Function raycast has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

  raycast(raycaster, intersects) {
    const ray = TransformGroup._ray
    const inverseMatrix = TransformGroup._inverseMatrix
    const { children } = this
    ray.copy(raycaster.ray)

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Function _loopThrough has 6 arguments (exceeds 4 allowed). Consider refactoring.

Open

  subDiv,
  residues,
  segmentsHeight,
  tension,
  mode,

Function raycast has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

  raycast(raycaster, intersects) {
    const { bonds } = this._selection
    const inters = []
    this._mesh.raycast(raycaster, inters)
    const bondsIdc = this._chunksIdc

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Function setArrayXYZW has 6 arguments (exceeds 4 allowed). Consider refactoring.

Open

function setArrayXYZW(arr, idx, x, y, z, w) {

Function getResidueColor has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

  getResidueColor(residue, _complex) {
    const { opts } = this
    if (!opts) {
      return this.palette.defaultGradientColor
    }

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Avoid deeply nested control flow statements.

Open

            if (dx * dx + dy * dy + dz * dz <= rSum * rSum) {
              out[outIdx++] = data[dataIndex]
            }

Avoid deeply nested control flow statements.

Open

            if (!this.addTriangle(vaEdges[i0], vaEdges[i1], vaEdges[i2])) {
              return 0 - 2
            }

Avoid deeply nested control flow statements.

Open

            if (gcVal[i] < isoValue) {
              cubeIndex |= 1 << i
            }

Avoid deeply nested control flow statements.

Open

            if (this._voxelList[indVoxel] < 0) {
              atomsList[numAtomsRefs * 2 + 0] = i
              atomsList[numAtomsRefs * 2 + 1] = 0 - 1
              this._voxelList[indVoxel] = numAtomsRefs
              numAtomsRefs++

Avoid deeply nested control flow statements.

Open

            if (
              this._visibilitySelector != null &&
              density > atomWeightData[addr]
            ) {
              // NOSONAR

Avoid deeply nested control flow statements.

Open

            if (d2 < ar2) {
              const w = Math.exp(-d2 * sigma2Inv)
              const cIdx = idx * 3
              volTex[cIdx] += cr * w
              volTex[cIdx + 1] += cg * w

Avoid deeply nested control flow statements.

Open

            if (!found) {
              bridges.push({
                type,
                i: [ri._index],
                chainI: ri.getChain()._index,

Function compareOptionsWithDefaults has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

function compareOptionsWithDefaults(opts, defOpts) {
  const optsStr = []
  if (defOpts && opts) {
    const keys = Object.keys(opts)
    for (let p = 0; p < keys.length; ++p) {

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Avoid deeply nested control flow statements.

Open

            if (i0 < 0) {
              break
            }

Avoid deeply nested control flow statements.

Open

            for (let ix = minx; ix < maxx; ix++) {
              dx = px - gridx[ix]
              d2 = dzy2 + dx * dx
              const idx = ix + zyOffset
              const current = grid[idx]

Function setArrayXYZW has 6 arguments (exceeds 4 allowed). Consider refactoring.

Open

function setArrayXYZW(arr, idx, x, y, z, w) {

Function _innerBuild has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

  _innerBuild() {
    let ok
    const expandFactor = 1.2

    // performance test

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Avoid deeply nested control flow statements.

Open

            if (type === BridgeType.NO_BRIDGE) {
              continue
            }

Function setArrayXYZW has 6 arguments (exceeds 4 allowed). Consider refactoring.

Open

function setArrayXYZW(arr, idx, x, y, z, w) {

Function buildSelectionGeometry has a Cognitive Complexity of 8 (exceeds 5 allowed). Consider refactoring.

Open

  buildSelectionGeometry(mask) {
    let sg = null

    if (this.geo && 'getSubset' in this.geo) {
      const meshes = this.geo.getSubset(mask)

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