Updates for the analysis of Timepix3 and CLICpix data

- The DUT id can be given as input for ComputeAlignment.py, pyEudetReconstructionOnly.py and pyEudetAnalysisOnly. Used for the case where we have several DUTs.
- The scale of the axis for the figures has been adapted to the pixel pitch (which was hard coded before).
- For the Timepix3 data, some pixels are fired more than once with different TOT values. For the moment, they are ignored in the file EudetData.py.
I'd prefer if this line was left in, otherwise the warning will be lost. Why do you want to remove them? Same for below.