ImageJ

ImageJ is public domain open source software. An ImageJ user has the four essential freedoms

• The freedom to run the program, for any purpose
• The freedom to study how the program works, and change it to make it do what you wish
• The freedom to redistribute copies so you can help your neighbor
• The freedom to improve the program, and release your improvements to the public, so that the whole community benefits

 

Installation

Compatible with:

 Windows

 Linux

 Mac OS X

 

1. Windows Installation

The Windows version of ImageJ is available bundled with either Java 6 or Java 8, and without Java. All versions include ImageJ.exe.

Note:  When launching ImageJ for the first time, you may get a message saying that the Java Virtual Machine (JVM) cannot be found, in which case you will need to find the javaw.exe command in the file system, at a location something like "C:\Program Files\Java\jdk8\bin\javaw.exe".

Use the Help>Update Image command to upgrade to newer versions of ImageJ

Troubleshooting

Here are some common problems encountered when running ImageJ on Windows, and their solutions:

1. ImageJ does not start.

Delete the ImageJ.cfg file in the ImageJ folder.

2. The "ImageJ" window is tiny on high-resolution screen.

Upgrade to Windows 8.1 or later, open theImageJ.exe >Properties> Compatibility panel and uncheck "Disable display scaling on high DPI settings"

3. Multiple copies of ImageJ are started when open images by double clicking on them or by dragging and dropping them on the ImageJ icon.

Enable "Run single instance listener" in Edit>Options>Misc

4. The Windows 10 Creators Update is installed and now ImageJ freezes when try to open an image.

Enable "Use JFileChooser to open/save" in Edit>Options>Input/Output.

 

2. Linux Installation

To install and run ImageJ,  download ImageJ bundled with either 32-bit or 64-bit Java, extract the ImageJ directory from the ZIP archive, change to the ImageJ directory and double click the "ImageJ" launcher

Trouble shooting:

Here are some common problems encountered when running ImageJ on Linux, and their solutions:

1. Windows are blank, or stacks are not displayed correctly on Ubuntu with compiz enabled

Disable all effects in System Preferences > Appearance > Visual Effects.

 

3. Mac OS X Installation

Download ImageJ for Mac OS X from the Download page. The ZIP file you download (Image1.xx.zip) should automatically expand to a folder named "ImageJ". Copy this folder to the Applications folder, open it, and copy ImageJ.app to the dock

Known Problems

1. The first time you run ImageJ you may get a "ImageJ can't be opened because it is from an unidentified developer" message.
2. Plugins may not be installed when running macOS 10.12 (Sierra) due to Gateway Path Randomization.
3. Text cannot be entered into dialog boxes on mac OS 10.13 (High Sierra) when ImageJ is using Java 6 

User guide will be available at (https://imagej.nih.gov/ij/docs/guide/user-guide.pdf)