_extractSGroups()

in packages/miew/src/io/parsers/CMLParser.js [104:184]
59 lines of code
11 McCabe index (conditional complexity)

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

    const count = atoms.length;
    let i;
    let j;

    for (i = 0; i < count; i++) {
      const atomId = atoms[i].id;
      for (j = 0; j < moleculeArr.length; j++) {
        const firstAtomRef = moleculeArr[j]._atoms.split(' ')[0];
        if (firstAtomRef === atomId) {
          if (!atoms[i].sgroupRef) {
            atoms[i].sgroupRef = [];
          }
          atoms[i].sgroupRef.push(moleculeArr[j]);
        }
      }
    }
    // build sGroups centers
    let atomMap = {}; // sgrpmap cache
    let mapEntry = null;
    const nLimon = 100000000;
    const bLow = new THREE.Vector3(nLimon, nLimon, nLimon);
    const bHight = new THREE.Vector3(-nLimon, -nLimon, -nLimon);

    function cycleFuncInner(e) {
      mapEntry = atomMap[e];
      if (mapEntry) {
        moleculeArr[j]._atoms.push(mapEntry.a);
      }
    }

    function cycleFunc(e) {
      mapEntry = atomMap[e];
      if (mapEntry) {
        bLow.set(Math.min(bLow.x, mapEntry.x), Math.min(bLow.y, mapEntry.y), Math.min(bLow.z, mapEntry.z));
        bHight.set(Math.max(bHight.x, mapEntry.x), Math.max(bHight.y, mapEntry.y), Math.max(bHight.z, mapEntry.z));
        cycleFuncInner(e);
      }
    }

    for (i = 0; i < atoms.length; i++) {
      atomMap[atoms[i].id] = {};
      atomMap[atoms[i].id].x = atoms[i].x2;
      if (atoms[i].x3) {
        atomMap[atoms[i].id].x = atoms[i].x3;
      }
      atomMap[atoms[i].id].x = parseFloat(atomMap[atoms[i].id].x);
      atomMap[atoms[i].id].y = atoms[i].y2;
      if (atoms[i].y3) {
        atomMap[atoms[i].id].y = atoms[i].y3;
      }
      atomMap[atoms[i].id].y = parseFloat(atomMap[atoms[i].id].y);
      atomMap[atoms[i].id].z = '0.0';
      if (atoms[i].z3) {
        atomMap[atoms[i].id].z = atoms[i].z3;
      }
      atomMap[atoms[i].id].z = parseFloat(atomMap[atoms[i].id].z);
      atomMap[atoms[i].id].a = atoms[i];
    }

    let atomsRef;
    for (j = 0; j < moleculeArr.length; j++) {
      if (moleculeArr[j]._center !== null) {
        bLow.set(nLimon, nLimon, nLimon);
        bHight.set(-nLimon, -nLimon, -nLimon);
        atomsRef = moleculeArr[j]._atoms.split(' ');
        moleculeArr[j]._atoms = [];
        atomsRef.forEach(cycleFunc);

        moleculeArr[j]._center.addVectors(bLow, bHight);
        moleculeArr[j]._center.multiplyScalar(0.5);
      } else {
        atomsRef = moleculeArr[j]._atoms.split(' ');
        moleculeArr[j]._atoms = [];
        atomsRef.forEach(cycleFuncInner);
      }
    }
    atomMap = null;
  }