Microscopy Image Browser Installation

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Contents

Run Microscopy Image Browser under Matlab environment

  1. Download Matlab distribution of the program (im_browser.zip)
  2. Unzip and copy im_browser files to im_browser directory in your Scripts folder. For example, c:\Matlab\Scripts\im_browser\
  3. Start Matlab
  4. Add im_browser starting directory (for example, c:\Matlab\Scripts\im_browser\) into Matlab path Matlab->Home tab->Set path...->Add folder...->Save, or alternatively use the pathtool function from Matlab command window
  5. Type im_browser in the matlab command window and hit the enter button to start the program
  6. Check System Requirements for further details about optional steps, such as use of Fiji, OMERO or use of DIPlib filters.
  7. Access help and tutorials from the menu of im_browser: im_browser->Menu->Help->Help

Run Microscopy Image Browser as standalone (Windows, x64 bit)

  1. Download standalone distribution of the program (im_browser_distrib.zip). Please note the version of Matlab (Matlab 8.4 (R2014b) for MIB version 0.998 and newer, or Matlab 8.1 (R2013a) for MIB version 0.997 and older) for which it was compiled
  2. Download and install MATLAB Compiler Runtime (MCR) that is compatible with the downloaded release of MIB
  3. Unzip im_browser_distrib.zip
  4. Start the file browser (Computer) and navigate to the directory where im_browser was unzipped (see image below). Type cmd.exe in the command line of the file browser to start the command prompt. Now the command prompt should start in the im_browser directory
  5. Start im_browser by typing MIB.exe
  6. It may take a while for program to start in this mode
  7. Access help and tutorials from the menu of MIB: im_browser->Menu->Help->Help

Note! If you want to use Fiji or Omero with the deployed version of im_browser you need to check java_path.txt file in the directory of im_browser.exe. Please modify this file and set correct path to your Fiji application and Omero Java libraries. See more about Fiji in the Fiji: Volume rendering and connection section

Run Microscopy Image Browser as standalone (MacOS, x64 bit)

Tested with Mac OS X (Yosemite), version 10.10.3 and Matlab version 8.4 (R2014b).

  1. Download standalone distribution of the program for Mac OS (im_browser_distrib_mac.zip). Please note the version of Matlab (Matlab 8.4 (R2014b) for MIB version 0.998 and newer) for which it was compiled
  2. Download and install MATLAB Compiler Runtime (MCR) that is compatible with the downloaded release of MIB
  3. Unzip im_browser_distrib_mac.zip to ./Users/[YourUserName]/Documents/MIB. Note! MIB will only work from this directory!
  4. Start im_browser by double click on ./Users/[YourUserName]/Documents/MIB/MIB_Mac.app using the Finder application
  5. It may take a while for program to start in this mode
  6. Access help and tutorials from the menu of MIB: im_browser->Menu->Help->Help

Note! If you want to use Fiji or Omero with the deployed version of im_browser you need to check java_path.txt file in the directory of im_browser.exe. Please modify this file and set correct path to your Fiji application and Omero Java libraries. See more about Fiji in the Fiji: Volume rendering and connection section

Additional info

im_browser stores its configuration parameters:

The configuration file is automatically created after closing of im_browser.

If im_browser does not start check Matlab path and/or delete c:\tmp\im_browser.mat file.

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