Re: [gmx-users] Cuda CC 2.0 restrictions

2014-09-06 Thread Mark Abraham
On Fri, Sep 5, 2014 at 11:24 PM, Mirco Wahab mirco.wa...@chemie.tu-freiberg.de wrote: I've run into a problem with an older card (GTX-580) which is CC 2.0. On a larger box size, mdrun stops with: Fatal error: Watch out, the input system is too large to simulate! The number of

Re: [gmx-users] Gromacs 5.0 compilation slower than 4.6.5. What wentwrong ?

2014-09-06 Thread Abhi Acharya
Thank you Mark and Szilard for your replies. It gave more clarity on how the new gromacs works, especially in greater support for streamed computing. I hope David's problem is sorted too. :) Thanks again, Regards, Abhishek Acharya On Fri, Sep 5, 2014 at 10:45 PM, Szilárd Páll

Re: [gmx-users] g_select syntax

2014-09-06 Thread Teemu Murtola
Hi, On Sep 3, 2014 11:32 PM, Bin Liu fdusuperstr...@gmail.com wrote: Thank you for your explanation. Now I understand why the first selection gives more residues as it's simply a superset of the second selection. I just realized to accomplish what I initially want, i.e., to obtain the residue

[gmx-users] g_order and gromacs 5.0

2014-09-06 Thread sa
Hi All, I would like to compute the SCD parameters of the DOPC sn1 and sn2 chains in membrane simulated with the CHARMM36 force field with gmx order tool of GMX5.0. To know how to do that, I have searched on the mailing list and came across the thread of T. Piggot about problems with g_order and