Thanks for your reply...
I'm done downloading the AmberTools13..now I'm trying to install that. I follow the manual and when i put the command ./configure gnu
i got this error...
Checking for updates...
Checking for available patches online. This may take a few seconds...
Available AmberTools 13 patches:
update.8 (modifies configure)
update.9 (modifies MMPBSA.py)
update.10 (modifies cpptraj)
update.11 (modifies MMPBSA.py)
update.12 (modifies cpptraj)
update.13 (modifies ParmEd)
update.14 (modifies configure, ParmEd, MMPBSA.py, MdoutAnalyzer.py, ambpdb)
There are patches available. Do you want to apply them now? [y/n] (Recommended Y)
y
Preparing to apply updates... please wait.
Downloading updates for AmberTools 13
Downloading AmberTools 13/update.8 (1.15 KB)
Applying AmberTools 13/update.8
/home/shima/amber12/updateutils/patch.py:314: PatchingWarning: Previously applied patch detected. Skipping.
PatchingWarning)
Downloading AmberTools 13/update.9 (968 Bytes)
Applying AmberTools 13/update.9
Downloading AmberTools 13/update.10 (77.46 KB)
Applying AmberTools 13/update.10
Downloading AmberTools 13/update.11 (2.95 KB)
Applying AmberTools 13/update.11
Downloading AmberTools 13/update.12 (51.37 KB)
Applying AmberTools 13/update.12
Downloading AmberTools 13/update.13 (3.37 KB)
Applying AmberTools 13/update.13
Downloading AmberTools 13/update.14 (49.02 KB)
Applying AmberTools 13/update.14
./configure: line 56: ./configure2: No such file or directory
Configure failed due to the errors above!
what should i do next?
Thank you
________________________________
From: David A Case <case.biomaps.rutgers.edu>
To: fatahiya <fatahiyamohdtap.yahoo.com>; AMBER Mailing List <amber.ambermd.org>
Sent: Thursday, 1 August 2013 7:52 PM
Subject: Re: [AMBER] SASA / AmberTools1.5
On Thu, Aug 01, 2013, fatahiya wrote:
>
> I want to calculate Solvent Accessible Surface Area of the molecule Â
> using cpptraj. Unfortunately i'm using Amber11 (ambertools 1.4), there
> is no cpptraj. Can anybody help me how to upgrade the ambertools? Or any
> other tools that i can use to calculate SASA?
Please visit
http://ambermd.org. Follow the link "Download AmberTools13".
Also check out "Running older versions of Amber with AmberTools13".
...dac
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Thu Aug 01 2013 - 19:30:02 PDT
