X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=packages%2Fdemo%2Fbbs%2Fappli%2FdemoFiltering1.bbs;h=8326a39804c5dc587ff65df9c57ff3cddcce63b3;hb=6ca1e9e935cdf36d2db70451088e87c09550564b;hp=b0f596b605113083151a909e29d4e9d5cb66dc89;hpb=04b0c0e253aa6a2ea58cefcff7aacda293242125;p=bbtk.git diff --git a/packages/demo/bbs/appli/demoFiltering1.bbs b/packages/demo/bbs/appli/demoFiltering1.bbs index b0f596b..8326a39 100644 --- a/packages/demo/bbs/appli/demoFiltering1.bbs +++ b/packages/demo/bbs/appli/demoFiltering1.bbs @@ -1,7 +1,7 @@ -description "Basic segmentation and filtering of an image : demoFiltering1-try.bbs" +description "Basic segmentation and filtering of an image" author "jpr@creatis.insa-lyon.fr" -category "demo" +category "demo, filter" // 3 Slices, 2 volumes @@ -17,12 +17,81 @@ include wxvtk // ---------------------------------------------------------- # Here loads hola.mhd +# ------------------- +# Don't forget to comment out the following 2 lines +# If you want to check someting else. + include vtk/boxes/bbLoadHola new LoadHola reader + # uncomment next lines to have a file selector -#new FileSelector openFileDialog -#new ImageReader reader -# connect openFileDialog.Out reader.In +# -------------------------------------------- +/* +new FileSelector openFileDialog +new ImageReader reader + connect openFileDialog.Out reader.In +*/ + +# uncomment next lines to use Gimmick +# ----------------------------------- +/* +load creaImageIO +new Gimmick reader +*/ + +# uncomment next lines to Read a MHD file (and nothing else !) +# ------------------------------------------------------------ +/* +new FileSelector openFileDialog +new MetaImageReader reader + connect openFileDialog.Out reader.In +*/ + +# uncomment the following lines to read a 3D images stack +# (only if file name order is meaningfull) +# ------------------------------------------------------- +/* +// To choose the directory +new DirectorySelector ds +// To get the image names into a vector +new FilesFromDirectory fd +// To read all the files, as a bbitk::ImagePointer +new ImageSeriesReader reader +// user choosen directory as input +connect ds.Out fd.In +set fd.Recursive false +// list of files as input +#print "Files found in $ds.Out$\n +connect fd.Out reader.FileNames +*/ + +# uncomment the following lines to read a 3D images stack +# (if the directory contains a 'XCoherent" Serie) +# ------------------------------------------------------- +/* +// To choose the directory +new DirectorySelector ds +// To get the image names into a vector +new FilesFromDirectory fd +// user choosen directory as input +connect ds.Out fd.In +// order the files, computes an accurate ZSpacing +new GetXCoherentInfoGdcmReader reader +connect fd.Out reader.In +*/ + +# uncomment the following lines to read a 3D images stack +# (with DICOMDirReader) +# ------------------------------------------------------- +/* +include itk/boxes/bbDICOMDirReader +// To choose the directory +new DirectorySelector ds +new DICOMDirReader reader + connect ds.Out reader.In +*/ + +// We need that to set Sliders sizes #Get image dimensions, ... new ImageProperties mc @@ -37,123 +106,124 @@ new GetVectorIntElement gveZ new Div div2 connect gveZ.Out div2.In1 set div2.In2 2 - -// + +// // Graphical organization // ---------------------- new LayoutSplit mainSplit - set mainSplit.Proportion 50 - set mainSplit.WinHeight 1200 - set mainSplit.WinWidth 1600 - set mainSplit.WinTitle "Processing / Viewing example (demoFiltering1-try.bbs) " - - + set mainSplit.Proportion 60 + set mainSplit.WinHeight 1000 + set mainSplit.WinWidth 1400 + set mainSplit.WinTitle "Processing / Viewing example (demoFiltering1.bbs) " + new LayoutSplit splitUp set splitUp.Proportion 38 connect splitUp.Widget mainSplit.Widget1 - + new LayoutLine toolLayout set toolLayout.Orientation H connect toolLayout.Widget splitUp.Widget1 - + new LayoutLine sliderLayout set sliderLayout.Orientation V connect sliderLayout.Widget toolLayout.Widget1 new Slider sliceSlider set sliceSlider.Title "Slice" + set sliceSlider.ReactiveOnTrack true connect sliceSlider.Widget sliderLayout.Widget1 - + new Slider lowerThresholdSlider set lowerThresholdSlider.Title "LowerThreshold" - set lowerThresholdSlider.Max 50 - set lowerThresholdSlider.In 20 + set lowerThresholdSlider.Max 200 + set lowerThresholdSlider.In 10 set lowerThresholdSlider.ChangeResolution 1 connect lowerThresholdSlider.Widget sliderLayout.Widget2 - + new Slider upperThresholdSlider set upperThresholdSlider.Title "UpperThreshold" set upperThresholdSlider.Max 500 - set upperThresholdSlider.In 500 - set upperThresholdSlider.ChangeResolution 1 + set upperThresholdSlider.In 150 + set upperThresholdSlider.ChangeResolution 1 connect upperThresholdSlider.Widget sliderLayout.Widget3 new Slider smoothSlider set smoothSlider.Title "Smooth" set smoothSlider.Max 10 - set smoothSlider.In 1 + set smoothSlider.In 3 set smoothSlider.ChangeResolution 1 connect smoothSlider.Widget sliderLayout.Widget4 - + new LayoutLine buttonLayout - set buttonLayout.Orientation V + set buttonLayout.Orientation H connect buttonLayout.Widget toolLayout.Widget2 - - new ColourSelectorButton colourLower - set colourLower.In "1 1 0" - connect colourLower.Widget buttonLayout.Widget1 - - new ColourSelectorButton colourUpper - set colourUpper.In "1 0 0" - connect colourUpper.Widget buttonLayout.Widget2 - + + new ColourSelectorButton colourThreshold + set colourThreshold.In "1 0 0" + connect colourThreshold.Widget buttonLayout.Widget1 + + new ColourSelectorButton colourSmooth + set colourSmooth.In "1 1 0" + connect colourSmooth.Widget buttonLayout.Widget2 + +/* new CommandButton refresh set refresh.Label "Refresh (to be used once at start time)" connect refresh.Widget buttonLayout.Widget3 - +*/ new LayoutLine layout2D set layout2D.Orientation H connect layout2D.Widget splitUp.Widget2 new Viewer2D viewer2DImageOriginal connect viewer2DImageOriginal.Widget layout2D.Widget1 - - new Viewer2D viewer2DImageSegmented + + new Viewer2D viewer2DImageSegmented connect viewer2DImageSegmented.Widget layout2D.Widget2 - new Viewer2D viewer2DImageSmooth - connect viewer2DImageSmooth.Widget layout2D.Widget3 - + new Viewer2D viewer2DImageSmooth + connect viewer2DImageSmooth.Widget layout2D.Widget3 + new LayoutSplit layout3D set layout3D.Orientation H set layout3D.Proportion 90 connect layout3D.Widget mainSplit.Widget2 - + new LayoutSplit layoutSurfaces set layoutSurfaces.Orientation H set layoutSurfaces.Proportion 50 connect layoutSurfaces.Widget layout3D.Widget1 - + new Viewer3D viewer3DSurfaceThreshold connect viewer3DSurfaceThreshold.Widget layoutSurfaces.Widget1 - + new Viewer3D viewer3DSurfaceSmooth - connect viewer3DSurfaceSmooth.Widget layoutSurfaces.Widget2 - + connect viewer3DSurfaceSmooth.Widget layoutSurfaces.Widget2 + new LayoutLine vSliderLayout connect vSliderLayout.Widget layout3D.Widget2 - + new Slider lowerOpacitySlider - set lowerOpacitySlider.Title "LowerOpacity" - set lowerOpacitySlider.Min 1 + set lowerOpacitySlider.Title "Opacity" + set lowerOpacitySlider.Min 1 set lowerOpacitySlider.Max 100 - set lowerOpacitySlider.In 20 + set lowerOpacitySlider.In 50 set lowerOpacitySlider.Orientation V connect lowerOpacitySlider.Widget vSliderLayout.Widget1 -/* +/* new Slider upperOpacitySlider set upperOpacitySlider.Title "UpperOpacity" set upperOpacitySlider.Max 100 - set upperOpacitySlider.In 100 - set upperOpacitySlider.Orientation V + set upperOpacitySlider.In 100 + set upperOpacitySlider.Orientation V connect upperOpacitySlider.Widget vSliderLayout.Widget2 */ -// +// // End of Graphical organization -// ----------------------------- +// ----------------------------- // // Processing pipeline @@ -169,37 +239,44 @@ new LayoutSplit mainSplit set sliceSlider.ChangeResolution 1 // Images 2D - + new BinaryThresholdImageFilter threshold set threshold.InsideValue 255 set threshold.OutsideValue 0 - + connect upperThresholdSlider.Out threshold.UpperThreshold - connect lowerThresholdSlider.Out threshold.LowerThreshold + connect lowerThresholdSlider.Out threshold.LowerThreshold connect reader.Out threshold.In - + connect threshold.Out viewer2DImageSegmented.In connect sliceSlider.Out viewer2DImageSegmented.Slice - + new ImageGaussianSmooth smooth connect threshold.Out smooth.In connect smoothSlider.Out smooth.StdDevX connect smoothSlider.Out smooth.StdDevY connect smoothSlider.Out smooth.StdDevZ - + connect smooth.Out viewer2DImageSmooth.In connect sliceSlider.Out viewer2DImageSmooth.Slice - - + + +// Planes +new ImagePlanes planes + connect reader.Out planes.In + connect planes.PlaneX viewer3DSurfaceSmooth.Obs1 + connect planes.PlaneY viewer3DSurfaceSmooth.Obs2 + connect planes.PlaneZ viewer3DSurfaceSmooth.Obs3 + // Surfaces 3D - + new IsoSurfaceExtractor isoextractorThreshold connect threshold.Out isoextractorThreshold.In set isoextractorThreshold.Opacity 1 set isoextractorThreshold.Isovalue 100 - connect colourUpper.Out isoextractorThreshold.Colour + connect colourThreshold.Out isoextractorThreshold.Colour connect isoextractorThreshold.Out viewer3DSurfaceThreshold.In1 - + new Div div3 connect lowerOpacitySlider.Out div3.In1 set div3.In2 100 @@ -208,41 +285,50 @@ new IsoSurfaceExtractor isoextractorSmooth connect smooth.Out isoextractorSmooth.In connect div3.Out isoextractorSmooth.Opacity set isoextractorSmooth.Isovalue 200 - connect colourLower.Out isoextractorSmooth.Colour + connect colourSmooth.Out isoextractorSmooth.Colour connect isoextractorSmooth.Out viewer3DSurfaceSmooth.In2 - -// Refresh issues - new MultipleInputs multInForImageOriginal - connect sliceSlider.BoxChange multInForImageOriginal.In1 - connect refresh.BoxChange multInForImageOriginal.In2 - +// Refresh issues + +new MultipleInputs multInForImageOriginal + connect sliceSlider.BoxChange multInForImageOriginal.In1 +# connect refresh.BoxChange multInForImageOriginal.In2 + + new MultipleInputs multInForImageSegmented connect lowerThresholdSlider.BoxChange multInForImageSegmented.In1 connect upperThresholdSlider.BoxChange multInForImageSegmented.In2 - connect refresh.BoxChange multInForImageSegmented.In3 +# connect refresh.BoxChange multInForImageSegmented.In3 + connect sliceSlider.BoxChange multInForImageSegmented.In4 new MultipleInputs multInForImageSmooth connect lowerThresholdSlider.BoxChange multInForImageSmooth.In1 connect upperThresholdSlider.BoxChange multInForImageSmooth.In2 connect smoothSlider.BoxChange multInForImageSmooth.In3 - connect lowerOpacitySlider.BoxChange multInForImageSmooth.In4 - connect refresh.BoxChange multInForImageSmooth.In5 +# connect refresh.BoxChange multInForImageSmooth.In4 + connect sliceSlider.BoxChange multInForImageSmooth.In5 new MultipleInputs multInForSurfaceThreshold - connect refresh.BoxChange multInForSurfaceThreshold.In1 - +# connect refresh.BoxChange multInForSurfaceThreshold.In1 + connect colourThreshold.BoxChange multInForSurfaceThreshold.In2 + connect lowerThresholdSlider.BoxChange multInForSurfaceThreshold.In3 + connect upperThresholdSlider.BoxChange multInForSurfaceThreshold.In4 + new MultipleInputs multInForSurfaceSmooth - connect refresh.BoxChange multInForSurfaceSmooth.In1 - - connect multInForImageOriginal.BoxChange viewer2DImageOriginal.BoxExecute +# connect refresh.BoxChange multInForSurfaceSmooth.In1 + connect lowerOpacitySlider.BoxChange multInForSurfaceSmooth.In1 + connect colourSmooth.BoxChange multInForSurfaceSmooth.In2 + connect lowerThresholdSlider.BoxChange multInForSurfaceSmooth.In3 + connect upperThresholdSlider.BoxChange multInForSurfaceSmooth.In4 + connect smoothSlider.BoxChange multInForSurfaceSmooth.In5 + + connect multInForImageOriginal.BoxChange viewer2DImageOriginal.BoxExecute connect multInForImageSegmented.BoxChange viewer2DImageSegmented.BoxExecute connect multInForImageSmooth.BoxChange viewer2DImageSmooth.BoxExecute - - connect multInForSurfaceThreshold.BoxChange viewer3DSurfaceThreshold.BoxExecute - connect multInForSurfaceSmooth.BoxChange viewer3DSurfaceSmooth.BoxExecute + + connect multInForSurfaceThreshold.BoxChange viewer3DSurfaceThreshold.BoxExecute + connect multInForSurfaceSmooth.BoxChange viewer3DSurfaceSmooth.BoxExecute exec mainSplit -