[gmx-users] genconf -trj?!?

Faezeh Kargar f_kargar at iasbs.ac.ir
Wed May 9 17:59:25 CEST 2012

Dear all,
my coarse grained simulations contain a cubic box
with 16 peptides. After 85ns peptides aggregate but because of PBC I
have problem in analyzing some data like radius of gyration and
clustering. I searched mailing list to solve this problem by trjconv. I
examined its different options but without any results. casually
genconf came in my mind. I want to use this command for a trajectory
with option -trj
genconf -f .tpr -trj .xtc/.gro -o .gro -nbox 2 1
 but when I use it I face with "Segmentation
fault". I searched mailing list and found just one
whithout answer.

Please guide me wheather this command can help me to generate an
aggregated system for analyzing? If Yes, How? If No help me
please?Thank you in advance

Faezeh Kargar

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