[HN Gopher] Atomic resolution video of salt crystals forming in ...
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       Atomic resolution video of salt crystals forming in real time
        
       Author : rbanffy
       Score  : 634 points
       Date   : 2021-01-22 18:28 UTC (1 days ago)
        
 (HTM) web link (www.u-tokyo.ac.jp)
 (TXT) w3m dump (www.u-tokyo.ac.jp)
        
       | zaroth wrote:
       | Truly mind blowing being able to actually see the atoms align in
       | an instant and the crystal structure just pop into existence.
       | 
       | Hard to believe it's not a computer model. I mean, I guess
       | underneath there must be a hell of a lot of signal processing
       | going on to render that video, but atomic-scale video is wild.
       | 
       | Funny that it looks kinda like MPEGS online circa 1990s.
        
         | anthk wrote:
         | Also, static from no TV signals on the TV.
        
           | m463 wrote:
           | self-organizing static
        
         | mywittyname wrote:
         | I also love how you can see the probabilistic nature of
         | electron orbitals in action. The crystal fades in and out of
         | existence during the early stages of nucleation. And even after
         | the structure is established, the boundaries continue to be
         | "fuzzy."
         | 
         | Even the movement of the crystal looks like a wave, but I don't
         | know if that's because matter moves as a wave at the atomic
         | level or if that's just an artifact from the camera.
        
           | jng wrote:
           | I would think that the coming in and out of view at the
           | beginning is more related to the crystal moving around and
           | falling "in and out of focus" (whatever that means for this
           | type of camera). I'd love to watch quantum probability wave
           | fluctuations, but I think we're still pretty far from probing
           | that.
        
             | jtaillon wrote:
             | In this case, "in and out of focus" is actually variations
             | in the amplitude of the probability function for the
             | electron density projected onto a single plane (to a first
             | approximation). Sometimes the wave functions of all the
             | electrons interfere constructively, so you see a bright
             | spot, and sometimes deconstructively, so you see dark.
             | Depending on the orientation of things, this results in the
             | images of "atoms" that you see in the picture. As the
             | crystal changes shape and size, the interference patterns
             | change, which partially explains why it disappears and
             | reappears a few times. There's a bit more going on than
             | that, but the physics of what's happening in a TEM image is
             | really neat.
        
               | jng wrote:
               | Wow, mind blown. Thanks for correcting me. Amazing to
               | learn that the wave function is so directly sampled by
               | TEM that the image we get shows Moire patterns caused by
               | its phase :)
        
               | gus_massa wrote:
               | Most of the electrons in a NaCl crystal are quite
               | localized (all the core electrons od Na+ and Cl-, and
               | it's not a good conductor, so the valence band is full).
               | So I don't expect too much interesting interference
               | patterns. It looks like a problem with vibrations that
               | make it go out of focus.
        
               | Ericson2314 wrote:
               | Per the other comments, I think time scale is far to
               | large for that to be the case in any not-also-explained-
               | classically sense.
        
           | Osmium wrote:
           | > I don't know if that's because matter moves as a wave at
           | the atomic level or if that's just an artifact from the
           | camera.
           | 
           | Artifact of the imaging, note the time scale of the movie,
           | it's much longer than any quantum oscillation. Each
           | individual image of the movie is taken eons apart from the
           | perspective of the crystal.
        
             | magicalhippo wrote:
             | > Each individual image of the movie is taken eons apart
             | from the perspective of the crystal.
             | 
             | Given the timescales of atomic reactions, which IIRC is
             | typically measured in nano- or picoseconds, this video is
             | more like watching galaxies form I suppose.
        
           | WClayFerguson wrote:
           | It's almost like a "standing wave" (of the square pattern)
           | emerged spontaneously out of a chaotic stew of probability
           | waves, and I guess that's a better way to describe quantum
           | mechanics at this level than to say "The Na and Cl atoms
           | snapped together". Nothing snapped to together. This video
           | shows a pattern emerging from pure chaos, all based on
           | probabilities and the fact that each individual atom
           | probability wave can only oscillate in certain patterns.
           | 
           | I'm pretty sure in Quantum Mechanics systems like this the
           | entire unit behaves as one and there's no real distinction
           | possible regarding "which is which" if you were to try to
           | identify individual atoms. It would be like looking at a
           | standing wave pattern in water (or any other medium) and
           | labeling one peak "Wave A" and some peak "Wave B". You can't
           | really do it. Because for the standing wave pattern to exist
           | at all it has to be the entire system interaction to cause it
           | to emerge.
           | 
           | I'm not saying atoms are "Standing Waves" but I'm merely
           | making an analogy. However even from some perspective you
           | could even say any oscillating system of wave probabilities
           | when taken as a "system" comprises a standing wave.
        
             | WClayFerguson wrote:
             | Not that I'm trying to blow anyone's mind but here's a
             | couple of other 'emergent patterns' in reality which can
             | also be called standing waves, which proves some very low
             | level patterns like DNA can cause identical patterns to
             | emerge billions of layers higher in the causal chain of
             | reality, and way higher than just the physical structure of
             | the body and brain but also into the surrounding world.
             | 
             | https://www.reddit.com/r/BeAmazed/comments/l2mtfx/separated
             | _...
        
             | gus_massa wrote:
             | > _I 'm pretty sure in Quantum Mechanics systems like this
             | the entire unit behaves as one and there's no real
             | distinction possible regarding "which is which" if you were
             | to try to identify individual atoms._
             | 
             | The grow experiment was at room temperature 298K. At this
             | temperature the nuclei of the atoms behave almost
             | classically. There are some important quantum effects
             | between the electrons, but their mass is like 10000
             | smaller. The effects are small in the electrons in the
             | lower levels that are close to the nuclei, but in the
             | valence band they can be very important. Specially in
             | conductors where the electrons are very delocalized, but
             | this is not a conductor.
        
               | thaumasiotes wrote:
               | > At this temperature the nuclei of the atoms behave
               | almost classically.
               | 
               | The video seems to show a crystal made of fairly large
               | spheres... which appear from nothing. I don't see a bunch
               | of chaotic spheres which arrange themselves into a grid;
               | I see a grid of spheres appearing where there was nothing
               | before.
               | 
               | I have a hard time thinking this corresponds to classical
               | mechanics. :/
        
               | tsimionescu wrote:
               | The timescale is relevant. You're seeing 2 frames
               | milliseconds apart of a process that took probably a few
               | nanoseconds.
        
               | thaumasiotes wrote:
               | Why are there any frames in which the sodium and chlorine
               | atoms appear not to exist?
               | 
               | Suppose there was just the chlorine (no sodium), and we
               | observed it the same way. Would we see mostly chaotic
               | arrangements of big spheres, or mostly a smooth
               | background with no spheres?
        
               | tsimionescu wrote:
               | Because you are seeing frames once every few milliseconds
               | of atoms moving back and forth at speeds a fraction of
               | the speed of light. It's only when they happen to be in
               | very fixed positions that you have any hope to notice a
               | definite image of the NaCl molecule.
               | 
               | In general, the very fact that you can see something
               | should be a clear indication that you are not observing
               | quantum behavior: particles whose properties (such as
               | position) are measured DO NOT behave according to
               | classical physics, they no longer display quantum
               | effects. And while we have yet to understand what exactly
               | counts as a measurement, something which allows you to
               | have a picture of the atoms certainly counts.
        
               | gus_massa wrote:
               | Near the bottom is a figure with some cherry picked
               | frames of the video and a handmade drawing showing the
               | crystal and the incoming pairs of atoms.
               | 
               | The Brownian motion depends on the mass of the object, so
               | the average movement of the individual atoms is higher
               | than the average movement of the small crystal. So the
               | isolated atoms are blurred in the image.
        
               | WClayFerguson wrote:
               | I answered all this in my reply to l33tman, above so I
               | won't repeat that here, but check it out.
        
               | WClayFerguson wrote:
               | It's not that the individual atoms didn't exist before
               | they joined, but it's that they start oscillating in
               | unison with each other in a pattern that emerges purely
               | from wave interactions.
               | 
               | Nature settles into the most stable patterns of
               | oscillation it can find, even without anything "causing
               | that". To fully understand this kind of emergence you
               | need to realize even the following video is in the same
               | category of phenomenology called "emergence":
               | 
               | https://www.youtube.com/watch?v=5v5eBf2KwF8
               | 
               | Atoms themselves "emerge" from probability waves, not the
               | other way around.
               | 
               | On a wild tangent: I believe all emergent patterns
               | represent "negative entropy" so I claim this disproves
               | the Second Law of Thermodynamics, because it fails to
               | take into account (i.e. quantify) "pattern-ness" or
               | "order" in systems. Total entropy of the universe maybe
               | doesn't increase but remains at zero, where the order
               | perfectly counterbalances the randomness. Since there's
               | no way to "measure" order in a system, the Second Law
               | remains somewhat philosophical despite it being
               | consistent with 'gross averages' measurements like
               | temperatures, pressures, volumes, etc., in classical
               | systems for which essentially only one side of the
               | equation can be quantified.
        
             | l33tman wrote:
             | There is really nothing quantum in this, you can simulate
             | this completely classically, although it takes forever as
             | it's a slow process, as you seen when you compare the
             | timescale of the video in the seconds to the timescale the
             | atoms move about, in the femtoseconds.
             | 
             | I'm not a salt nucleation expert by any means, but I'd
             | imagine the process has a similar statistics as protein
             | folding. Individual folding events (and nucleation events)
             | are superfast but takes forever to trigger (a lot of stars
             | have to align so to speak). This is why, from just looking
             | at frames 1/25s apart, it looks like suddenly things
             | appeared out of nothing, but really there were eons of time
             | in between the frames in the video.
        
               | WClayFerguson wrote:
               | > There is really nothing quantum in this
               | 
               | Even if you consider a Hydrogen atom floating in free
               | space a billion miles from any planets, _everything_
               | about it is 100%  "quantum".
               | 
               | There are no actual electrons going around the nucleus,
               | because it's purely just a quantum probability wave. If
               | you then introduce Oxygen atoms near it, then the
               | probability wave of the two begin to behave as a _single_
               | system and will oscillate in a _different_ pattern but
               | STILL a single quantum mechanical system, and one big
               | "wave function" that represents the entire system.
               | 
               | In this multi-atom system you also cannot even say that
               | one specific electron is going around one atom, and
               | another electron is going around a different electron
               | (the incorrect classical view). The electron probability
               | wave for the entire system is one big probability wave
               | oscillator function, and both electrons contribute to
               | magnitudes of observables in an identical way to each
               | other. So the two electrons loose their individual
               | identity. They're both part of a 'cloud' but you can't
               | say where any of them are. Not because it's hard to
               | measure, but because actually _reality itself_ doesn 't
               | even know.
               | 
               | None of this is inconsistent with the fact that the
               | classical view also holds true under ordinary
               | observational conditions, and can be _estimated_ (albeit
               | incorrectly) as pre-existing atoms  "snapping together"
               | by the laws of chemistry, but that is the less 'complete'
               | view. Just like Newton is a less complete view than
               | Relativity, but still 'works'.
        
               | tsimionescu wrote:
               | While the electrons do form a cloud and aren't entirely
               | well positioned in space as far as we know, it's
               | important to remember that there still are a fixed number
               | of electrons which can be detected one by one, even
               | though they may interact with themselves or each other at
               | multiple positions at the same time before our detection.
               | 
               | Furthermore, it is not yet proven that reality behaves
               | the same in classical settings as it does in quantum
               | interactions. For all we know, wave function collapse may
               | be a physical phenomenon that happens at specific
               | conditions, yielding purely classical behavior. Your
               | explanation is one popular view of QM, but it is not the
               | only possibility that would be consistent with
               | observations.
        
               | WClayFerguson wrote:
               | > Your explanation is one popular view of QM
               | 
               | If you want to call the "Standard Model" merely one among
               | many "popular views" then you can, but that's not what
               | I'd call accurate. No one really disagrees with it. They
               | just have different "interpretations" of why it holds
               | true.
               | 
               | Regarding your claim that electrons "interact with
               | themselves", that's actually kind of misleading too. When
               | electrons are "in the cloud" (pre-wave-collapse) they're
               | pure probability and so none of them have an actual
               | location in spacetime even if you had some infinitely
               | fast camera to look. They simply don't exist at specific
               | locations. They are _genuinely_ everywhere at once, or
               | stated even _more_ correctly: they don 't exist. Only the
               | energy exists.
               | 
               | The "Bohr Model" of the atom is correct insofar as a way
               | to track energies in a classically relevant way, but in
               | no way at all is it actually "real". There's no electrons
               | flying around. Only electrons that have already stopped.
               | They don't exist until measured.
        
               | tsimionescu wrote:
               | > If you want to call the "Standard Model" merely one
               | among many "popular views" then you can, but that's not
               | what I'd call accurate. No one really disagrees with it.
               | They just have different "interpretations" of why it
               | holds true.
               | 
               | The Standard Model doesn't contain an explanation for the
               | measurement problem, which is essentially what your
               | explanation is touching on, with the claim that
               | everything is quantum and that the electron really
               | doesn't have a definite position in space, rather than us
               | being unable to know its position. Basically you stated a
               | version of the Copenhagen Interpretation, which is very
               | popular, but not the only way of making sense of the wave
               | function.
               | 
               | > When electrons are "in the cloud" (pre-wave-collapse)
               | they're pure probability and so none of them have an
               | actual location in spacetime even if you had some
               | infinitely fast camera to look. They simply don't exist
               | at specific locations. They are genuinely everywhere at
               | once, or stated even more correctly: they don't exist.
               | Only the energy exists.
               | 
               | I think you're mixing things up a bit here. Before a
               | measurement takes place, the movement of electrons is
               | predicted by a deterministic equation, there is no
               | probability. The electron is indeed (described by?) a
               | wave function that has some amplitude at any point in
               | space. My point about "interacting with themselves" was
               | that the Schrodinger equation predicts the possibility of
               | self-interference of a single electron's wave function,
               | which is an observed effect.
               | 
               | I think you're also over-selling the wave part of the
               | duality and disregarding the particle part. The electron
               | doesn't behave entirely like a wave, it also has
               | particle-like properties, such as a fixed mass and a
               | fixed charge.
               | 
               | > There's no electrons flying around. Only electrons that
               | have already stopped. They don't exist until measured.
               | 
               | This is exactly the part that people love claiming as if
               | it is settled, when it is anything but. The reality is
               | that we don't yet know what quantum particles are. If
               | they don't exist until you measure and then they start
               | existing, then you need to explain what a measurement is,
               | which we have no idea how to.
               | 
               | In fact, even the Copenhagen interpretation doesn't
               | exactly say what you are claiming. It is instead claiming
               | that the wave function + the Born rule are a mathematical
               | tool that predicts the behavior of quantum systems with
               | excellent accuracy, and that the probabilities in the
               | Born rule are fundamental. If we accept this fundamental
               | impossibility of predicting deterministically the
               | properties of a quantum system, it follows that it is
               | unscientific to claim that the particles "have"
               | properties that we fundamentally can't measure. This un-
               | existence is then a philosophical argument, not a
               | physical one: it's stating that something that can't in
               | principle be measured can't be said to exist.
               | 
               | Other popular explanations that are perfectly compatible
               | with the Standard Model are:
               | 
               | - the particles are real, and they exist at all positions
               | in space as predicted by the Schrodinger equation, but
               | these results happen in different universes; for some
               | unexplained reason, "classical objects" can only observe
               | one world at a time
               | 
               | - particles are real, and their movement is affected by a
               | real carrier wave; the particle has a definite but
               | unmeasurable location in space and speed, affected by the
               | carrier wave; the carrier wave is the wave described by
               | the Schrodinger equation
               | 
               | - Measurement is a physical process that causes particles
               | to switch from being somewhat indefinite objects
               | described by the wave function to being definite objects
               | described by classical (rather, relativistic) mechanics
               | 
               | Of course, some of these interpretations have their own
               | unintuitive aspects (non-locality), because of the Bell
               | inequalities. There is also super-determinism, that could
               | in principle allow QM to be both deterministic and local,
               | at the cost of statistical independence.
               | 
               | And finally, the Standard Model itself doesn't yet
               | account for gravity, and the current theories we have for
               | gravity do not work with masses that have indefinite
               | positions in space, so there is still room for
               | discoveries that could contradict somewhat the
               | fundamental properties of "particles" as known today
               | (though, to be fair, it is more likely that our theories
               | about gravity are the ones that will need adjustment).
        
               | WClayFerguson wrote:
               | I can tell you're deep into Physics as I am. To be honest
               | I was presenting the "Standard Model" the way a professor
               | would explain it to a student, who is trying to explain
               | QFT using the conventional beliefs held by most of the
               | Physics community.
               | 
               | I agree with everything you said, actually, except for
               | this one sentence which you stated which I know is some
               | kind of typo, because I doubt you think it's true:
               | "Before a measurement takes place, the movement of
               | electrons is predicted by a deterministic equation, there
               | is no probability." That sentence goes against
               | conventional wisdom so I doubt you meant it litterally.
               | 
               | Anyway, if you want my own personal unproven belief
               | (theory) here it is: (or a few aspects of it)
               | 
               | I think our universe is a 3D (excluding time) manifold
               | that is an event horizon in a larger higher dimensional
               | space and what we call "Wave Collapse" is actually the
               | point where an actual existing real particle does travel
               | across our manifold. That is, anything that we can assign
               | a position to in spacetime coordinates is also "on" this
               | manifold. You can also call this manifold our "universe".
               | 
               | So when something exists in what we call "Probability
               | Wave" state that just means we haven't yet done something
               | to pinpoint a particle "on" this (our) event horizon.
               | Unless someone is a very good geometry mathematician they
               | cannot really comprehend how our entire universe can be a
               | "surface" in some a higher-dimensional space, and since
               | it's unproven I generally don't bring it up on HN. I also
               | believe all N-Dimensional spaces contain
               | (N-1)-Dimensional constructs inside them. The example in
               | our unsivers is 'black holes'. We see 2D (i.e (3-1)D)
               | constructs where our physics fails and even have proven
               | their informational content is proportional to surface
               | area (Hawking+Susskind). Most people think black holes
               | are 3D spheres, but they're really 2D surfaces to their
               | "inhabitants". Similarly the higher dimensional universe
               | in which our 3D space is embedded would see our universe
               | similarly as some kind of construct where their own
               | physics breaks down, and they are unable to "look" inside
               | possibly, just like we can't see inside black holes.
               | 
               | Also if we are an event horizon it disproves the big bang
               | theory. The inhabitants of a black hole would notice
               | their "universe" is expanding, and therefore conclude
               | they came "from" some center point, but in reality BHs
               | form from outside in, not inside out. So our universe
               | came from outside itself not inside itself. It doesn't
               | solve the 'first mover' problem, it just inverts it, but
               | it does simplify it.
               | 
               | All that to say, I appreciated your response and you're
               | right I was putting the "professor hat" on when I
               | described most of what I said on this thread, but the
               | paragraph above should prove I'm capable of as much
               | quackery as the next guy. lol.
        
               | tsimionescu wrote:
               | Glad we mostly agree :)
               | 
               | > I doubt you think it's true: "Before a measurement
               | takes place, the movement of electrons is predicted by a
               | deterministic equation, there is no probability." That
               | sentence goes against conventional wisdom so I doubt you
               | meant it litterally.
               | 
               | I meant that very literally, and it is very important to
               | understand. Quantum mechanics contains two fundamental
               | postulates:
               | 
               | 1. The Schrodinger equation: any quantum system can be
               | described by the Schrodinger equation, which is a linear
               | partial differential equation - i.e. it is completely
               | deterministic. The solution of the Schrodinger equation
               | is one or more wave functions - complex-valued functions
               | which have some value for every point in space.
               | 
               | 2. The Born rule: when a measurement is made of the state
               | of a quantum system, the probability that a particular
               | result will be observed is equal to the square of the
               | amplitude of the wave function. To predict the state of
               | the system after the measurement, the wave function must
               | be updated to have the exact value of the measurement and
               | no others.
               | 
               | Without the Born rule, QM is completely deterministic,
               | and predicts that particles have multiple positions. This
               | prediction is actually correct until you measure
               | anything. For an example, let's say you have a particle
               | P0 whose wave function has some non-0 amplitude at far
               | away locations A and B. Say you also have two other
               | particles, Pa and Pb; Pa has amplitude almost 1 at point
               | A and 0 elsewhere, while Pb has amplitude almost 1 at
               | point B and 0 elsewhere. The positions of both Pa and Pb
               | will be affected by the properties of P0. So, P0 was
               | essentially in both places at once.
               | 
               | However, if you add detectors for P0 at positions A and
               | B, what you will notice two things:
               | 
               | 1. If detector A detected P0, detector B will never see
               | it, and vice-versa. The probability for each of them will
               | correspond perfectly to the square of the amplitude that
               | P0 had at that point.
               | 
               | 2. If detector A detected P0, the position of Pb will no
               | longer depend on any property of P0, and vice versa.
               | 
               | So, the measurement changes the wave function of the P0,
               | Pa and Pb system. The equation before the measurement is
               | deterministic, and the equation after the measurement is
               | also deterministic, but the switch from the first one to
               | the second is probabilistic.
               | 
               | By the way, an excellent resource on this topic is Sabine
               | Hossenfelder's blog, for example this post:
               | 
               | http://backreaction.blogspot.com/2019/10/what-is-quantum-
               | mea...
        
               | WClayFerguson wrote:
               | We may be getting into semantics but QFT doesn't say
               | electrons are even moving. It says there are no particles
               | at all anywhere period full stop UNTIL the precise moment
               | of measurement. This is the "Measurement Problem". The
               | measurement CREATES the particle.
               | 
               | The famous Bell experiment proved that the view of
               | quantum mechanics as describing how particles "move" is
               | incorrect, because the probability wave is not actually
               | describing any movements of any actual particles.
               | 
               | If you think of a single Hydrogen atom floating in space,
               | no there is not an electron moving around it. There is no
               | electron that exists at all "until" something interacts
               | (according to Standard Model) with the wave function and
               | causes the wave to collapse and "choose" a place in
               | spacetime to materialize an "electron" in and only then
               | is there an electron.
        
               | tsimionescu wrote:
               | Replying separately to this:
               | 
               | > We see 2D (i.e (3-1)D) constructs where our physics
               | fails and even have proven their informational content is
               | proportional to surface area (Hawking+Susskind). Most
               | people think black holes are 3D spheres, but they're
               | really 2D surfaces to their "inhabitants".
               | 
               | I think that is more complicated. From what Susskind
               | explains, the current understanding is that black holes
               | have a dual nature, similarly to the idea of
               | wave/particle duality. Specifically, you can perform
               | experiments that would see the event horizon of the black
               | hole as a 2D surface which emits Hawking radiation; and
               | you can perform experiments which will show the event
               | horizon of the black hole is a completely unremarkable
               | region of space. Importantly though, there is no way for
               | an observer to notice both results, so there is no
               | contradiction. The black hole is 1 thing to some
               | observers, and 1 different thing to other observers, and
               | the two can't even communicate.
               | 
               | Even more specifically, to an observer that will never
               | cross the event horizon, the event horizon is a surface
               | emitting Hawking radiation. For an observer approaching
               | and passing the event horizon, the event horizon emits no
               | radiation and is a completely unremarkable region of
               | space-time. The two observers of course can't
               | communicate, as the observer crossing the event horizon
               | will never be able to send a signal outside again, and
               | conversely, a signal sent from outside after they crossed
               | the horizon will never reach them.
               | 
               | I would also note that our current theories do not permit
               | any kind of structure to exist "inside" a black hole,
               | which is a 0-volume point. If you mean "inside the radius
               | of the event horizon of a black hole", I believe matter
               | would be observed falling quickly towards the center. A
               | theory of quantum gravity may give us some idea of the
               | structure of a black hole, but I personally doubt that it
               | could be allowed to contain another universe.
        
               | soulofmischief wrote:
               | Quantum Field Theory has a lot of strong evidence, as
               | does the Copenhagen interpretation of QM, but it might be
               | more suitable not to speak of these things as if they are
               | 100% fact. It's theory, and it's likely that the eventual
               | bridge between QM and classical physics will usher in an
               | entirely new model unlike either individual model.
        
               | WClayFerguson wrote:
               | I always refer to QFT + Standard Model as 'fact' even
               | though myself and all other Physicists agree there may be
               | deeper understandings than what is currently known by
               | science.
               | 
               | At some point is becomes philosophy when you call into
               | question something that has zero evidence against it and
               | the evidence in favor of it has been measured out to 43
               | decimal places already.
        
               | gus_massa wrote:
               | [Replying here as you suggested in the other comment.]
               | 
               | The balls in a pool table are 100% quantum, but they are
               | approximated very accurately by Classic Mechanics.
               | 
               | At this level, the position of the nuclei can be
               | approximated to move classically, and the electrons
               | quantically. Moreover, the standard trick is to
               | approximate that the nuclei doesn't move, and then
               | calculate the distributions of the electron with quantum
               | mechanics. https://en.wikipedia.org/wiki/Born%E2%80%93Opp
               | enheimer_appro...
               | 
               | Once you calculate the distribution of the electrons
               | assuming the nuclei are at different positions, you can
               | approximate an effective force between the nuclei and
               | calculate how they move almost like classic objects.
               | 
               | The calculation is too difficult, and the other nearby
               | atoms affect them, so there are a lot of approximations.
               | For big system, you need to use something like https://en
               | .wikipedia.org/wiki/Born%E2%80%93Oppenheimer_appro...
               | that approximate the force between the atoms, with some
               | formulas that hide all the quantumness and then move as
               | if they were classic objects.
               | 
               | So it's a quantum system, like everything in this word.
               | But the apparent atoms that appear and disappear are not
               | explained by weird quantum effects. They can be explained
               | with the simplified classic model when the camera takes
               | too few frames, the objects are moving too much, and the
               | background is too noisy.
        
               | WClayFerguson wrote:
               | I'm glad we agree that classical mechanics accurately
               | predicts macro objects.
               | 
               | However, atoms, molecules, and even molecular lattices
               | containing a small number of atoms (or large number
               | actually), behave as quantum wave systems. Even the link
               | you gave states that 'benzene' despite having 42
               | electrons, has a _single_ wave function that determines
               | probabilities for where an electron can be observed (but
               | not WHICH electron. There is no WHICH ELECTRON in the
               | function). In that wave function it means there 's no
               | longer 42 actual electrons that even exist. There is
               | nothing but a probability of where you'd find one if you
               | collapse the entire wave simultaneously by taking a
               | measurement of any part of it.
               | 
               | When atoms join into a crystal formation that becomes
               | even a 'higher level' new emergent pattern of vibrating
               | probabilities, that's more complex and structured than
               | what the individual particles exhibited before the new
               | pattern emerged.
               | 
               | You think I'm wrong to say atoms pop into existence?, but
               | we know for a fact all particles are merely probabilities
               | until observed. All observation is synonymous with wave-
               | collapse, and only upon wave-collapse do you have actual
               | particles with actual positions in spacetime. Every
               | 'frame' of every video you could ever create is a
               | snapshot of "a series of collapses", because that
               | collapse is what created the particles that make up the
               | 'image' itself.
        
               | tsimionescu wrote:
               | You are taking a mathematical formalism and giving it a
               | physical meaning, in a way that doesn't make any sense.
               | 
               | The wave function is a way to describe the physical
               | properties of an entire system - position, velocity, spin
               | etc, for every component that you chose to model (e.g.
               | electrons and nuclei, or electrons and protons and
               | neutrons, or electrons and quarks etc). To get an
               | accurate prediction, you need to input all of the
               | relevant parts of the system. For example, when solving
               | the Schrodinger equation for a hydrogen atom, people
               | input the properties of the electron and proton. If you
               | want to compute the properties of a benzene molecule, you
               | input information about all of the 6 nuclei and 42
               | electrons. If you want to compute the wave function of a
               | mole of benzene, you would have to input the properties
               | of all ~10^23 atoms composing it. This has no physical
               | meaning per se - this is just the nature of the
               | formalism.
               | 
               | Depending on the exact system, you may or may not have
               | separate components of the wave function which correspond
               | to the different components of the system which you are
               | modelling - such as a component indicating the position
               | of the electron and a component for the position of the
               | nucleus/proton for the Hydrogen atom.
               | 
               | Also, if you were to model an electron launched towards a
               | benzene molecule, the wave function of the system would
               | show different values for the 1 electron that was
               | launched vs the 42 electrons which were part of the
               | original system.
               | 
               | The 42 electrons are not distinguishable simply because
               | we don't normally choose to input any way of
               | differentiating them, because we don't think it's useful.
               | You could in principle describe the system such that you
               | get a particular prediction for each of the 42 different
               | electrons - though we don't know any property that
               | electrons have that we could use to actually measure and
               | confirm.
               | 
               | > In that wave function it means there's no longer 42
               | actual electrons that even exist.
               | 
               | The 42 electrons absolutely exist as part of the wave
               | function - otherwise, the charge of the system would be
               | wrong. The wave function in fact predicts positions and
               | velocities and spins for 42 electrons, and you could in
               | principle do a measurement where you would identify the
               | positions for all 42 of them, with probabilities that you
               | can compare to the wave function predictions.
        
               | WClayFerguson wrote:
               | Seems like you're mixing a lot of classical mechanics
               | concepts into your 'understanding' of QM. Even in a
               | single water molecule the electrons loose their
               | "identities" and even if you could look close enough at
               | infinitesimally small time intervals at the molecule
               | you'd never be able to say "There's one electron here,
               | and there's the other over there". And I'm not saying
               | it's just too hard to have a microscope that good, I'm
               | saying not even "Mother Nature Herself Knows them apart"
               | 
               | Imagine if you setup a standing wave on a water surface,
               | and there are exactly two peaks in the wave system. You
               | cannot label one "Wave A" and the other "Wave B" and then
               | turn off the energy source and then turn it back on and
               | create the pattern again and say "Ok now which is A and
               | which is B". The question itself is nonsensical. The same
               | thing is going on in physics probability waves. Particles
               | don't have identities just because "when you look for one
               | you find one".
               | 
               | People think QM is describing "where particles go". It
               | isn't. It describes where they can be found, and there's
               | a huge leap of knowledge in understanding to comprehend
               | the difference.
        
         | noneeeed wrote:
         | I find a lot of the science being done at the moment truly
         | astonishing, the precision and scale of many of the
         | measurements being made are mind-blowing.
         | 
         | The sensitivity of instruments like LIGO is hard to get your
         | head around.
        
       | kvakkefly wrote:
       | You may also like my paper " Direct Atomic Simulations of Facet
       | Formation and Equilibrium Shapes of SiC Nanoparticles"
       | 
       | Not as cool as experiment of course
       | 
       | https://pubs.acs.org/doi/full/10.1021/acs.cgd.9b00612
        
         | blix wrote:
         | This is a neat paper. Cool to see kinetic phenomena make it's
         | way into MD. How many GPU-hours did you need to get those 500ns
         | simulations?
         | 
         | You should throw up some videos of these somewhere, if you have
         | the time.
        
       | peter_d_sherman wrote:
       | _Star Trek 's Replicator -- version 0.000001..._ <g>
        
       | vhold wrote:
       | There are video files here :
       | https://pubs.acs.org/doi/10.1021/jacs.0c12100?goto=supportin...
        
       | fantod wrote:
       | This is super cool but who's idea was it to feature the video as
       | a pretty small gif on the side of the page?
        
         | codezero wrote:
         | literally every grad student in science fields - they don't
         | care about video compression or download quality - and gifs are
         | fast and easy to make and simple to grok and come out with
         | straightforward and predictable fidelity.
        
           | anthk wrote:
           | webm's are smaller and ffmpeg can convert any gif in a
           | breeze.
        
             | codezero wrote:
             | They don't care, and their PI will find a way to complain
             | about it not playing on Word '97.
        
             | at_a_remove wrote:
             | Still cannot look at an embedded .webm on my iPad in
             | Firefox.
        
       | mvanga wrote:
       | Can anyone more knowledgeable comment on the details and
       | significance of the comment regarding the frequency of formation
       | being a normal distribution?
       | 
       | > Straight away, they noticed a statistical pattern in the
       | frequency at which the crystals emerged; it followed what's known
       | as a normal distribution, which has long been theorized but only
       | now experimentally verified.
        
         | blt wrote:
         | I am also wondering about this. Normal distributions have
         | support on all real numbers, which would imply that negative
         | frequencies have nonzero probability. That is strange. Perhaps
         | the underlying mechanism is more faithfully modeled by another
         | distribution with nonnegative support, but due to the central
         | limit theorem it is well-approximated by a normal distribution.
        
       | [deleted]
        
       | jasondclinton wrote:
       | Non-physicist question: why does the block of the forming crystal
       | move as a whole back and forth? Is this Brownian motion in
       | action?
        
         | magicalhippo wrote:
         | The containing structure (the carbon nanohorn as they call it),
         | is vibrating. So I'm guessing it's getting kicked around when
         | it touches the walls, so to speak.
        
         | hindsightbias wrote:
         | Guessing the crystals are probably connected in some lattice so
         | won't move independently. The expansion horizontally is gated
         | by the walls so it gets bounced around until it moves to a
         | wider section. There seems to be some ratio of horizontal vs
         | vertical growth.
        
       | jagraff wrote:
       | This is incredibly cool:
       | 
       | > Two novel techniques, atomic-resolution real-time video and
       | conical carbon nanotube confinement, allow researchers to view
       | never-before-seen details about crystal formation. The
       | observations confirm theoretical predictions about how salt
       | crystals form and could inform general theories about the way in
       | which crystal formation produces different ordered structures
       | from an otherwise disordered chemical mixture.
       | 
       | > To hold samples in place, we use atom-thick carbon nanohorns,
       | one of our previous inventions. With the stunning videos
       | Sakakibara captured, we immediately noticed the opportunity to
       | study the structural and statistical aspects of crystal
       | nucleation in unprecedented detail.
       | 
       | Creating shaped nucleation sites using carbon nanotubes
       | (nanohorns?) sounds like a fascinating technology. I don't have
       | access to the paper unfortunately - I'm curious what other types
       | of crystals could theoretically be grown with this technology.
       | The authors mention graphite - what about silicon? Could it be
       | used to grow more regular crystals for use in electronics? With
       | fewer defects, I'd imagine we could reduce the failure rate in
       | manufacturing.
        
         | grishka wrote:
         | > I don't have access to the paper unfortunately
         | 
         | The website you're looking for starts with sci and ends with
         | hub.
        
           | sebmellen wrote:
           | Not up there yet. Probably needs a few weeks, unless a HN
           | reader is so kind as to add it: https://sci-
           | hub.se/10.1021/jacs.0c12100.
        
             | [deleted]
        
             | [deleted]
        
           | MizelMiser wrote:
           | Here's the paper
           | https://www.scribd.com/document/491808551/jacs-0c12100
        
           | Ericson2314 wrote:
           | Are you angling for some scintillating chub?
        
       | [deleted]
        
       | codercotton wrote:
       | Super cool, where's my replicator?
        
         | curtainsforus wrote:
         | Just build your own
        
         | krylon wrote:
         | The trivial task of building a working replicator is left as an
         | exercise to the reader. ;-)
        
       | [deleted]
        
       | acvny wrote:
       | I can't see the video. Incredible that the actual appearance of
       | the crystal happens in phase transition - almost instantly.
        
         | tomsmeding wrote:
         | Direct link to a higher-framerate video than the gif on the
         | linked page:
         | https://pubs.acs.org/doi/suppl/10.1021/jacs.0c12100/suppl_fi...
        
       | convery wrote:
       | It's shit like this that makes me re-consider the simulation
       | argument, like how statistics is just an optimization to save
       | compute power.
        
         | enchiridion wrote:
         | In which direction?
        
         | bearerofgarbage wrote:
         | https://en.wikipedia.org/wiki/Falsifiability
        
       | thepace wrote:
       | Every time I see these kinds of video, whether that is of protein
       | translation, kinesin walking on microtubule, or birth and death
       | of a galaxy, I get this feeling that Panpsychism is closer to
       | truth that it gets credit for. Any constraints we put in the
       | defining consciousness and life seems to be just some arbitrary
       | constraint put there for our own convenience.
        
         | wahern wrote:
         | Panpsychism, pantheism, etc, are enticing because humans are
         | predisposed to see patterns, structure, reason, and
         | intelligence; to anthropomorphize nature. Characterizing as
         | "arbitrary" our admittedly feeble and flawed attempts at
         | distinguishing the human mind is an easy way to placate that
         | underlying, intrinsic desire.
         | 
         | Of course, maybe it is true! (That felt good to say :)
        
         | TeMPOraL wrote:
         | Isn't panpsychism a kind of reverse materialism? Both seem to
         | correctly recognize that terms we create are just lines we draw
         | on our map through the terrain of reality, which we rank by
         | their usefulness, by how close they seem to be "carving nature
         | at its joints". Based on my brief skimming, panpsychism seems
         | to say the terrain is all mysterious and wonderful, whereas
         | materialism says it's all just mundane.
         | 
         | Or am I completely mis-skimming the Wikipedia entry on
         | panpsychism?
        
           | perfmode wrote:
           | my question to you: do you consider yourself to be mysterious
           | or just mundane? what is your experience of your own Being-
           | ness?
        
             | TeMPOraL wrote:
             | A good question, something I'll have to think about.
             | 
             | The immediate if indirect answer I can give you: I stopped
             | feeling this sense of wonder, mystery, greater purpose of
             | reality, somewhen during my university years. I only ever
             | experience these feelings when consuming works of fiction.
        
               | mensetmanusman wrote:
               | C.S. Lewis described something similar with fiction
               | 'baptizing the imagination in longing'
               | 
               | https://andrewmarrosb.blog/articles/baptizing-the-
               | imaginatio...
        
             | gus_massa wrote:
             | > _Do you consider yourself to be mysterious or just
             | mundane?_
             | 
             | Mundane, that is even more amazing.
             | 
             | > _What is your experience of your own Being-ness?_
             | 
             | My electrons and nuclei are arranged in a weird pattern. If
             | you ask them if I'm conscious, they can move another
             | electrons and nuclei to type "yes". If you ask them if I'm
             | lying, they can move another electrons and nuclei to type
             | "no". It's just a strange pattern that simulates a
             | delusion, don't trust them.
        
               | perfmode wrote:
               | > Mundane, that is even more amazing.
               | 
               | What's amazing about the mundane?
        
           | lewispollard wrote:
           | I think you'd enjoy the work of Bernardo Kastrup, who is a
           | proponent of idealism, while also arguing against
           | panpsychism, for basically the reasons you just stated - ie,
           | there is a reality made of parts, and those parts are x,
           | where x is 'matter', 'mind', 'consciousness',
           | 'electromagnetism' and so on. But the trouble then is that
           | you can only describe the constituent parts in terms of those
           | parts. For example, subatomic particles have properties like
           | spin and charge, but that's the only way you can describe
           | them - in relation to one another - without having to go a
           | level 'deeper' if it were possible to describe them in
           | further parts (which would only be describable in terms of
           | those parts, and so on).
        
         | csomar wrote:
         | > Any constraints we put in the defining consciousness and life
         | seems to be just some arbitrary constraint put there for our
         | own convenience.
         | 
         | The definition of consciousness is very much tied to how humans
         | (or some scientists) perceive consciousness. I'm pretty sure my
         | dog is conscious of itself and its surrounding. It just happens
         | to have a less sophisticated consciousness than the one I have.
         | Some animals might have a pretty high consciousness but they
         | fail to communicate it to the humans.
        
         | kharak wrote:
         | I can't see this connection at all. Could someone who thinks or
         | feels this way elaborate?
         | 
         | Does this feeling arise because those atoms move? Or is it the
         | self-assembling behavior? Is this the same feeling some people
         | have when they see a door suddenly close due to the wind, as if
         | some spirit is responsible? I remember feeling like this as a
         | kid. But getting older, I realized that this feeling of agency
         | behind everything is unfounded. And the feeling faded away.
        
         | jes wrote:
         | I am an Alan Watts fan. I think he would agree with you.
        
           | djedr wrote:
           | He would definitely dig that. Curiously, I was drawn to this
           | thread because I was just listening to him today, talking
           | about crystals and the nature of reality. He would go thru so
           | many topics in such detail and clarity, it's incredible.
        
             | jes wrote:
             | Same. I often notice the precision with which he used
             | language. Such a joy to listen to.
             | 
             | I especially like the chill-step YouTube videos some people
             | assemble and publish. I download them with youtube-dl and
             | listen to them on my phone at night while drifting off to
             | sleep.
             | 
             | At 61 years of age, the philosophy he describes (Advaita
             | Vedanta / Zen Buddhism / Taoism) brings me great comfort.
        
               | thepace wrote:
               | Out of the many people I have heard talk about vedanta,
               | Alan Watts is one of the most original ones.
        
               | djedr wrote:
               | > I often notice the precision with which he used
               | language.
               | 
               | Indeed. Hard to find an inaccuracy, even when he's
               | talking about some details of technical subjects. He had
               | an exceptional ability to translate between the spiritual
               | and the technical in a way which seems to make complete
               | sense.
               | 
               | > Such a joy to listen to.
               | 
               | A true spiritual entertainer. Never boring. I imagine he
               | could be a stand-up comedian today.
               | 
               | > I especially like the chill-step YouTube videos some
               | people assemble and publish. I download them with
               | youtube-dl and listen to them on my phone at night while
               | drifting off to sleep.
               | 
               | Similar, I went thru a lot of the material on youtube.
               | High-quality material with transcripts can also be found
               | here: https://www.organism.earth/library/author/alan-
               | watts A lot of it I listened to many times over and I
               | keep getting new insights out of it, it's so densely
               | packed.
               | 
               | > At 61 years of age, the philosophy he describes
               | (Advaita Vedanta / Zen Buddhism / Taoism) brings me great
               | comfort.
               | 
               | Definitely helps to know these philosophical
               | perspectives, especially if one gets tangled up in some
               | harmful model of reality.
               | 
               | Somehow the basic (non-religious, just philosophical)
               | Taoism seems to most align with me at the moment. I
               | credit the Dao for solving a very tough naming problem
               | for me. ;)
        
           | jng wrote:
           | I love Alan Watts too. In any case, I need to insert the
           | necessary reference to recently passed John Conway's Free
           | Will Theorem. I recommend every one to watch his 6-lecture
           | long presentation on this, available on YouTube and
           | underappreciated given the number of views, where he
           | captivatingly describes his proof that, if we have free will,
           | so do elementary particles. This is a purely mathematics- and
           | physics-based proof which I understand is fully accepted by
           | the scientific community, and while it, of course, does not
           | provide an explanation of the underlying cause, it provides
           | the best possible description obtained by scientific
           | methodology so far.
           | 
           | I like to think that, somehow, Alan Watts and John Conway
           | were digging the same tunnel, just starting from the two
           | endpoints, and bound to meet at some point in the future. We
           | just need a few more diggers of that stature (tall order, I
           | know).
        
             | jes wrote:
             | Paper from Anthony Cashmore that I mentioned previously:
             | 
             | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2842067/
        
             | jes wrote:
             | Thank you for this reference. I'm a free will skeptic. Now
             | looking forward to watching Conway's series.
             | 
             | I have a paper by Anthony Cashmore that I will cite here
             | later.
        
       | [deleted]
        
       | anthk wrote:
       | Is there a way to watch the video without JS?
        
       | zer0n1ght wrote:
       | Just like a bunch of sphere magnets.
        
       | amelius wrote:
       | Why are the atoms not visible when they are still in dissolved
       | state?
        
       | jcims wrote:
       | I'm curious how they managed to make it happen so slowly. If that
       | crystal had grown to 100 molecules in 10 seconds it would take
       | roughly the age of the universe to form a grain of table salt.
        
         | jacquesm wrote:
         | The growth rate is proportional to the surface area.
        
         | goalieca wrote:
         | They confined the reaction to a tiny horn.
        
       | dragontamer wrote:
       | > "Salt is just our first model substance to probe the
       | fundamentals of nucleation events," said University Professor
       | Eiichi Nakamura. "Salt only crystallizes one way. But other
       | molecules, such as carbon, can crystallize in multiple ways,
       | leading to graphite or diamond. This is called polymorphism and
       | no one has seen the early stages of the nucleation that leads to
       | it. I hope our study provides the first step in understanding the
       | mechanism of polymorphism."
       | 
       | I'm amused that Chemists / Physicists also have the word
       | "Polymorphism" and that it means something completely different
       | from the programming term.
        
         | flobosg wrote:
         | It's also a term used in biology:
         | https://en.wikipedia.org/wiki/Polymorphism#Biology
        
         | louthy wrote:
         | > I'm amused that Chemists / Physicists also have the word
         | "Polymorphism" and that it means something completely different
         | from the programming term.
         | 
         | Seems like a good reason to stop using it [in programming], and
         | the technique behind it.
        
         | skulk wrote:
         | My second confrontation with the term "polymorph" was a Java
         | tutorial, the first was Larn
         | (https://larn.fandom.com/wiki/Spells)
        
         | MereInterest wrote:
         | In some ways, they are sort of related. In chemistry, you have
         | different representations (diamond/graphite) of the same
         | underlying thing (carbon). In programming, you have different
         | representations (PointXY/PointRTheta) of the the same
         | underlying concept (Point2D).
        
           | jxramos wrote:
           | right, the roots of the word make it applicable to lots of
           | stuff, poly or many, morph or structure/form.
        
             | adrianmonk wrote:
             | Arguably it's the strategy pattern. Graphite and Diamond
             | are subclasses of CrystalizationStrategy.
        
               | iainmerrick wrote:
               | Things could get messy real fast if you need to inherit
               | from both Graphite and Diamond...
        
               | frumiousirc wrote:
               | Yes, the diamond inheritance pattern is a classic OO
               | problem. :D
        
               | chrisweekly wrote:
               | Favor composition over inheritance!
        
           | LightMachine wrote:
           | That isn't what polymorphism means, polymorphism would be
           | more like Point<Float> and Point<Double> using the same Point
           | definition.
        
       | soheil wrote:
       | This looks like how microscopic proteins and bacteria move in the
       | body. I wonder how much of their motion is caused by the atomic
       | level forces that form a lattice structure similar to that of
       | salt crystals.
        
         | rightbyte wrote:
         | The "tube"/horn is vibrating. I would make that connection from
         | the gif. The scale difference is quite big.
        
       | adrianmonk wrote:
       | Amazing achievement! Not only the world's first video of this
       | type, but I imagine also the world's smallest salt shaker.
        
         | dylan604 wrote:
         | A salt shaker that makes its own salt to boot! Never run out of
         | salt again with our new patented shaker! Just $19.99 if you buy
         | within the next 15 minutes. Order now, and we'll also throw in
         | the matching pepper shaker (not self re-filling) for free!
         | (just pay S&H for both)
        
       | biggio wrote:
       | Hope this will help finding a way to dissolve calcium oxalate
       | stones formed in kidney
        
       | edumucelli wrote:
       | Amazing! Also kudos to the master student that, although starting
       | his career in science, already actively participated in this
       | incredible work!
        
       | overdrivetg wrote:
       | This was a cool AlphaPhoenix video doing a large-scale crystal
       | growth simulation that looks amazingly similar:
       | 
       | https://youtu.be/06TscuHNvGQ?t=305
        
       | [deleted]
        
       | frongpik wrote:
       | Another interesting experiment is the effect of strong magnetic
       | fields on crystals: when the field is turned off, is there
       | something left in the crystal, e.g. a certain motion pattern of
       | crystal nodes?
        
       | jerzyt wrote:
       | What is absolutely mind blowing to me is that when I was in
       | college, in my crystallography class, we were inferring the
       | crystal structure through the X-ray diffraction. Now we can
       | observe it directly. I took the crystallography class in late
       | 70s. I doubt that anyone had expected so much progress.
        
         | 6nf wrote:
         | In the same vein, I'm blown away what we can do with xray
         | crystallography these days! Structures of proteins with
         | hundreds of atoms can somehow be deduced from some tiny light
         | spots in a kaleidoscope picture? Magical.
        
       | bearerofgarbage wrote:
       | Could one be able to upscale the video with a GAN like the
       | following example?
       | 
       | https://www.geoffreylitt.com/images/article_images/enhance/g...
        
         | Bjartr wrote:
         | I'm pretty sure such upscaling systems train against ground
         | truth higher res video and purposefully downres'd versions of
         | that video. So, at the very least, we'd need to first get
         | higher res video of the same phenomena once. Though maybe you
         | could style transfer from frames that have been improved by
         | hand.
        
         | dannyw wrote:
         | One could, but it wouldn't be real.
        
           | bearerofgarbage wrote:
           | All models are wrong, some are useful
        
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