Function setValues has 87 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  setValues(values) {
    if (typeof values === 'undefined') {
      return
    }

Function finalize has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.

Open

  finalize(opts) {
    opts = opts || {}
    // Put bonds into atoms
    const bonds = this._bonds
    let i

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Function prepareComponentCompound has 85 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    function prepareComponentCompound(data) {
      let atoms = []
      if (
        data.molecule &&
        data.molecule.atomArray &&

Function constructor has 85 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  constructor(opts: MiewOptions) {
    super()
    this._opts = merge(
      {
        settingsCookie: 'settings',

Function H has 84 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  function H(r) {
    function t(r) {
      for (var t = {}, n = 0; r > n; n++) {
        var e = o()
        t[e] = o()

Function finalize has 84 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  finalize(opts) {
    opts = opts || {}
    // Put bonds into atoms
    const bonds = this._bonds
    let i

Function _extractAtoms has 84 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _extractAtoms(complex, complexData) {
    const atomData = complexData.atom_site
    if (!atomData) {
      throw new AtomDataError('CIF parsing error: atom_site is not specified!')
    }

Function _calcHBondEnergy has 82 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _calcHBondEnergy(predonor, donor, acceptor) {
    let result = 0

    if (predonor === null) {
      return result

Function propagateProp has a Cognitive Complexity of 23 (exceeds 5 allowed). Consider refactoring.

Open

  propagateProp(path, arg) {
    if (path !== undefined) {
      let argExc = {}
      const adapter = options.adapters[typeof get(settings.defaults, path)]
      if (adapter === undefined) {

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Function gaussdensity has a Cognitive Complexity of 23 (exceeds 5 allowed). Consider refactoring.

Open

  gaussdensity(surface, packedArrays, atomicNum, params) {
    const numAtoms = packedArrays.posRad.length / 4
    const { posRad, colors } = packedArrays
    const { numVoxels } = this
    const { radScale, gaussLim, gridSpacing } = params

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Function _buildVW has a Cognitive Complexity of 23 (exceeds 5 allowed). Consider refactoring.

Open

  _buildVW() {
    const self = this
    const residues = this._complex._residues
    let ri
    let preri

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File FBXInfoExtractor.js has 302 lines of code (exceeds 250 allowed). Consider refactoring.

Open

import utils from '../../../utils'
import gfxutils from '../../../gfx/gfxutils'
import logger from '../../../utils/logger'

import FBXModel from './FBXModel'

Function buildGeoFromCorners has 81 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  buildGeoFromCorners(meshRes, vBoxMin, vBoxMax, corners, vCellStep, cube) {
    const arrSize = 12
    const cNumVerts = 8
    const numCells = meshRes - 1
    const side = meshRes

Function default has 81 lines of code (exceeds 25 allowed). Consider refactoring.

Open

export default function (webVRPoC) {
  function showEnterVR(button) {
    button.style.display = ''
    button.style.cursor = 'pointer'
    button.style.left = 'calc(50% - 50px)'

Function _updateInfo has 79 lines of code (exceeds 25 allowed). Consider refactoring.

Open

Menu.prototype._updateInfo = function (dataSource) {
  if (dataSource && dataSource.id !== 'Complex') {
    return
  }
  const complex = dataSource

Function _extractSGroups has 79 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _extractSGroups(molecule, atoms) {
    const moleculeArr = this._extractSGroup(molecule)

    const count = atoms.length
    let i

Function _onLoad has 78 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _onLoad(dataSource, opts) {
    const gfx = this._gfx
    let visualName = null

    if (opts.animation) {

File VoxelWorld.js has 296 lines of code (exceeds 250 allowed). Consider refactoring.

Open

import utils from '../utils'
import { Vector2, Vector3 } from 'three'

/**
 * Calculate min & max radius of a sphere slice between zMin & zMax

Function calculateGridCorners has a Cognitive Complexity of 22 (exceeds 5 allowed). Consider refactoring.

Open

  calculateGridCorners(corners, side, vBoxMin, vBoxMax, atoms, probeRad) {
    const side2 = side * side
    const side3 = side2 * side
    const vCorner = new Vector3()
    const vDif = new Vector3()

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Function buildTiledTexture has a Cognitive Complexity of 22 (exceeds 5 allowed). Consider refactoring.

Open

  buildTiledTexture() {
    let tilesX = Math.ceil(Math.sqrt((this._dimZ * this._dimY) / this._dimX))

    let width = tilesX * (this._dimX + 2) - 1
    width = pow2ceil(width)

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