ABCDEFGHIJKLMNOP
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PriorityMenuTypeSubmenuPositionMenu or labelClassnameShortcutFrom:IdinIJPropsFunctional?Replaced in IJ2?TicketLinkWhat's broken?Other Issues?
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AnalyzeGels100Select First Lane[1]ij.plugin.GelAnalyzer("first")IJ_Propsgels01Yes
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AnalyzeGels101Select Next Lane[2]ij.plugin.GelAnalyzer("next")IJ_Propsgels02Yes
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AnalyzeGels102Plot Lanes[3]ij.plugin.GelAnalyzer("plot")IJ_Propsgels03Yes
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AnalyzeGels103Re-plot Lanesij.plugin.GelAnalyzer("replot")IJ_Propsgels04Yes
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AnalyzeGels104Resetij.plugin.GelAnalyzer("reset")IJ_Propsgels05Yes
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AnalyzeGels105Label Peaksij.plugin.GelAnalyzer("label")IJ_Propsgels06No17641764Requires Wand Tool
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AnalyzeGels107Gel Analyzer Options...ij.plugin.GelAnalyzer("options")IJ_Propsgels08Yes
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AnalyzeTools100Save XY Coordinates...ij.plugin.XYCoordinatesIJ_Propstools01Yes
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AnalyzeTools101Fractal Box Count...ij.plugin.filter.FractalBoxCounterIJ_Propstools02Yes
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AnalyzeTools102Analyze Line Graphij.plugin.filter.LineGraphAnalyzerIJ_Propstools03No17641764Requires Wand Tool
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AnalyzeTools103Curve Fitting...ij.plugin.frame.FitterIJ_Propstools04No17651765Choosing Fit does not produce the fit curve image. Apply doesn't work either I think
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AnalyzeTools104ROI Manager...ij.plugin.frame.RoiManagerIJ_Propstools05NoYESNANAEverythingReplaced in IJ2 but replacement Overlay Manager is not yet complete
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AnalyzeTools105Scale Bar...ij.plugin.ScaleBarIJ_Propstools06Yes
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AnalyzeTools106Calibration Bar...ij.plugin.filter.CalibrationBarIJ_Propstools07MostlyPreview does not work
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AnalyzeToolsSynchronize WindowsNo12891289Need pure IJ2 version
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Analyze"Measure""ij.plugin.filter.Analyzer"KeyEvent.VK_Mij.MenuYes757757Mean, Min and Max don't compute the same as they did before in some cases. In Bat Cochlea volume, Z=47, measure produces 0.096 for a mean, while it produces 15.532 in IJ1.
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Analyze"Analyze Particles...""ij.plugin.filter.ParticleAnalyzer"ij.MenuYes758758Returns different results in IJ2 as IJ1.
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Analyze"Summarize""ij.plugin.filter.Analyzer(\"sum\")"ij.MenuYes
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Analyze"Distribution...""ij.plugin.Distribution"ij.MenuYes
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Analyze"Label""ij.plugin.filter.Filler(\"label\")"ij.MenuYes
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Analyze"Clear Results""ij.plugin.filter.Analyzer(\"clear\")"ij.MenuYes
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Analyzeprop"Set Measurements...""ij.plugin.filter.Analyzer(\"set\")"ij.MenuYes
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Analyze"Set Scale...""ij.plugin.filter.ScaleDialog"ij.MenuYes
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Analyze"Calibrate...""ij.plugin.filter.Calibrator"ij.Menu
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Analyze"Histogram""ij.plugin.Histogram"KeyEvent.VK_Hij.MenuNoYes865865Doesn't work for 16, 32 bitNo buttons for List, Copy, or Log
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Analyze"Plot Profile""ij.plugin.filter.Profiler(\"plot\")"KeyEvent.VK_Kij.MenuYes
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Analyze"Surface Plot...""ij.plugin.SurfacePlotter"ij.MenuYes
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EdittoolPropOptions100Line Width...ij.plugin.Options("line")IJ_Propsoptions01Yes
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EditpropOptions101Input/Output...ij.plugin.Options("io")IJ_Propsoptions02Yes
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EditpropOptions102Fonts...ij.plugin.frame.FontsIJ_Propsoptions03Yes
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EditOptions103Profile Plot Options...ij.plugin.filter.Profiler("set")IJ_Propsoptions04Yes
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EditOptionsRounded Rect Tool...Yes
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EditpropOptions104Arrow Tool...ij.plugin.ArrowToolOptionsIJ_Propsoptions05Yes
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EditpropOptions105Point Tool...ij.plugin.Colors("point")IJ_Propsoptions06Yes
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EditpropOptions106Wand Tool...ij.plugin.WandToolOptionsIJ_Propsoptions07Yes
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EditpropOptions107Colors...ij.plugin.ColorsIJ_Propsoptions08Yes - Channels ...
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EditOptions108Appearance...ij.plugin.Options("display")IJ_Propsoptions09Yes
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EditOptions109Conversions...ij.plugin.Options("conv")IJ_Propsoptions10Yes
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EditutilOptions110Memory & Threads...ij.plugin.MemoryIJ_Propsoptions11Yes
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EditutilOptions111Proxy Settings...ij.plugin.ProxySettingsIJ_Propsoptions12Yes
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EditscriptOptions112Compiler...ij.plugin.Compiler("options")IJ_Propsoptions13Yes
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EditOptions113DICOM...ij.plugin.Options("dicom")IJ_Propsoptions14Yes
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EditOptions114Misc...ij.plugin.Options("misc")IJ_Propsoptions15Yes
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EditOptionsResetYes
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EditselectSelection100Select All[a]ij.plugin.Selection("all")IJ_Propsselection01YesYES - Select View
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EditselectSelection101Select None[A]ij.plugin.Selection("none")IJ_Propsselection02Mostly17701770If everything is selected the overlay is deleted and readded. If smaller areas selected overlays go away correctly.
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EditselectSelection102Restore Selection[E]ij.plugin.Selection("restore")IJ_Propsselection03Yes
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EditselectSelection103Fit Splineij.plugin.Selection("spline")IJ_Propsselection04Yes
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EditselectSelection104Fit Circleij.plugin.Selection("circle")IJ_Propsselection05Yes
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EditselectSelection104Fit Ellipseij.plugin.Selection("ellipse")IJ_Propsselection05Yes
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EditSelectionInterpolate
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EditselectSelection105Convex Hullij.plugin.Selection("hull")IJ_Propsselection06Yes
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EditselectSelection106Make Inverseij.plugin.Selection("inverse")IJ_Propsselection07Yes761761
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EditselectSelection107Create Selectionij.plugin.Selection("from")IJ_Propsselection08No17661766
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EditselectSelection108Create Maskij.plugin.Selection("mask")IJ_Propsselection09Mostly17721772Mask created. Throws exception translating overlay.
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EditselectSelection110Properties... ij.plugin.Selection("properties")IJ_Propsselection11Yes
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EditselectSelection111Rotate...ij.plugin.Selection("rotate")IJ_Propsselection12Yes
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EditselectSelection112Enlarge...ij.plugin.Selection("enlarge")IJ_Propsselection13Yes
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EditselectSelection113Make Band...ij.plugin.Selection("band")IJ_Propsselection14Yes
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EditselectSelection114Specify...ij.plugin.SpecifyROIIJ_Propsselection15Yes
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EditselectSelection115Straighten...ij.plugin.StraightenerIJ_Propsselection16YesWhatever it did in ImageJ 1.0, it does in ImageJ 2.0. Not sure what it was designed to do.
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EditSelectionTo Bounding Box
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EditSelectionLine To Area
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EditSelectionArea To Line
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EditSelectionImage To Selection...
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EditselectSelection116Add to Manager [t]ij.plugin.Selection("add")IJ_Propsselection17Yes
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coreEditapp"Undo""ij.plugin.Commands(\"undo\")"KeyEvent.VK_Zij.MenuNo14631463Odds are there are several actions that aren't undoable (eg: moving an Overlay). Another problem is that undo should work across displays or be taken in the context of a given display.
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coreEditapp"Cut""ij.plugin.Clipboard(\"cut\")"KeyEvent.VK_Xij.MenuYes762762Shortcut doesn't work. Seems to get tangled up with Cut/Copy/Paste functions on Overlays.
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coreEditapp"Copy""ij.plugin.Clipboard(\"copy\")"KeyEvent.VK_Cij.MenuYes762762Shortcut doesn't work. Seems to get tangled up with Cut/Copy/Paste functions on Overlays.
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coreEditapp"Copy to System""ij.plugin.Clipboard(\"scopy\")"ij.MenuYesYES11341134Open [IJ2] an RGB image. and copy the green channel via copy to system. Paste into photoshop and it turns out that the red channel was copied. -- I have a gripe with this feature anyway since what you see isn't necessarily what you get, and since it should probably be automatically done when "copy" is done.Replaced with pure IJ2 plugin. Cannot copy single channel of RGB image to system clipboard. Not sure how this was possible before. Appraently it was but as afraser outlined this was problematic.
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coreEditapp"Paste""ij.plugin.Clipboard(\"paste\")"KeyEvent.VK_Vij.MenuYes762762Shortcut doesn't work. If I copy a ROI, I can't paste until I delete that ROI, and when I do, it recreates the ROI (although a translation occurs because multiple handles are shown for ellipses) and pastes the contents into the area I had previously copied. (read as: FUBAR)Shortcut doesn't work. Seems to get tangled up with Cut/Copy/Paste functions on Overlays.
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coreEditapp"Paste Control...""ij.plugin.frame.PasteController"ij.MenuYes
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Editop"Clear""ij.plugin.filter.Filler(\"clear\")"ij.MenuYes11341134Exception thrown
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Editop"Clear Outside""ij.plugin.filter.Filler(\"outside\")"ij.MenuYes11341134Exception thrown
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Editop"Fill""ij.plugin.filter.Filler(\"fill\")"KeyEvent.VK_Fij.MenuYes
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Editop"Draw""ij.plugin.filter.Filler(\"draw\")"KeyEvent.VK_Dij.MenuYesSeems to draw using previous legacy color rather than current foreground values
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Editedit"Invert""ij.plugin.filter.Filters(\"invert\")"KeyEvent.VK_I, Shiftij.MenuYes
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FileioImport100Image Sequence...ij.plugin.FolderOpenerIJ_Propsimport01Yes695695Original issue handled
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FileioImport101Raw...ij.plugin.RawIJ_Propsimport02Yes
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FileioImport102LUT... ij.plugin.LutLoaderIJ_Propsimport03Yes765765Doesn't seem to do anything... hard to tell since Edit LUT also has problems.
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FileioImport103Text Image... ij.plugin.TextReaderIJ_Propsimport04Yes
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FileioImport104Text File... ij.plugin.TextFileReaderIJ_Propsimport05Yes
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FileioImport105Results...ij.plugin.SimpleCommands("import")IJ_Propsimport06Yes
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FileioImport106URL...ij.plugin.URLOpenerIJ_Propsimport07Yes
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FileioImport107Stack From List...ij.plugin.ListVirtualStackIJ_Propsimport08No17671767The opened image is not virtual in any way
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FileioImport108TIFF Virtual Stack...ij.plugin.FileInfoVirtualStackIJ_Propsimport09No17671767The opened image is not virtual in any way
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FileioImport109AVI...ij.plugin.AVI_ReaderIJ_Propsimport10Yes
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FileImportXY Coordinates
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FileImportAnimated Gif
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FileImportExif Data
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FileImportNlfTI-Analyze
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FileImportUsing Quicktime
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FileImportVideo
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FileImportQuicktime Player
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FilenewNew100Image...[n]ij.plugin.Commands("new")IJ_Propsnew01Yes76476416 and 32 bit images are filled with the wrong color
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FilenewNew101Hyperstack...ij.plugin.HyperStackConverter("new")IJ_Propsnew02Yes
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FilenewNew102Text Window[N]ij.plugin.NewPlugin("text")IJ_Propsnew03Yes
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FilenewNew103Internal Clipboardij.plugin.Clipboard("show")IJ_Propsnew04Yes
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FilenewNew104System Clipboard[V]ij.plugin.Clipboard("showsys")IJ_Propsnew05Yes