Generate counts and plots for SBS signatures

[Nicklas Nordborg]

The SBS mutational signatures are describer here: ​https://cancer.sanger.ac.uk/signatures/sbs/

We should use the information that was added to the VCF file by #1552 to count the number of mutations and output a text file with the counts for the 96 SBS contexts. This text file can then be plotted in a nice pdf by the SigProfilerPlotting package: ​https://github.com/AlexandrovLab/SigProfilerPlotting

[Nicklas Nordborg]

In 7488:

References #1554: Generate counts and plots for SBS signatures

Updated the container definition to also include the SigProfilerPlotting package. Increased the version number.

[Nicklas Nordborg]

In 7489:

References #1554: Generate counts and plots for SBS signatures

Added a python script that creates a text file SBS_96.txt with counts and a PDF with the plot.

[Nicklas Nordborg]

In 7490:

References #1554: Generate counts and plots for SBS signatures

Fixed a bug were the REF was used instead of the left base causing counts to be assigned to incorrect SBS categories.

[Nicklas Nordborg]

In 7491:

References #1554: Generate counts and plots for SBS signatures

Changed iteration order of the SBS categories so that mutations of the same type are next to each other.

[Nicklas Nordborg]

In 7492:

References #1554: Generate counts and plots for SBS signatures

Added thumbnails of the PDF plot to the raw bioassay list and view pages.

[Nicklas Nordborg]

In 7493:

References #1554: Generate counts and plots for SBS signatures

Added a link to the PDF plot in the case summary.

[Nicklas Nordborg]

In 7494:

References #1554: Generate counts and plots for SBS signatures

Added a thumbnail of the SBS plot to the confirmation wizard.

[Nicklas Nordborg]

In 7496:

References #1543 and #1554. Include the SBS counts and PDF plot in the release export.