Changes between Initial Version and Version 1 of Workshops/IntroToHpc2015/VisIt


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Oct 12, 2015 4:10:02 PM (4 years ago)
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pdejesus
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  • Workshops/IntroToHpc2015/VisIt

    v1 v1  
     1[[PageOutline]]
     2= VisIt =
     3https://wci.llnl.gov/simulation/computer-codes/visit/ Visit Home Page]
     4
     5VisIt is an Open Source, interactive, scalable, visualization, animation and analysis tool. From Unix, Windows or Mac workstations, users can interactively visualize and analyze data ranging in scale from small (<10^1^ core) desktop-sized projects to large (>10^5^) leadership-class computing facility simulation campaigns. Users can quickly generate visualizations, animate them through time, manipulate them with a variety of operators and mathematical expressions, and save the resulting images and animations for presentations. VisIt contains a rich set of visualization features to enable users to view a wide variety of data including scalar and vector fields defined on two- and three-dimensional (2D and 3D) structured, adaptive and unstructured meshes. Owing to its customizable plugin design, VisIt is capable of visualizing data from over 120 different scientific data formats (see this [http://www.visitusers.org/index.php?title=Detailed_list_of_file_formats_VisIt_supports partial list]).
     6
     7== Introduction ==
     8=== Installation ===
     9* You can download executables from [https://wci.llnl.gov/simulation/computer-codes/visit/downloads here].
     10* You can download the source code and compile it. They provides a script that automatically builds VisIt with all dependent libraries.
     11
     12
     13== Execution Models ==
     14=== Stand alone  ===
     15* Basically, you install VisIt on your desktop (laptop) computer in front of you. And visualize data stored in the file system in your computer.
     16* If you ran simulations on Cypress, you have to download the results data to the local computer with 'scp' or 'rsync' command.
     17[[Image(StandAloneVisIt.png)]]
     18
     19=== Server - Client System ===
     20 * VisIt is able to visualize data stored in remote computers over the network.
     21 * You don't have to download the data into the local computer in order to visualize it.
     22 * For example:
     23    * Suppose you ran simulations on Cypress and stored results in the luster file system.
     24    * Run VisIt on the local computer and choose the remote file system when you open a data file.
     25    * VisIt program automatically runs on the remote computer and reads the data file.
     26    * You can work with VisIt as usual on the local computer.
     27 * Also you can use multiple nodes to render objects in parallel, which allow you to visualize a large data set.
     28
     29[[Image(ServerClientVisIt.png)]]
     30
     31 * You must have same major version of VisIt on both local and remote computers.
     32 * Run "VisIt" on local machine and go to "Options" -> "Host profiles…"
     33   * Click [New Host] and edit like below:
     34   * Set ''Host nickname'' as you like.   
     35   * ''Remote host name'' must be "cypress1.tulane.edu" or "cypress2.tulane.edu".
     36   * Set Path to visit installation.
     37     * Note that "/share/apps/visit/2.9.2" is where VisIt is installed on cypress. This may be changed in the future. Use "module avail" command to see which version is available on cypress.
     38     * The current version is 2.9.2 so you have to use visit 2.9.* on local machine.
     39   * Set ''Username''. This is your login ID for Cypress.
     40   * Check on ''Tunnel data connection through SSH''
     41   * Click [Apply].
     42[[Image(VisItCypress1.png, 50%)]]
     43
     44
     45==== Serial Rendering ====
     46This set up VisIt to render objects with one process.
     47 * Select on [Launch Profile] tab.
     48   * Click [New Profile] and select [Setting] tab. Give a name on ''Profile name''.
     49   * Select [Parallel] tab and check ''Launch parallel engine''.
     50   * Select [Launch] tab and set '''srun''' on ''Parallel launch method''.
     51   * Set Numbers of processors and nodes 1.
     52   * Click [Apply].
     53[[Image(VisItCypressSerial.png, 50%)]]
     54 * After setup, do not forget to save : Go to "Options" -> "Save Settings".
     55 * Once setup and saved, you don't have do this again.
     56
     57==== Parallel Rendering ====
     58This set up VisIt to render objects with multiple processes on multiple nodes.
     59 * Select on [Launch Profile] tab.
     60   * Click [New Profile] and select [Setting] tab. Give a name on ''Profile name''.
     61   * Select [Parallel] tab and check ''Launch parallel engine''.
     62   * Select [Launch] tab and set '''sbatch/mpirun''' on ''Parallel launch method''.
     63   * Set Number of processors, this is the total processors.
     64   * Set Number of nodes.
     65      * The example below sets Number of processors is 20 and Number of nodes is 2. This will use 2 nodes and 20 processes in total; 10 processes for each node.
     66[[Image(VisItCypressParallel1.png, 50%)]]
     67 * Select [Advanced] tab.
     68    * Check ''Launcher arguments''. This is the parameters for SLURM queuing system.
     69        * In the example below, requesting 64G of RAM and 10 tasks (processes) per node.
     70    * Check ''Sublauncher pre-mpi command'' and set '''module load intel-psxe/2015-update1 visit'''. This is important to launch MPI tasks.
     71[[Image(VisItCypressParallel2.png, 50%)]]
     72
     73 * After setup, do not forget to save : Go to "Options" -> "Save Settings".
     74 * Once setup and saved, you don't have do this again.
     75
     76 * To read data on cypress, "Open" and choose a Host, there must be "cypress" on the list.
     77 * You may be asked typing password every time you read data if you haven't set up passwordless ssh login.