@datagrok/peptides 1.17.28 → 1.18.0

package/dist/778.js.map

@@ -1 +1 @@
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insertSmaller(distancesAr, indexes, num, index) {\n    if (num > distancesAr[distancesAr.length - 1])\n        return;\n    const newPosition = distancesAr.findIndex((v) => num < v);\n    distancesAr.pop();\n    distancesAr.splice(newPosition, 0, num);\n    indexes.pop();\n    indexes.splice(newPosition, 0, index);\n}\nexport function insertLarger(distancesAr, indexes, num, index) {\n    if (num < distancesAr[distancesAr.length - 1])\n        return;\n    const newPosition = distancesAr.findIndex((v) => num > v);\n    distancesAr.pop();\n    distancesAr.splice(newPosition, 0, num);\n    indexes.pop();\n    indexes.splice(newPosition, 0, index);\n}\nexport function getAggregationFunction(aggregationMethod, weights) {\n    switch (aggregationMethod) {\n        case DistanceAggregationMethods.MANHATTAN:\n            return (vs) => vs.reduce((acc, val, idx) => acc + val * weights[idx], 0);\n        default:\n            return (vs) => {\n                // euclidean\n                const sum = vs.reduce((acc, val, idx) => acc + (val * weights[idx]) ** 2, 0);\n                return Math.sqrt(sum);\n            };\n    }\n}\n//# 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{ getAggregationFunction, isNil } from './utils';\nimport { Measure, isBitArrayMetric } from '../typed-metrics';\nimport BitArray from '@datagrok-libraries/utils/src/bit-array';\nonmessage = async (event) => {\n    const { values, startIdx, endIdx, sampleLength, fnNames, opts, weights, aggregationMethod } = event.data;\n    try {\n        // if (startIdx != -1)\n        //   throw new Error('Error in sparse threshold worker'); // TODO: remove this line\n        let distances = new Float32Array(sampleLength);\n        const chunkSize = endIdx - startIdx;\n        const aggregate = getAggregationFunction(aggregationMethod, weights);\n        values.forEach((v, colIdx) => {\n            if (isBitArrayMetric(fnNames[colIdx])) {\n                for (let i = 0; i < v.length; ++i) {\n                    if (isNil(v[i]))\n                        continue;\n                    values[colIdx][i] = new BitArray(values[colIdx][i]._data, values[colIdx][i]._length);\n                }\n            }\n        });\n        let cnt = 0;\n        const increment = Math.floor(chunkSize / sampleLength);\n        const distanceFns = new Array(fnNames.length).fill(null).map((_, i) => new Measure(fnNames[i]).getMeasure(opts[i]));\n        const startRow = values[0].length - 2 - Math.floor(Math.sqrt(-8 * startIdx + 4 * values[0].length * (values[0].length - 1) - 7) / 2 - 0.5);\n        const startCol = startIdx - values[0].length * startRow + Math.floor((startRow + 1) * (startRow + 2) / 2);\n        let mi = startRow;\n        let mj = startCol;\n        let distanceArrayCounter = 0;\n        while (cnt < chunkSize && distanceArrayCounter < sampleLength) {\n            //const value = seq1List[mi] && seq1List[mj] ? hamming(seq1List[mi], seq1List[mj]) : 0;\n            const distanceValues = distanceFns.map((fn, idx) => !isNil(values[idx][mi]) && !isNil(values[idx][mj]) ?\n                fn(values[idx][mi], values[idx][mj]) : 1);\n            const value = distanceValues.length === 1 ? 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distanceArrayCounter++;\n            // const currentIncrement = Math.floor(Math.random() * increment) + 1\n            cnt += increment;\n            mj += increment;\n            while (mj >= values[0].length && cnt < chunkSize) {\n                mi++;\n                mj = mi + 1 + (mj - values[0].length);\n            }\n        }\n        if (distanceArrayCounter < sampleLength)\n            distances = distances.slice(0, distanceArrayCounter);\n        postMessage({ distance: distances });\n    }\n    catch (e) {\n        postMessage({ error: e });\n    }\n};\n//# 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package/dist/801.js

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package/dist/801.js.map

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strict\";\nconst indexesMapRows = new Map();\nonmessage = (e) => {\n    // init step for the worker\n    if (e.data.is) {\n        const { is, js, ds } = e.data;\n        for (let i = 0; i < is.length; i++) {\n            if (!indexesMapRows.has(is[i]))\n                indexesMapRows.set(is[i], new Map());\n            indexesMapRows.get(is[i]).set(js[i], ds[i]);\n        }\n        postMessage('ready');\n        return;\n    }\n    // main step for the worker\n    const { blockStart, blockEnd } = e.data;\n    const resI = [];\n    const resJ = [];\n    const resD = [];\n    // we do operations row by row\n    // therefore, iterating over all columns is necessary\n    // graphically speaking, one worker is working on a horizontal stripe in a matrix\n    // blockstart and blockend are the indexes of the rows that the worker is responsible for\n    for (let i = blockStart; i < blockEnd; i++) {\n        const iMap = indexesMapRows.get(i);\n        if (!iMap)\n            continue;\n        // this worker is responsible for every nonzero value in the row (or iMap)\n        // since we are using iMap a lot, we can materialize it\n        const iMapEntries = Array.from(iMap.entries());\n        for (const [k, _v] of iMapEntries) {\n            let sum = 0;\n            // here we know that the value is not zero\n            // therefore, we can iterate over the columns\n            for (const [k1, v1] of iMapEntries) {\n                // here we check the column\n                const jVal = indexesMapRows.get(k1)?.get(k);\n                if (jVal)\n                    sum += v1 * jVal;\n            }\n            resI.push(i);\n            resJ.push(k);\n            resD.push(sum);\n        }\n    }\n    postMessage({ i: new Uint32Array(resI), j: new Uint32Array(resJ), distance: new Float32Array(resD) });\n};\n//# 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