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Merge pull request #37 from andmccall/patch-1
Update DeconWithGrid.groovy
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src/main/resources/script_templates/Deconvolution/DeconWithGrid.groovy
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,46 +1,39 @@ | ||
| #@ OpService ops | ||
| #@ UIService ui | ||
| #@ ConvertService convert | ||
| #@ DatasetService data | ||
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| import net.imglib2.type.numeric.real.FloatType; | ||
| import net.imagej.ops.Op | ||
| import net.imglib2.outofbounds.OutOfBoundsConstantValueFactory | ||
| import net.imagej.ops.deconvolve.RichardsonLucyF | ||
| import net.imglib2.util.Util | ||
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| // create the sample image | ||
| base = ops.run("create.img", [150, 100], new FloatType()) | ||
| formula = "p[0]^2 * p[1]" | ||
| ops.image().equation(base, formula) | ||
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| ui.show(base); | ||
| ui.show("input image", base); | ||
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| // create kernel | ||
| kernel_small = ops.run("create.img", [3,3], new FloatType()) | ||
| kernel_big = ops.run("create.img", [20,20], new FloatType()) | ||
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| ops.image().equation(kernel_small, "p[0]") | ||
| ops.image().equation(kernel_big, "p[0]") | ||
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| // convolve with large and small kernel | ||
| convolved_small = ops.filter().convolve(base, kernel_small) | ||
| // convolve with large kernel | ||
| convolved_big = ops.filter().convolve(base, kernel_big) | ||
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| ui.show(convolved_small); | ||
| ui.show(convolved_big); | ||
| ui.show("convolved", convolved_big); | ||
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| base_deconvolved = ops.run(RichardsonLucyF.class, convolved_small, kernel_small, null, new OutOfBoundsConstantValueFactory<>(Util.getTypeFromInterval(kernel_small).createVariable()), 10) | ||
| // deconvolve with Richardson Lucy | ||
| base_deconvolved_big=ops.create().img(convolved_big, new FloatType()) | ||
| base_deconvolved_big = ops.deconvolve().richardsonLucy(base_deconvolved_big, convolved_big, kernel_big, null, new OutOfBoundsConstantValueFactory<>(Util.getTypeFromInterval(kernel_big).createVariable()), 10) | ||
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| // 50 iterations richardson lucy | ||
| base_deconvolved_big = ops.run(RichardsonLucyF.class, convolved_big, kernel_big, 50); | ||
| // deconvolve with non-circulant Richardson Lucy | ||
| base_deconvolved_big_noncirc=ops.create().img(convolved_big, new FloatType()) | ||
| base_deconvolved_big_noncirc = ops.deconvolve().richardsonLucy(base_deconvolved_big_noncirc, convolved_big, kernel_big, null, null, null, null, null, 50, true, false) | ||
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| // 50 iterations non-circulant richardson lucy | ||
| base_deconvolved_big_noncirc = ops.run(RichardsonLucyF.class, convolved_big, kernel_big, null, null,null, null, null,50,true,false ); | ||
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| // 50 iterations non-circulant accelerated richardson lucy | ||
| base_deconvolved_big_acc_noncirc = ops.run(RichardsonLucyF.class, convolved_big, kernel_big, null, null,null, null, null, 50, true, true) | ||
| // deconvolve with accelerated non-circulalant Richardson LUcy | ||
| base_deconvolved_big_acc_noncirc=ops.create().img(convolved_big, new FloatType()) | ||
| base_deconvolved_big_acc_noncirc = ops.deconvolve().richardsonLucy(base_deconvolved_big_acc_noncirc, convolved_big, kernel_big, null, null, null, null, null, 50, true, true) | ||
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| ui.show("RL",base_deconvolved_big) | ||
| ui.show("RLNon-Circ",base_deconvolved_big_noncirc) | ||
| ui.show("RL Acc/Non-Circ",base_deconvolved_big_acc_noncirc) | ||
| ui.show("RL Acc/Non-Circ",base_deconvolved_big_acc_noncirc) |