Dear friends,
I tried cpptraj to convert an amber md velocity file from
binary (netcdf) to ascii format. It gave me the following error saying
*NETCDF Error: NetCDF: Variable not found...*
If anyone has any comment or suggestion regarding this,
please share with me.
*here are the details of the error output..*
cpptraj ../../parm/66_49nm_40.prmtop <ptraj.in
CPPTRAJ: Trajectory Analysis. V13.1
___ ___ ___ ___
| \/ | \/ | \/ |
_|_/\_|_/\_|_/\_|_
AmberParm Title: [DEN]
Radius Set: modified Bondi radii (mbondi)
INPUT: Reading Input from STDIN
[trajin mdvel 1 10000]
[mdvel] contains 10000 frames.
Warning: Box information present in parm but not in trajectory.
Warning: DISABLING BOX in parm [66_49nm_40.prmtop]!
[trajout mdvel_asc.trj vel]
PARAMETER FILES:
0: 66_49nm_40.prmtop, 171597 atoms, 55600 res, box: None, 55600 mol, 55599
solvent, 10000 frames
INPUT TRAJECTORIES:
0: [mdvel] is a NetCDF AMBER trajectory containing velocities, Parm
66_49nm_40.prmtop (reading 10000 of 10000)
Coordinate processing will occur on 10000 frames.
REFERENCE COORDS:
No frames defined.
OUTPUT TRAJECTORIES:
[mdvel_asc.trj] is an AMBER trajectory, Parm 66_49nm_40.prmtop: Writing
10000 frames (1-Last, 1)
BEGIN TRAJECTORY PROCESSING:
----- [mdvel] (1-10000, 1) -----
0% NETCDF Error: NetCDF: Variable not found
Error: Getting frame 0
Read 0 frames and processed 0 frames.
ACTION OUTPUT:
DATASETS:
No data sets.
Thanks
--
*With Regards,HIMANSHU JOSHI Graduate Scholar, Center for Condense Matter
TheoryDepartment of Physics IISc.,Bangalore India 560012*
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Received on Fri Jun 06 2014 - 04:30:02 PDT
