(WIP) Fix - Prototype to adapt FODF fit to non RAS stride in Scilpy

[frheault]

Quick description

Working prototype test with stride [-1,2,3,4]
To be continued:

• scil_aodf_metrics.py: Computes metrics from asymmetric ODFs.
• scil_bingham_metrics.py: Computes metrics from Bingham distribution fits.
• scil_btensor_metrics.py: Computes metrics using the DIVIDE method with b-tensor
  encodings.
• scil_dki_metrics.py: Computes Diffusion Kurtosis Imaging (DKI) metrics.
• scil_dti_metrics.py: Computes Diffusion Tensor Imaging (DTI) metrics.
• scil_dwi_to_sh.py: Computes SH coefficients from raw DWI signal.
• scil_fodf_to_bingham.py: Fits a Bingham distribution to fODF lobes.
• scil_gradients_apply_transform.py: Transforms b-vectors using an affine/rigid
  transformation.
• scil_gradients_modify_axes.py: Flips or swaps axes of the gradient sampling matrix.
• scil_mrds_metrics.py: Computes metrics for each Multi-Resolution Discrete-Search
  (MRDS) solution.
• scil_qball_metrics.py: Computes Constant Solid Angle (CSA) or Analytical Q-ball model
  metrics.
• scil_sh_convert.py: Converts SH files between different bases.
• scil_sh_fusion.py: Merges a list of Spherical Harmonics files.
• scil_sh_to_aodf.py: Estimates asymmetric ODFs (aODFs) from a spherical harmonics
  image.
• scil_sh_to_rish.py: Computes Rotationally Invariant Spherical Harmonics (RISH)
  features.
• scil_sh_to_sf.py: Samples SF values from a Spherical Harmonics signal.
• scil_tracking_local_dev.py: Local streamline HARDI tractography.
• scil_viz_bingham_fit.py: Visualizes a 2D slice of a Bingham volume.
• scil_viz_dti_screenshot.py: Registers DWI to a template for screenshots.
• scil_viz_gradients_screenshot.py: Visualizes directions on a sphere.

...

Type of change

Check the relevant options.

• Bug fix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to not work as expected)
• This change requires a documentation update

Provide data, screenshots, command line to test (if relevant)

...

Checklist

• My code follows the style guidelines of this project (run autopep8)
• I added relevant citations to scripts, modules and functions docstrings and descriptions
• I have performed a self-review of my code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation
• My changes generate no new warnings
• I moved all functions from the script file (except the argparser and main) to scilpy modules
• I have added tests that prove my fix is effective or that my feature works
• New and existing unit tests pass locally with my changes

[codecov]

Codecov Report

❌ Patch coverage is 85.24590% with 9 lines in your changes missing coverage. Please review.
✅ Project coverage is 72.61%. Comparing base (ad967d5) to head (20944a1).

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #1220      +/-   ##
==========================================
+ Coverage   72.59%   72.61%   +0.02%     
==========================================
  Files         294      294              
  Lines       25339    25372      +33     
  Branches     3546     3548       +2     
==========================================
+ Hits        18395    18425      +30     
- Misses       5448     5449       +1     
- Partials     1496     1498       +2     

Flag	Coverage Δ
smoketests	69.80% <85.24%> (+0.02%)	⬆️
unittests	13.28% <8.19%> (+<0.01%)	⬆️

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Components	Coverage Δ
Scripts	75.44% <78.37%> (-0.01%)	⬇️
Library	69.25% <95.83%> (+0.05%)	⬆️

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[AntoineTheb]

Wait so ... how were non-RAS strides handled by scilpy before ?

edit: answered offline