? wrote:
Hi everybody,
I try to calculate a protein which has two chains.This chains has
sulphide bridges between eachother.I used -merge in pdb2gmx.I calculated
for 20ns.I said free energy:no.
But I got this error:
/Fatal error:
/>/ Too many LINCS warnings (10716) - aborting to avoid logfile runaway.
/>/ This normally happens when your system is not sufficiently
/>/ equilibrated,or if yo
/>/ u are changing lambda too fast in free energy simulations.
/>/ If you know what you are doing you can adjust the lincs warning
threshold
/>/ in your mdp file, but normally it is better to fix the problem.
/>/
I looked at mailing list.Idecided to change /delta-lambda=0.00002
Can anyone help me about this?
Please search the mailing list for help in future. This problem is the
most frequently reported one, and the most frequent cause is exactly
what it says "your system is not sufficiently equilibrated"
Mark
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