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totalview

About

TotalView is a debugger and memory leak detector for high performance Linux and MAC OS/X platforms.

Versions and Availability

Softenv Keys for totalview on philip
Machine Version Softenv Key
philip 8.3.0-1 +totalview-8.3.0.1
philip 8.8.0-0 +totalview-8.8.0
▶ Softenv FAQ?

The information here is applicable to LSU HPC and LONI systems.

Shells

A user may choose between using /bin/bash and /bin/tcsh. Details about each shell follows.

/bin/bash

System resource file: /etc/profile

When one access the shell, the following user files are read in if they exist (in order):

  1. ~/.bash_profile (anything sent to STDOUT or STDERR will cause things like rsync to break)
  2. ~/.bashrc (interactive login only)
  3. ~/.profile

When a user logs out of an interactive session, the file ~/.bash_logout is executed if it exists.

The default value of the environmental variable, PATH, is set automatically using SoftEnv. See below for more information.

/bin/tcsh

The file ~/.cshrc is used to customize the user's environment if his login shell is /bin/tcsh.

Softenv

SoftEnv is a utility that is supposed to help users manage complex user environments with potentially conflicting application versions and libraries.

System Default Path

When a user logs in, the system /etc/profile or /etc/csh.cshrc (depending on login shell, and mirrored from csm:/cfmroot/etc/profile) calls /usr/local/packages/softenv-1.6.2/bin/use.softenv.sh to set up the default path via the SoftEnv database.

SoftEnv looks for a user's ~/.soft file and updates the variables and paths accordingly.

Viewing Available Packages

The command softenv will provide a list of available packages. The listing will look something like:

$ softenv
These are the macros available:
*   @default
These are the keywords explicitly available:
+amber-8                       Applications: 'Amber', version: 8 Amber is a
+apache-ant-1.6.5              Ant, Java based XML make system version: 1.6.
+charm-5.9                     Applications: 'Charm++', version: 5.9 Charm++
+default                       this is the default environment...nukes /etc/
+essl-4.2                      Libraries: 'ESSL', version: 4.2 ESSL is a sta
+gaussian-03                   Applications: 'Gaussian', version: 03 Gaussia
... some stuff deleted ...
Managing SoftEnv

The file ~/.soft in the user's home directory is where the different packages are managed. Add the +keyword into your .soft file. For instance, ff one wants to add the Amber Molecular Dynamics package into their environment, the end of the .soft file should look like this:

+amber-8

@default

To update the environment after modifying this file, one simply uses the resoft command:

% resoft

The command soft can be used to manipulate the environment from the command line. It takes the form:

$ soft add/delete +keyword

Using this method of adding or removing keywords requires the user to pay attention to possible order dependencies. That is, best results require the user to remove keywords in the reverse order in which they were added. It is handy to test out individual keys, but can lead to trouble if changing multiple keys. Changing the .soft file and issuing the resoft is the recommended way of dealing with multiple changes.

Usage

  • Compile programs with debugging enabled and optimizations turned off: -O0 -g
  • Request an interactive session, for example:
  • $ qsub -I -X -V -l walltime=4:00:00,nodes=2:ppn=8 -A allocation -q checkpt
    
  • Run a serial application with totalview
  • Run an MPI application by adding the switch -tv to the command line. For example:
  • $ mpirun_rsh -tv -np  -hostfile  
    

Here is a list of some commonly used command line options:

-a
Pass all subsequent arguments (specified by ) to your program. This option must be the last one on the command line.
-dbfork
(Default) Catches the fork(), vfork(), and execve() system calls if your executable is linked with the dbfork library.
-e
Tells TotalView to immediately execute the CLI commands named within this argument. All information you enter here is sent directly to the CLI's Tcl interpreter. More than one -e option is allowed per line. For example, the following writes a string to stdout:
cli -e 'puts hello'
-patch_area_base address
Allocates the patch space dynamically at the given address. See "Allocating Patch Space for Compiled Expressions " in Chapter 14 of the TotalView Users Guide.
-patch_area_length length
Sets the length of the dynamically allocated patch space to the specified length. See "Allocating Patch Space for Compiled Expressions" in the TotalView Users Guide.
-pid
Tells TotalView to attach to process after it starts executing.
-remote
Debugs an executable that is not running on the same machine as TotalView. For more information on the autolaunch feature, see "Setting Single Process Server Launch" in the TotalView Users Guide.
-r
Same as -remote.
-s
Specifies the path name of a startup file that will be loaded and executed.

Resources

Last modified: November 12 2014 10:07:50.