[gmx-users] the problem of the periodic boundary

kecy_wu at sina.com kecy_wu at sina.com
Tue May 4 03:15:36 CEST 2010

Hello, I use the 2D periodic boundary along the x and y axises, it has a strange thing. my solvent is dodecane,  I view the output  trajectory in the VMD, for one molecule, it has some part in 
the left(top), and some in the right(bottom), it still connections to each other, how to solve this problem?
Thank you !
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