fix: fixes reading tsconfig and handling compilerOptions

[rubiesonthesky]

PR Checklist

• [x] Addresses an existing open issue: fixes #1532 fixes #1522
• [x] That issue was marked as status: accepting prs
• [x] Steps in CONTRIBUTING.md were taken

Overview

Follows https://github.com/JoshuaKGoldberg/TypeStat/pull/1534

• Fixes reading tsconfig and handling the values.
  • This can be seen in the snapshot files, where values for compilerOptions have been changed.
• Options from typestat.json should not disable noImplicitAny or noImplicitThis if they are enabled in tsconfig.
• Fix reading included files by changing how ts.parseJsonConfigFileContent is setup. This can been seen in action for example in include test. While before we had include: [], now we have list of files.
• When adding ts-expect-error comments, do not add full path to files. If there are multiple people working in the same project, absolute path will not be same for everyone.
• createProgramConfiguration and parseRawCompilerOptions both use parseJsonConfigFileContents function. No need to duplicate this code.