Re: [AMBER] The good choice of the linux system for Amber 11 calculations on Tesla C2050 GPUs ?

From: Marek Maly <marek.maly.ujep.cz>
Date: Thu, 02 Dec 2010 15:59:17 +0100

Dear Igor,

thanks a lot for your comprehensive information !

Best wishes,

    Marek




Dne Thu, 02 Dec 2010 15:10:01 +0100 Igor Marques <igor.dragon88.gmail.com>
napsal/-a:

> Dear Marek,
>
> We have installed the nVidia drivers as recommended in the nVidia
> website.
> See the instructions below:
> Install GPU machine
>
> - Download NVIDIA driver, NVIDIA toolkit and NVIDIA GPU computing SDK
> from
> http://developer.nvidia.com/object/cuda_3_2_downloads.html#Linux
>
> - Follow the instructions on
> http://developer.download.nvidia.com/compute/cuda/3_2_prod/docs/Getting_Started_Linux.pdf
>
> - Write the script provided on Page 6 of the Manual into a file called
> nvidia.bash
>
> - Copy this script to /etc/init.d/ and run "update-rc.d nvidia.bash
> defaults
>
>
> - Reboot and check if /dev/nvidia* were created
>
> - Install Cuda Toolkit
>
> - Install SDK.During make, some libraries are missing. Install them using
> apt-get or make a symbolic link of installed libs
> Regards,
> Igor Marques
>
>
> 2010/12/2 Marek Maly <marek.maly.ujep.cz>
>
>> Dear Ian, Ross and Igor
>>
>> thanks a lot for your info !
>>
>> I have the last technical question regarding the Nvidia drivers.
>>
>> It is better/recommended to use
>>
>> #1
>>
>> "Developer Drivers for Linux (260.19.14) " available here:
>>
>> http://developer.nvidia.com/object/cuda_3_2_toolkit_rc.html
>>
>> #2
>>
>> or to install driver version "260.19.21 Certified"
>>
>> http://www.nvidia.com/object/linux-display-amd64-260.19.21-driver.html
>>
>>
>> for the given purpose (just calculation on the given GPU) ?
>>
>> Thanks in advance for this last information,
>>
>> Best wishes,
>>
>> Marek
>>
>>
>>
>>
>>
>> Dne Wed, 01 Dec 2010 20:03:56 +0100 Gould, Ian R
>> <i.gould.imperial.ac.uk>
>> napsal/-a:
>>
>> > Hi Marek,
>> >
>> > I have been running my dual C2050 rig with Fedora 11 and it has been
>> > very stable, have been running both cards flat out for runs which
>> take 1
>> > to 2 weeks to complete.
>> >
>> > Cheers
>> > Ian
>> >
>> > Mediocrity knows nothing higher than itself, but talent instantly
>> > recognizes genius.
>> > Sir Arthur Conan Doyle
>> > --
>> > Dr Ian R Gould
>> > Senior Lecturer Biological and Biophysical Chemistry
>> > Imperial College London
>> > Exhibition Road
>> > London
>> > SW7 2AY
>> > E-mail i.gould.imperial.ac.uk
>> > http://www3.imperial.ac.uk/people/i.gould
>> > Tel +44 (0)207 594 5809
>> >
>> >
>> >
>> >
>> > On 01/12/2010 18:50, "Marek Maly" <marek.maly.ujep.cz> wrote:
>> >
>> > Hello all,
>> > I am just curious what linux (non commercial) system could be
>> recommended
>> > as the most suitable (well tested ...) for Amber 11 GPU calculations,
>> > more
>> > precisely
>> > calc. on Tesla C2050 or if this question is not easy to answer, at
>> least
>> > which
>> > linux system is let say not too much recommended.
>> >
>> > Although this question is probably not so relevant as the another
>> > actually discussed ( motherboard dependence ...) also here
>> > might be useful some positive or negative experiences/reccommendations
>> > ...
>> > although
>> > it.s pretty possible that the answer on my question will be hardware
>> > dependent.
>> >
>> > My motherboard is: Asus M4N98TD EVO - nForce 980a SLI
>> > CPU: AMD Phenom II X4 955 Black Edition (HDZ955FBGMBOX)
>> >
>> > Thanks to all for any eventual comments/reccommendations !
>> >
>> > Best wishes,
>> >
>> > Marek
>> >
>> >
>> >
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Received on Thu Dec 02 2010 - 07:30:03 PST
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