Mercurial > cortex

     1 #+title: Fun with Gabor Filters

     2 #+author: Robert McIntyre

     3 #+email: rlm@mit.edu

     4 #+description: gabor filters in clojure with opencv

     5 #+keywords: computer vision, jMonkeyEngine3, clojure, opencv

     6 #+SETUPFILE: ../../aurellem/org/setup.org

     7 #+INCLUDE: ../../aurellem/org/level-0.org

     8 #+babel: :mkdirp yes :noweb yes :exports both

     9 

    10 

    11 

    12 #+name: gabor

    13 #+begin_src clojure

    14 (ns cortex.gabor

    15   (:import org.opencv.core.CvType)

    16   (:import java.awt.image.BufferedImage)

    17   (:import ij.ImagePlus)

    18   (:import org.opencv.core.Mat)

    19   (:use (cortex world sense util vision import))

    20   (:import com.jme3.post.SceneProcessor)

    21   (:import (com.jme3.util BufferUtils Screenshots))

    22   (:import java.nio.ByteBuffer)

    23   (:import java.awt.image.BufferedImage)

    24   (:import (com.jme3.renderer ViewPort Camera))

    25   (:import (com.jme3.math ColorRGBA Vector3f Matrix3f Vector2f))

    26   (:import com.jme3.renderer.Renderer)

    27   (:import com.jme3.app.Application)

    28   (:import com.jme3.texture.FrameBuffer)

    29   (:import (com.jme3.scene Node Spatial)))

    30 

    31 

    32 (cortex.import/mega-import-jme3)

    33 (use  'clojure.math.numeric-tower)

    34 (defn load-opencv

    35   "Load the opencv native library. Must be called before any OpenCV

    36   stuff is used."

    37   []

    38   (clojure.lang.RT/loadLibrary "opencv_java249"))

    39 

    40 (load-opencv)

    41 

    42 (defn gabor-kernel

    43  ([sigma wavelength theta]

    44      (gabor-kernel sigma wavelength theta 1 0))

    45   ([sigma wavelength]

    46      (gabor-kernel sigma wavelength 0 1 0))

    47   ([sigma wavelength theta aspect-ratio phase-offset]

    48   

    49   ;; first, find the size of the kernel which is required

    50   (let [square #(expt % 2)

    51         rotated (fn [[x y]]

    52                   [(+ (* x (Math/cos theta)) (* y (Math/sin theta)))

    53                    (- (* y (Math/cos theta))  (* x (Math/sin theta)))])

    54                              

    55         gaussian (fn [[x y]]

    56                    (let [[x' y'] (rotated [x y])]

    57                      (Math/exp (- (/ (+ (square x')

    58                                         (square (* aspect-ratio y')))

    59                                    (* 2 (square sigma)))))))

    60         sinusoid (fn [[x y]]

    61                    (let [[x' y'] (rotated [x y])]

    62                      (Math/cos

    63                       (+ (* 2 Math/PI (/ x' wavelength))

    64                          phase-offset))))

    65 

    66         half-width

    67         (let [std-dev-capture 5]

    68           (max

    69            (int (* std-dev-capture (/ sigma aspect-ratio)))

    70            (int (* std-dev-capture sigma))

    71            (int (* std-dev-capture (/ aspect-ratio sigma)))))

    72 

    73         grid (let [axis (range (- half-width) (inc half-width))]

    74                (for [y (reverse axis) x axis] (vector x y)))

    75 

    76         scale (reduce + (map gaussian grid))

    77         

    78         gabor (fn [[x y :as coord]]

    79                 (* (sinusoid coord) (gaussian coord) (/ scale)))

    80 

    81         mat-width (+ 1 (* 2 half-width))

    82         mat (Mat. mat-width mat-width CvType/CV_32F)]

    83     

    84     (.put mat 0 0 (float-array (map gabor grid)))

    85     mat)))

    86 

    87 

    88 (defn draw-kernel! [kernel img-path]

    89   (let [output img-path

    90         size (.size kernel)

    91         width (int (.width size))

    92         height (int (.height size))

    93         tmp-array (float-array (* width height))]

    94 

    95     ;; read values from matrix.

    96     (.get kernel 0 0 tmp-array)

    97 

    98     ;; find overall dynamic range of the filter

    99     (let [vals (vec tmp-array)

   100           low (apply min vals)

   101           high (apply max vals)

   102           scaled-vals (map #(* 255 (- % low) (/ (- high low))) vals)

   103           new-mat (Mat. height width CvType/CV_32F)]

   104       (.put new-mat 0 0 (float-array scaled-vals))

   105       (org.opencv.highgui.Highgui/imwrite output new-mat))))

   106 

   107 ;; some cool examples

   108 #+end_src

   109 

   110 

   111 

   112 

   113 [[../images/gabor-50-10.png]]

   114 

   115 #+begin_src clojure

   116 (def img-base "/home/r/proj/cortex/images/")

   117 

   118 (draw-kernel! (gabor-kernel 50 10 0 1 0)

   119               (str img-base "gabor-50-10.png"))

   120 #+end_src

   121 

   122 

   123 [[../images/gabor-50-10-pi-over-4.png]]

   124 

   125 #+begin_src clojure

   126 (draw-kernel! (gabor-kernel 50 10 (/ Math/PI 4) 1 0)

   127               (str img-base "gabor-50-10-pi-over-4.png"))

   128 #+end_src

   129 

   130 

   131 [[../images/gabor-50-10-pi-over-2.png]]

   132 

   133 #+begin_src clojure

   134 (draw-kernel! (gabor-kernel 50 10 (/ Math/PI 2) 1 0)

   135               (str img-base "gabor-50-10-pi-over-2.png"))

   136 #+end_src

   137 

   138 

   139 [[../images/gabor-50-50.png]]

   140 

   141 

   142 

   143 #+begin_src clojure

   144 (draw-kernel! (gabor-kernel 50 50 0 1 0)

   145               (str img-base "gabor-50-50.png"))

   146 

   147 #+end_src

   148 

   149 [[../images/gabor-50-10-0-3.png]]

   150 

   151 #+begin_src clojure

   152 (draw-kernel! (gabor-kernel 50 10 0 3 0)

   153               (str img-base "gabor-50-10-0-3.png"))

   154 #+end_src

   155 

   156 

   157 

   158 [[../images/gabor-50-4-pi-over3-3.png]]

   159 #+begin_src clojure

   160 (draw-kernel! (gabor-kernel 50 4 (/ Math/PI 3) 3 0)

   161               (str img-base "gabor-50-4-pi-over3-3.png"))

   162 #+end_src

   163 

   164 

   165 

   166      

   167 

   168 #:name gabor-tail

   169 #+begin_src clojure

   170 (defn show-kernel [kernel]

   171   (let [img-path "/home/r/proj/cortex/tmp/kernel.png"]

   172     (draw-kernel! kernel img-path)

   173     (view (ImagePlus. img-path))))

   174 

   175 (defn print-kernel [kernel]

   176   (println (.dump kernel)))

   177                            

   178 

   179 (def brick-length 0.48)

   180 (def brick-width 0.24)

   181 (def brick-height 0.12)

   182 (def gravity (Vector3f. 0 -9.81 0))

   183 

   184 

   185 (defn brick* [position]

   186   (println "get brick.")

   187   (doto (box brick-length brick-height brick-width

   188 	     :position position :name "brick"

   189 	     :material "Common/MatDefs/Misc/Unshaded.j3md"

   190 	     :texture "Textures/Terrain/BrickWall/BrickWall.jpg"

   191 	     :mass 34)

   192     (->

   193      (.getMesh)

   194      (.scaleTextureCoordinates (Vector2f. 1 0.5)))

   195     (.setShadowMode RenderQueue$ShadowMode/CastAndReceive)

   196     )

   197   )

   198 

   199 

   200 (defn floor*

   201   "make a sturdy, unmovable physical floor"

   202   []

   203   (box 10 0.1 5 :name "floor" :mass 0 :color ColorRGBA/Gray :position (Vector3f. 0 0 0)))

   204 

   205 (defn floor* []

   206   (doto (box 10 0.1 5 :name "floor" ;10 0.1 5 ; 240 0.1 240

   207 	     :material "Common/MatDefs/Misc/Unshaded.j3md"

   208 	     :texture "Textures/BronzeCopper030.jpg"

   209 	     :position (Vector3f. 0 0 0 )

   210 	     :mass 0)

   211     (->

   212      (.getMesh)

   213      (.scaleTextureCoordinates (Vector2f. 3 6)));64 64

   214     (->

   215      (.getMaterial)

   216      (.getTextureParam "ColorMap")

   217      (.getTextureValue)

   218      (.setWrap Texture$WrapMode/Repeat))

   219     (.setShadowMode RenderQueue$ShadowMode/Receive)

   220   ))

   221 

   222 

   223 (defn brick-wall* []

   224   (let [node (Node. "brick-wall")]

   225     (dorun

   226      (map

   227       (comp  #(.attachChild node %) brick*)

   228        (for [y (range 10)

   229 	     x (range 4)

   230 	     z (range 1)]

   231        	    (Vector3f.

   232        	     (+ (* 2 x brick-length)

   233 		(if (even? (+ y z)) 

   234 		  (/ brick-length 4) (/ brick-length -4)))

   235        	     (+ (* brick-height (inc (* 2 y))))

   236 	     (* 2 z brick-width) ))))

   237     (.setShadowMode node RenderQueue$ShadowMode/CastAndReceive)

   238     node))

   239 

   240 (import com.aurellem.capture.Capture)

   241 

   242 (import java.io.File)

   243 

   244 (def base "/home/r/proj/cortex/render/gabor-1/")

   245 

   246 (defn brick-wall-game-run [record?]

   247   (let [capture-dir (File. base "main")]

   248     

   249     (.mkdir (File. base "main"))

   250     (doto

   251         (world

   252          (doto (Node.) (.attachChild (floor*))

   253                (.attachChild (brick-wall*))

   254                )

   255          {"key-f" (fn [game value] 

   256                     (if (not value) (add-element game (brick-wall*))))

   257           "key-space" (fire-cannon-ball )}

   258          (fn [world]

   259            (position-camera world

   260                             (Vector3f. 1.382548, 4.0383573, 5.994235)

   261                             (Quaternion. 0.0013082094, 0.98581666, -0.1676442, 0.0076932586))

   262 

   263            ;;(speed-up world)

   264            

   265            (if record?

   266              (Capture/captureVideo

   267               world capture-dir))

   268               

   269            (add-camera! world (.getCamera world) no-op))

   270          (fn [& _]))     

   271       (.start))))

   272 

   273 (defn convolve-preview [kernel]

   274   (let [input "/home/r/proj/cortex/render/gabor-1/main/0000032.png"

   275         

   276         

   277         output "/home/r/ppp.png"

   278 

   279         i (org.opencv.highgui.Highgui/imread input)

   280 

   281         ;;kernel (gabor-kernel 10 1 (/ Math/PI 2) 10 0)

   282 

   283         new-mat (Mat.)

   284                 

   285         ]

   286 

   287     (org.opencv.imgproc.Imgproc/filter2D  i new-mat CvType/CV_32F kernel)

   288     

   289     (org.opencv.highgui.Highgui/imwrite "/home/r/ppp.png" new-mat)

   290     

   291     (view (ImagePlus. input))

   292     (view (ImagePlus. output))))

   293 

   294 (use 'clojure.java.shell)

   295 

   296 

   297 (defn apply-gabor [kernel source dest]

   298     (let [i (org.opencv.highgui.Highgui/imread source)

   299           new-mat (Mat.)]

   300       

   301       (println dest)

   302       (if (not (.exists (File. dest)))

   303         (do

   304           (org.opencv.imgproc.Imgproc/filter2D  i new-mat CvType/CV_32F kernel)

   305           (org.opencv.highgui.Highgui/imwrite dest new-mat)

   306           (println "mogrify" "-modulate" "1000%" dest)

   307           (sh "mogrify" "-modulate" "1000%" dest)))))

   308 

   309 

   310 (import java.io.File)

   311 

   312 (defn images [path]

   313   (sort (rest (file-seq (File. path)))))

   314 

   315 

   316 

   317 (defn pics [file]

   318   (images (str base file)))

   319 

   320 (defn generate-gabor-images [kernel name]

   321   (draw-kernel! kernel (str base name ".png"))

   322 

   323   (.mkdir (File. (str base name)))

   324   

   325   (let [main (map #(.getCanonicalPath %) (pics "main"))

   326         targets (map #(str base name "/" (format "%07d.png" %))

   327                      (range 0 (count main)))]

   328     (dorun (pmap (partial apply-gabor kernel) main targets))))

   329 

   330 

   331 (def banks

   332   [[(gabor-kernel 2.8 3.5) "bank-1-1"]

   333    [(gabor-kernel 2.8 3.5 (/ Math/PI 2)) "bank-1-1-rot"]

   334    

   335 ;;   [(gabor-kernel 3.6 4.6) "bank-1-2"]

   336 ;;   [(gabor-kernel 4.5 5.6) "bank-2-1"]

   337 ;;   [(gabor-kernel 6.3 7.9) "bank-3-1"]

   338 ;;   [(gabor-kernel 7.3 9.1) "bank-3-2"]

   339 

   340    [(gabor-kernel 12.3 15.4) "bank-6-1"]

   341    

   342 

   343 ;;   [(gabor-kernel 17 21.2) "bank-8-1"]

   344 ;;   [(gabor-kernel 18.2 22.8) "bank-8-2"]

   345    ])

   346    

   347 

   348 (defn make-all-images []

   349   (dorun (map (partial apply generate-gabor-images) banks)))

   350 

   351 

   352 

   353 (defn compile-left-right []

   354   (.mkdir (File. (str base "left-right")))

   355   (let [main (pics "main")

   356         left (pics "bank-1-1")

   357         right (pics "bank-1-1-rot")

   358         left-kernel (repeat 20000 (File. (str base "bank-1-1.png")))

   359         right-kernel (repeat 20000 (File. (str base "bank-1-1-rot.png")))

   360         targets (map

   361                  #(File. (str base "left-right/" (format "%07d.png" %)))

   362                  (range 0 (count main)))]

   363     

   364     (dorun

   365      (pmap

   366       (comp

   367        (fn [[main left right left-kernel right-kernel target]]

   368          (println target)

   369          (if (not (.exists (File. target)))

   370            (sh "convert"

   371                "-size" "1940x515" "xc:white"

   372                main      "-geometry" "+0+0"    "-composite"

   373                left "-geometry" "+650+0"   "-composite"

   374                right     "-geometry" "+1300+0"  "-composite"

   375                left-kernel      "-geometry" "+960+485"  "-composite"

   376                right-kernel      "-geometry" "+1610+485"  "-composite"

   377                target)))

   378        (fn [& args] (map #(.getCanonicalPath %) args)))

   379       main left right left-kernel right-kernel targets))))

   380 

   381 

   382 (defn compile-big-small []

   383   (.mkdir (File. (str base "big-small")))

   384   (let [main (pics "main")

   385         left (pics "bank-1-1")

   386         right (pics "bank-6-1")

   387         small-kernel (repeat 20000 (File. (str base "bank-1-1.png")))

   388         big-kernel (repeat 20000 (File. (str base "bank-6-1.png")))

   389         targets (map

   390                  #(File. (str base "big-small/" (format "%07d.png" %)))

   391                  (range 0 (count main)))]

   392     

   393     (dorun

   394      (pmap

   395       (comp

   396        (fn [[main left right small-kernel big-kernel target]]

   397          (println target)

   398          (if (not (.exists (File. target)))

   399            (sh "convert"

   400                "-size" "1940x610" "xc:white"

   401                main      "-geometry" "+0+0"    "-composite"

   402                left "-geometry" "+650+0"   "-composite"

   403                right     "-geometry" "+1300+0"  "-composite"

   404                small-kernel      "-geometry" "+960+485"  "-composite"

   405                big-kernel      "-geometry" "+1560+485"  "-composite"

   406                target)))

   407        (fn [& args] (map #(.getCanonicalPath %) args)))

   408       main left right small-kernel big-kernel targets))))

   409 

   410 

   411 (defn regen-everything []

   412   (make-all-images)

   413   (compile-left-right)

   414   (compile-big-small))

   415 

   416       

   417 #+end_src

   418 

   419 #+name: make-left-right

   420 #+begin_src sh

   421 #!/bin/sh

   422 

   423 ffmpeg -framerate 60 -i ./left-right/%07d.png -b:v 9000k\

   424      -c:v mpeg4 -r 60 gabor-rotation.mp4

   425 

   426 #+end_src

   427 

   428 

   429 #+name: make-big-small

   430 #+begin_src sh

   431 #!/bin/sh

   432 

   433 ffmpeg -framerate 60 -i ./big-small/%07d.png -b:v 9000k\

   434      -c:v mpeg4 -r 60 gabor-big-small.mp4

   435 

   436 #+end_src

   437 

   438 #+begin_html

   439 <div class="figure">

   440 <video controls="controls" width="755">

   441   <source src="../video/gabor-rotation.mp4" type="video/mp4"

   442 	  preload="none" poster="../images/aurellem-1280x480.png" />

   443 </video>

   444  <br> <a href="http://youtu.be/r5Bn2aG7MO0"> YouTube </a>

   445 <p>Two gabor filters with different values of theta are compared. The

   446 horizontally aligned one does better in this example.</p>

   447 </div>

   448 #+end_html

   449 

   450 

   451 

   452 #+begin_html

   453 <div class="figure">

   454 <video controls="controls" width="755">

   455   <source src="../video/gabor-big-small.mp4" type="video/mp4"

   456 	  preload="none" poster="../images/aurellem-1280x480.png" />

   457 </video>

   458  <br> <a href="http://youtu.be/r5Bn2aG7MO0"> YouTube </a>

   459 <p>Here we compare a gabor filter from bank 1 with one from bank 6.</p>

   460 </div>

   461 #+end_html

   462 

   463 

   464 

   465 

   466 * COMMENT Generate Source

   467 #+begin_src clojure :tangle ../src/cortex/gabor.clj

   468 <<gabor>>

   469 <<gabor-tail>>

   470 #+end_src

   471 

   472 #+begin_src clojure :tangle ../render/gabor-1/make-rotation.sh

   473 <<make-left-right>>

   474 #+end_src

   475 

   476 #+begin_src clojure :tangle ../render/gabor-1/make-big-small.sh

   477 <<make-big-small>>

   478 #+end_src
author	Robert McIntyre <rlm@mit.edu>
date	Thu, 07 Mar 2013 07:49:55 +0000
parents	b599a189433b
children	871882350c83