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documents:110816pyip_cooking [2011/09/25 22:23] – kotadocuments:110816pyip_cooking [2016/05/24 12:46] – external edit 127.0.0.1
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 === Tiff file to numpy.ndarray === === Tiff file to numpy.ndarray ===
  
-<sxh python>+<code python>
 >>> import cv >>> import cv
 >>> img = cv.imread('/Users/miura/img/blobs.tif') >>> img = cv.imread('/Users/miura/img/blobs.tif')
 >>> type(img) >>> type(img)
 >>> <type 'numpy.ndarray'> >>> <type 'numpy.ndarray'>
-</sxh>+</code>
  
   * cv.imread reads only the first frame in tiff stack.    * cv.imread reads only the first frame in tiff stack. 
Line 21: Line 21:
 === Tiff file to Iplimage === === Tiff file to Iplimage ===
  
-<sxh python>+<code python>
 In [40]: img = cv.LoadImage('/Users/miura/img/blobs.tif') In [40]: img = cv.LoadImage('/Users/miura/img/blobs.tif')
 In [41]: img In [41]: img
 Out[41]: <iplimage(nChannels=3 width=256 height=254 widthStep=768 )> Out[41]: <iplimage(nChannels=3 width=256 height=254 widthStep=768 )>
-</sxh>+</code>
  
  
Line 67: Line 67:
   * tested with python2.6, openCV 2.2, numpy 1.6.1, OSX10.6.8   * tested with python2.6, openCV 2.2, numpy 1.6.1, OSX10.6.8
  
-<sxh python>+<code python>
 >>> import cv >>> import cv
 >>> import numpy as np >>> import numpy as np
Line 78: Line 78:
        [ 7.,  7.,  7.,  7.,  7.]], dtype=float32)        [ 7.,  7.,  7.,  7.,  7.]], dtype=float32)
  
-</sxh>+</code>
 <[[http://stackoverflow.com/questions/5762440/how-to-transform-a-opencv-cvmat-back-to-ndarray-in-numpy|link]]> <[[http://stackoverflow.com/questions/5762440/how-to-transform-a-opencv-cvmat-back-to-ndarray-in-numpy|link]]>
  
Line 85: Line 85:
   * tested with python2.6, openCV 2.2, numpy 1.6.1, OSX10.6.8   * tested with python2.6, openCV 2.2, numpy 1.6.1, OSX10.6.8
  
-<sxh python>+<code python>
 >>> im = cv.CreateImage( ( 5 , 5 ) , 8 , 1 ) >>> im = cv.CreateImage( ( 5 , 5 ) , 8 , 1 )
 >>> cv.Set( im , 100 ) >>> cv.Set( im , 100 )
Line 99: Line 99:
        [100, 100, 100, 100, 100]], dtype=uint8)        [100, 100, 100, 100, 100]], dtype=uint8)
  
-</sxh>+</code>
 <[[http://stackoverflow.com/questions/5762440/how-to-transform-a-opencv-cvmat-back-to-ndarray-in-numpy|link]]> <[[http://stackoverflow.com/questions/5762440/how-to-transform-a-opencv-cvmat-back-to-ndarray-in-numpy|link]]>
  
Line 138: Line 138:
 ipython -wthread ipython -wthread
 </code> </code>
-or incase of newer ipython+or incase of newer ipython (version >= 1.1)
 <code> <code>
 ipython --i ipython --i
Line 165: Line 165:
  
 since the namespace "mlab" overlaps with matplotlib.mlab.  since the namespace "mlab" overlaps with matplotlib.mlab. 
 +
 +==== plot 3D trajectory using Mayavi ====
 +
 +To evaluate 3D particle tracking results, trajectories could be plotted by color coding the time. 
 +
 +[{{ :documents:figure20111219:snapshot3.png?300| Plotting 3D trajectory. Trajectories are colored so that the beginning of frame is blue and gradually become red towards the end of the sequence}}] 
  
  
  
documents/110816pyip_cooking.txt · Last modified: 2016/05/25 07:56 by kota
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