Vimc 9230

[weshinsley]

WELL... This is a hard and messy PR to review, and sort of pulls in a number of things, but the highlights are...

1. All stochastics from 2017 are now processed - and a chunk of the PR is in the scripts/ folder, where I've recorded all the things I did. I needed to allow ignoring of a few things (missing dalys in 2017) - and a fix for LiST's PCV/Hib, where it was correctly spotting that it had to combine different burdens... but all looking ok.

2. Then the shiny app, which hopefully will be fun to test.
   On windows, stoner::stochastic_explorer() will be fine
   On linux/mac, stoner::stochastic_explorer("/mnt/vimc_stochastics") - or wherever you have \wpia-hn2.hpc.dide.ic.ac.uk\vimc_stochastics mounted to.

3. Preliminary work to pull centrals from a packit - but I think I'll finish that in a different PR when we've got something more concrete to work with.

[codecov]

Codecov Report

❌ Patch coverage is 66.00000% with 51 lines in your changes missing coverage. Please review.
✅ Project coverage is 98.01%. Comparing base (3b9a955) to head (4d10598).
⚠️ Report is 9 commits behind head on master.

Files with missing lines	Patch %	Lines
R/packit.R	0.00%	35 Missing ⚠️
R/stochastic_graphs.R	70.90%	16 Missing ⚠️

Additional details and impacted files

@@             Coverage Diff             @@
##            master      #36      +/-   ##
===========================================
- Coverage   100.00%   98.01%   -1.99%     
===========================================
  Files           22       23       +1     
  Lines         2399     2568     +169     
===========================================
+ Hits          2399     2517     +118     
- Misses           0       51      +51     

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

🚀 New features to boost your workflow:

• ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.