Add serialization upgrade script for type renaming

[lgoettgens]

This approaches to add an upgrade script for serialized files incorporating the renamings from #3231 and #3288. A script for applying the renaming can is available in #3288 (comment).

I looked through all occurrences of @register_serialization_type in the codebase and compared them with the renaming script. If the type got renamed, both old and new names got added to the list in the serialization code.

Everything got a bit finicky, as type strings can be at a lot of different places, and furthermore inside :_refs and this needs to get reloaded after the upgrading into the DeserializationState.

I reverted to data/JohnsonMatrices/ folder to before #3288. They should get either kept at this older state or upgraded once this PR works using

for index in keys(Oscar._johnson_names)
       println(index)
       loaded = load(joinpath(Oscar.oscardir, "data", "JohnsonMatrices", string("j", index, ".mat")))
       save(joinpath(Oscar.oscardir, "data", "JohnsonMatrices", string("j", index, ".mat")), loaded)
end

cc @thofma @joschmitt @antonydellavecchia

[lgoettgens]

Ok, so this works now locally with some examples that I serialized on 56feead (i.e. before #3231) and loaded them on this branch.
Furthermore, loading all Johnson matrices in data/JohnsonMatrices/ works now locally (and should be verified by the CI job testing johnson_solid).

@antonydellavecchia can you please have a look if what I've done here looks more or less sensible? You don't have to check the concrete types to update, just the general framework of renaming types. Thanks!

[antonydellavecchia]

Things look more or less correct. If tests are passing then great. I was a bit concerned about the fact you need to update s.refs after the upgrade, but this is probably something for me to look into. Thanks for doing this!

[codecov]

Codecov Report

Merging #3303 (a103b6c) into master (757489f) will increase coverage by 39.94%.
Report is 3 commits behind head on master.
The diff coverage is 100.00%.

Additional details and impacted files

@@             Coverage Diff             @@
##           master    #3303       +/-   ##
===========================================
+ Coverage   41.65%   81.60%   +39.94%     
===========================================
  Files         533      547       +14     
  Lines       71640    73530     +1890     
===========================================
+ Hits        29844    60005    +30161     
+ Misses      41796    13525    -28271     

Files	Coverage Δ
src/Serialization/Fields.jl	93.96% <100.00%> (+92.83%)	⬆️
src/Serialization/Rings.jl	91.53% <ø> (+77.32%)	⬆️
src/Serialization/Upgrades/0.15.0.jl	100.00% <100.00%> (ø)
src/Serialization/Upgrades/main.jl	100.00% <ø> (+94.44%)	⬆️
src/Serialization/main.jl	85.89% <100.00%> (+17.53%)	⬆️

... and 407 files with indirect coverage changes