[gmx-users] some problems when using g_membed

mircial at sjtu.edu.cn mircial at sjtu.edu.cn
Tue Oct 18 05:08:03 CEST 2011

Dear All:

I am using g_membed command to insert a protein into a membrane  
bilayer, however, when I run the following command:

g_membed -f input.tpr -p topology.top -xyinit 0.1 -xyend 1.0 -nxy 1000

I encountered the following errors:

Program g_membed, VERSION 4.5.4
Source code file: constr.c, line: 176

Fatal error:
Too many LINCS warnings (3270)
If you know what you are doing you can adjust the lincs warning  
threshold in your mdp file
or set the environment variable GMX_MAXCONSTRWARN to -1,
but normally it is better to fix the problem
For more information and tips for troubleshooting, please check the GROMACS
website at http://www.gromacs.org/Documentation/Errors

Does this mean that there is some un-reasonable physical positions?  
How can I set the environment variable GMX_MAXCONSTRWARN to -1 or how  
can I avoid this error?

Thanks very much for your time and your kind!

Best Regards

R.-X. G.

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