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NSR Physiome course: August 23-27, 2010, University of Washington

Served by Gloin.

Installing JSim on Mac OS X

JSim's Macintosh distribution runs on both Intel-based and PowerPC-based Macs under OS X.

Some versions of Mac OS X Leopard (10.5.X) for 64-bit computers have a bug that disables the double-click JSim launch in JSim 1.6.90 and below. If you experience this problem, please download the most recent version of JSim and try again. If this new version does not work, please let us know.

  1. Download the appropriate JSim zip archive. Providing the following information will help us demonstrate JSim's continued utility to the funding agencies upon which we rely. Filling out this form will not result in your addition to any mailing lists. However, if you wish to be added to the JSim mailing list, please contact us.

    Name:
    Email:
    Institution:

    JSim is free for non-commercial use. View complete license terms

  2. You should now find a folder called JSim_macos on your desktop.
  3. To run JSim, open the JSim_macos folder and double-click on the JSim application icon to launch JSim. If double-click launch does not work, see paragraph above.

    You may rename the JSim_macos folder and/or move it to another location, such as the Applications folder or the Applications folder within your Home folder. You may also create an alias for the JSim application. However, do not move the application out of the JSim_macos folder. The JSim application functions only if it is kept within this folder. Also, do not rename any of the folders within the JSim-Mac folder.

    If you do not find the JSim_macos folder on your desktop, check the configuration of your browser. If you use Safari , you can find where downloaded files are saved by choosing Preferences from the Safari menu and clicking General. The Open "safe" files after downloading box has to be checked. If it is not, you should find a file named JSim_macos.zip; double-click on its icon to create the JSim_macos file.

  4. Most Macintosh users do not require running JSim from the command-line, which requires some additional setup. If you do, do as follows (familiarity with Unix is assumed). Inside your installation directory, the sub-directory macos/bin contains the various programs in the JSim suite:

    • jsim : the JSim GUI application;
    • jsbatch : the JSim text-based batch application;
    • jsfim : command-line based functional imaging application;
    • jsserver : the JSim remote server computational engine.

    You should either add this sub-directory to your PATH or copy the program suite to a path-searchable directory on your system. You must also set the environment variable JSIMHOME to the absolute path JSim.app/Contents/Resources (to the absolute path of JSim_macos for version 1.6.93 and lower) before starting one of these program. Consult a Unix tutorial (for example, here) to learn how to set environment variables.

  5. Optional advanced administration:

Sending us your Software Update Log File

If you're running JSim version 1.6.86 and are still experiencing JSim double-click launch problems described above, please follow the instructions below:

  1. Apple Symbol > About This Mac > More Info > Software > Logs > Software Update.log
  2. Click in the text window (lower right). Type Command-A to select all text. Type Command-C to copy text into copy/paste buffer.
  3. Open any text edit or mail application and paste in the previously copied text.
  4. Mail to the JSim technical contact.
  5. Thanks!

[This page was last modified 19May10, 10:26 am.]

Model development and archiving support at physiome.org provided by the following grants: NIH/NHLBI T15 HL88516-01 Modeling for Heart, Lung and Blood: From Cell to Organ, 4/1/07-3/31/11; NSF BES-0506477 Adaptive Multi-Scale Model Simulation, 8/15/05-7/31/08; NIH/NHLBI R01 HL073598 Core 3: 3D Imaging and Computer Modeling of the Respiratory Tract, 9/1/04-8/31/09; as well as prior support from NIH/NCRR P41 RR01243 Simulation Resource in Circulatory Mass Transport and Exchange, 12/1/1980-11/30/01 and NIH/NIBIB R01 EB001973 JSim: A Simulation Analysis Platform, 3/1/02-2/28/07.