Function deriveDeep has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

function deriveDeep(obj, needZeroOwnProperties) {
  let res = obj
  let i
  let n
  if (obj instanceof Array) {

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Function _build has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

  _build() {
    const bondsIdc = this._selection.chunks
    const { bonds, parent } = this._selection
    const mode = this._mode
    const colorer = this._colorer

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Function deriveDeep has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

function deriveDeep(obj, needZeroOwnProperties) {
  let res = obj
  let i
  let n
  if (obj instanceof Array) {

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Function vertexFusion has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

  vertexFusion(offset, len) {
    const faceVer = this._indices.length
    const vertices = this._position
    const normals = this._normals
    const oldVerCount = vertices.length | 0

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Function screenshot has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

  screenshot(width, height) {
    const gfx = this._gfx
    const deviceWidth = gfx.renderer.domElement.width
    const deviceHeight = gfx.renderer.domElement.height

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Function _extractConfs has a Cognitive Complexity of 14 (exceeds 5 allowed). Consider refactoring.

Open

  _extractConfs(complex, helicesData) {
    const { asymDict } = this
    if (
      !helicesData.conf_type_id ||
      !helicesData.beg_label_seq_id ||

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Function constructor has 43 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  constructor(
    AromaticGroup,
    geoParams,
    complex,
    colorer,

Function getNumIntersectedCells has 43 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  getNumIntersectedCells(side, numCells, corners, cube) {
    const side2 = side * side
    const cNumVerts = 8
    let numIntersectedCells = 0

Function _prepareAxesAndDirs has 43 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _prepareAxesAndDirs() {
    const volData = this._volumetricData

    const cellSize = volData.getCellSize()

Function _fromGeo has 43 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _fromGeo(geoOut) {
    let colors = null
    const positions = utils.allocateTyped(
      Float32Array,
      (1 + 2) * geoOut._numVertices

Function load has 43 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  load(source, opts) {
    opts = merge({}, opts, {
      context: this
    })

Function propagateProp has 42 lines of code (exceeds 25 allowed). Consider refactoring.

Open

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

Function mousedown has 42 lines of code (exceeds 25 allowed). Consider refactoring.

Open

ObjectControls.prototype.mousedown = function (event) {
  if (this.enabled === false || this._state !== STATE.NONE) {
    return
  }

Function computeGradient has 42 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  computeGradient() {
    if (this._dimVec !== 1) {
      // gradient can only be computed for scalar fields
      return null
    }

Function writeString has 42 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  writeString(string, begin, end) {
    let curStr = this._resultArray[this._currentStr]
    let str

    const curStrLength = curStr ? curStr.length : 0

Consider simplifying this complex logical expression.

Open

    if (
      xDir.x < 0 ||
      xDir.y < 0 ||
      xDir.z < 0 ||
      yDir.x < 0 ||

Function constructor has 41 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  constructor(
    ResidueGroup,
    geoParams,
    complex,
    colorer,

Function _addPointsForLoneResidue has 41 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function _addPointsForLoneResidue(centerPoints, topPoints, idx, residue) {
  const nucleic = (residue._type.flags & ResidueType.Flags.NUCLEIC) !== 0
  const nameFrom = nucleic ? "C5'" : 'N'
  const nameTo = nucleic ? "C3'" : 'C'

Function _breadWidthSearch has 41 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  _breadWidthSearch(atoms, molID) {
    const atomLabels = new Array(atoms.length)

    let id
    for (id = 0; id < atomLabels.length; id++) {

Function initializeTerminal has 40 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function initializeTerminal(viewer) {
  const _terminal = $('.miew-terminal')
  const _terminalWindow = _terminal.find('.terminal-window')
  _terminalWindow.terminal(
    function (command, term) {