# This is an example "ISee! Pixel and Bad Pixel Correction" configuration file.

# All possible (as for ISee! v1.11.1) options/commands are listed and explaned.

# Lines starting with sharp character (#) are considered as comments and ignored by ISee!



# Written by Olexandr Alekseychuk (Oleksandr.Alekseychuk@gmail.com), 2008-11-15, 2014-02-02







# List reference images in order of ascending exposure (average grey value).

# The number after image filename is optional and specifies target grey value of this reference. 

# If ommited, ISee! will calculate and use the image' global median for the target grey value.



black.tif 	    0

0.02mA.tif	  200

0.05mA.tif	  500

0.10mA.tif	 1000

0.19mA.tif	 1900

0.38mA.tif	 3800

0.75mA.tif	 7500

#1.50mA.tif	15000







# Perform correction so that the black-image will have grey value of zero after ccorrection.

# In other words: image will be corrected for the offset.

# Then the first image in the list above will be considered as a reference black-image.



$adjust_black







# Default interpolation between reference images is linear, i.e. 1st order.  

# This option enables 2nd order interpolation.  Seldom necessary, 

# unkomment only if you really need this. 



#$use_2d_order







# Detection of bad pixels by analysis of their gain.

#

# The first number (argument) is global sensitivity.  It is the allowed deviation of gain

# of each single pixel from the global median gain, expressed in standard deviations.

#

# The second number is local sensitivity and it is the allowed gain deviation from the

# median gain in 21x21 local area (local area size is according to E2597).  If set to zero  

# or a negative number - no local analysis is performed (_significantly_ faster).



#$detect_bad_pixels 5.0 3.0 

$detect_bad_pixels 5.0 -1 







# Detection of bad pixels by means of correction (grey value adjustment) of a reference image 

# and detection of pixels which cannot be corrected sifficiently good.  

#

# Remenber to comment out the corresponding images in the list of reference images (above).

#

# The second (numerical) parameter is the allowed deviation of grey value in the corrected image

# from the median grey value in 9x9 local area (local area size is according to E2597),

# expressed in _percents_.



#$detect_bad_pixels 0.10mA.tif

#$detect_bad_pixels 0.38mA.tif 1.5







# In case if bad pixel detection resulted in a excessive number of detections, this option 

# allows to set a warning signal.  The argument is the percentage of bad pixels in relation 

# to the number of all pixels (image size).



$bad_pixels_high_sens_warn 10







# Once succesively detected bad pixels have to be saved in a file, bad pixel map, 

# in order to be reused after that since the bad pixel detection procedure is time consuming



#$save_bad_pixels_map bad_pixels.tif







# And this command allows to load the bad pixel map saved before.



#$bad_pixels_map bad_pixels.tif







# Commands ISee! to ignore possible interferences between bad pixels and their immediate neighbours.

# Leave it commented out, if you have no good reason to do the opposite.



#$ignore_pixel_leakage





# drift correction of dark image by difference of first reference image - dark_frame_refresh

# if median of both images are differnt by more than 50% (|a-b| > a+b/4), a warning will be shown

# available for Isee versions above 1.10.2



#$dark_frame_refresh <actual dark image>



# 

# eof