Learn more about ImageMagick: http://www.imagemagick.org/Usage/

Nice collection of 'tidbits': http://www.fmwconcepts.com/imagemagick/tidbits/image.php

Example use cases

• Montage (gray background, 2 pixel border, force original size, force horizontal montage)
  • Note: ImageMagick has sometimes issues with low number of colors + creating the correct palette - so force the 24bit mode.

#!Scala
val montage = ImageMagick(in1=input1,in2=input2,
          binary="montage",
           command="-background '#888888' @in1@ @in2@ -tile 2x -geometry +2+0 PNG24:@out@")

• Montage from one folder of images:

  #!Scala
  val montage = ImageMagick(in1=input_images, files=1,
              extension=".png", binary="montage",
              command="-tile 6x @dir1@/* -geometry 200x200!+0+0 @out@")
  

• Image resize

  val halfsize = ImageMagick(in1=input, 
             command="-resize 50%x @in1@ @out@")
  val exactsize = ImageMagick(in1=input, 
             command="-resize 640x480 @in1@ @out@")
  

• Logical operations (faster than using -fx)

  val and_operation=ImageMagick(in1=input1, 
                            in2=input2,
          command="-compose Multiply @in1@ @in2@ -composite @out@")
  

• Morphological operations

  • Dilate first input by disk of 5 px radius
  • Complement the second input
  • Perform AND operation between the two

    val dilate_neg_and = ImageMagick(in1=BWinput1, in2=BWinput2, 
               command="@in1@ -morphology Dilate Disk:5 @in2@ -fx \"u[0] & (1-u[1])\" @out@")")
    

• Filling masks

  • rather tricky in imagemagick, but doable:

    val filled=ImageMagick(in1=mask_with_holes,
             command="@in1@ -bordercolor black -border 1 -fuzz 10% "+
                     "-fill red -floodfill +0+0 black -fill white +opaque red "+
                     "-fill black -opaque red -shave 1x1 @out@")
    

• Marking mask perimeter

  val perimeter=ImageMagick(in1=mask,
           command="@in1@ -morphology EdgeIn Disk:1 -threshold 0 @out@")
  

• Image sequence operations

  • read all images in folder, produce 1 image

    val median = ImageMagick(in1=input_images, files=1, 
               extension=".png",
               command="@dir1@/* -evaluate-sequence median @out@")
    

• Marking pixels with rings

  val rings = ImageMagick(in1=input_images, 
             command="@in1@ -morphology Dilate Ring @out@")
  

• Colorization of multiple gray scale images

  val colored=ImageMagick(in=makeArray(red,green,blue,nuclei.perimeter),
               command=" -compose Plus "+
                       " \\( @a1@ -auto-level +level-colors ,Red \\) "+
                       " \\( @a2@ -auto-level +level-colors ,Green \\) -composite "+
                       " \\( @a3@ -auto-level +level-colors ,Blue \\) -composite "+
                       " \\( @a4@ -auto-level +level-colors ,White \\) -composite "+
                       "@out@")