Dear Jason and Dan,
Thank you very much for your help.
I firstly install patches.
===================================================================
[root.xxx amber12]# $AMBERHOME/patch_amber.py --update-tree
Determining patches to download for AmberTools12
AmberTools12 is up to date. Nothing to download
Determining patches to download for Amber12
Amber12 is up to date. Nothing to download
===================================================================
Then I run cpptraj with autoimage, However, it still said, autoimage command is not known.
===================================================================
CPPTRAJ: Trajectory Analysis. V12.1
___ ___ ___ ___
| \/ | \/ | \/ |
_|_/\_|_/\_|_/\_|_
INPUT: Reading Input from STDIN, type "go" to run, "quit" to exit:
> [trajin ./md35.mdcrd]
[md35.mdcrd] contains 2500 frames.
> [autoimage]
Warning: Unknown Command autoimage.
> [trajout md35_cpptraj.netcdf netcdf]
> [rms first out md35_cpptraj_all.rms .CA,C1']
> [average md35_cpptraj_average_nobox.pdb pdb nobox]
>
INPUT TRAJECTORIES:
[md35.mdcrd] is an AMBER trajectory, Parm 0 (with box info) (reading 2500 of 2500)
Coordinate processing will occur on 2500 frames.
===================================================================
I guess I have updated all the patches, should I do additional step to install bugfix.16.
However, I don't know how to specifically install bugfix.16. I have already download bugfix.16 to my $AMBERHOME directory. What should I do next?
Best regards,
Catherine
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Received on Sun Jul 29 2012 - 21:30:03 PDT
