[gmx-users] usage trjconv in membrane simulation

[Мижээ Батсайхан]

Dear gmx user,

Hello, I complited calculation of KALP15 in DPPC. I would like to make
further analysis such as generate structures  of trajectory.
I used following sequence of commands for gmx trjconv:

1. -pbc nojump
2. -pbc mol -ur compact
3. -pbc res (one case, ignored, but result is same)
4. -fit transxy

In the result, there are some atoms of water very far from the system.
How can I get right structure view?
Please advice me?
Is there any common used sequence of trjconv's command this type of
situation?

Best regards,
Mije