When using wavelet.cwt I get the following warning about a future deprecation in scipy:

/home/jorge/.local/lib/python3.5/site-packages/scipy/fftpack/basic.py:159: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use arr[tuple(seq)] instead of arr[seq]. In the future this will be interpreted as an array index, arr[np.array(seq)], which will result ei

The codebase needs refactoring to better follow the pipeline overview graphic. The code still have many of the vestiges of the bash script program flow. Break it down by the stages in the graphic. While a further breakdown may be necessary, at a minimum there should be a more mirrored code naming.