#
# ChangeLog for trunk/projects
# 
# Generated by Trac 0.12.2
# 12/09/19 10:20:24
 
Fri, 27 May 2011 20:41:43 GMT hinerm [7714]
	* trunk/projects/cppwrap-maven-plugin/pom.xml (modified)

	Added contributor line to cppwrap


Fri, 27 May 2011 20:41:19 GMT hinerm [7713]
	* trunk/projects/jar2lib/deploy_jar.sh (added)
	* trunk/projects/jar2lib/pom.xml (modified)
	* trunk/projects/jar2lib/src/main/resources/CMakeLists.vm (modified)
	* trunk/projects/jar2lib/src/main/resources/project-files/jtools (added)
	* trunk/projects/jar2lib/src/main/resources/project-files/jtools/include (added)
	* trunk/projects/jar2lib/src/main/resources/project-files/jtools/include/javaTools.h (added)
	* trunk/projects/jar2lib/src/main/resources/project-files/jtools/source (added)
	* trunk/projects/jar2lib/src/main/resources/project-files/jtools/source/javaTools.cxx (added)

	Added jtools library to jar2lib

	jtools will allow users of jar2lib ...


Thu, 26 May 2011 21:04:51 GMT hinerm [7712]
	* trunk/projects/jar2lib/src/main/resources/project-files/include/jace.h (modified)

	Removed IOException and Hashtable from jace.h.

	These are now included ...


Thu, 26 May 2011 20:54:31 GMT hinerm [7711]
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)

	Updated cppwrap to allow additions of core Java files and extra CMake ...


Mon, 23 May 2011 23:10:41 GMT aivar [7710]
	* trunk/projects/slim-curve/src/main/c/EcfUtil.c (modified)

	Work in progress.


Mon, 23 May 2011 16:20:26 GMT hinerm [7709]
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/VelocityAutogen.java (modified)
	* trunk/projects/jar2lib/src/main/resources/CMakeLists.vm (modified)

	Updated Jar2Lib to automatically package jars

	 Fix for ticket #172
	  ...


Sat, 21 May 2011 03:24:58 GMT aivar [7708]
	* trunk/projects/slim-curve/src/main/c/EcfInternal.h (modified)
	* trunk/projects/slim-curve/src/main/c/EcfSingle.c (modified)
	* trunk/projects/slim-curve/src/main/c/EcfUtil.c (modified)
	* trunk/projects/slim-curve/src/main/c/ecf.h (modified)

	Work in progress.  Working on GCI_marquardt_compute_fn, code is ...


Thu, 19 May 2011 17:02:07 GMT hinerm [7707]
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/resources/jace-header.vm (modified)

	Added support for custom core class lists in Jar2Lib

	Jar2Lib can now ...


Sat, 14 May 2011 03:54:42 GMT aivar [7706]
	* trunk/projects/slim-curve/Environment Variables to compile SLIMCurve C code in Maven using MSVC 2008.txt (modified)
	* trunk/projects/slim-curve/pom.xml (modified)
	* trunk/projects/slim-curve/src/main/c/EcfGlobal.c (modified)
	* trunk/projects/slim-curve/src/main/c/EcfInternal.h (modified)
	* trunk/projects/slim-curve/src/main/c/EcfSingle.c (modified)
	* trunk/projects/slim-curve/src/main/c/EcfUtil.c (modified)

	Changed GCI_gauss_jordan to be GCI_solve and GCI_invert.  The current ...


Fri, 22 Apr 2011 15:22:34 GMT hinerm [7705]
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)

	Added -extras command to Jar2Lib

	  Usage: -extras <path to ...


Sat, 16 Apr 2011 05:07:47 GMT aivar [7704]
	* trunk/projects/slim-plugin/pom.xml (modified)

	Classifiers for 32/64 Windows and PPC/32/64 OSX.  Linux is commented
	out ...


Sat, 16 Apr 2011 05:06:51 GMT aivar [7703]
	* trunk/projects/slim-plugin/assembly-descriptor.xml (modified)

	The maven nar plugin aol for 64-bit windows is amd64-Windows-msvc.


Sat, 16 Apr 2011 03:10:06 GMT aivar [7702]
	* trunk/projects/slim-curve/Environment Variables to compile SLIMCurve C code in Maven using MSVC 2008.txt (modified)

	Updated to include Windows 7 64-bit.


Sat, 16 Apr 2011 01:22:24 GMT aivar [7701]
	* trunk/projects/slim-plugin/assembly-descriptor.xml (modified)

	Add complete set of "fileSet" tags.


Thu, 14 Apr 2011 02:34:06 GMT aivar [7700]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Removed IJ.log debugging message.


Thu, 14 Apr 2011 02:32:19 GMT aivar [7699]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)

	Removed IJ.log debugging message.


Wed, 13 Apr 2011 22:52:59 GMT aivar [7698]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Removed IJ.log debugging message.


Wed, 13 Apr 2011 22:38:57 GMT aivar [7697]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/UserInterfacePanel.java (modified)

	Was using a listener w/o checking for null value first.


Wed, 13 Apr 2011 22:38:27 GMT aivar [7696]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)

	Getting the quit button to work correctly.


Wed, 13 Apr 2011 18:33:41 GMT aivar [7695]
	* trunk/projects/slim-curve/src/main/c/loci_curvefitter_SLIMCurveFitter.c (modified)

	Bug: was substituting z for a!


Wed, 13 Apr 2011 01:28:53 GMT aivar [7694]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Enable the old System.loadLibrary JNA version as well as the new ...


Tue, 12 Apr 2011 20:16:15 GMT aivar [7693]
	* trunk/projects/slim-curve/src/main/c/loci_curvefitter_SLIMCurveFitter.c (modified)
	* trunk/projects/slim-curve/src/main/c/loci_curvefitter_SLIMCurveFitter.h (modified)

	Include file method signatures weren't up to date.  The c file needed
	to ...


Tue, 12 Apr 2011 01:32:36 GMT aivar [7692]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Changes to get JNI working (vs JNA).  Currently has both versions ...


Tue, 12 Apr 2011 00:38:53 GMT aivar [7691]
	* trunk/projects/slim-curve/src/main/c/jni.h (added)
	* trunk/projects/slim-curve/src/main/c/jni_md.h (added)
	* trunk/projects/slim-curve/src/main/c/loci_curvefitter_SLIMCurveFitter.c (added)
	* trunk/projects/slim-curve/src/main/c/loci_curvefitter_SLIMCurveFitter.h (added)

	Changes to get JNI working (vs JNA).


Sat, 09 Apr 2011 01:11:13 GMT aivar [7690]
	* trunk/projects/slim-plugin/assembly-descriptor.xml (modified)
	* trunk/projects/slim-plugin/pom.xml (modified)

	Added default profile to build default jar and "with-dependencies" ...


Sat, 09 Apr 2011 01:07:49 GMT aivar [7689]
	* trunk/projects/curve-fitter/pom.xml (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Added default profile to build default jar and "with-libs" profile to ...


Fri, 08 Apr 2011 02:36:46 GMT aivar [7688]
	* trunk/projects/slim-plugin/pom.xml (modified)

	Disabled maven-nar-plugin functionality.


Fri, 08 Apr 2011 02:28:19 GMT aivar [7687]
	* trunk/projects/curve-fitter/pom.xml (modified)

	Disabled maven-nar-plugin functionality.


Fri, 08 Apr 2011 02:14:48 GMT aivar [7686]
	* trunk/projects/curve-fitter/pom.xml (modified)

	Added dependency to ij (strange that it built on my system without).


Fri, 08 Apr 2011 02:06:56 GMT aivar [7685]
	* trunk/projects/curve-fitter/pom.xml (modified)

	I had a slim-curve-1.0-SNAPSHOT.jar in my local repository, Hudson ...


Fri, 08 Apr 2011 01:46:20 GMT aivar [7684]
	* trunk/projects/slim-plugin/assembly-descriptor.xml (added)
	* trunk/projects/slim-plugin/pom.xml (modified)
	* trunk/projects/slim-plugin/src/main/resources/plugins.config (modified)

	Build one big happy jar with native shared libraries.


Fri, 08 Apr 2011 01:42:59 GMT aivar [7683]
	* trunk/projects/curve-fitter/assembly-descriptor.xml (added)
	* trunk/projects/curve-fitter/pom.xml (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Display critical messages with IJ.log.  New style of using ...


Thu, 07 Apr 2011 21:53:04 GMT aivar [7682]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/ThreeColorColorize.java (modified)

	Fit parameters that were fixed were always displayed as black.


Thu, 07 Apr 2011 21:52:44 GMT aivar [7681]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/FiveColorColorize.java (modified)

	Fit parameters that were fixed were always displayed as black.


Mon, 04 Apr 2011 18:01:28 GMT curtis [7680]
	* trunk/projects/slim-plugin/pom.xml (modified)

	Update ImgLib references to use imglib1.


Sat, 02 Apr 2011 01:01:14 GMT aivar [7679]
	* trunk/projects/slim-curve/Environment Variables to compile SLIMCurve C code in Maven using MSVC 2008.txt (added)

	Added text document that describes how to build the project under ...


Sat, 02 Apr 2011 01:00:35 GMT aivar [7678]
	* trunk/projects/slim-curve/src/main/c/EcfWrapper.c (modified)

	Visual Studio 2008 when called from Maven wants C89 syntax, not C99.


Mon, 28 Mar 2011 21:36:48 GMT aivar [7677]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/GrayScaleImage.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/IGrayScaleImage.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/MyStackWindow.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)

	Fixed array out of bounds when grayscale image is zoomed and you
	click ...


Sat, 26 Mar 2011 20:18:44 GMT curtis [7676]
	* trunk/projects/slim-plugin/pom.xml (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ImageUtils.java (added)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/MyStackWindow.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/VisADAnalysisPlugin.java (modified)

	Eliminate dependencies on old IJ2 projects.


Sat, 26 Mar 2011 01:25:53 GMT aivar [7675]
	* trunk/projects/slim-curve/src/main/c/EcfGlobal.c (modified)
	* trunk/projects/slim-curve/src/main/c/EcfInternal.h (modified)
	* trunk/projects/slim-curve/src/main/c/EcfSingle.c (modified)

	Got rid of the global old_chisquare, it's passed in as a parameter
	now.  ...


Sat, 26 Mar 2011 01:19:17 GMT aivar [7674]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/DecayGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/Excitation.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ExcitationFileHandler.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/GrayScaleImage.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationPanel.java (modified)

	CurveFitData needs to keep track of how many pixels went into each
	data ...


Sat, 26 Mar 2011 01:18:24 GMT aivar [7673]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/AbstractCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/CurveFitData.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/ICurveFitData.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/ICurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	CurveFitData needs to keep track of how many pixels went into each
	data ...


Fri, 25 Mar 2011 03:04:01 GMT aivar [7672]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/CursorHelper.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/DecayGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationPanel.java (modified)

	Loading/using IRFs.  Estimate decay cursors.


Thu, 24 Mar 2011 01:28:55 GMT aivar [7671]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/CursorHelper.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/DecayGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/Excitation.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ExcitationFileHandler.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IUserInterfacePanelListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/UserInterfacePanel.java (modified)

	Moved loading an Excitation and setting up the ExcitationPanel to ...


Thu, 24 Mar 2011 01:23:22 GMT aivar [7670]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/CurveFitData.java (modified)

	Removed set/getFree from CurveFitData.  This info is invariant per ...


Wed, 23 Mar 2011 02:13:58 GMT aivar [7669]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Don't clobber fixed parameters when doing an RLD to be followed by an ...


Tue, 22 Mar 2011 22:06:13 GMT curtis [7668]
	* trunk/check-links.pl (added)
	* trunk/legacy/jvmlink/src/main/java/loci/jvmlink/ConnThread.java (modified)
	* trunk/legacy/jvmlink/src/main/java/loci/jvmlink/JVMLinkServer.java (modified)
	* trunk/legacy/multi-lut/src/main/java/loci/apps/MultiLUT.java (modified)
	* trunk/projects/EJBHessianFHT/test/org/imagejdev/beans/FHTEJBEndpointTest.java (modified)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/AbstractCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/AkutanCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/CurveFitData.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/GrayCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/GrayNRCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/MarkwardtCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/AbstractPipelineProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/IPipelineProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/IProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/IPropertyCollection.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/PropertyCollection.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/CutTilesProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/DeepZoomExporter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/ScaleInHalfProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/ImageWrapper.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/ItemWrapper.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/CutTilesProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/DeepZoomExporter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/ScaleInHalfProcessor.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/Detector.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/FlowCytometry.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/Particle.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/ClassList.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/FixProxies.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/StringReplace.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/VelocityAutogen.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/VelocityException.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/VelocityTools.java (modified)
	* trunk/projects/loci-checks/src/main/java/loci/checks/About.java (modified)
	* trunk/projects/loci-checks/src/main/java/loci/checks/BlankLinesCheck.java (modified)
	* trunk/projects/misc-plugins/src/main/java/Export_As_Text.java (modified)
	* trunk/projects/misc-plugins/src/main/java/Roi_Map.java (modified)
	* trunk/projects/opencl-decon/src/demos/HelperUtils.java (modified)
	* trunk/projects/opencl-decon/src/demos/Iterative_3D_Deconvolution.java (modified)
	* trunk/projects/opencl-decon/src/demos/ProgramTest.java (modified)
	* trunk/projects/opencl-decon/src/demos/SobelWS.java (modified)
	* trunk/projects/opencl-decon/src/org/imagejdev/api/ClassPathHacker.java (modified)
	* trunk/projects/opencl-decon/src/org/imagejdev/api/StreamToString.java (modified)
	* trunk/projects/slim-plotter/data/MakeData.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/ColorWidget.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/MouseBehaviorButtons.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/SlimData.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/SlimPlotter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/SlimTypes.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/SpringUtilities.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/TextTransfer.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/TwoDPane.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/BurnInRenderer.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveCollection.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveEvent.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveFitter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveFitterTester.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveListener.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveRenderer.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/CurveReporter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/GACurveFitter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/ICurveFitter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/ICurveRenderer.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/LMCurveFitter.java (modified)
	* trunk/projects/slim-plotter/src/main/java/loci/slim/fit/RendererSwitcher.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ChunkyPixel.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ChunkyPixelEffectIterator.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ChunkyPixelTableImpl.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/CursorHelper.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/DecayGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/Excitation.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ExcitationFileHandler.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/GrayScaleImage.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/IChunkyPixelTable.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/IGrayScaleImage.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ISelectListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/MyStackWindow.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIM_PlugIn.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/ISLIMAnalyzer.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/SLIMAnalysis.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/SLIMAnalyzer.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/Display.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/ExportToText.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/VisADAnalysisPlugin.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/ISLIMBinner.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/SLIMBinner.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/SLIMBinning.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/plugins/Bin3x3.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/plugins/Bin5x5.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/plugins/Bin7x7.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/binning/plugins/BinNxN.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/ColorBar.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/DataColorizer.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/DataColorizerUI.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/FiveColorColorize.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/Histogram.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/IColorize.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/IColorizeRangeListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/InputPanel.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/LifetimeHistogram.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/MultiColorColorize.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/colorizer/ThreeColorColorize.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationGraph.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationPanel.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IStartStopBaseListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IStartStopListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IUserInterfacePanel.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IUserInterfacePanelListener.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/SpringUtilities.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/UserInterfacePanel.java (modified)
	* trunk/projects/utils/src/main/java/Ascii.java (modified)
	* trunk/projects/utils/src/main/java/Binary.java (modified)
	* trunk/projects/utils/src/main/java/BinaryDiff.java (modified)
	* trunk/projects/utils/src/main/java/CompareTrees.java (modified)
	* trunk/projects/utils/src/main/java/DownloadURL.java (modified)
	* trunk/projects/utils/src/main/java/DumpClass.java (modified)
	* trunk/projects/utils/src/main/java/EditDistance.java (modified)
	* trunk/projects/utils/src/main/java/FileOpsTest.java (modified)
	* trunk/projects/utils/src/main/java/FixEOLSpaces.java (modified)
	* trunk/projects/utils/src/main/java/LineLength.java (modified)
	* trunk/projects/utils/src/main/java/RandomPass.java (modified)
	* trunk/projects/utils/src/main/java/SortList.java (modified)
	* trunk/projects/utils/src/main/java/SysProps.java (modified)
	* trunk/projects/utils/src/main/java/TestMem.java (modified)
	* trunk/projects/utils/src/main/java/UniqueTraces.java (modified)
	* trunk/projects/utils/src/main/java/UnusedImports.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/BioDropHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/BioTask.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ConsoleManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ControlPanel.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ExitManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/LogicManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/MacAdapter.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/PanelManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/SystemControls.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/SystemManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/TaskControls.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/TaskManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/VisBio.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/VisBioEvent.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/VisBioFrame.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/WindowInfo.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/WindowManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/WindowState.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ArbitrarySlice.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/CollapseTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/CollapseWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DataCache.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DataControls.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DataManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DataSampling.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DataTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/Dataset.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/DatasetWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ExportPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ImageTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ProjectionTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ProjectionWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SamplingThumbHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SamplingWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SendToIJPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SliceWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SpectralTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/SpectralWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ThumbnailCache.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/ThumbnailHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/TransformEvent.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/data/TransformListener.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/ExtManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/ExternalFunction.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/ExternalProgram.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/FunctionParam.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/FunctionWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/MatlabFunction.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ext/MatlabUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/help/HelpManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/help/HelpTopic.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/help/HelpWindow.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ome/ImageUploader.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ome/OMEImage.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ome/OMELoginPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/ome/OMEManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/ArrowTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/BoxTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/FreeformExtension.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/FreeformTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/LineTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/MarkerTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OvalTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayArrow.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayBox.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayFreeform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayIO.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayLine.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayMarker.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayNodedObject.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayNumericStrategy.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayObject.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayOval.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayPolyline.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayText.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayTransform.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/OverlayWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/PointerTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/PolylineTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/SpreadsheetLaunchException.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/SpreadsheetLauncher.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/StatsOptionsPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/TextTool.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/overlays/TransientSelectBox.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/BioOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/BooleanOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/CustomOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/Dynamic.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/ListOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/NumericOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/OptionManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/OptionPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/ProgramState.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/ResolutionOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/ResolutionToggleOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/SaveException.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/Saveable.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/SpreadsheetLaunchOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/SpreadsheetOptionStrategy.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/StateManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/state/StringOption.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/BioArrowButton.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/BioComboBox.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/BreakawayPanel.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/BrowserLauncher.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/ColorUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/DataUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/DialogPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/DisplayUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/Docker.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/FontChooserPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/FormsUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/ImageJUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/InstanceServer.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/LAFUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/MathUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/MessagePane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/ObjectUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/OutputConsole.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/OutputEvent.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/OutputListener.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/Segment2D.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/SpawnEvent.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/SpawnListener.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/SplashScreen.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/SwingUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/WarningPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/WizardPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/util/XMLUtil.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/BioColorWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/BioSlideWidget.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/CaptureHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/CapturePanel.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/ColorHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/ColorPane.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/DisplayControls.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/DisplayManager.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/DisplayPosition.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/DisplayWindow.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/SliceToggler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/StackHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/StackLink.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/StackPanel.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/TransformHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/TransformLink.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/TransformPanel.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/ViewHandler.java (modified)
	* trunk/projects/visbio/src/main/java/loci/visbio/view/ViewPanel.java (modified)
	* trunk/projects/visbio/src/test/java/loci/visbio/utests/overlays/DummyImageTransform.java (modified)
	* trunk/projects/visbio/src/test/java/loci/visbio/utests/overlays/DummyOverlayTransform.java (modified)
	* trunk/projects/visbio/src/test/java/loci/visbio/utests/overlays/OverlayNodedObjectTest.java (modified)
	* trunk/projects/visbio/src/test/java/loci/visbio/utests/util/MathUtilTest.java (modified)
	* trunk/projects/visbio/src/test/java/loci/visbio/utests/util/Segment2DTest.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/XSLTTools.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/AutoLoginHandler.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/Credentials.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Clean up headers, and add a script to check them.


Tue, 22 Mar 2011 21:46:04 GMT abhinav [7667]
	* trunk/projects/wiscscan-java/pom.xml (modified)

	Add loci-common as compile-time dependency.


Tue, 22 Mar 2011 20:30:55 GMT curtis [7666]
	* trunk/projects/visbio/src/main/java/loci/visbio/util/XMLUtil.java (modified)

	Remove transformXML method from VisBio XML class.


Tue, 22 Mar 2011 20:29:54 GMT curtis [7665]
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/XSLTTools.java (added)

	Add utility method for applying XSLT from WiscScan.


Tue, 22 Mar 2011 20:29:18 GMT curtis [7664]
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/AutoLoginHandler.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/Credentials.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Clean up headers.


Tue, 22 Mar 2011 01:26:18 GMT aivar [7663]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/ExportToText.java (modified)

	Export to text working.


Tue, 22 Mar 2011 00:18:43 GMT abhinav [7662]
	* trunk/projects/visbio/src/main/java/loci/visbio/util/XMLUtil.java (modified)
	* trunk/projects/wiscscan-java/build_cpp_wrap.bat (modified)

	1. Added a method to use the style-sheet to convert OME-XML to ...


Mon, 21 Mar 2011 21:25:56 GMT aivar [7661]
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/DeepZoomExporter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/DeepZoomExporter.java (modified)

	Couldn't get browser to load; problem was the directory I was running ...


Mon, 21 Mar 2011 21:16:48 GMT aivar [7660]
	* trunk/projects/deep-zoom-plugin/folder (added)
	* trunk/projects/deep-zoom-plugin/folder/name.html (added)
	* trunk/projects/deep-zoom-plugin/folder/name.xml (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/0 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/1 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/0_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/1_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/1_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/2_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/10/2_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/0_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/0_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/0_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/1_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/1_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/1_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/1_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/2_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/2_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/2_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/2_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/3_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/3_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/3_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/3_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/4_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/4_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/4_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/4_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/5_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/5_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/5_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/11/5_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/0_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/10_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/11_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/1_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/2_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/3_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/4_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/5_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/6_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/7_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/8_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_1.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_2.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_3.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_4.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_5.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_6.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/12/9_7.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/2 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/2/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/3 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/3/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/4 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/4/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/5 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/5/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/6 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/6/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/7 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/7/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/8 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/8/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/9 (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/9/0_0.png (added)
	* trunk/projects/deep-zoom-plugin/folder/name_files/9/1_0.png (added)
	* trunk/projects/deep-zoom-plugin/pom.xml (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/AbstractPipelineProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/IProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/CutTilesProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/DeepZoomExporter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/chainableplugin/deepzoom/ScaleInHalfProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/AbstractPlugin.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/ILinkedPlugin.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/IPlugin.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/IPluginInternal.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/IPluginLauncher.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/LinkedPlugin.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/PluginAnnotations.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/PluginLauncher.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/PluginScheduler.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/CutTilesProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/DeepZoomExporter.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/LevelProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/ScaleInHalfProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multiinstanceplugin/deepzoom/TileProcessor.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/multithreadedplugin/AbstractNode.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/resources/plugins.config (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/FinalizeTest.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/PluginModuleTest.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/PluginWiringTest.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/SerializeDeserializeTest.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/TestComponent.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/TestComponentFactory.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/TestPlugin.java (modified)
	* trunk/projects/deep-zoom-plugin/src/test/java/loci/workflow/TestPlugin2.java (modified)

	Fixed problem when running within NetBeans.  Changed all package
	names ...


Mon, 21 Mar 2011 21:16:40 GMT aivar [7659]
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom (moved)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/DeepZoom.java (modified)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/ImageWrapper.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/annotations (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/annotations/Img.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/annotations/Input.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/plugin/annotations/Output.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util/xmllight (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util/xmllight/XMLException.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util/xmllight/XMLParser.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util/xmllight/XMLTag.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/util/xmllight/XMLWriter.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/IModule.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/IModuleFactory.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/IOutputListener.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/IWorkFlow.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/ModuleFactory.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/PluginModule.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/PluginModuleFactory.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/Wire.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/WorkFlow.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/WorkFlowFactory.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin (added)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/AbstractPlugin.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/IPlugin.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/IPluginInternal.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/IPluginLauncher.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/ItemWrapper.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/PluginAnnotations.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/PluginClassException.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/PluginLauncher.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/PluginScheduler.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/deepzoom/workflow/plugin/TeardownException.java (copied)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/plugin (deleted)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/util (deleted)
	* trunk/projects/deep-zoom-plugin/src/main/java/loci/workflow (deleted)

	Fixed problem when running within NetBeans.  Changed all package
	names ...


Fri, 18 Mar 2011 01:48:54 GMT aivar [7658]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/SLIMAnalysis.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/Display.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/ExportToText.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IUserInterfacePanel.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/UserInterfacePanel.java (modified)

	Fixed various bugs.  Made export to text better.


Thu, 17 Mar 2011 17:25:34 GMT curtis [7657]
	* trunk/projects/flow-cytometry/pom.xml (modified)
	* trunk/projects/wiscscan-java/pom.xml (modified)

	Silence more Maven warnings.


Wed, 16 Mar 2011 01:18:31 GMT aivar [7655]
	* trunk/projects/slim-plugin (modified)

	target/.irf added (?)


Wed, 16 Mar 2011 01:17:02 GMT aivar [7654]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/UserInterfacePanel.java (modified)

	Added new RLD+LMA fit option.  Consistency with TRI2.  Added
	excitation ...


Wed, 16 Mar 2011 01:16:07 GMT aivar [7653]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IUserInterfacePanel.java (modified)

	Added new RLD+LMA fit option.


Wed, 16 Mar 2011 01:15:31 GMT aivar [7652]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/ExportToText.java (modified)

	Work in progress.  Broken.


Wed, 16 Mar 2011 01:15:15 GMT aivar [7651]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/Display.java (modified)

	Consistency with TRI2.


Wed, 16 Mar 2011 01:14:44 GMT aivar [7650]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)

	Fixed bugs in ROI fitting, et. al.


Wed, 16 Mar 2011 01:13:29 GMT aivar [7649]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/DecayGraph.java (modified)

	Changed excitation to be autoranging.  Modified (some) colors in
	synch ...


Wed, 16 Mar 2011 01:12:44 GMT aivar [7648]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/IStartStopBaseListener.java (added)

	New class listens for excitation graph cursor changes.


Wed, 16 Mar 2011 01:12:10 GMT aivar [7647]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationPanel.java (added)

	New class contains excitation graph and cursor info.


Wed, 16 Mar 2011 01:11:44 GMT aivar [7646]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ui/ExcitationGraph.java (added)

	New class displays excitation and its cursors.


Wed, 16 Mar 2011 01:11:07 GMT aivar [7645]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/ExcitationFileHandler.java (added)

	New class loads and saves excitation files.


Wed, 16 Mar 2011 01:10:49 GMT aivar [7644]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/Excitation.java (added)

	New class handles excitation (IRF curve).


Wed, 16 Mar 2011 01:10:12 GMT aivar [7643]
	* trunk/projects/slim-plugin/src/main/java/loci/slim/CursorHelper.java (added)

	New class computes excitation and decay cursors (start/stop/base ...


Wed, 16 Mar 2011 01:09:24 GMT aivar [7642]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)

	Added RLD+LMA option.


Sat, 05 Mar 2011 21:39:38 GMT curtis [7641]
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/AutoLoginHandler.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Fix more warnings.


Sat, 05 Mar 2011 21:36:27 GMT curtis [7640]
	* trunk/projects/utils/src/main/java/CompareTrees.java (modified)
	* trunk/projects/utils/src/main/java/EditDistance.java (modified)
	* trunk/projects/utils/src/main/java/LineLength.java (modified)
	* trunk/projects/utils/src/main/java/TestMem.java (modified)
	* trunk/projects/utils/src/main/java/UniqueTraces.java (modified)

	Fix some Eclipse warnings.


Sat, 05 Mar 2011 21:29:21 GMT curtis [7639]
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/AbstractCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/AkutanCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/CurveFitData.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/GrayCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/GrayNRCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/JaolhoCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/MarkwardtCurveFitter.java (modified)
	* trunk/projects/curve-fitter/src/main/java/loci/curvefitter/SLIMCurveFitter.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/Detector.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/FlowCytometry.java (modified)
	* trunk/projects/flow-cytometry/src/main/java/loci/apps/flow/Particle.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/ClassList.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/FixProxies.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/StringReplace.java (modified)
	* trunk/projects/loci-checks/src/main/java/loci/checks/About.java (modified)
	* trunk/projects/loci-checks/src/main/java/loci/checks/BlankLinesCheck.java (modified)
	* trunk/projects/misc-plugins/src/main/java/Export_As_Text.java (modified)
	* trunk/projects/misc-plugins/src/main/java/Roi_Map.java (modified)

	Fix some Eclipse warnings and formatting.


Wed, 02 Mar 2011 23:59:30 GMT hanly [7638]
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/AutoLoginHandler.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Made some changes & cleaned up debug code.


Wed, 02 Mar 2011 22:37:43 GMT hanly [7637]
	* trunk/projects/wiscscan-java/build_cpp_wrap.bat (added)

	Batch file to build cpp wrappers and copy the headers and compiled ...


Fri, 25 Feb 2011 21:42:06 GMT hanly [7636]
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Made some changes to debug.


Tue, 22 Feb 2011 23:32:55 GMT curtis [7635]
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/ClassList.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/VelocityAutogen.java (modified)
	* trunk/projects/jar2lib/src/main/resources/CMakeLists.vm (modified)

	Add ability to specify additional source files.

	Also clean up the ...


Tue, 22 Feb 2011 21:54:10 GMT curtis [7634]
	* trunk/projects/wiscscan-java/pom.xml (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth (moved)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/AutoLoginHandler.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/Credentials.java (modified)
	* trunk/projects/wiscscan-java/src/main/java/loci/wiscscan/auth/KerberosAuth.java (modified)

	Clean up wiscscan-java package a bit.


Tue, 22 Feb 2011 21:51:27 GMT curtis [7632]
	* trunk/projects/wiscscan-utils (deleted)

	Remove renamed wiscscan-utils project.


Tue, 22 Feb 2011 21:50:48 GMT curtis [7631]
	* trunk/projects/wiscscan-java (copied)
	* trunk/projects/wiscscan-java/LICENSE.txt (modified)
	* trunk/projects/wiscscan-java/pom.xml (modified)
	* trunk/projects/wiscscan-java/src/main/cppwrap (added)
	* trunk/projects/wiscscan-java/src/main/cppwrap/conflicts.txt (added)
	* trunk/projects/wiscscan-utils/LICENSE.txt (deleted)
	* trunk/projects/wiscscan-utils/pom.xml (deleted)
	* trunk/projects/wiscscan-utils/src (deleted)

	Collect needed WiscScan Java code into a single aggregator project.


Tue, 22 Feb 2011 20:10:59 GMT curtis [7630]
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)

	Add ability to specify additional JARs to wrap.


Tue, 22 Feb 2011 04:07:28 GMT curtis [7629]
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)

	Add separate settings for library vs. classpath JARs.

	Library JARs are ...


Mon, 21 Feb 2011 21:23:54 GMT curtis [7628]
	* trunk/projects/flow-cytometry/pom.xml (modified)

	Enable cppwrap for flow-cytometry project.


Mon, 21 Feb 2011 21:23:26 GMT curtis [7627]
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)

	Add all dependencies to the library path.

	This is not a longterm ...


Sun, 20 Feb 2011 06:09:57 GMT curtis [7626]
	* trunk/projects/cppwrap-maven-plugin/pom.xml (modified)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)
	* trunk/projects/jar2lib/src/main/java/loci/jar2lib/Jar2Lib.java (modified)
	* trunk/projects/jar2lib/src/main/resources/jace-header.vm (modified)

	Ostensibly working version of cppwrap-maven-plugin.


Sat, 19 Feb 2011 17:35:05 GMT curtis [7625]
	* trunk/projects/cppwrap-maven-plugin (modified)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (modified)

	Fix minor issues with cppwrap project.


Fri, 18 Feb 2011 21:23:04 GMT curtis [7622]
	* trunk/projects/cppwrap-maven-plugin (added)
	* trunk/projects/cppwrap-maven-plugin/LICENSE.txt (added)
	* trunk/projects/cppwrap-maven-plugin/pom.xml (added)
	* trunk/projects/cppwrap-maven-plugin/src (added)
	* trunk/projects/cppwrap-maven-plugin/src/main (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap (added)
	* trunk/projects/cppwrap-maven-plugin/src/main/java/loci/maven/plugin/cppwrap/CppWrapMojo.java (added)
	* trunk/projects/wiscscan-utils (modified)
	* trunk/projects/wiscscan-utils/pom.xml (modified)

	Initial skeleton for jar2lib-based cppwrap Maven plugin.


Fri, 18 Feb 2011 21:21:13 GMT curtis [7621]
	* trunk/projects/jar2lib/pom.xml (modified)

	Use Jace r39, since nothing newer works yet.


Fri, 18 Feb 2011 16:19:42 GMT curtis [7620]
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils/KerberosAuth.java (modified)

	Clean up KerberosAuth, fix compile errors.


Thu, 17 Feb 2011 21:01:49 GMT hanly [7619]
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils/AutoLoginHandler.java (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils/Credentials.java (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils/KerberosAuth.java (modified)

	Added the source code for the kerberos login module.


Thu, 17 Feb 2011 20:42:22 GMT curtis [7618]
	* trunk/projects/wiscscan-utils (added)
	* trunk/projects/wiscscan-utils/LICENSE.txt (added)
	* trunk/projects/wiscscan-utils/pom.xml (added)
	* trunk/projects/wiscscan-utils/src (added)
	* trunk/projects/wiscscan-utils/src/main (added)
	* trunk/projects/wiscscan-utils/src/main/java (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils (added)
	* trunk/projects/wiscscan-utils/src/main/java/loci/wiscscan/utils/KerberosAuth.java (added)

	Initial skeleton for WiscScan utilities project.

	This project is ...


Tue, 15 Feb 2011 23:00:44 GMT curtis [7616]
	* trunk/projects/slim-plugin/pom.xml (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/SLIMProcessor.java (modified)
	* trunk/projects/slim-plugin/src/main/java/loci/slim/analysis/plugins/VisADAnalysisPlugin.java (modified)

	Update slim-plugin dependencies to match latest ImageJ2 project ...


Fri, 04 Feb 2011 18:01:10 GMT rlentz [7613]
	* trunk/projects/opencl-decon (modified)
	* trunk/projects/opencl-decon/.classpath (modified)
	* trunk/projects/opencl-decon/ExportFijiPluginJar.jardesc (added)
	* trunk/projects/opencl-decon/ExportSobelLocalJar.jardesc (added)
	* trunk/projects/opencl-decon/bin (added)
	* trunk/projects/opencl-decon/lib/APPLE/jocl.jar (added)
	* trunk/projects/opencl-decon/lib/imglib-algorithms.jar (added)
	* trunk/projects/opencl-decon/lib/imglib-ij.jar (added)
	* trunk/projects/opencl-decon/lib/imglib-io.jar (added)
	* trunk/projects/opencl-decon/lib/imglib-scripting.jar (added)
	* trunk/projects/opencl-decon/lib/imglib.jar (added)
	* trunk/projects/opencl-decon/lib/loci_tools.jar (added)
	* trunk/projects/opencl-decon/src/demos/ConvolutionOpenCL.java (added)
	* trunk/projects/opencl-decon/src/demos/Iterative3DDeconWS.java (added)
	* trunk/projects/opencl-decon/src/demos/Iterative_3D_Deconvolution.java (modified)
	* trunk/projects/opencl-decon/src/demos/Iterative_Deconvolve_3D_WS.java (deleted)
	* trunk/projects/opencl-decon/src/demos/SobelLocal.java (added)
	* trunk/projects/opencl-decon/src/demos/SobelWS.java (added)
	* trunk/projects/opencl-decon/src/demos/TestWS.java (added)
	* trunk/projects/opencl-decon/src/demos/conv.cl (added)
	* trunk/projects/opencl-decon/src/demos/plugins.config (added)
	* trunk/projects/opencl-decon/src/org/imagejdev/api/ClassPathHacker.java (added)
	* trunk/projects/opencl-decon/src/org/imagejdev/api/FHTEJBService.java (modified)

	Progress on OpenCL iterative 3D deconvolution.


Tue, 01 Feb 2011 15:45:48 GMT curtis [7612]
	* trunk/legacy/jvmlink/pom.xml (modified)
	* trunk/legacy/multi-lut/pom.xml (modified)
	* trunk/pom.xml (modified)
	* trunk/projects/curve-fitter/pom.xml (modified)
	* trunk/projects/deep-zoom-plugin/pom.xml (modified)
	* trunk/projects/flow-cytometry/pom.xml (modified)
	* trunk/projects/jar2lib/pom.xml (modified)
	* trunk/projects/loci-checks/pom.xml (modified)
	* trunk/projects/misc-plugins/pom.xml (modified)
	* trunk/projects/slim-curve/pom.xml (modified)
	* trunk/projects/slim-plotter/pom.xml (modified)
	* trunk/projects/slim-plugin/pom.xml (modified)
	* trunk/projects/utils/pom.xml (modified)
	* trunk/projects/visbio/pom.xml (modified)

	Serve Maven artifacts using Apache on port 80.

	Previously it was done ...


Sat, 29 Jan 2011 18:12:27 GMT aivar [7611]
	* trunk/projects/slim-curve/src/main/c/EcfGlobal.c (modified)

	Added float chisq_delta parameter to ...


Sat, 29 Jan 2011 17:55:41 GMT curtis [7610]
	* trunk/projects/slim-curve/CMakeLists.txt (modified)

	Remove unnecessary include folder.


Sat, 29 Jan 2011 17:54:48 GMT curtis [7609]
	* trunk/projects/slim-curve/CMakeLists.txt (added)

	Initial CMakeLists build file for slim-curve.


Sat, 29 Jan 2011 17:43:04 GMT paulbarber [7608]
	* trunk/projects/slim-curve/src/main/c/EcfGlobal.c (modified)

	Utility.h not needed.