[chimerax-users] alphafold predict multiuser syntax

[Tom Goddard]

Hi Jerry,

  I have not tried Colab Pro+ which is $50 per month and claims to give faster GPUs, more memory, longer session times.  I use Colab Pro which is $10 per month because the free Colab was sometimes not letting me run jobs more than 2 hours per day.

	https://colab.research.google.com/signup

  The main factor for running larger predictions (e.g. > 1000 amino acids) is GPU memory.  With Colab Pro Google never gave me a GPU with more than 16 GBytes -- I get old Nvidia T4, P100 and K80 GPUs just like with free Colab.  At UCSF I can run AlphaFold (not in ChimeraX) using new Nvidia A40 or A100 GPUs which have 48, 40 or 80 GBytes but I have not tested on large proteins to see how large.  The runs on 800 amino acid predictions are about 2 to 3 times faster on these new GPUs.

	Tom


> On Dec 9, 2021, at 9:44 AM, Jerry Honts <jerry.honts at drake.edu> wrote:
> 
> Hi Tom:
> 
> Many thanks for your quick reply!  I so appreciate AlphaFold access being built into ChimeraX—it has already resulted in several interesting leads.
> 
> As a second question if I may ask: would upgrading the Google Collab Pro + help with AlphaFold predictions?  Any experience with this?
> 
> Jerry