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"CENTER Old File Removal" on linuxws

Last Updated: Tue, 17 Dec 2013 -
Machines: linuxws pacman fish
CENTER Old File Removal Begins 01/08/2014
========================================
On January 08, 2014 ARSC will begin automatically deleting old files
residing on the $CENTER filesystem.  The automatic tool will run
weekly and will target files older than 30 days.  The complete
policy describing this old file removal is available online:
http://www.arsc.edu/arsc/support/policy/#storagePolicies

In preparation for the activation of the automated file
removal tool, files targeted for removal will be listed in a
/center/w/purgeList/username directory and viewable by the individual
file owners. This file listing is an estimation only - files may be
deleted despite failing to appear in this listing.

Note: Modification of file timestamp information, data, or metadata
for the sole purpose of bypassing the automated file removal tool
is prohibited.

Users are encouraged to move important but infrequently used
data to the intermediate and long term $ARCHIVE storage
filesystem. Recommendations for optimizing $ARCHIVE file
storage and retrieval are available on the ARSC website:
http://www.arsc.edu/arsc/knowledge-base/long-term-storage-best-pr/index.xml

Please contact the ARSC Help Desk with questions regarding the
automated deletion of old files in $CENTER.

"LDAP Passwords" on linuxws

Last Updated: Mon, 20 May 2013 -
Machines: linuxws pacman bigdipper fish
    
How to update your LDAP password 
========================================

User authentication and login to ARSC systems uses University 
of Alaska (UA) passwords and follows the LDAP protocol to connect to
the University's Enterprise Directory.  Because of this, users must
change their passwords using the UA Enterprise tools.

While logging into ARSC systems, if you see the following message,
please change your password on https://elmo.alaska.edu

  Password: 
  Your are required to change your LDAP password immediately.
  Enter login(LDAP) password:

Attempts to change your password on ARSC systems will fail.

Please contact the ARSC Help Desk if you are unable to log into
https://elmo.alaska.edu to change your login password.

  

"compilers" on linuxws

Last Updated: Wed, 21 Jun 2006 -
Machines: linuxws
Compilers
========================================
The ARSC Linux Workstations have two suites of compilers available:

* The GNU Compiler suite version 4.0 including:
  - gcc  C compiler
  - g++  C++ compiler
  - gfortran  Fortran 95 compiler

* The Portland Group (PGI) compiler suite version 6.1 including:
  - pgcc C compiler 
  - pgCC C++ compiler
  - pgf90 Fortran 90 compiler
  - pgf95 Fortran 95 compiler


The PGI compilers require several environment variables to be set: 

For ksh/bash users:
===================
export PGI=/usr/local/pkg/pgi/pgi-6.1
pgibase=${PGI}/linux86-64/6.1 
export PATH=$PATH:${pgibase}/bin
if [ -z "$MANPATH" ]; then
    export MANPATH=${pgibase}/man
else
    export MANPATH=${pgibase}/man:$MANPATH
fi
if [ -z "$LD_LIBRARY_PATH" ]; then
    export LD_LIBRARY_PATH=${pgibase}/lib
else
    export LD_LIBRARY_PATH=${pgibase}/lib:$LD_LIBRARY_PATH
fi
unset pgibase

For csh/tcsh users:
===================
setenv PGI /usr/local/pkg/pgi/pgi-6.1/
set pgibase=${PGI}/linux86-64/6.1
setenv PATH ${PATH}:${pgibase}/bin
if ( ! ${?MANPATH} ) then
    setenv MANPATH ${pgibase}/man
else
    setenv MANPATH ${pgibase}/man:${MANPATH}
endif
if ( ! ${?LD_LIBRARY_PATH} ) then
    setenv LD_LIBRARY_PATH ${pgibase}/lib
else
    setenv LD_LIBRARY_PATH ${pgibase}/lib:${LD_LIBRARY_PATH} 
endif   

unset pgibase

"modules" on linuxws

Last Updated: Mon, 28 Dec 2009 -
Machines: linuxws pacman
Using the Modules Package
=========================

The modules package is used to prepare the environment for various 
applications before they are run.  Loading a module will set the 
environment variables required for a program to execute properly.  
Conversely, unloading a module will unset all environment variables 
that had been previously set.  This functionality is ideal for 
switching between different versions of the same application, keeping 
differences in file paths transparent to the user.

The following modules commands are available:

module avail                - list all available modules
module load {pkg}           - load a module file from environment
module unload {pkg}         - unload a module file from environment
module list                 - display modules currently loaded
module switch {old} {new}   - replace module <old> with module <new>
module purge                - unload all modules

Before the modules package can be used in a script, its init file may
need to be sourced.

On pacman, to do this using tcsh or csh, type:

   source /etc/profile.d/modules.csh

On pacman, to do this using bash, ksh, or sh, type:

   . /etc/profile.d/modules.sh



Known Issues:
=============

2009-09-24  Accounts using bash that were created before 9/24/2009
            are missing the default ~/.bashrc file.  This may cause
            the module command to be unavailable in some instances.

            Should you experience this issue run the following:

            # copy the template .bashrc to your account.
            [ ! -f ~/.bashrc ] && cp /etc/skel/.bashrc ~

            If you continue to experience issues, please contact the 
            ARSC Help Desk.

"software" on linuxws

Last Updated: Tue, 17 Feb 2009 -
Machines: linuxws
Software on Linuxws
========================================
    matlab: matlab-R2012a  (2012-12-07)
        Matlab version R2012a is now available to UAF users via modules:
             module load matlab/R2012a

    comsol: comsol-4.3a (2012-12-07)
        The newest comsol release is now available to UAF users via modules:
             module load comsol/4.3a

    R: R-2.15.0 and R-2.15.1 (2012-08-03)
        The two newest releases of R are now available.
        Load the module to access your preferred version:
             module load r/2.15.0
             module load r/2.15.1

    totalview: totalview-8.10.0-0 (2012-05-23)
        The newest release of the Totalview Debugger is now available with
        CUDA support.  Load the module to access the newest version:
             module load totalview/8.10.0-0

    python: python-2.7.2 (2012-04-20)
        Version 2.7.2 of python is now available via modules
             module load python/2.7.2

    idl/envi: idl-8.1 (2012-02-10)
        Idl/envi version 8.1 is now available via modules
             module load idl/8.1

    comsol: comsol-4.2a.update2 (2012-01-13)
        The newest comsol release is now available via modules
             module load comsol/4.2a.update2

    totalview: totalview.8.9.1-0 (2011-12-08)
        Totalview Debugger version 8.9.1-0 is now available on the linux  
        workstations.  Launch the softwar by first loading the module:
             module load totalview/8.9.1-0 

    matlab: matlab-R2011b  (2011-12-06)
        Matlab version R2011b is now available to UAF users and 
        can be loaded via modules:
             module load matlab/R2011b

    R: R version 2.13.2 (2011-11-28)
        A newer version is now available via modules:
             module load r/2.13.2

    comsol: comsol-4.2a (2011-11-02)
        The newest comsol release is now available via modules
             module load comsol/4.2a

    automake: automake-1.11.1 (2011-11-01)
           Automake version 1.11.1 has been installed in the following location:
             /usr/local/pkg/automake/automake-1.11.1/bin

    autoconf: autoconf-2.68 (2011-11-01)
           Autoconf version 2.68 has been installed in the following location:
             /usr/local/pkg/autoconf/autoconf-2.68/bin

    visit: visit 2.3.2 (2011-10-17)
           Visit 2.3.2 is now available available on Linux Workstation 
           via modules:
             module load visit/2.3.2

    ncl: ncl 6.0.0 (2011-10-17)
           NCL 6.0.0 is now available available on Linux Workstation 
           via modules:
             module load ncl/6.0.0 

    ncview: ncview 2.0 (2011-07-19)
        Ncview version 2.0 is now available via modules
             module load ncview/2.0

    abaqus: abaqus 6.11 (2011-07-19)
        The newest abaqus release is now available via modules
             module load abaqus/6.11

    comsol: comsol-4.2 (2011-06-08)
        The new comsol release is now available via modules
             module load comsol/4.2

    matlab: matlab-7.10.0 (R2010a)  (2010-10-20)
        Matlab 7.10.0 is now available to UAF users.  A module is 
        available for this software and can be loaded with:
                module load matlab-7.10.0
        After loading the module, type 'matlab' at the prompt
        to open a new matlab session.

    mexnc:  mexnc-r3240 (aka mexcdf)  (2010-10-07)
        Mexnc/mexcdf is now available.  To use this software
        with matlab, first load the matlab-7.8.0 module
        then enter the following at the matlab prompt:
        addpath /usr/local/pkg/mexnc/mexcdf-r3240/mexnc

    comsol: comsol-4.0a (2010-09-20)
	The newest version of comsol is now available in
	/usr/local/pkg/comsol/comsol-4.0a. 

    idl: idl-7.1 (2010-05-17)
        idl 7.1 is now available on the linux workstations.  A
        module is available as idl-7.1 for use.

    gsl: gsl-1.13 GNU Scientific Library 1.13 (2010-01-14)
        The newest version of GSL is now available.  This version
        was compiled using the GNU compiler and is now available
        on the Workstations in the following location:
        /usr/local/pkg/gsl/gsl-1.13/

    pgi: pgi-9.0.4 (2010-01-11)
        The pgi 9.0.4 compiler is now available via the
        pgi-9.0.4 module.

    paraview: paraview-3.6.2 (2010-01-11)
        Paraview 3.6.2 is now available via the paraview-3.6.2
        module.

    vapor: vapor-1.5.0 (2009-10-21)
        Vapor 1.5.0 is now available via the vapor-1.5.0 module.

    paraview: paraview-3.6.1 (2009-10-20)
        Paraview 3.6.1 is now available via the paraview-3.6.1
        module.

    idv: idv-2.7u2 (2009-10-20)
        idv 2.7 update 2 is now available via the idv-2.7u2 module.

    subversion: subversion-1.6.3 (2009-09-03)
        The latest version of subversion is available via the
        subversion-1.6.3 module.

    google-earth: google-earth-5.0 (2009-08-31)
        Google Earth 5.0 is now available on the Workstations in the
        following location:
        /usr/local/pkg/google-earth/google-earth-5.0

    ncl: ncl-5.1.1 (2009-08-05)
        The latest version of ncl is now available via the "ncl-5.1.1"
        module.

    git: git-1.6.1.3 (2009-07-28)
	git 1.6.1.3 is now available. This package is available
	by loading the "git-1.6.1.3" module.

    abaqus: Abaqus 6.9 (2009-07-09)
        Abaqus 6.9 is now available.  This package is available
        by loading the "abaqus-6.9" module.

    matlab: matlab-7.8.0 (2009-06-19)
        Matlab 7.8.0 is now available.  A module is 
        available for this software and can be loaded with:
                module load matlab-7.8.0
        After loading the module, type 'matlab' at the prompt
        to open a new matlab session.

    cmake: cmake-2.6.4 
        The latest version of cmake is available via the cmake-2.6.4 
        module.    

    blender: blender-2.48a
	Blender 2.48a is now available on the Workstations.  It is 
	available in a module, as blender-2.48a

    avizo: avizo-6.0 (2009-04-30)
	Avizo 6.0 is now available in the following directory:
	/usr/local/pkg/avizo/avizo60

    visit: visit-1.11.2 (2009-04-29)
	VisIt 1-11.2 is now available via the "visit-1.11.2" module.

    ncl: ncl-5.1.0 (2009-04-29)
        The latest version of ncl is now available via the "ncl-5.1.0"
        module.

    paraview: paraview-3.4.0 (2009-03-10)
	Paraview 3.4.0 is now available. It can be accessed with the
	paraview-3.4.0 module file and is located in the
	/usr/local/pkg/paraview/paraview-3.4.0 directory.

    visit: visit-1.11.1 (2009-03-02)
	VisIt is now available in /usr/local/pkg/visit/visit-1.11.1
	Module files are available as both "visit" and "visit-1.11.1"

    comsol: comsol-3.5a (2009-02-06)
	The newest version of comsol is now available in
	/usr/local/pkg/comsol/comsol-3.5a.  This version appears
	to resolve the previous errors when starting the software.

    matlab: matlab-7.7.0 (2009-02-05)
        The latest version of Matlab is available for 
        use by loading the matlab-7.7.0 module.  
	
    matlab: matlab-7.6.0 (2008-07-24)
        The latest version of Matlab is available for 
        use by loading the matlab-7.6.0 module.  
	
    paraview: paraview-3.0.2 (2007-09-19)
	Paraview version 3.0.2 has been installed into
	/usr/local/pkg/paraview/paraview-3.0.2.  It is 
	available via a module (paraview-3.0.2).

    acml: acml-3.6.0 & acml-4.0.0 AMD Core Math Library (2007-09-14)
	The ACML has been installed and is available in
	/usr/local/pkg/acml. The following versions were installed:
		acml-3.6.0.gcc
		acml-3.6.0.pgi
		acml-4.0.0.gcc
	These libraries are available as of Sep 14th, 2007 and
	the current link was set to point to acml-3.6.0.gcc.

    idv: idv-2.2: Integrated Data Viewer (2007-07-28)
        The new version of idv(2.2) has been installed
        in /usr/local/pkg/idv/idv-2.2 and will be made
        the default version on July 12th, 2007.

"storage" on linuxws

Last Updated: Mon, 19 Jun 2006 -
Machines: linuxws
Linux Workstation Storage
========================================
The environment variables listed below represent paths.  They are
expanded to their actual value by the shell, and can be used in commands
(i.e. ls $ARCHIVE).  From the command prompt the value and the variable
are usually interchangeable. 

In the listing below, $USER is an environment variable holding your
ARSC username.

   
  Filesystem     Purpose                 Purged   Backed Up   Quota
  -------------  ----------------------  -------  ----------  ------
  $HOME          shared filesystem       No       Yes         4 GB
   
  $SCRATCH       temp filesystem         Yes      No          None (1) 
          
  $CENTER        temp filesystem         Yes      No          750 GB
   
  $ARCHIVE       long term storage       No       Yes         None
  $ARCHIVE_HOME  
  
  
  NOTES:
  (1) Use is limited by the available space on the disk. 
 

  Environment Variable Definitions
  =================================

  Variable        Definition
  --------------  ---------------------
  $HOME           /u1/uaf/$USER  
  $SCRATCH        /scratch/$USER
  $CENTER         /center/w/$USER
  $ARCHIVE        /archive/$HOME
  $ARCHIVE_HOME   /archive/$HOME


-- Home directories are intended primarily for basic account info
   (e.g.  dotfiles). Please use $SCRATCH (your /scratch/$USER directory)
   for compiles, inputs, outputs, etc.
   
   *  The 'quota' command will show quota information for your $HOME
      directory.  

-- The $SCRATCH directories are local to each machine.  
   When moving to another machine you will also need to move
   your files. This file system not backed up, files not accessed in
   over 30 days are purged (deleted).


-- Your $SCRATCH directory is not created by default.  If one does
   not exist on the machine you are using, type 'mkdir $SCRATCH' to
   create one.


-- Purging: Files not accessed in over 30 days in $SCRATCH or $CENTER
   directories are purged, and these directories are not backed up.
   Please store what you want to keep in $ARCHIVE.


-- Long-term backed up storage is only available in your $ARCHIVE
   directory.  As this is an NFS-mounted filesystem from bigdipper, 
   files will be temporarily unavailable when bigdipper is taken down 
   for maintenance.  I/O performance in this directory may be much 
   slower.  Compiles and runs in $ARCHIVE are prohibited.


See http://www.arsc.edu/arsc/resources/storage-resources/index.xml for more information on storage policies at ARSC.


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