Re: [gmx-users] desciption of ffG43a1bon.itp

2009-08-02 Thread Mark Abraham
subarna thakur wrote: Hello In the file ffG43a1bon.itp, the bond parameters are given like this- -- ICB(H)[N] CB[N] B0[N] ; #define gb_1 0. 1000 1.5700e+07 ; H - OA750 ; #define gb_2 0. 1000 1.8700e+07 ; H - N (all) 895 ; #define gb_3 0.1090

[gmx-users] desciption of ffG43a1bon.itp

2009-08-02 Thread subarna thakur
Hello In the file ffG43a1bon.itp, the bond parameters are given like this- -- ICB(H)[N] CB[N] B0[N] ; #define gb_1 0. 1000 1.5700e+07 ; H - OA    750 ; #define gb_2 0. 1000 1.8700e+07 ; H - N (all) 895 ; #define gb_3 0.    1090  1.2300e+07 ; HC - C 

Re: [gmx-users] g_wham problem

2009-08-02 Thread Justin A. Lemkul
accomp lin wrote: Dear all Gromacs 3.3.3 seems to have a problem with g_wham and there is a fixed version from David Bostick of Scripps. So, does anybody has this fixed version of g_wham or is there anybody know that where I can find it? My email address is " accomp...@student.dlut.edu.c

[gmx-users] g_wham problem

2009-08-02 Thread accomp lin
  Dear all   Gromacs 3.3.3 seems to have a problem with g_wham and there is a fixed version from David Bostick of Scripps. So, does anybody has this fixed version of g_wham or is there anybody know that where I can find it?   My email address is " accomp...@student.dlut.edu.cn "   Thanks a lot J

Re: [gmx-users] very strange domain composition statistics

2009-08-02 Thread Mark Abraham
Jennifer Williams wrote: Quoting Jennifer Williams : Hi, Thanks for your input. Sorry I should have mentioned that I am using the latest version of gromacs (4.0.5). This morning I noticed that the strange domain decomp statistics are only produced when my simulations run on certain nodes. Be

Re: [gmx-users] reg mopac gromacs installation

2009-08-02 Thread Mark Abraham
vidhya sankar wrote: dear gmx user , i am doing QM/MM using MOPAC/GROMACS when i configure mopac7-1.10 the software using for the interface with gromacs by ../configure command i got error as follows configure error: f2c or g2c library cannot be found . solution for the above error would be a

[gmx-users] Re: topolbuild1_2_1.tgz decompressing problem

2009-08-02 Thread Vitaly V. Chaban
> > Hello, > > I downloaded "topolbuild1_2_1.tgz" from the URL: > http://www.gromacs.org/@api/deki/files/40/=topolbuild1_2_1.tgz > It seems you are right. I tried the same and also found the archive broken. Vitaly V. Chaban, Ph.D. (ABD) School of Chemistry V.N. Karazin Kharkiv National Universi