fix/parser storage stability

[jurgenvinju]

This PR is to help diagnostics of issues during parser storage (and the implicit parser generation process below it).

One of the main issues we encounter when using the parser storage features is incompleteness of the specification as a whole (missing modules which are imported or extended but not represented). A bit of incompleteness improves efficiency (a lot), so users filter their lists of modules. This may lead to missing syntax rules eventually. The current PR makes filtering a builtin feature, and reports missing modules as warnings so things do not go south implicitly anymore, and finally makes underlying filesystem API fail faster in the presence of non-existing folders.

• adds exclude filters to all file system crawl and find functions, this helps adding the ignore feature to the parser generator
• links pcfg.ignores to the file system crawl excludes for Rascal modules during (stored) parser generation; now people can use this feature without having to filter themselves (filtering modules has big efficiency benefits).
• improved reporting on missing modules during parser generation by adding localized warnings.. If a filter was too strong, now we can see that happening. Before we only saw empty grammars.
• makes util::FileSystem functions throw PathNotFound if the provided folders do not exist This fails a lot faster and a lot clearer than the dozens of missing modules you get from that. This helps when using the lib scheme which is not implemented anymore.

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 46%. Comparing base (f6d6bbe) to head (8ae5d13).
⚠️ Report is 2 commits behind head on main.

Additional details and impacted files

@@           Coverage Diff           @@
##              main   #2759   +/-   ##
=======================================
  Coverage       46%     46%           
- Complexity    6725    6733    +8     
=======================================
  Files          794     794           
  Lines        65923   65923           
  Branches      9888    9888           
=======================================
+ Hits         30837   30838    +1     
+ Misses       32696   32695    -1     
  Partials      2390    2390           

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[DavyLandman]

Looks good, but I found 1 case where the param wasn't set for down-stream calls.

[sonarqubecloud]

Quality Gate passed

Issues
0 New issues
0 Accepted issues

Measures
0 Security Hotspots
0.0% Coverage on New Code
0.0% Duplication on New Code

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