@gmod/bbi 1.0.33 → 2.0.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/CHANGELOG.md +20 -3
- package/dist/bbi.d.ts +2 -2
- package/dist/bbi.js +56 -59
- package/dist/bbi.js.map +1 -0
- package/dist/bigbed.d.ts +1 -2
- package/dist/bigbed.js +23 -20
- package/dist/bigbed.js.map +1 -0
- package/dist/bigwig.d.ts +1 -3
- package/dist/bigwig.js +5 -8
- package/dist/bigwig.js.map +1 -0
- package/dist/blockView.d.ts +8 -9
- package/dist/blockView.js +153 -92
- package/dist/blockView.js.map +1 -0
- package/dist/index.js +1 -0
- package/dist/index.js.map +1 -0
- package/dist/range.js +2 -0
- package/dist/range.js.map +1 -0
- package/dist/unzip-pako.d.ts +1 -1
- package/dist/unzip-pako.js +2 -1
- package/dist/unzip-pako.js.map +1 -0
- package/dist/unzip.js +1 -0
- package/dist/unzip.js.map +1 -0
- package/dist/util.d.ts +11 -1
- package/dist/util.js +10 -4
- package/dist/util.js.map +1 -0
- package/esm/bbi.d.ts +2 -2
- package/esm/bbi.js +62 -67
- package/esm/bbi.js.map +1 -0
- package/esm/bigbed.d.ts +1 -2
- package/esm/bigbed.js +42 -46
- package/esm/bigbed.js.map +1 -0
- package/esm/bigwig.d.ts +1 -3
- package/esm/bigwig.js +7 -14
- package/esm/bigwig.js.map +1 -0
- package/esm/blockView.d.ts +8 -9
- package/esm/blockView.js +166 -116
- package/esm/blockView.js.map +1 -0
- package/esm/index.js +3 -7
- package/esm/index.js.map +1 -0
- package/esm/range.js +3 -4
- package/esm/range.js.map +1 -0
- package/esm/unzip-pako.d.ts +1 -1
- package/esm/unzip-pako.js +4 -7
- package/esm/unzip-pako.js.map +1 -0
- package/esm/unzip.js +3 -5
- package/esm/unzip.js.map +1 -0
- package/esm/util.d.ts +11 -1
- package/esm/util.js +14 -15
- package/esm/util.js.map +1 -0
- package/package.json +13 -13
- package/src/bbi.ts +375 -0
- package/src/bigbed.ts +244 -0
- package/src/bigwig.ts +38 -0
- package/src/blockView.ts +496 -0
- package/src/declare.d.ts +2 -0
- package/src/index.ts +3 -0
- package/src/range.ts +142 -0
- package/src/unzip-pako.ts +5 -0
- package/src/unzip.ts +2 -0
- package/src/util.ts +83 -0
package/src/util.ts
ADDED
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/* eslint no-bitwise: ["error", { "allow": ["|"] }] */
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export class AbortError extends Error {
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public code: string
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public constructor(message: string) {
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super(message)
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this.code = 'ERR_ABORTED'
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}
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}
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// sort blocks by file offset and
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// group blocks that are within 2KB of eachother
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export function groupBlocks(blocks: { offset: bigint; length: bigint }[]) {
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blocks.sort((b0, b1) => Number(b0.offset) - Number(b1.offset))
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const blockGroups = []
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let lastBlock
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let lastBlockEnd
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for (let i = 0; i < blocks.length; i += 1) {
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if (
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lastBlock &&
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lastBlockEnd &&
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Number(blocks[i].offset) - lastBlockEnd <= 2000
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) {
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lastBlock.length = BigInt(
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Number(lastBlock.length) +
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Number(blocks[i].length) -
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lastBlockEnd +
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Number(blocks[i].offset),
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)
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lastBlock.blocks.push(blocks[i])
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} else {
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blockGroups.push(
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(lastBlock = {
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blocks: [blocks[i]],
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length: blocks[i].length,
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offset: blocks[i].offset,
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}),
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)
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}
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lastBlockEnd = Number(lastBlock.offset) + Number(lastBlock.length)
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}
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return blockGroups
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}
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/**
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* Properly check if the given AbortSignal is aborted.
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* Per the standard, if the signal reads as aborted,
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* this function throws either a DOMException AbortError, or a regular error
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* with a `code` attribute set to `ERR_ABORTED`.
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*
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* For convenience, passing `undefined` is a no-op
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*
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* @param {AbortSignal} [signal] an AbortSignal, or anything with an `aborted` attribute
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* @returns nothing
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*/
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export function checkAbortSignal(signal?: AbortSignal): void {
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if (!signal) {
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return
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}
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if (signal.aborted) {
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// console.log('bam aborted!')
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if (typeof DOMException !== 'undefined') {
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throw new DOMException('aborted', 'AbortError')
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} else {
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const e = new AbortError('aborted')
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e.code = 'ERR_ABORTED'
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throw e
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}
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}
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}
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/**
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* Skips to the next tick, then runs `checkAbortSignal`.
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* Await this to inside an otherwise synchronous loop to
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* provide a place to break when an abort signal is received.
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* @param {AbortSignal} signal
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*/
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export async function abortBreakPoint(signal?: AbortSignal): Promise<void> {
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await Promise.resolve()
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checkAbortSignal(signal)
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}
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