Examples of org.jmol.modelset.Bond.BondSet

org.jmol.modelset.Bond.BondSet

      BitSet bsBonds = new BitSet();
      viewer
          .makeConnections(fmin, fmax, order,
              JmolConstants.CONNECT_IDENTIFY_ONLY, atoms1, atoms2, bsBonds,
              isBonds, 0);
      return addX(new ScriptVariable(Token.bitset, new BondSet(bsBonds, viewer
          .getAtomIndices(viewer.getAtomBits(Token.bonds, bsBonds)))));
    }
    return addX(viewer.getAtomsConnected(min, max, order, atoms1));
  }

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        return addX(x2);
      BitSet bs = ScriptVariable.bsSelect(x2);
      Object val = eval.getBitsetProperty(bs, op.intValue, null, null,
          x2.value, op.value, false, x2.index, false);
      if (op.intValue == Token.bonds)
        val = new ScriptVariable(Token.bitset, new BondSet((BitSet) val, viewer
            .getAtomIndices(bs)));
      return addX(val);
    }
    return false;
  }

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    case Token.atoms:
    case Token.bonds:
      if (isSyntaxCheck)
        return bs;
      bsNew = (tok == Token.atoms ? (isAtoms ? bs : viewer.getAtomBits(
          Token.bonds, bs)) : (isAtoms ? (BitSet) new BondSet(viewer
          .getBondsForSelectedAtoms(bs)) : bs));
      int i;
      switch (minmaxtype) {
      case Token.min:
        i = bsNew.nextSetBit(0);

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            return CONTINUE;
          }
        }
      } else {
        if (isBondOrMatrix)
          addTokenToPrefix(new Token(Token.bitset, new BondSet(bs)));
        // occasionally BondSet appears unknown in Eclipse even though it
        // is defined
        // in Eval.java -- doesn't seem to matter.
        else
          addTokenToPrefix(new Token(Token.bitset, bs));

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    ScriptVariable tokenOut = new ScriptVariable(tokenIn.tok, Integer.MAX_VALUE);


    switch (tokenIn.tok) {
    case bitset:
      if (tokenIn.value instanceof BondSet) {
        tokenOut.value = new BondSet((BitSet) tokenIn.value,
            ((BondSet) tokenIn.value).getAssociatedAtoms());
        bs = (BitSet) tokenOut.value;
        len = BitSetUtil.cardinalityOf(bs);
        break;
      }

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      return (new ScriptVariable(point3f, v));
    if (v instanceof Point4f)
      return new ScriptVariable(point4f, v);
    if (v instanceof BitSet) {
      if (s != null && s.indexOf("[{") == 0)
        v = new BondSet((BitSet) v);
      return new ScriptVariable(bitset, v);
    }
    if (v instanceof Matrix3f)
      return (new ScriptVariable(matrix3f, v));
    if (v instanceof Matrix4f)

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Related Classes of org.jmol.modelset.Bond.BondSet

org.jmol.script.ScriptCompiler

org.jmol.script.ScriptEvaluator

org.jmol.script.ScriptMathProcessor

org.jmol.script.ScriptVariable

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