` or `@`. + */ + readonly fields: { readonly [name: string]: AnyField }; +}; + +const invalidFieldnameLeads = ['$', '@']; + +/** + * Validate a schema definition. + */ +export function validateSchema(schema: Schema): string[] { + const errors = []; + // Ensure that field names do not begin with `$` or `@`. + for (let name in schema.fields) { + if (invalidFieldnameLeads.indexOf(name[0]) !== -1) { + errors.push( + `Invalid field name: '${name}'. Cannot start field name with '${name[0]}'` + ); + } + } + return errors; +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/serveradapter.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/serveradapter.ts new file mode 100644 index 0000000..baddc49 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/serveradapter.ts @@ -0,0 +1,66 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2019, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ + +import { IDisposable } from '@lumino/disposable'; + +import { Datastore } from './datastore'; + +/** + * An interface for a bridge between a datastore and a patch server. + * Patch servers should expose an interface like this one, which mediates + * outgoing patches from a given store, and delivers incoming patches to a + * store. + */ +export interface IServerAdapter extends IDisposable { + /** + * Broadcast a transaction from a datastore to collaborators. + * + * @param transaction - the transaction to broadcast to collaborators. + * + * #### Notes + * This is expected to be called by a datastore, and not by any other + * user. Direct invocations of this function may have unexpected results. + */ + broadcast(transaction: Datastore.Transaction): void; + + /** + * Undo a transaction by id. This sends an undo message to the patch server, + * but the undo is not actually done until the datastore recieves the + * corresponding transaction and applies it. + * + * @param id: the transaction to undo. + */ + undo(id: string): Promise; + + /** + * Redo a transaction by id. + * + * @param id: the transaction to redo. + */ + redo(id: string): Promise; + + /** + * A callback to be invoked when a remote transaction is received by the + * server adapter. + */ + onRemoteTransaction: ((transaction: Datastore.Transaction) => void) | null; + + /** + * A callback to be invoked when an undo message is received by the server + * adapter. + */ + onUndo: ((transaction: Datastore.Transaction) => void) | null; + + /** + * A callback to be invoked when an redo message is received by the server + * adapter. + */ + onRedo: ((transaction: Datastore.Transaction) => void) | null; +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/table.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/table.ts new file mode 100644 index 0000000..e8448a5 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/table.ts @@ -0,0 +1,555 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { + StringExt +} from '@lumino/algorithm'; + +import { BPlusTree } from '@lumino/collections'; + +import { Datastore } from './datastore'; + +import { Record } from './record'; + +import { Schema } from './schema'; + +/** + * A datastore object which holds a collection of records. + */ +export class Table { + /** + * @internal + * + * Create a new datastore table. + * + * @param schema - The schema for the table. + * + * @param context - The datastore context. + * + * @returns A new datastore table. + */ + static create( + schema: U, + context: Datastore.Context + ): Table { + return new Table(schema, context); + } + + /** + * @internal + * + * Create a new datastore table with a previously exported state. + * + * @param schema - The schema for the table. + * + * @param context - The datastore context. + * + * @returns A new datastore table. + */ + static recreate( + schema: U, + context: Datastore.Context, + records: Record[] + ): Table { + return new Table(schema, context, records); + } + + /** + * @internal + * + * Apply a patch to a datastore table. + * + * @param table - The table of interest. + * + * @param data - The patch to apply to the table. + * + * @returns The user-facing change to the table. + */ + static patch( + table: Table, + data: Table.Patch + ): Table.Change { + // Create the change object. + let tc: Table.MutableChange = {}; + + // Fetch common variables. + let schema = table.schema; + let records = table._records; + let cmp = Private.recordIdCmp; + + // Iterate over the dataset. + for (let id in data) { + // Get or create the old record. + let old = records.get(id, cmp) || Private.createRecord(schema, id); + + // Apply the patch and create the new record. + let { record, change } = Private.applyPatch(schema, old, data[id]); + + // Replace the old record in the table. + records.insert(record); + + // Update the change object. + tc[id] = change; + } + + // Return the change object. + return tc; + } + + /** + * @internal + * + * Unapply a patch to a datastore table, thereby undoing that patch. + * + * @param table - The table of interest. + * + * @param data - The patch to apply to the table. + * + * @returns The user-facing change to the table. + */ + static unpatch( + table: Table, + data: Table.Patch + ): Table.Change { + // Create the change object. + let tc: Table.MutableChange = {}; + + // Fetch common variables. + let schema = table.schema; + let records = table._records; + let cmp = Private.recordIdCmp; + + // Iterate over the dataset. + for (let id in data) { + // Get or create the old record. + let old = records.get(id, cmp) || Private.createRecord(schema, id); + + // Apply the patch and create the new record. + let { record, change } = Private.unapplyPatch(schema, old, data[id]); + + // Replace the old record in the table. + records.insert(record); + + // Update the change object. + tc[id] = change; + } + + // Return the change object. + return tc; + } + /** + * The schema for the table. + * + * #### Complexity + * `O(1)` + */ + readonly schema: S; + + /** + * Whether the table is empty. + * + * #### Complexity + * `O(1)` + */ + get isEmpty(): boolean { + return this._records.isEmpty; + } + + /** + * The size of the table. + * + * #### Complexity + * `O(1)` + */ + get size(): number { + return this._records.size; + } + + /** + * Test whether the table has a particular record. + * + * @param id - The id of the record of interest. + * + * @returns `true` if the table has the record, `false` otherwise. + * + * #### Complexity + * `O(log32 n)` + */ + has(id: string): boolean { + return this._records.has(id, Private.recordIdCmp); + } + + /** + * Get the record for a particular id in the table. + * + * @param id - The id of the record of interest. + * + * @returns The record for the specified id, or `undefined` if no + * such record exists. + * + * #### Complexity + * `O(log32 n)` + */ + get(id: string): Record | undefined { + return this._records.get(id, Private.recordIdCmp); + } + + /** + * Update one or more records in the table. + * + * @param data - The data for updating the records. + * + * #### Notes + * If a specified record does not exist, it will be created. + * + * This method may only be called during a datastore transaction. + */ + update(data: Table.Update): void { + // Fetch the context. + let context = this._context; + + // Ensure the update happens during a transaction. + if (!context.inTransaction) { + throw new Error('A table can only be updated during a transaction.'); + } + + // Fetch common variables. + let schema = this.schema; + let records = this._records; + let cmp = Private.recordIdCmp; + + // Iterate over the data. + for (let id in data) { + // Get or create the old record. + let old = records.get(id, cmp) || Private.createRecord(schema, id); + + // Apply the update and create the new record. + let record = Private.applyUpdate(schema, old, data[id], context); + + // Replace the old record in the table. + records.insert(record); + } + } + + /** + * Construct a new datastore table. + * + * @param schema - The schema for the table. + * + * @param context - The datastore context. + */ + private constructor( + schema: S, + context: Datastore.Context, + records?: Record[] + ) { + this.schema = schema; + this._context = context; + if (records) { + this._records.assign(records); + } + } + + private _context: Datastore.Context; + private _records = new BPlusTree>(Private.recordCmp); +} + +/** + * The namespace for the `Table` class statics. + */ +export namespace Table { + /** + * A type alias for the table update type. + */ + export type Update = { + readonly [recordId: string]: Record.Update; + }; + + /** + * A type alias for the table change type. + */ + export type Change = { + readonly [recordId: string]: Record.Change; + }; + + /** + * A type alias for the table patch type. + */ + export type Patch = { + readonly [recordId: string]: Record.Patch; + }; + + /** + * @internal + * + * A type alias for the table mutable change type. + */ + export type MutableChange = { + [recordId: string]: Record.MutableChange; + }; + + /** + * @internal + * + * A type alias for the table mutable patch type. + */ + export type MutablePatch = { + [recordId: string]: Record.MutablePatch; + }; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * A three-way record comparison function. + */ + export function recordCmp( + a: Record, + b: Record + ): number { + return StringExt.cmp(a.$id, b.$id); + } + + /** + * A three-way record id comparison function. + */ + export function recordIdCmp( + record: Record, + id: string + ): number { + return StringExt.cmp(record.$id, id); + } + + /** + * Create a new record object. + * + * @param schema - The schema for the record. + * + * @param id - The unique id for the record. + * + * @returns A new default initialized record. + */ + export function createRecord( + schema: S, + id: string + ): Record { + // Create the record and metadata objects. + let record: any = {}; + let metadata: any = {}; + + // Set the base record state. + record.$id = id; + record['@@metadata'] = metadata; + + // Populate the record and metadata. + for (let name in schema.fields) { + let field = schema.fields[name]; + record[name] = field.createValue(); + metadata[name] = field.createMetadata(); + } + + // Return the new record. + return record; + } + + /** + * Apply an update to a record. + * + * @param schema - The schema for the record. + * + * @param record - The record of interest. + * + * @param update - The update to apply to the record. + * + * @param context - The datastore context. + * + * @returns A new record with the update applied. + */ + export function applyUpdate( + schema: S, + record: Record, + update: Record.Update, + context: Datastore.Context + ): Record { + // Fetch the version and store id. + let version = context.version; + let storeId = context.storeId; + + // Fetch or create the table change and patch. + let tc = context.change[schema.id] || (context.change[schema.id] = {}); + let tp = context.patch[schema.id] || (context.patch[schema.id] = {}); + + // Fetch or create the record change and patch. + let rc = tc[record.$id] || (tc[record.$id] = {}); + let rp = tp[record.$id] || (tp[record.$id] = {}); + + // Cast the record to a value object. + let previous = record as Record.Value; + + // Fetch the record metadata. + let metadata = record['@@metadata']; + + // Create a clone of the record. + let clone = { ...(record as any) }; + + // Iterate over the update. + for (let name in update) { + // Fetch the relevant field. + let field = schema.fields[name]; + + // Apply the update for the field. + let { value, change, patch } = field.applyUpdate({ + previous: previous[name], + update: update[name]!, + metadata: metadata[name], + version, + storeId + }); + + // Assign the new value to the clone. + clone[name] = value; + + // Merge the change if needed. + if (name in rc) { + change = field.mergeChange(rc[name]!, change); + } + + // Merge the patch if needed. + if (name in rp) { + patch = field.mergePatch(rp[name]!, patch); + } + + // Update the record change and patch for the field. + rc[name] = change; + rp[name] = patch; + } + + // Return the new record. + return clone; + } + + /** + * A type alias for the result of a patch operation. + */ + export type PatchResult = { + /** + * The new record object. + */ + readonly record: Record; + + /** + * The user-facing change object. + */ + readonly change: Record.Change; + }; + + /** + * Apply a patch to a record. + * + * @param schema - The schema for the record. + * + * @param record - The record of interest. + * + * @param patch - The patch to apply to the record. + * + * @return The result of applying the patch. + */ + export function applyPatch( + schema: S, + record: Record, + patch: Record.Patch + ): PatchResult { + // Create the change object. + let rc: Record.MutableChange = {}; + + // Cast the record to a value object. + let previous = record as Record.Value; + + // Fetch the record metadata. + let metadata = record['@@metadata']; + + // Create a clone of the record. + let clone = { ...(record as any) }; + + // Iterate over the patch. + for (let name in patch) { + // Fetch the relevant field. + let field = schema.fields[name]; + + // Apply the patch for the field. + let { value, change } = field.applyPatch({ + previous: previous[name], + patch: patch[name]!, + metadata: metadata[name] + }); + + // Assign the new value to the clone. + clone[name] = value; + + // Update the change object. + rc[name] = change; + } + + // Return the patch result. + return { record: clone, change: rc }; + } + + /** + * Unapply a patch to a record. + * + * @param schema - The schema for the record. + * + * @param record - The record of interest. + * + * @param patch - The patch to unapply to the record. + * + * @return The result of unapplying the patch. + */ + export function unapplyPatch( + schema: S, + record: Record, + patch: Record.Patch + ): PatchResult { + // Create the change object. + let rc: Record.MutableChange = {}; + + // Cast the record to a value object. + let previous = record as Record.Value; + + // Fetch the record metadata. + let metadata = record['@@metadata']; + + // Create a clone of the record. + let clone = { ...(record as any) }; + + // Iterate over the patch. + for (let name in patch) { + // Fetch the relevant field. + let field = schema.fields[name]; + + // Apply the patch for the field. + let { value, change } = field.unapplyPatch({ + previous: previous[name], + patch: patch[name]!, + metadata: metadata[name] + }); + + // Assign the new value to the clone. + clone[name] = value; + + // Update the change object. + rc[name] = change; + } + + // Return the patch result. + return { record: clone, change: rc }; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/textfield.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/textfield.ts new file mode 100644 index 0000000..89b265d --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/textfield.ts @@ -0,0 +1,749 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ +import { ArrayExt, StringExt } from '@lumino/algorithm'; + +import { Field } from './field'; + +import { createTriplexIds } from './utilities'; + +/** + * A field which represents collaborative text. + */ +export class TextField extends Field< + TextField.Value, + TextField.Update, + TextField.Metadata, + TextField.Change, + TextField.Patch +> { + /** + * Construct a new text field. + * + * @param options - The options for initializing the field. + */ + constructor(options: TextField.IOptions = {}) { + super(options); + } + + /** + * The discriminated type of the field. + */ + get type(): 'text' { + return 'text'; + } + + /** + * Create the initial value for the field. + * + * @returns The initial value for the field. + */ + createValue(): TextField.Value { + return ''; + } + + /** + * Create the metadata for the field. + * + * @returns The metadata for the field. + */ + createMetadata(): TextField.Metadata { + return { ids: [], cemetery: {} }; + } + + /** + * Apply a user update to the field. + * + * @param args - The arguments for the update. + * + * @returns The result of applying the update. + */ + applyUpdate( + args: Field.UpdateArgs< + TextField.Value, + TextField.Update, + TextField.Metadata + > + ): Field.UpdateResult { + // Unpack the arguments. + let { previous, update, metadata, version, storeId } = args; + + // Set up a variable to hold the current value. + let value = previous; + + // Set up the change and patch arrays. + let change: TextField.ChangePart[] = []; + let patch: TextField.PatchPart[] = []; + + // Coerce the update into an array of splices. + if (Private.isSplice(update)) { + update = [update]; + } + + // Iterate over the update. + for (let splice of update) { + // Apply the splice to the value. + let obj = Private.applySplice(value, splice, metadata, version, storeId); + + // Update the change array. + change.push(obj.change); + + // Update the patch array. + patch.push(obj.patch); + + // Update the current value. + value = obj.value; + } + + // Return the update result. + return { value, change, patch }; + } + + /** + * Apply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of applying the patch. + */ + applyPatch( + args: Field.PatchArgs + ): Field.PatchResult { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Set up a variable to hold the current value. + let value = previous; + + // Set up the change array. + let change: TextField.ChangePart[] = []; + + // Iterate over the patch. + for (let part of patch) { + // Apply the patch part to the value. + let obj = Private.applyPatch(value, part, metadata); + + // Update the change array. + change.push(...obj.change); + + // Update the current value. + value = obj.value; + } + + // Return the patch result. + return { value, change }; + } + + /** + * Unapply a system patch to the field. + * + * @param args - The arguments for the patch. + * + * @returns The result of unapplying the patch. + */ + unapplyPatch( + args: Field.PatchArgs + ): Field.PatchResult { + // Unpack the arguments. + let { previous, patch, metadata } = args; + + // Set up a variable to hold the current value. + let value = previous; + + // Set up the change array. + let change: TextField.ChangePart[] = []; + + // Iterate over the patch. + for (let part of patch) { + let reversed = { + removedIds: part.insertedIds, + insertedIds: part.removedIds, + removedText: part.insertedText, + insertedText: part.removedText + }; + // Apply the patch part to the value. + let obj = Private.applyPatch(value, reversed, metadata); + + // Update the change array. + change.push(...obj.change); + + // Update the current value. + value = obj.value; + } + + // Return the patch result. + return { value, change }; + } + + /** + * Merge two change objects into a single change object. + * + * @param first - The first change object of interest. + * + * @param second - The second change object of interest. + * + * @returns A new change object which represents both changes. + */ + mergeChange( + first: TextField.Change, + second: TextField.Change + ): TextField.Change { + return [...first, ...second]; + } + + /** + * Merge two patch objects into a single patch object. + * + * @param first - The first patch object of interest. + * + * @param second - The second patch object of interest. + * + * @returns A new patch object which represents both patches. + */ + mergePatch(first: TextField.Patch, second: TextField.Patch): TextField.Patch { + return [...first, ...second]; + } +} + +/** + * The namespace for the `TextField` class statics. + */ +export namespace TextField { + /** + * An options object for initializing a text field. + */ + export interface IOptions extends Field.IOptions {} + + /** + * A type alias for the value type of a text field. + */ + export type Value = string; + + /** + * A type alias for a text field splice. + */ + export type Splice = { + /** + * The index of the splice. + */ + readonly index: number; + + /** + * The number of characters to remove. + */ + readonly remove: number; + + /** + * The text to insert. + */ + readonly text: string; + }; + + /** + * A type alias for the text field update type. + */ + export type Update = Splice | ReadonlyArray; + + /** + * A type alias for the text field metadata type. + */ + export type Metadata = { + /** + * An array of ids corresponding to the text characters. + */ + readonly ids: Array; + + /** + * The cemetery for concurrently deleted characters. + */ + readonly cemetery: { [id: string]: number }; + }; + + /** + * A type alias for a text field change part. + */ + export type ChangePart = { + /** + * The index of the modification. + */ + readonly index: number; + + /** + * The text that was removed. + */ + readonly removed: string; + + /** + * The text that was inserted. + */ + readonly inserted: string; + }; + + /** + * A type alias for the text field change type. + */ + export type Change = ReadonlyArray; + + /** + * A type alias for the text field patch part. + */ + export type PatchPart = { + /** + * The ids that were removed. + */ + readonly removedIds: ReadonlyArray; + + /** + * The text that was removed. + */ + readonly removedText: string; + + /** + * The ids that were inserted. + */ + readonly insertedIds: ReadonlyArray; + + /** + * The text that was inserted. + */ + readonly insertedText: string; + }; + + /** + * A type alias for the text field patch type. + */ + export type Patch = ReadonlyArray; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * A type-guard function for a text field update type. + */ + export function isSplice(value: TextField.Update): value is TextField.Splice { + return !Array.isArray(value); + } + + /** + * A type alias for the result of a splice operation. + */ + export type SpliceResult = { + /** + * The user-facing change part for the splice. + */ + readonly change: TextField.ChangePart; + + /** + * The system-facing patch part for the splice. + */ + readonly patch: TextField.PatchPart; + + /** + * The new value of the text. + */ + readonly value: string; + }; + + /** + * Apply a splice to a text field. + * + * @param value - The current value of the field. + * + * @param splice - The splice to apply to the field. + * + * @param metadata - The metadata for the field. + * + * @param version - The current datastore version. + * + * @param storeId - The unique id of the datastore. + * + * @returns The result of the splice operation. + */ + export function applySplice( + value: string, + splice: TextField.Splice, + metadata: TextField.Metadata, + version: number, + storeId: number + ): SpliceResult { + // Unpack the splice. + let { index, remove, text } = splice; + + // Clamp the index to the string bounds. + if (index < 0) { + index = Math.max(0, index + value.length); + } else { + index = Math.min(index, value.length); + } + + // Clamp the remove count to the string bounds. + let count = Math.min(remove, value.length - index); + + // Fetch the lower and upper identifiers. + let lower = index === 0 ? '' : metadata.ids[index - 1]; + let upper = index === value.length ? '' : metadata.ids[index]; + + // Create the ids for the splice. + let ids = createTriplexIds(text.length, version, storeId, lower, upper); + + // Apply the splice to the ids. + let removedIds = spliceArray(metadata.ids, index, count, ids); + + // Compute the removed text. + let removedText = value.slice(index, index + count); + + // Create the change object. + let change = { index, removed: removedText, inserted: text }; + + // Create the patch object. + let patch = { + removedIds, + removedText, + insertedIds: ids, + insertedText: text + }; + + // Compute the new value. + value = value.slice(0, index) + text + value.slice(index + count); + + // Return the splice result. + return { change, patch, value }; + } + + /** + * A type alias for the result of a patch operation. + */ + export type PatchResult = { + /** + * The user-facing change for the patch. + */ + readonly change: TextField.Change; + + /** + * The new value of the text. + */ + readonly value: string; + }; + + /** + * Apply a patch to a text field. + * + * @param value - The current value of the field. + * + * @param patch - The patch part to apply to the field. + * + * @param metadata - The metadata for the field. + * + * @returns The user-facing change array for the patch. + */ + export function applyPatch( + value: string, + patch: TextField.PatchPart, + metadata: TextField.Metadata + ): PatchResult { + // Unpack the patch. + let { removedIds, insertedIds, insertedText } = patch; + + // Set up the change array. + let change: TextField.ChangePart[] = []; + + // Process the removed identifiers, if necessary. + if (removedIds.length > 0) { + // Chunkify the removed identifiers, + // or increment the removed ids in the cemetery. + let chunks = findRemovedChunks(removedIds, metadata); + + // Process the chunks. + while (chunks.length > 0) { + // Pop the last-most chunk. + let { index, count } = chunks.pop()!; + + // Remove the identifiers from the metadata. + metadata.ids.splice(index, count); + + // Compute the removed text + let removed = value.slice(index, index + count); + + // Compute the new value. + value = value.slice(0, index) + value.slice(index + count); + + // Add the change part to the change array. + change.push({ index, removed, inserted: '' }); + } + } + + // Process the inserted identifiers, if necessary. + if (insertedIds.length > 0) { + // Chunkify the inserted identifiers, or decrement the removed + // ids in the cemetery. + let chunks = findInsertedChunks(insertedIds, insertedText, metadata); + + // Process the chunks. + while (chunks.length > 0) { + // Pop the last-most chunk. + let { index, ids, text } = chunks.pop()!; + + // Insert the identifiers into the metadata. + spliceArray(metadata.ids, index, 0, ids); + + // Insert the text into the value. + value = value.slice(0, index) + text + value.slice(index); + + // Add the change part to the change array. + change.push({ index, removed: '', inserted: text }); + } + } + + // Return the change array. + return { change, value }; + } + + /** + * A type alias for a remove chunk. + */ + type RemoveChunk = { + // The index of the removal. + index: number; + + // The number of elements to remove. + count: number; + }; + + /** + * Convert an array of identifiers into removal chunks. + * + * @param ids - The ids to remove from the metadta. + * + * @param metadata - The metadata for the text field. + * + * @returns The ordered chunks to remove. + * + * #### Notes + * The metadata may be mutated if concurrently removed chunks are encountered. + */ + function findRemovedChunks( + ids: ReadonlyArray, + metadata: TextField.Metadata + ): RemoveChunk[] { + // Set up the chunks array. + let chunks: RemoveChunk[] = []; + + // Set up the iteration index. + let i = 0; + + // Fetch the identifier array length. + let n = ids.length; + + // Iterate over the identifiers to remove. + while (i < n) { + // Find the boundary identifier for the current id. + let j = ArrayExt.lowerBound(metadata.ids, ids[i], StringExt.cmp); + + // If the boundary is at the end of the array, or if the boundary id + // does not match the id we are looking for, then we are dealing with + // a concurrently deleted value. In that case, increment its reference + // in the cemetery and continue processing ids. + if (j === metadata.ids.length || metadata.ids[j] !== ids[i]) { + let count = metadata.cemetery[ids[i]] || 0; + metadata.cemetery[ids[i]] = count + 1; + i++; + continue; + } + + // Set up the chunk index. + let index = j; + + // Set up the chunk count. + let count = 0; + + // Find the extent of the chunk. + while (i < n && StringExt.cmp(ids[i], metadata.ids[j]) === 0) { + count++; + i++; + j++; + } + + // Add the chunk to the chunks array, or bump the id index. + if (count > 0) { + chunks.push({ index, count }); + } else { + i++; + } + } + + // Return the computed chunks. + return chunks; + } + + /** + * A type alias for an insert chunk. + */ + type InsertChunk = { + // The index of the insert. + index: number; + + // The identifiers to insert. + ids: string[]; + + // The text to insert. + text: string; + }; + + /** + * Convert arrays of identifiers and values into insert chunks. + * + * @param ids - The ids to be inserted. + * + * @param text - The text to be inserted. + * + * @param metadata - The metadata for the text field. + * + * @returns The ordered chunks to insert. + * + * #### Notes + * The metadata may be mutated if concurrently removed chunks are encountered. + */ + function findInsertedChunks( + ids: ReadonlyArray, + text: string, + metadata: TextField.Metadata + ): InsertChunk[] { + let indices: number[] = []; + let insertIds: string[] = []; + let insertText = ''; + + for (let i = 0; i < ids.length; i++) { + // Check if the id has been concurrently deleted. If so, update + // the cemetery, and continue processing without inserting the id. + if (checkCemeteryForInsert(ids[i], metadata.cemetery)) { + continue; + } + + // Add the id to the ids which will be actually inserted. + insertIds.push(ids[i]); + indices.push(ArrayExt.lowerBound(metadata.ids, ids[i], StringExt.cmp)); + insertText += text[i]; + } + return chunkifyInsertions(insertIds, insertText, indices); + } + + /** + * Consolidate inserted IDs into a set of chunks so that we can splice them + * into the existing value with a minimal number of splices. + * + * @param ids - The ids to be inserted. + * + * @param text - The text to be inserted. Should be the same length as ids. + * + * @param indices - The indices at which to insert the text. Should be the same length as ids. + * + * @returns The ordered chunks to insert. + */ + function chunkifyInsertions( + ids: ReadonlyArray, + text: string, + indices: ReadonlyArray + ): InsertChunk[] { + // Set up the chunks array. + let chunks: InsertChunk[] = []; + + // Set up the loop over the ids to insert. + let insertIndex: number; + let i = 0; + while (i < ids.length) { + // Reset the insert chunk data + let chunkIds: string[] = []; + let chunkText = ''; + insertIndex = indices[i]; + + // Find the extent of the chunk + while (indices[i] === insertIndex && i < ids.length) { + chunkIds.push(ids[i]); + chunkText += text[i]; + i++; + } + if (chunkText) { + chunks.push({ index: insertIndex, ids: chunkIds, text: chunkText }); + } + } + return chunks; + } + + /** + * Check if an id should be inserted, or if it has been concurrently deleted. + * + * @param id - the id to check. + * + * @param cemetery - the cemetery which determines whether the id should be inserted. + * + * @returns whether the id was found, indicating that it shouldn't be inserted. + * + * #### Notes + * If the ID *is* found in the cemetery, its value in the cemetery is decremented, + * reflecting that it is closer to being shown. + */ + function checkCemeteryForInsert( + id: string, + cemetery: { [x: string]: number } + ): boolean { + let count = cemetery[id] || 0; + if (count === 1) { + delete cemetery[id]; + return true; + } + if (count > 1) { + cemetery[id] = count - 1; + return true; + } + return false; + } + + /** + * Splice data into an array. + * + * #### Notes + * This is intentionally similar to Array.splice, but chunks the splices into + * multiple splices so that it does not crash if the number of spliced IDs + * is greater than the maximum number of arguments for a function. + * + * @param arr - the array on which to perform the splice. + * + * @param start - the start index for the splice. + * + * @param deleteCount - how many indices to remove. + * + * @param items - the items to splice into the array. + * + * @returns an array of the deleted elements. + */ + function spliceArray( + arr: T[], + start: number, + deleteCount?: number, + items?: ReadonlyArray + ): ReadonlyArray { + if (!items) { + return arr.splice(start, deleteCount); + } + let size = 100000; + if (items.length < size) { + return arr.splice(start, deleteCount || 0, ...items); + } + let deleted = arr.splice(start, deleteCount); + let n = Math.floor(items.length / size); + let idx = 0; + for (let i = 0; i < n; i++, idx += size) { + arr.splice(idx, 0, ...items.slice(idx, size)); + } + arr.splice(idx, 0, ...items.slice(idx)); + return deleted; + } +} diff --git a/beakerx_tabledisplay/js/src/dataGrid/store/datastore/utilities.ts b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/utilities.ts new file mode 100644 index 0000000..f23f088 --- /dev/null +++ b/beakerx_tabledisplay/js/src/dataGrid/store/datastore/utilities.ts @@ -0,0 +1,287 @@ +// Copyright (c) Jupyter Development Team. +// Distributed under the terms of the Modified BSD License. +/*----------------------------------------------------------------------------- +| Copyright (c) 2014-2018, PhosphorJS Contributors +| +| Distributed under the terms of the BSD 3-Clause License. +| +| The full license is in the file LICENSE, distributed with this software. +|----------------------------------------------------------------------------*/ + +/** + * Create a duplex string identifier. + * + * @param version - The datastore version for the duplex id. + * + * @param store - The datastore id for the duplex id. + * + * @returns A string duplex id for the given arguments. + * + * #### Notes + * ID format: <6-byte version><4-byte storeId> + */ +export function createDuplexId(version: number, store: number): string { + // Split the version into 16-bit values. + let vc = version & 0xffff; + let vb = (((version - vc) / 0x10000) | 0) & 0xffff; + let va = (((version - vb - vc) / 0x100000000) | 0) & 0xffff; + + // Split the store id into 16-bit values. + let sb = store & 0xffff; + let sa = (((store - sb) / 0x10000) | 0) & 0xffff; + + // Convert the parts into a string identifier duplex. + return String.fromCharCode(va, vb, vc, sa, sb); +} + +/** + * Create a triplex string identifier between two boundaries. + * + * @param version - The datastore version for the triplex id. + * + * @param store - The datastore id for the triplex id. + * + * @param lower - The lower triplex boundary identifier or `''` + * to represent the lowest-most boundary. + * + * @param upper - The upper triplex boundary identifier or `''` + * to represent the upper-most boundary. + * + * @returns A new triplex identifier between the two boundaries. + * + * #### Notes + * ID format: <6-byte path><6-byte version><4-byte storeId> * (N >= 1) + */ +export function createTriplexId( + version: number, + store: number, + lower: string, + upper: string +): string { + // The maximum path in a triplex id. + const MAX_PATH = 0xffffffffffff; + + // Set up the variable to hold the id. + let id = ''; + + // Fetch the triplet counts of the ids. + let lowerCount = lower ? Private.idTripletCount(lower) : 0; + let upperCount = upper ? Private.idTripletCount(upper) : 0; + + // Iterate over the id triplets. + for (let i = 0, n = Math.max(lowerCount, upperCount); i < n; ++i) { + // Fetch the lower identifier triplet, padding as needed. + let lp: number; + let lc: number; + let ls: number; + if (i >= lowerCount) { + lp = 0; + lc = 0; + ls = 0; + } else { + lp = Private.idPathAt(lower, i); + lc = Private.idVersionAt(lower, i); + ls = Private.idStoreAt(lower, i); + } + + // Fetch the upper identifier triplet, padding as needed. + let up: number; + let uc: number; + let us: number; + if (i >= upperCount) { + up = upperCount === 0 ? MAX_PATH + 1 : 0; + uc = 0; + us = 0; + } else { + up = Private.idPathAt(upper, i); + uc = Private.idVersionAt(upper, i); + us = Private.idStoreAt(upper, i); + } + + // If the triplets are the same, copy the triplet and continue. + if (lp === up && lc === uc && ls === us) { + id += Private.createTriplet(lp, lc, ls); + continue; + } + + // If the triplets are different, the well-ordered identifiers + // assumption means that the lower triplet compares less than + // the upper triplet. The task now is to find the nearest free + // path slot among the remaining triplets. + + // If there is free space between the path portions of the + // triplets, select a new path which falls between them. + if (up - lp > 1) { + let np = Private.randomPath(lp + 1, up - 1); + id += Private.createTriplet(np, version, store); + return id.slice(); + } + + // Otherwise, copy the left triplet and reset the upper count + // to zero so that the loop chooses the nearest available path + // slot after the current lower triplet. + id += Private.createTriplet(lp, lc, ls); + upperCount = 0; + } + + // If this point is reached, the lower and upper identifiers share + // the same path but diverge based on the version or store id. It is + // safe to insert anywhere in an extra triplet. + let np = Private.randomPath(1, MAX_PATH); + id += Private.createTriplet(np, version, store); + return id.slice(); +} + +/** + * Create the multiple triplex identifiers. + * + * @param n - The number of identifiers to create. + * + * @param version - The datastore version. + * + * @param store - The datastore id. + * + * @param lower - The lower boundary identifier, exclusive. + * + * @param uppper - The upper boundary identifier, exclusive. + * + * @returns The requested identifiers. + */ +export function createTriplexIds( + n: number, + version: number, + store: number, + lower: string, + upper: string +): string[] { + // Initialize the identifiers array. + let ids: string[] = []; + + // Loop the required number of times. + while (ids.length < n) { + // Create an identifier between the boundaries. + let id = createTriplexId(version, store, lower, upper); + + // Add the identifier to the array. + ids.push(id); + + // Update the lower boundary identifier. + lower = id; + } + + // Return the generated identifiers. + return ids; +} + +/** + * The namespace for the module implementation details. + */ +namespace Private { + /** + * Create a string identifier triplet. + * + * @param path - The path value for the triplet. + * + * @param version - The version for the triplet. + * + * @param store - The store id for the triplet. + * + * @returns The string identifier triplet. + */ + export function createTriplet( + path: number, + version: number, + store: number + ): string { + // Split the path into 16-bit values. + let pc = path & 0xffff; + let pb = (((path - pc) / 0x10000) | 0) & 0xffff; + let pa = (((path - pb - pc) / 0x100000000) | 0) & 0xffff; + + // Split the version into 16-bit values. + let vc = version & 0xffff; + let vb = (((version - vc) / 0x10000) | 0) & 0xffff; + let va = (((version - vb - vc) / 0x100000000) | 0) & 0xffff; + + // Split the store id into 16-bit values. + let sb = store & 0xffff; + let sa = (((store - sb) / 0x10000) | 0) & 0xffff; + + // Convert the parts into a string identifier triplet. + return String.fromCharCode(pa, pb, pc, va, vb, vc, sa, sb); + } + + /** + * Get the total number of path triplets in an identifier. + * + * @param id - The identifier of interest. + * + * @returns The total number of triplets in the id. + */ + export function idTripletCount(id: string): number { + return id.length >> 3; + } + + /** + * Get the path value for a particular triplet. + * + * @param id - The string id of interest. + * + * @param i - The index of the triplet. + * + * @returns The path value for the specified triplet. + */ + export function idPathAt(id: string, i: number): number { + let j = i << 3; + let a = id.charCodeAt(j + 0); + let b = id.charCodeAt(j + 1); + let c = id.charCodeAt(j + 2); + return a * 0x100000000 + b * 0x10000 + c; + } + + /** + * Get the version for a particular triplet. + * + * @param id - The identifier of interest. + * + * @param i - The index of the triplet. + * + * @returns The version for the specified triplet. + */ + export function idVersionAt(id: string, i: number): number { + let j = i << 3; + let a = id.charCodeAt(j + 3); + let b = id.charCodeAt(j + 4); + let c = id.charCodeAt(j + 5); + return a * 0x100000000 + b * 0x10000 + c; + } + + /** + * Get the store id for a particular triplet. + * + * @param id - The identifier of interest. + * + * @param i - The index of the triplet. + * + * @returns The store id for the specified triplet. + */ + export function idStoreAt(id: string, i: number): number { + let j = i << 3; + let a = id.charCodeAt(j + 6); + let b = id.charCodeAt(j + 7); + return a * 0x10000 + b; + } + + /** + * Pick a path in the leading bucket of an inclusive range. + * + * @param min - The minimum allowed path, inclusive. + * + * @param max - The maximum allowed path, inclusive. + * + * @returns A random path in the leading bucket of the range. + */ + export function randomPath(min: number, max: number): number { + return min + Math.round(Math.random() * Math.sqrt(max - min)); + } +} diff --git a/beakerx_tabledisplay/js/src/jupyterlab-plugin.ts b/beakerx_tabledisplay/js/src/jupyterlab-plugin.ts index f200831..0e75404 100644 --- a/beakerx_tabledisplay/js/src/jupyterlab-plugin.ts +++ b/beakerx_tabledisplay/js/src/jupyterlab-plugin.ts @@ -28,19 +28,19 @@ const plugin: JupyterFrontEndPlugin = { autoStart: true, activate: (app: JupyterFrontEnd, widgets: IJupyterWidgetRegistry, themeManager: IThemeManager | null): void => { class TableDisplayView extends beakerx_tabledisplay.TableDisplayView { - constructor(options?: WidgetView.InitializeParameters) { + constructor(options?: WidgetView.IInitializeParameters) { super(options); - + if (themeManager) { themeManager.themeChanged.connect(this._onThemeChanged, this); } } - + protected _onThemeChanged(): void { // Recompute CSS variables and redraw this.currentScope.computeCSSVariablesAndRedraw(); } - + public remove(): void { if (themeManager) { themeManager.themeChanged.disconnect(this._onThemeChanged, this); @@ -57,8 +57,8 @@ const plugin: JupyterFrontEndPlugin = { TableDisplayView } }); - + } }; -export default [plugin] as JupyterFrontEndPlugin[]; \ No newline at end of file +export default [plugin] as JupyterFrontEndPlugin[]; diff --git a/beakerx_tabledisplay/js/yarn.lock b/beakerx_tabledisplay/js/yarn.lock index 2a40741..38039e4 100644 --- a/beakerx_tabledisplay/js/yarn.lock +++ b/beakerx_tabledisplay/js/yarn.lock @@ -1,9081 +1,10241 @@ -# THIS IS AN AUTOGENERATED FILE. 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b/beakerx_tabledisplay/setup.py index 52af084..88607b2 100644 --- a/beakerx_tabledisplay/setup.py +++ b/beakerx_tabledisplay/setup.py @@ -102,10 +102,10 @@ post_develop = npm_builder( path=str(pkg_json_path.parent), - build_cmd="build:labextension", + build_cmd="build", source_dir=str(pkg_json_path.parent / "src"), build_dir=str(pkg_json_path.parent / "dist"), - npm=["yarn"], + npm=["jlpm"], ) setup_args["cmdclass"] = wrap_installers( post_develop=post_develop, ensured_targets=ensured_targets diff --git a/configuration.yml b/configuration.yml index 35576e7..d9e71ec 100644 --- a/configuration.yml +++ b/configuration.yml @@ -3,7 +3,7 @@ channels: - conda-forge dependencies: - ipywidgets>=7.6,<8 - - yarn + - yarn >=3 - notebook>=5.7.6 - pandas - python=3.7.5 diff --git a/ui-tests/README.md b/ui-tests/README.md index b8b3e31..45b094a 100644 --- a/ui-tests/README.md +++ b/ui-tests/README.md @@ -33,9 +33,9 @@ jupyter lab --config ./ui-tests/jupyter_server_test_config.py ```sh cd ./ui-tests -yarn install -yarn playwright install -yarn playwright test +jlpm install +npx playwright install +npx playwright test ``` The report will be opened in your browser at the end of the tests execution. @@ -61,9 +61,9 @@ jupyter lab --config ./ui-tests/jupyter_server_test_config.py ```sh cd ./ui-tests -yarn install -yarn playwright install -yarn playwright test -u +jlpm install +npx playwright install +npx playwright test -u ``` > Some discrepancy may occurs between the snapshots generated on your computer and @@ -91,9 +91,9 @@ jupyter lab --config ./ui-tests/jupyter_server_test_config.py ```sh cd ./ui-tests -yarn install -yarn playwright install -yarn playwright codegen localhost:8888 +jlpm install +npx playwright install +npx playwright codegen localhost:8888 ``` ## Debug tests @@ -117,7 +117,7 @@ jupyter lab --config ./ui-tests/jupyter_server_test_config.py ```sh cd ./ui-tests -yarn install -yarn playwright install +jlpm install +npx playwright install PWDEBUG=1 yarn playwright test ``` diff --git a/ui-tests/package.json b/ui-tests/package.json index 366ed6e..9343e43 100644 --- a/ui-tests/package.json +++ b/ui-tests/package.json @@ -5,7 +5,7 @@ "private": true, "scripts": { "start": "jupyter lab --config jupyter_server_test_config.py", - "test": "yarn playwright test" + "test": "npx playwright test" }, "devDependencies": { "@jupyterlab/galata": "^4.1.0", From f3c653166df539f9a80841fea90c19d6616a1f2e Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 11:23:41 +0200 Subject: [PATCH 02/11] Fix Python version --- configuration.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/configuration.yml b/configuration.yml index d9e71ec..6b3c704 100644 --- a/configuration.yml +++ b/configuration.yml @@ -6,6 +6,6 @@ dependencies: - yarn >=3 - notebook>=5.7.6 - pandas - - python=3.7.5 + - python>=3.8 - py4j - numpy From 17048fc732d924e803451591b7beac6100068d4a Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 11:31:21 +0200 Subject: [PATCH 03/11] Use micromamba on the CI --- .github/workflows/python-package.yml | 8 +++----- 1 file changed, 3 insertions(+), 5 deletions(-) diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index a813599..77524d3 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -26,14 +26,12 @@ jobs: restore-keys: | ${{ runner.os }}-conda- - - name: Setup conda - uses: conda-incubator/setup-miniconda@v2 + - name: Install Conda environment with Micromamba + uses: mamba-org/provision-with-micromamba@main with: - activate-environment: beakerx_tabledisplay + environment-name: beakerx_tabledisplay environment-file: configuration.yml - auto-activate-base: false channels: conda-forge - miniconda-version: "latest" - name: Verify conda version shell: bash From 86d457847d9a188a577b8ac21673f4144c7870dc Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 11:44:06 +0200 Subject: [PATCH 04/11] Non editable install on CI --- .github/workflows/python-package.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index 77524d3..3289f85 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -41,7 +41,7 @@ jobs: run: conda install jupyterlab=3 jupyter-packaging - name: Build BeakerX tabledisplay - run: (cd beakerx_tabledisplay; pip install -e .) + run: (cd beakerx_tabledisplay; pip install .) - name: Check installation files (nbextension and lab3 extension) run: | From 0fccdcff0685180bde8fd489ad6aab11586665d7 Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 11:48:52 +0200 Subject: [PATCH 05/11] Drop the nbextension list command check It does not exist anymore with Notebook 7 --- .github/workflows/python-package.yml | 5 ----- 1 file changed, 5 deletions(-) diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index 3289f85..277dbdf 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -51,11 +51,6 @@ jobs: test -d $CONDA_PREFIX/share/jupyter/labextensions/@beakerx/beakerx-tabledisplay test -f $CONDA_PREFIX/share/jupyter/labextensions/@beakerx/beakerx-tabledisplay/package.json - - name: Check nbextension and labextension (Lab3) - run: | - jupyter nbextension list 2>&1 | grep -ie "beakerx_tabledisplay/extension.*enabled" - - jupyter labextension list 2>&1 | grep -ie "@beakerx/beakerx-tabledisplay.*enabled.*ok" - - - name: Build wheel run: | cd beakerx_tabledisplay From 700c8870b4c0a0be4e7229b337133ccdb8cc522e Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 12:04:42 +0200 Subject: [PATCH 06/11] Update ui-tests --- ui-tests/jupyter_server_test_config.py | 19 ++----------------- ui-tests/package.json | 15 ++++++++++----- ui-tests/playwright.config.js | 2 +- 3 files changed, 13 insertions(+), 23 deletions(-) diff --git a/ui-tests/jupyter_server_test_config.py b/ui-tests/jupyter_server_test_config.py index 5ba7a91..f912753 100644 --- a/ui-tests/jupyter_server_test_config.py +++ b/ui-tests/jupyter_server_test_config.py @@ -1,20 +1,5 @@ -"""Server configuration for integration tests. - -!! Never use this configuration in production because it -opens the server to the world and provide access to JupyterLab -JavaScript objects through the global window variable. -""" -from tempfile import mkdtemp - -c.ServerApp.port = 8888 -c.ServerApp.port_retries = 0 -c.ServerApp.open_browser = False - -c.ServerApp.root_dir = mkdtemp(prefix='galata-test-') -c.ServerApp.token = "" -c.ServerApp.password = "" -c.ServerApp.disable_check_xsrf = True -c.LabApp.expose_app_in_browser = True +from jupyterlab.galata import configure_jupyter_server +configure_jupyter_server(c) # noqa F821 # Uncomment to set server log level to debug level # c.ServerApp.log_level = "DEBUG" diff --git a/ui-tests/package.json b/ui-tests/package.json index 9343e43..6e03235 100644 --- a/ui-tests/package.json +++ b/ui-tests/package.json @@ -1,14 +1,19 @@ { "name": "beakerx_tabledisplay-ui-tests", "version": "1.0.0", - "description": "JupyterLab beakerx_tabledisplay Integration Tests", "private": true, "scripts": { - "start": "jupyter lab --config jupyter_server_test_config.py", - "test": "npx playwright test" + "start": "jupyter lab --config jupyter_server_config.py", + "test": "npx playwright test", + "test:update": "npx playwright test --update-snapshots", + "test:debug": "PWDEBUG=1 npx playwright test" }, "devDependencies": { - "@jupyterlab/galata": "^4.1.0", - "@playwright/test": "^1.19.0" + "@jupyterlab/galata": "^5.0.1", + "@playwright/test": "^1.32.0" + }, + "dependencies": { + "@types/klaw-sync": "^6.0.1", + "klaw-sync": "^6.0.0" } } diff --git a/ui-tests/playwright.config.js b/ui-tests/playwright.config.js index 6517697..9c43d00 100644 --- a/ui-tests/playwright.config.js +++ b/ui-tests/playwright.config.js @@ -7,7 +7,7 @@ module.exports = { ...baseConfig, use: {}, webServer: { - command: "yarn start", + command: "jlpm start", url: "http://localhost:8888/lab", timeout: 120 * 1000, reuseExistingServer: !process.env.CI, From 21d1b46d1fb1f97725881a36a4a106c7bd9947f0 Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 12:09:23 +0200 Subject: [PATCH 07/11] Micromamba everywhere --- .github/workflows/benchmark.yml | 8 +++----- 1 file changed, 3 insertions(+), 5 deletions(-) diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml index 678ec17..a3e9ee0 100644 --- a/.github/workflows/benchmark.yml +++ b/.github/workflows/benchmark.yml @@ -59,14 +59,12 @@ jobs: restore-keys: | ${{ runner.os }}-conda- - - name: Setup conda - uses: conda-incubator/setup-miniconda@v2 + - name: Install Conda environment with Micromamba + uses: mamba-org/provision-with-micromamba@main with: - activate-environment: beakerx_tabledisplay + environment-name: beakerx_tabledisplay environment-file: configuration.yml - auto-activate-base: false channels: conda-forge - miniconda-version: "latest" - name: Get yarn cache directory path id: yarn-cache-dir-path From 0754ac768aa5c838f5a5e5e5a5f722660326f1da Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 12:19:03 +0200 Subject: [PATCH 08/11] Micromamba everywhere, take two --- .github/workflows/python-package.yml | 8 +++----- 1 file changed, 3 insertions(+), 5 deletions(-) diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index 277dbdf..a85663d 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -92,14 +92,12 @@ jobs: name: dist ${{ github.run_number }} path: ./dist - - name: Setup conda - uses: conda-incubator/setup-miniconda@v2 + - name: Install Conda environment with Micromamba + uses: mamba-org/provision-with-micromamba@main with: - activate-environment: beakerx_tabledisplay + environment-name: beakerx_tabledisplay environment-file: configuration.yml - auto-activate-base: false channels: conda-forge - miniconda-version: "latest" - name: Install jupyterlab2 run: conda install jupyterlab=2 From 156cce15fbec4c5b7817940e5f8d316a48965c3f Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 13:20:31 +0200 Subject: [PATCH 09/11] Use jupyterlab 4 in CI --- .github/workflows/python-package.yml | 11 ++--------- configuration.yml | 3 ++- 2 files changed, 4 insertions(+), 10 deletions(-) diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index a85663d..00f4d02 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -99,18 +99,12 @@ jobs: environment-file: configuration.yml channels: conda-forge - - name: Install jupyterlab2 - run: conda install jupyterlab=2 - - name: Install the wheel run: | cd dist pip install -vv beakerx_tabledisplay*.whl - - name: Manually install labextension for lab2 - run: jupyter labextension install @jupyter-widgets/jupyterlab-manager beakerx_tabledisplay/js - - - name: Check installation files (nbextension and lab3 extension) + - name: Check installation files (nbextension and lab extension) run: | test -d $CONDA_PREFIX/share/jupyter/nbextensions/beakerx_tabledisplay test -f $CONDA_PREFIX/share/jupyter/nbextensions/beakerx_tabledisplay/extension.js @@ -118,9 +112,8 @@ jobs: test -d $CONDA_PREFIX/share/jupyter/labextensions/@beakerx/beakerx-tabledisplay test -f $CONDA_PREFIX/share/jupyter/labextensions/@beakerx/beakerx-tabledisplay/package.json - - name: Check nbextension and labextension (Lab2) + - name: Check nbextension and labextension run: | - jupyter nbextension list 2>&1 | grep -ie "beakerx_tabledisplay/extension.*enabled" - jupyter labextension list 2>&1 | grep -ie "@beakerx/beakerx-tabledisplay.*enabled.*ok" - - name: Run e2e tests (table v1) diff --git a/configuration.yml b/configuration.yml index 6b3c704..4503d81 100644 --- a/configuration.yml +++ b/configuration.yml @@ -4,7 +4,8 @@ channels: dependencies: - ipywidgets>=7.6,<8 - yarn >=3 - - notebook>=5.7.6 + - notebook>=7 + - jupyterlab>=4 - pandas - python>=3.8 - py4j From ac335cd403cd283daa370a70c9ce90e5b7b9cbfc Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 13:50:37 +0200 Subject: [PATCH 10/11] Fix ipywidgets in ci --- configuration.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/configuration.yml b/configuration.yml index 4503d81..ed785d6 100644 --- a/configuration.yml +++ b/configuration.yml @@ -2,7 +2,7 @@ name: beakerx_tabledisplay channels: - conda-forge dependencies: - - ipywidgets>=7.6,<8 + - ipywidgets>=8,<9 - yarn >=3 - notebook>=7 - jupyterlab>=4 From 89957e6ff45d240dc62995e8e13521ae076feb2e Mon Sep 17 00:00:00 2001 From: martinRenou Date: Wed, 20 Sep 2023 14:33:06 +0200 Subject: [PATCH 11/11] Remove more conda commands --- .github/workflows/benchmark.yml | 1 - .github/workflows/python-package.yml | 15 --------------- configuration.yml | 1 + 3 files changed, 1 insertion(+), 16 deletions(-) diff --git a/.github/workflows/benchmark.yml b/.github/workflows/benchmark.yml index a3e9ee0..41061da 100644 --- a/.github/workflows/benchmark.yml +++ b/.github/workflows/benchmark.yml @@ -87,7 +87,6 @@ jobs: - name: Install dependencies run: | set -eux - conda install jupyterlab=3 jupyter-packaging pip install beakerx_tabledisplay beakerx_tabledisplay install diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml index 00f4d02..319448a 100644 --- a/.github/workflows/python-package.yml +++ b/.github/workflows/python-package.yml @@ -18,14 +18,6 @@ jobs: - name: Checkout uses: actions/checkout@v2 - - name: Cache Conda - uses: actions/cache@v1 - with: - path: ~/.conda - key: ${{ runner.os }}-mconda-${{ hashFiles('**/configuration.yml') }} - restore-keys: | - ${{ runner.os }}-conda- - - name: Install Conda environment with Micromamba uses: mamba-org/provision-with-micromamba@main with: @@ -33,13 +25,6 @@ jobs: environment-file: configuration.yml channels: conda-forge - - name: Verify conda version - shell: bash - run: conda --version - - - name: Install build dependencies - run: conda install jupyterlab=3 jupyter-packaging - - name: Build BeakerX tabledisplay run: (cd beakerx_tabledisplay; pip install .) diff --git a/configuration.yml b/configuration.yml index ed785d6..9b0ec52 100644 --- a/configuration.yml +++ b/configuration.yml @@ -10,3 +10,4 @@ dependencies: - python>=3.8 - py4j - numpy + - jupyter-packaging