It seems like you've misremembered the situation somewhat.
Merkle developed several of his families of mechanical logic, including this one, in order to answer some criticisms of Drexler's earliest mechanical nanotechnology proposals. Specifically:
1. Chemists were concerned that rod logic knobs touching each other would form chemical bonds and remain stuck together, rather than disengaging for the next clock cycle. (Macroscopic metal parts usually don't work this way, though "cold welding" is a thing, especially in space.) So this proposal‚ like some earlier ones like Merkle's buckling-spring logic, avoids any contact between unconnected parts of the mechanism, whether sliding or coming into and out of contact.
2. Someone calculated the power density of one of Drexler's early proposals and found that it exceeded the power density of high explosives during detonation, which obviously poses significant challenges for mechanism durability. You could just run them many orders of magnitude slower, but Merkle tackled the issue instead by designing reversible logic families which can dissipate arbitrarily little power per logic operation, only dissipating energy to erase stored bits.
So, there's nothing preventing this kind of mechanism from scaling down to single atoms, and we already have working mechanisms like the atomic force microscope which demonstrate that even intermittent single-atom contact can work mechanically in just the way you'd expect it to from your macroscopic intuition. Moreover, the de Broglie wavelength of a baryon is enormously shorter than the de Broglie wavelength of an electron, so in fact mechanical logic (which works by moving around baryons) can scale down further than electronic logic, which is already running into Heisenberg problems with current semiconductor fabrication technology.
Also, by the way, thanks to the work for which Boyer and Walker got part of the 01997 Nobel Prize in Chemistry, we probably know how ATP synthase works now, and it seems to work in a fairly similar way: https://www.youtube.com/watch?v=kXpzp4RDGJI
> Chemists were concerned that rod logic knobs touching each other would form chemical bonds and remain stuck together, rather than disengaging for the next clock cycle.
The rod & shaft designs are passivated. This kind of reaction wouldn't happen unless you drove the system to way higher energies than were ever considered.
> Someone calculated the power density of one of Drexler's early proposals and found that it exceeded the power density of high explosives during detonation
I think this is a (persistent) misunderstanding. His original work involved rods moving at mere millimeters per second. There are a number of reasons for this, of which heat dissipation is one. However all the molecular mechanics simulations done operate at close to the speed of sound in the material, simply because they would otherwise be incalculable. There is sadly a maximum step size for MD simulations that is orders of magnitude lower than what you would need to run at realistic speeds.
> You could just run them many orders of magnitude slower, but Merkle tackled the issue instead by designing reversible logic families which can dissipate arbitrarily little power per logic operation, only dissipating energy to erase stored bits.
The rod logic stuff is supposed to be reversible too. Turns out it isn't though. But it could be close enough if operated at very low speeds or very low temperatures.
The rod logic stuff is WAY smaller than the rotational logic gates in TFA. For some applications that matters, a lot.
If you are going to go for the scale of these rotational systems, you might as well go electronic.
>mechanical logic (which works by moving around baryons) can scale down further than electronic logic, which is already running into Heisenberg problems with current semiconductor fabrication technology.
I think I must be missing something here, I thought this was working with atoms. Are you saying that someday mechanical logic could be made to work inside the nucleus? Seems like you might be limited to ~200 nucleons per atom, and then you'd have to transmit whatever data you computed outside the nucleus to the nucleus in the next atom over? Or are we talking about converting neutron stars into computing devices? Do you have a good source for further reading?
No, no, not at all! That kind of thing is very speculative, and I don't think anybody knows very much about it. What I'm saying is that the position of a nucleus is very, very much more precisely measurable than the position of an electron, so it has a much weaker tendency to tunnel to places you don't want it to be, causing computation errors. That allows you to store more bits in a given volume, and possibly do more computation in a given volume, if the entropy production mechanisms can be tamed.
We routinely force electrons to tunnel through about ten nanometers of silicon dioxide to write to Flash memory (Fowler–Nordheim tunneling) using only on the order of 10–20 volts. That's about 60 atoms' worth of glass, and the position of each of those atoms is nailed down to only a tiny fraction of its bond length. So you can see that the positional uncertainty of the electrons is three or four orders of magnitude larger than the positional uncertainty of the atomic nuclei.
The interesting question is how much energy is lost to mechanical friction for a single logic operation, and how this compares to static leakage losses in electronic circuits. It should also be noted that mechanical logic may turn out to be quite useful for specialized purposes as part of ordinary electronic devices, such as using nano-relay switches for power gating or as a kind of non-volatile memory.
That's one of many interesting questions, but avoiding it is why Merkle designed his reversible logic families in such a way that no mechanical friction is involved, because there is no sliding contact. There are still potentially other kinds of losses, though.
Merkle developed several of his families of mechanical logic, including this one, in order to answer some criticisms of Drexler's earliest mechanical nanotechnology proposals. Specifically:
1. Chemists were concerned that rod logic knobs touching each other would form chemical bonds and remain stuck together, rather than disengaging for the next clock cycle. (Macroscopic metal parts usually don't work this way, though "cold welding" is a thing, especially in space.) So this proposal‚ like some earlier ones like Merkle's buckling-spring logic, avoids any contact between unconnected parts of the mechanism, whether sliding or coming into and out of contact.
2. Someone calculated the power density of one of Drexler's early proposals and found that it exceeded the power density of high explosives during detonation, which obviously poses significant challenges for mechanism durability. You could just run them many orders of magnitude slower, but Merkle tackled the issue instead by designing reversible logic families which can dissipate arbitrarily little power per logic operation, only dissipating energy to erase stored bits.
So, there's nothing preventing this kind of mechanism from scaling down to single atoms, and we already have working mechanisms like the atomic force microscope which demonstrate that even intermittent single-atom contact can work mechanically in just the way you'd expect it to from your macroscopic intuition. Moreover, the de Broglie wavelength of a baryon is enormously shorter than the de Broglie wavelength of an electron, so in fact mechanical logic (which works by moving around baryons) can scale down further than electronic logic, which is already running into Heisenberg problems with current semiconductor fabrication technology.
Also, by the way, thanks to the work for which Boyer and Walker got part of the 01997 Nobel Prize in Chemistry, we probably know how ATP synthase works now, and it seems to work in a fairly similar way: https://www.youtube.com/watch?v=kXpzp4RDGJI