code: boolean assignLayout(IAtomContainer container) {
  
          try {
              // create the library key to lookup an entry, we also store
              // the canonical out ordering
              int n = container.getAtomCount();
              int[] ordering = new int[n];
              String smiles = cansmi(container, ordering);
  
              // find the points in the library
              for (Point2d[] points : templateMap.get(smiles)) {
                  // set the points
                  for (int i = 0; i < n; i++) {
                      container.getAtom(i).setPoint2d(new Point2d(points[ordering[i]]));
                  }
                  return true;
              }
          } catch (CDKException e) {
              // ignored
          }
          return false;
      }
docs: Assign a 2D layout to the atom container using the contents of the library. If multiple
  coordinates are available the first is choosen.
  
  @param container structure representation
  @return a layout was assigned