[gmx-users] Errors during energy minimization of POPC membrane

[Roshan Shrestha]

I created a POPC membrane using CHARMM membrane builder, added some water
into it using gromacs, did not add any ions since it was already neutral,
then I ran its energy minimization using minim.mdp of lysozyme tutorial.
However, I ended up with lots of errors like these below after using grompp:




















































*ERROR 9779 [file topol.top, line 161668]:  No default U-B typesERROR 9780
[file topol.top, line 161669]:  No default U-B typesERROR 9781 [file
topol.top, line 161671]:  No default U-B typesERROR 9782 [file topol.top,
line 161672]:  No default U-B typesERROR 9783 [file topol.top, line
161674]:  No default U-B typesERROR 9784 [file topol.top, line 161675]:  No
default U-B typesERROR 9785 [file topol.top, line 161677]:  No default U-B
typesERROR 9786 [file topol.top, line 161678]:  No default U-B typesERROR
9787 [file topol.top, line 161680]:  No default U-B typesERROR 9788 [file
topol.top, line 161681]:  No default U-B typesExcluding 3 bonded neighbours
molecule type 'Other'Excluding 2 bonded neighbours molecule type
'SOL'Removing all charge groups because cutoff-scheme=VerletThere was 1
note-------------------------------------------------------Program gmx
grompp, VERSION 5.1.3Source code file:
/home/roshan/Downloads/gromacs-5.1.3/src/gromacs/gmxpreprocess/grompp.c,
line: 1738Fatal error:There were 9788 errors in input file(s)*

-- 
Roshan Shrestha
Graduate Student
Central Department of Physics,Tribhuvan University
Kathmandu,Nepal