unitCellExtraction.par

###### Unit cell extraction parameter file

### Specify source path (*.tif)
sourcePath testimages/hexVacancy_Gaussian0.1.tif

### Specify output directory
outputDir "./"




### Additional parameters (optional)

### Angle estimation algorithm
# 1 = Fourier peaks
# 2 = Projective standard deviation
angleAlgType 2

### NOTE:	For the bumps3 images, one gets better results using angleAlgType 1
###			In the GCPR publication we had used angleAlgType 2, but the PSD peak
###			extraction code has changed since then.
###			While in our experience the changes have generally improved
###			the performance, they turn out to be worse in this particular case.


### Fundamental period estimation algorithm
# 1 = Sum of Sines fit
# 2 = Periodicity energy minimization (clustering of local minima + AIC)
periodAlgType 2

### Refine unit cell using non-linear optimization
refine 1

### Switch verbose console output on / off
quietMode 0