peteboyd / lammps_interface

automatic generation of LAMMPS input files for molecular dynamics simulations of MOFs
MIT License
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undesired bonds when using --replication for frameworks with molecules #58

Open jianmingm opened 1 year ago

jianmingm commented 1 year ago

Hi, I am experiencing a weird situation that when I am using --replication to generate a supercell of a framework (with molecules in the structure), the framework is also treated as a molecule during replication. Thus, the final structure consisted of long bonds between clusters that were initially extending out of the unit cells. How can I solve this problem? The snapshot of the final structure is attached.

Thanks!!

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