[Evogrid-dev] Experiment 1 visualization

[Peter Newman]

  You're right, the correct link is 
http://www.youtube.com/watch?v=MLe3SRt_HVQ

Peter N

On 14/08/2010 2:14 PM, Bruce Damer wrote:
> Hmm Peter this is the same youtube link as Experiment 1
>
> b
>
> At 04:53 AM 8/13/2010, you wrote:
>> The visualization of Experiment 2 is available at
>> http://www.youtube.com/watch?v=VDtjQVCCFLk
>>
>> Due to the enlargement of the atoms, the molecule structures are not
>> clearly visible.
>>
>> Interestingly, this experiment, which is searching just for molecule
>> size, has actually produced a better result for experiment 1 (number of
>> molecules) then experiment 1 actually has. This just goes to reinforce
>> the lesson ALife practicioners have found - Search functions should not
>> focus on one score! We aren't limited to that, of course, but that's all
>> we've done for this limited testing.
>>
>> Peter N
>>
>> On 13/08/2010 12:01 PM, Peter Newman wrote:
>> >    I've uploaded the first video created from the new simulation 
>> system/tree.
>> >
>> > http://www.youtube.com/watch?v=VDtjQVCCFLk
>> >
>> > This shows 20 consecutive simulations, moving towards the Experiment 1
>> > goal (number of molecules). Note that ONLY atoms in molecules are 
>> shown.
>> > There are 1000 atoms in every frame of simulation, but to reduce visual
>> > clutter, we don't show the un-bonded ones. Additionally, the atoms are
>> > rendered at 10x their Van der waals radius (size). This makes them
>> > visible but means the individual atoms making up the molecule overlap,
>> > or completely obscure each other.
>> >
>> > There are some issues with the video, some of which are issues with the
>> > simulation that the video makes visually comprehensible. The first is
>> > that the molecules appear still. Often they appear initially at a high
>> > rate of movement, but slow. My first thought this is due to the bond
>> > formation introducing energy, which is then removed by the "heat bath"
>> > function. If you recall, this heat bath function is enabled to prevent
>> > run away thermal increase in the simulation, which is most likely 
>> due to
>> > our system breaking the integrators self-regulation.
>> >
>> > Secondly, the molecules will jump visibly. This is due to wrapping in
>> > the bounding box.
>> >
>> > I'm going to start an equivalent render for experiment 2.
>> >
>> > Peter N
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>> >
>>
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