[AMBER-Developers] Problems with AMBERTools Readme_at

From: Ross Walker <ross.rosswalker.co.uk>
Date: Sat, 19 Dec 2009 03:59:34 -0800

Hi All,

I am trying to install the release candidate of AMBER Tools and followed the
instructions in amber11/Readme_at in the release. There appear to be some
minor problems:


Quick installation instructions:

1. Set your AMBERHOME environment variable, e.g.

        export AMBERHOME=/usr/local/amber11 (for bash, zsh, ksh...)
        setenv AMBERHOME /usr/local/amber11 (for csh, tcsh)

        Note: be sure to change the "/usr/local" above to what it should
        be for your machine. Also, you should add $AMBERHOME/bin to your
        $PATH.

2 Uncompress the tar file:

        cd $AMBERHOME/..
        tar xvfj AmberTools-1.3.tar.bz2


Consider I am in my home directory and I download and save the .tar.bz2 file
here. I then do:

export AMBERHOME=/scratch/amber11

Then

cd $AMBERHOME/..

this returns:

-bash: cd: /scratch1/amber11/..: No such file or directory

And I end up still in my home directory. The tar extraction then extracts
AmberTools-1.3 into ~/amber11.

I think it would make more sense if this read.

2 Uncompress the tar file:

   mkdir $AMBERHOME
   cd $AMBERHOME/..
   tar xvjf /path_to/AmberTools-1.3.tar.bz2


Of course the README_at file is inside the tar.bz2 file so this is kind of a
chicken and egg problem anyway.

3. Change directory to src. Type "./configure -help" and choose
    options for your computer. Then configure:

        ./configure gnu (example: should work for most systems)

This should be:

3. Change directory to $AMBERHOME/src. Type "./configure -help" and choose
    options for your computer. Then configure:

        cd $AMBERHOME/src
        ./configure gnu (example: should work for most systems)

 
Comments? Shall I just update the Readme in amber11 cvs tree and the at1.3
branch?

The rest appears to work okay. Everything builds correctly and the tests
pass (with 2 minor diffs) on RHEL 4 with Intel 10.1.018.

All the best
Ross

/\
\/
|\oss Walker

| Assistant Research Professor |
| San Diego Supercomputer Center |
| Tel: +1 858 822 0854 | EMail:- ross.rosswalker.co.uk |
| http://www.rosswalker.co.uk | http://www.wmd-lab.org/ |

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Received on Sat Dec 19 2009 - 04:30:02 PST
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