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New features
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* Add a slider to the filter ui.
* Add auto_replot to sum.
* Add butterworth filter.
* Added centring and auto_transpose to the svd_pca algorithm.
* Keep the mva_results information when changing the signal type.
* Added sparse_pca and mini_batch_sparse_pca to decomposition algorithms.
* Added TV to the smoothing algorithms available in BSS.
* Added whitening to the mdp ICA preprocessing.
* Add explained_variance_ratio.
* Improvements in saving/loading mva data.
* Add option to perform ICA on the scores.
* Add orthomax FA algorithm.
* Add plot methods to Component and Parameter.
* Add plot_results to Model.
* Add possibility to export the decomposition and bss results to a folder.
* Add Signal method `change_dtype`.
* Add the possibility to pass extra parameters to the ICA algorithm.
* Add the possibility to reproject the data after a decomposition.
* Add warning when decomposing a non-float signal.
* adds a method to get the PCs as a Signal1D object and adds smoothing to the ICA preprocessing.
* Add the possibility to select the energy range in which to perform spike removal operations.
* the smoothings guis now offer differentiation and line color option. Smoothing now does not require a gui.
* Fix reverse_ic which was not reversing the scores and improve the autoreversing method.
* Avoid cropping when is not needed.
* Changed criteria to reverse the ICs.
* Changed nonans default to False for plotting.
* Change the whitening algorithm to a svd based one and add sklearn fastica algorithm.
* Clean the ummixing info after a new decomposition.
* Increase the chances that similar independent components will have the same indexes.
* Make savitzky-golay smoothing work without raising figures.
* Make plot_decomposition* plot only the number of factors/scores determined by output_dimension.
* make the Parameter __repr__ method print its name.
* New contrast adjustment tool.
* New export method for Model, Component and Parameter.
* New Model method: print_current_values.
* New signal, spectrum_simulation.
* New smoothing algorithm: total variance denoising.
* Plotting the components in the same or separate windows is now configurable in the preferences.
* Plotting the spikes is now optional.
* Return an error message when the decomposition algorithm is not recognised.
* Store the masks in mva_results.
* The free parameters are now automically updated on chaning the free attribute.
Bugs fixed
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* Added missing keywords to plot_pca_factors and plot_ica_factors.
* renamed incorrectly named exportPca and exportIca functions.
* an error was raised when calling generate_data_from_model.
* a signal with containing nans was failing to plot.
* attempting to use any decomposition plotting method after loading with mva_results.load was raising an error.
* a typo was causing in error in pca when normalize_variance = True.
* a typo was raising an error when cropping the decomposition dimension.
* commit 5ff3798105d6 made decomposition and other methods raise an error.
* BUG-FIXED: the decomposition centering index was wrong.
* ensure_directory was failing for the current directory.
* model data forced to be 3D unnecessarily.
* non declared variable was raising an error.
* plot naming for peak char factor plots were messed up.
* plot_RGB was broken.
* plot_scores_2D was using the transpose of the shape to reshape the scores.
* remove background was raising an error when the navigation dimension was 0.
* saving the scores was sometimes transposing the shape.
* selecting indexes while using the learning export functions was raising an error.
* the calibrate ui was calculating wrongly the calibration the first time that Apply was pressed.
* the offset estimation was summing instead of averaging.
* the plot_explained_variance_ratio was actually plotting the cumulative, renamed.
* the signal mask in decomposition and ica was not being raveled.
* the slice attribute was not correctly set at init in some scenarios.
* the smoothing and calibrabrion UIs were freezing when the plots where closed before closing the UI window.
* to_spectrum was transposing the navigation dimension.
* variance2one was operating in the wrong axis.
* when closing the plots of a model, the UI object was not being destroyed.
* when plotting an image the title was not displayed.
* when the axis size was changed (e.g. after cropping) the set_signal_dimension method was not being called.
* when using transform the data was being centered and the resulting scores were wrong.
Syntax changes
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* in decomposition V rename to explained_variance.
* In FixedPattern, default interpolation changed to linear.
* Line and parabole components deleted + improvements in the docstrings.
* pca_V = variance.
* mva_result renamed to learning_results.
* pca renamed to decomposition.
* pca_v and mva_results.v renamed to scores pc renamed to factors .
pca_build_SI renamed to get_pca_model ica_build_SI renamed to get_ica_model.
* plot_explained_variance renamed to plot_explained_variance_ratio.
* principal_components_analysis renamed to decomposition.
* rename eels_simulation to eels_spectrum_simulation.
* Rename the output parameter of svd_pca and add scores.
* Replace plot_lev by plot_explained_variance_ratio.
* Scores renamed to loadings.
* slice_bool renamed to navigate to make its function more explicit.
* smoothing renamed to pretreatment and butter added.
* variance2one renamed to normalize_variance.
* w renamed to unmixing matrix and fixes a bug when loading a mva_result
in which output_dimension = None.
* ubshells are again availabe in the interactive session.
* Several changes to the interface.
* The documentation was updated to reflex the last changes.
* The microscopes.csv file was updated so it no longer contains the
Orsay VG parameters.