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CHANGELOG.md

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Change Log

All notable changes to this project will be documented in this file.

v0.3.3

Changed

  • Compiled ALICA against the latest changes to Micro-Manager.

v0.3.2

Changed

  • Bumped ImageJ version to 1.51s.
  • The real-time plot in the monitor window now displays a short description of the analyzer's output.

Fixed

  • The AlicaLogger no longer overwrites values that have already been written to the same frame number in the log.

v0.3.1

Changed

  • The API was ported for compatibility with Micro-Manager 2.0 gamma.

v0.3.0

Changed

  • The build system has been ported from Ant to Maven.

v0.2.5

Added

  • Analyzers now return a short description of their return values for y-axis labels in plots.

Modified

  • The Integrator no longer implicitly performs a background subtraction. This means that its outputs now match the result of running the Measure command on an image in ImageJ.
  • All analyzers that return densities (SpotCounter, QuickPALM, and the Integrator) return events per 100 µm^2. Previously this was per 10000 µm^2.

Fixed

  • A bug in the spot counter has been fixed that resulted missed spots in a narrow band of pixels on the right and bottom edges of an image.
  • Fixed a typo in the getName() method for the ManualController. The method now returns "Manual" instead of "Manuals".

v0.2.4

Modified

  • Added StatusPanel and blocking capabilities to the PI controller.

v0.2.3

Fixed

  • Last analysis time reporting now works for MM Core mode.

v0.2.2

Added

  • Function handles for use via BeanShell scripts

Modified

  • SpotCounter live view is now toggled during ALICA run
  • SelfTuningPI's output can be suppressed temporarily

Fixed

  • SelfTuningPI's reported P and I values in GUI

v0.2.1

Added

  • ALICA_dev.jar release
    • This release contains necessary MicroManager and ImageJ classes for extending ALICA and inclusion into SASS.
    • This replaces the ALICA_SASS.jar release.
  • Dynamic class loading now supported in SASS.
  • LEB logo

Modified

  • Dynamic loaders of Analyzers and Controllers now scan the root directory and one level of subdirectories. This allows compatibility with SASS.

v0.2.0

Added

  • Extensibility support:
    • Analyzers and Controllers can now be loaded from external jar files.
    • The jar file has to be placed in mmplugins/ folder, and begin with ALICA_.
    • Example valid filename: ALICA_MyOwnAnalyzer.jar

Modified

  • Self-tuning PI controller's calibration is now triggered manually after starting ALICA.
  • The build process now compiles a "lightweight" jar file for use with MicroManager, and also a "standalone" jar for inclusion into SASS.

TODO

  • Make dynamic loading compatible with SASS.

v0.1.2

Added

  • Colorized warning labels
  • MainGUI and MonitorGUI now switch between each other

v0.1.1

Added

  • Integrator analyzer (computes average pixel brightness in frame)

v0.1.0

Added

  • Optional Analyzer and Controller StatusPanels

v0.0.2

Added

  • Added self-tuning PI controller
  • Resolved compatibility issues which prevented adaptation to STEADIER-SAILOR
  • JAR file now contains all dependencies (downside - larger file size)

Removed

  • miniPID controller

[v0.0.1]

Added

  • CHANGELOG.md was created for tracking changes to the project.