remove annotations fixes

[JFRudzinski]

VASP OUTCAR Parser Fix

Symptoms

• tests/parsers/test_vasp_parser.py::test_outcar passed when executed alone but failed (AssertionError: No model_method in simulation) once the full parser suite ran.

Root Cause

1. The VASP schema lacked mapping entries for the parent general.Simulation.model_method subsection, so the OUTCAR mapping could not materialize the parent before filling model_method.DFT.
2. Other parser tests (exciting, FHI-aims, H5MD) called remove_mapping_annotations with no filter, which wiped all mapping keys from the shared general.Simulation definition after their runs, erasing the VASP mappings even after they were added.

Fix

• Added the missing parent annotations in src/nomad_simulation_parsers/schema_packages/vasp.py:

  add_mapping_annotation(general.Simulation.model_method, XML_KEY, '.parameters')
  add_mapping_annotation(general.Simulation.model_method, OUTCAR_KEY, '.parameters')

• Extended remove_mapping_annotations to accept an annotation_keys filter and updated the exciting, FHI-aims, and H5MD parsers to drop only their own mapping keys. This keeps their cleanup behavior without stripping VASP’s xml/outcar mappings.

Verification

$ uv run --directory packages/nomad-parser-plugins-simulation pytest \
    tests/parsers/test_vasp_parser.py tests/parsers/test_quantumespresso_parser.py
$ uv run --directory packages/nomad-parser-plugins-simulation pytest tests

Both commands now pass; test_outcar succeeds regardless of suite order.

Notes

• QE failures (IndexError: pop index out of range inside Simulation.model_system removal) were ultimately due to the shared mapper cache leaking data between parsers. The FIX lives in nomad-FAIR; without it you would have to run QE tests in isolation because there’s no robust way to prevent the cache from reusing ABINIT’s data mid-suite.

[JFRudzinski]

@ndaelman-hu what I don't know is if the solution in nomad-FAIR is only arising because of this fix and/or if there is a different way to solve that issue directly in the parser