[gmx-users] trjorder problems

Hi all: I am trying to know how many and which molecules of solvent are near my system, I read the manual and I found that one can do this using trjorder, but I can not do this with my Gromacs version 3.3.2 beacause in this version there is a problem and one can not use options -o and -r

[gmx-users] Solvent insertion analysis 2

Dear David: Thanks a lot for your reply. I am new using gromacs so please forgive me if i dont understand very well. To make my .tpr file with 3.1.4 I have to run again my simulation but this time with 3.1.4 version. The problem is that I work with a box type truncated octahedron and this is not

[gmx-users] solvent insertion analysis

Hi all: I´m using gromacs version 3.3.2 and a box type truncated octahedron. I need to analyze hydrogen bonds with solvent (water)insertion but -ins option of g_hbond is broken... What should I do? I´ve allready tried to analyze my trayectory file (maked with 3.3.2) with gromacs version 3.1.4 but

[gmx-users] g_hbond -ins

Hi all: I´m using gromacs version 3.3.2 and a box type truncated octahedron. I need to analyze hydrogen bonds with solvent (water)insertion but -ins option of g_hbond is broken... What should I do? I´ve allready tried to analyze my trayectory file (maked with 3.3.2) with gromacs version 3.1.4 but