[AMBER] installation of AmberTools14

From: Atila Petrosian <atila.petrosian.gmail.com>
Date: Sun, 18 Jan 2015 21:52:16 +0330

Dear amber users

I have an mdcrd file obtained from amber 10. Now I don’t have AMBER and
only I want to do some analysis using cpptraj in AmberTools14. Thus, I want
to install AmberTools14 on Ubuntu.

Based on the chapter 2 of the Amber14 Reference Manual
<http://ambermd.org/doc12/Amber14.pdf>, I have done following steps:

1) export AMBERHOME=/home/myname/amber14

2) sudo apt-get install build-essential gfortran libbz2-dev libz-dev

3) tar -jxf AmberTools14.tar.bz2

 During untarring, I encountered with

 bzip2: Compressed file ends unexpectedly;

                    perhaps it is corrupted? *Possible* reason follows.

bzip2: Inappropriate ioctl for device

                    Input file = (stdin), output file = (stdout)

 It is possible that the compressed file(s) have become corrupted.

You can use the -tvv option to test integrity of such files.

 You can use the `bzip2recover' program to attempt to recover

data from undamaged sections of corrupted files.

 tar: Unexpected EOF in archive

tar: Unexpected EOF in archive

tar: Error is not recoverable: exiting now

 Then, I used bzip2recover AmberTools14.tar.bz2


5) ./configure gnu

Checking for updates...

Checking for available patches online. This may take a few seconds...

I have a question. In earlier versions, I should use bugfixes. Isn’t it
necessary to use bugfixes in AmberTools14?

Is my installation manner true?

Any help will highly appreciated.
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Received on Sun Jan 18 2015 - 10:30:02 PST
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