AMBER Archive (2007)

Subject: AMBER: Amber 9 source code permissions (UNCLASSIFIED)

From: Monaghan, Martin (Cont, ARL/CISD) (mmonaghan_at_arl.army.mil)
Date: Mon Oct 29 2007 - 15:30:30 CST


Classification: UNCLASSIFIED
Caveats: NONE
 
Everyone,

I've installed Amber 9 on our Linux cluster and everything has been
running great but I have a user asking about a permissions error. The
user is trying to use the script in the exe/ directory called mm_pbsa.pl
which has a line in it that points to:

use strict;
use lib ("$ENV{AMBERHOME}/src/mm_pbsa");
use mm_pbsa_global qw(@GC_PAR);

Right now the permissions are set to:

193 l5> ll
total 896
drwx--x--x 3 monaghan cta 32768 2007-10-29 16:02 .
drwx--x--x 25 monaghan cta 32768 2007-08-15 11:40 ..
drwx--x--x 8 monaghan cta 32768 2006-04-03 21:33 Examples
-rwx--x--x 1 monaghan cta 23312 2006-04-03 19:35 make_crd_hg.f
-rwx--x--x 1 monaghan cta 1896 2006-04-03 19:35 Makefile
-rwx--x--x 1 monaghan cta 16904 2006-04-03 19:35
mm_pbsa_calceneent.pm
-rwx--x--x 1 monaghan cta 1650 2006-04-03 19:35
mm_pbsa_createcoords.pm
-rwx--x--x 1 monaghan cta 16458 2006-04-03 19:35
mm_pbsa_createinput.pm
-rwx--x--x 1 monaghan cta 2677 2006-04-03 19:35 mm_pbsa_global.pm
-rwx--x--x 1 monaghan cta 992 2006-04-03 19:35 mm_pbsa_output.txt
-rwx--x--x 1 monaghan cta 2146 2006-04-03 19:35 mm_pbsa.pl
-rwx--x--x 1 monaghan cta 16044 2006-04-03 19:35 mm_pbsa_readinput.pm
-rwx--x--x 1 monaghan cta 1036 2006-04-03 19:35
mm_pbsa_statistics.pl
-rwx--x--x 1 monaghan cta 54314 2006-04-03 19:35
mm_pbsa_statistics.pm
-rwx--x--x 1 monaghan cta 2183 2006-04-03 19:35 mm_pbsa_util.pm
-rwx--x--x 1 monaghan cta 241211 2006-04-03 19:35 molsurf.c
-rwx--x--x 1 monaghan cta 10140 2006-04-03 19:35 molsurf.h

I don't want to have the source code open to the users and not break the
license agreement so would it be best to set every file but the fortran
and C files to 755?

thanks

Marty Monaghan
Raytheon
ARL-MSRC
410-278-7457
 
Classification: UNCLASSIFIED
Caveats: NONE

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