Clever Geek Handbook

Molecular biology. Houdini. NVIDIA 3080. Coronavirus vs immunoglobulins

Link to our video





This is my second text on Habré. It grew smoothly from the first article " Molecular Biology and Houdini in the Summer of the Twentieth ".





We finished our new (second) video on April 12, 2021, Cosmonautics Day. The date turned out to be random - I really wanted to finish work on Monday. But it turned out to be a perfect match.  





Go!





Here is a rough dialogue that Valeria (molecular biologist) and I had at the start of the project:





- And let's make English voice acting for our video about immunoglobulin?





- Come on.





- And replace rotavirus with coronavirus. They are very similar. 





- Yes.





- We won't even need to redo some of the scenes. 





- Yes.





- And let's move from CPU rendering to GPU. Ditch Blender in favor of DaVinci Resolve. The timing will remain the same - one minute. Sound and virus. I think we'll be done in a couple of months.





- Yeah, I guess.





We made the video for 5 (five) months. I could work 2 hours a day from 12 to 2 am and not every day. The duration of the video has increased 3.5 times. The increase in the complexity of the project (in comparison with our first video) by my inner Sensator of Complexity is estimated as sixfold.





We can say that the entire project (non-scientific part) consists of fragments that are loosely connected and therefore they can be done in parallel. Ideally, by different people. 





. 





? . Mantra ( CPU- Houdini) RedShift (GPU-, ). Houdini ( ). . . . . Resolve ( , free-). 





. , , , — . , . 





. . . . ? , ? ...





()

. , . . . , . . 





, , . . , , . 





 Storyboard. The virus attaches to the ACE2 cellular receptor.
 . 2.
Storyboard. The gray circles are cells. Black ones are viruses. White - immunoglobulins or antibodies.
. — . — . — .

. . . — , . , — ( ). . . . . . . , 0. 





. , , . — . — , www.rcsb.org.





( ) . 5 6 — . . — . 





, :





One scene in different releases.
.

RedShift. . GPU-, .





! , ?! . . 





, () , . , , , . 





, , . . 





, , , , . 





RedShift

, . . 5-10 . GPU-? , , , -, — . -, — . ? . , . ! . 





.





3080 RedShift 2 5. ! Mantra, , 30 ( 16 , ). , ! RedShift. 





Redshift? Octane, Vray Arnold. Vray . 3dsmax . Arnold , Autodesk. Octane . RedShift — . . , Maxon, RedShift, . 





, , , , , , , -. .





RedShift , . instance . .





— , , . . . . . , . ! 





. . — . «». . . !





RedShift. The shader is the same. On the left are particles. On the right is the sphere. WTF?
RedShift. . . . WTF?

… ! ?! , ? . . ! boolean . ! ! 5 . 2 . . . . , .





. . . , , — . 





. , . , , , . , . instance-. ? ?





. , , .





RedShift ( ) / :





RedShift. Left without instance of objects. On the right with instance objects (spheres or particles). 
RedShift. . instance- ( ). 

? . . . . . instance- . , , . (10) . , (64) . 





NVIDIA 3080 and RedShift. In skillful hands, 10GB is not enough. Non-instance geometry crashes the render. 
NVIDIA 3080 RedShift. 10 . instance- . 

, «» , . ? , , . 





. , - . , Houdini .





. . . , , . , . 





. () . ? . ? , . . 





Roller color palette. 
. 

, . , , . . . -. . . , , — . - . . — -. . , , .





. 2. 1.





NVIDIA 3080. Redshift. Final render 2k. Atomic model of the coronavirus. Render time up to 3 minutes.
NVIDIA 3080. Redshift. 2. . 3 .
NVIDIA 3080. Redshift. Final render 2k. Atomic model of the coronavirus. Render time up to 4 minutes.
NVIDIA 3080. Redshift. 2. . 4 .
NVIDIA 3080. Redshift. Final render 2k. An epithelial cell "clung to" copies of the coronavirus (about 150,000). Render time up to 2 minutes.
NVIDIA 3080. Redshift. 2. «» (.150 000). 2 .
NVIDIA 3080. Redshift. Final 2k renders. SSS + DOF + Motion Blur. 1-4 minutes per frame. Vignetting added in post production.
NVIDIA 3080. Redshift. 2. SSS + DOF + Motion Blur. 1-4 . .

3080 RedShift, , , . . , 7 . , . . . . , 5 , 30. . 200 ( 10 ) 20 . 2 . . 





. . , . NVLink ( ) — ! 





, , , . (16 AMD 3950). . 





Houdini

Houdini. . , , . , x = 5 — 2 . , , . , . 





. . . . , , . — . 





. — .





, . , . , . , , . 





. .





Wikipedia. Cell membrane.
. .

. , — . «», ( ), (). . — «». . , . 





, , , , — . , — . 





Endocytosis. The way the virus enters the cell.
. .

, . , , . . . . - . . . . -. . , -, . … , . . — ! . , , . . 





, , . . . — , , .





3d- — . , . , , . 





. , , . . , . . 





, , .. . , , , . ?





, . . 





. , . 960540 . . 





. . - . 





. . -. . . 





- . . ! . . . . . 





. 27000 . . . . . 





-. .





DaVinchi Resolve

Blender. . ? Windows. — . 





  1. After Effects + Premiere Pro.





  2. Sony Vegas + ?





  3. Davinci Resolve + Fusion.





  4. Nuke + ?





  Resolve. -, . . , . Fusion Resolve. . , — . Fusion — , Houdini. -, — - . 





DaVinci Resolve. This is what the fourth version of the video looks like. We finished the project on the sixth.
DaVinci Resolve. , . .

Resolve exr. .





. , RedShift , -?





DaVinci Resolve. Coronavirus. Colorized black and white render. 
DaVinci Resolve. . - . 
DaVinci Resolve. Coronavirus and cell surface. The virus attaches to the ACE2 receptor.
DaVinci Resolve. . 2 .
DaVinci Resolve. Endocytosis. The coronavirus enters the cell. 
DaVinci Resolve. . . 
DaVinci Resolve. Immunoglobulin IgG.
DaVinci Resolve. IgG.
DaVinci Resolve. Immunoglobulin IgG.
DaVinci Resolve. IgG.

?

, , , , - . . 





. . . , ( ) , .





. ? . . ? 





- , . . , ? . . . . ? . ? . 





. . Houdini. . , : GROMACS, CHARMM, NAMD . , , — , , . 





. . . 





PS 





If you have tasks in which we can achieve more together - write to me.





While I was working on the article, the Biomolecule competition ended . We participated with our first video. And he won a prize - a one-year subscription to OctaneRender.







More articles:


All Articles