<commit_before>Welcome to ImageJ 2.0 alpha 1

IJ2 is currently made up of both IJ1 & IJ2 plugins. IJ1 plugins are distinguished
with a small microscope icon next to their name in the menus. Commands implemented
purely in IJ2 do not have this marker.

There are a number of known issues with this release:

The memory allocated to ImageJ is fixed at 512 mb

Color is currently unsupported.
  * All images display in grayscale
  * Color images are separated into images with 3 channels

The following toolbar tools are working. Unlisted tools are not.

  * Pan (hand icon)
  * Zoom (magnifying glass icon)
  * Probe (crosshairs icon)

The Window menu is nonfunctional 

The following menu entries are working. Unlisted commands do not work.

  File menu

    * File > New
    * File > Open
    * File > Open Samples
    * File > Quit

  Edit menu

    * Edit > Undo
        (works for ImageJ 1.x commands)
    * Edit > Fill
    * Edit > Invert
    * Edit > Options
        (note that option values can be set but their values are ignored internally)

  Image menu

    * Image > Transform > Flip Horizontally
    * Image > Transform > Flip Vertically
    * Image > Transform > Rotate 90 Degrees Left
    * Image > Transform > Rotate 90 Degrees Right
    * Image > Transform > Rotate
    * Image > Transform > Translate

  Process menu

    * Smooth
    * Sharpen
    * Find Edges
    * Noise > Add Noise
    * Noise > Add Specific Noise
    * Noise > Salt and Pepper
    * Shadows
        (all commands except Shadows Demo)
    * Binary
        (all commands except:
          Convert to Mask
          Close
          Ultimate Points)
    * Math
    * FFT > FFT
    * Filters
        (all commands except Show Circular Masks)
    * Image Calculator
    * Gradient

  Analyze menu

    * Measure
    * Analyze Particles
    * Summarize
    * Distribution
    * Clear Results
    * Histogram
    * Surface Plot
    * Tools > Save XY Coordinates
    * Tools > Fractal Box Count
    * Tools > Curve Fitting
    * Tools > Scale Bar
    * Tools > Calibration Bar

  Plugins menu

    * Macros > Run
    * Macros > Edit
    * Shortcuts > List Shortcuts
    * Utilities > Control Panel
    * Utilities > ImageJ Properties
    * Utilities > Threads
    * Utilities > Capture Image
    * Utilities > Capture Screen<commit_msg>Flesh out and organize readme a bit.<commit_after>Thanks for trying ImageJ 2.0.0-alpha1!

This is an "alpha"-quality release, meaning the code is not finished, nor is
the design fully stabilized. We are releasing it for early community feedback,
and to demonstrate project directions and progress.

For this release, we have tried to model the application after ImageJ v1.x as
much as is reasonable. However, please be aware that version 2.0.0 is
essentially a total rewrite of ImageJ from the ground up. It provides backward
compatibility with older versions of ImageJ by bundling the latest v1.x code
and translating between "legacy" and "modern" image structures.

For more details, see the ImageJDev web site at:
  http://imagejdev.org/


KNOWN ISSUES
------------

There are many known issues with this release:

1) Color displays and LUTs are currently unsupported:
  * All images display in grayscale.
  * RGB color images are separated into images with 3 channels.

2) The memory allocated to ImageJ is fixed at 512 MB.

3) Most


TOOLBAR
-------

Most toolbar tools are not yet implemented, and hence grayed out.
The following tools are working:

  * Pan (hand icon)
  * Zoom (magnifying glass icon)
  * Probe (crosshairs icon)


MENUS
-----

IJ2 is currently made up of both IJ1 & IJ2 plugins. IJ1 plugins are
distinguished with a small microscope icon next to their name in the menus.
Commands implemented purely in IJ2 do not have this marker.

The following menu commands are working. Unlisted commands do not work.

  * File menu:
    - File > New
    - File > Open
    - File > Open Samples
    - File > Quit

  * Edit menu:
    - Edit > Undo
      + works for ImageJ 1.x commands
    - Edit > Fill
    - Edit > Invert
    - Edit > Options
      + option values can be set but their values are ignored internally

  * Image menu:
    - Image > Transform > Flip Horizontally
    - Image > Transform > Flip Vertically
    - Image > Transform > Rotate 90 Degrees Left
    - Image > Transform > Rotate 90 Degrees Right
    - Image > Transform > Rotate
    - Image > Transform > Translate

  * Process menu:
    - Smooth
    - Sharpen
    - Find Edges
    - Noise > Add Noise
    - Noise > Add Specific Noise
    - Noise > Salt and Pepper
    - Shadows
      + all commands except Shadows Demo
    - Binary
      + all commands except:
        * Convert to Mask
        * Close
        * Ultimate Points
    - Math
    - FFT > FFT
    - Filters
      + all commands except Show Circular Masks
    - Image Calculator
    - Gradient

  * Analyze menu:
    - Measure
    - Analyze Particles
    - Summarize
    - Distribution
    - Clear Results
    - Histogram
    - Surface Plot
    - Tools > Save XY Coordinates
    - Tools > Fractal Box Count
    - Tools > Curve Fitting
    - Tools > Scale Bar
    - Tools > Calibration Bar

  * Plugins menu:
    - Macros > Run
    - Macros > Edit
    - Shortcuts > List Shortcuts
    - Utilities > Control Panel
    - Utilities > ImageJ Properties
    - Utilities > Threads
    - Utilities > Capture Image
    - Utilities > Capture Screen


MACROS AND SCRIPTS
------------------

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