Fix undefined variables

[max-models]

Solves the following issue(s):

Closes #14

Todo:

• Update post_processing/orbits/orbits_tools.py to the new .py parameter format
• Update/remove pproc_struphy.py

[max-models]

Starting point:

❯ ruff check --output-format=concise
doc/conf.py:21:11: F821 Undefined name `__version__`
doc/conf.py:24:11: F821 Undefined name `__version__`
src/struphy/feec/mass.py:3040:54: F821 Undefined name `self`
src/struphy/feec/mass.py:3040:91: F821 Undefined name `self`
src/struphy/feec/mass.py:3040:105: F821 Undefined name `self`
src/struphy/feec/mass.py:3052:37: F821 Undefined name `self`
src/struphy/feec/mass.py:3052:78: F821 Undefined name `self`
src/struphy/feec/mass.py:3053:37: F821 Undefined name `self`
src/struphy/feec/mass.py:3075:45: F821 Undefined name `self`
src/struphy/feec/mass.py:3075:87: F821 Undefined name `self`
src/struphy/feec/mass.py:3075:101: F821 Undefined name `self`
src/struphy/feec/mass.py:3087:45: F821 Undefined name `self`
src/struphy/feec/mass.py:3087:87: F821 Undefined name `self`
src/struphy/feec/mass.py:3087:101: F821 Undefined name `self`
src/struphy/feec/mass.py:3091:45: F821 Undefined name `self`
src/struphy/feec/mass.py:3091:87: F821 Undefined name `self`
src/struphy/feec/mass.py:3091:101: F821 Undefined name `self`
src/struphy/feec/mass.py:3097:45: F821 Undefined name `self`
src/struphy/feec/mass.py:3097:87: F821 Undefined name `self`
src/struphy/feec/mass.py:3097:101: F821 Undefined name `self`
src/struphy/feec/utilities.py:471:64: F821 Undefined name `self`
src/struphy/feec/utilities.py:478:68: F821 Undefined name `self`
src/struphy/feec/utilities.py:479:69: F821 Undefined name `self`
src/struphy/feec/utilities.py:485:64: F821 Undefined name `self`
src/struphy/fields_background/coil_fields/base.py:113:12: F821 Undefined name `pd`
src/struphy/geometry/utilities.py:187:31: F821 Undefined name `r_flux_surface`
src/struphy/models/variables.py:264:138: F821 Undefined name `obj`
src/struphy/models/variables.py:408:138: F821 Undefined name `obj`
src/struphy/pic/accumulation/filter.py:130:21: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:131:21: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:132:21: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:133:21: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:134:21: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:153:17: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:155:35: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:158:14: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:159:14: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:163:24: F821 Undefined name `xp`
src/struphy/pic/accumulation/filter.py:165:24: F821 Undefined name `xp`
src/struphy/post_processing/cprofile_analyser.py:50:21: F821 Undefined name `name_li`
src/struphy/post_processing/cprofile_analyser.py:51:21: F821 Undefined name `name_li`
src/struphy/post_processing/cprofile_analyser.py:52:21: F821 Undefined name `name_li`
src/struphy/post_processing/cprofile_analyser.py:53:21: F821 Undefined name `name_li`
src/struphy/post_processing/cprofile_analyser.py:54:21: F821 Undefined name `name_li`
src/struphy/post_processing/orbits/orbits_tools.py:50:21: F821 Undefined name `setup_domain_and_equil`
src/struphy/post_processing/pproc_struphy.py:158:37: F821 Undefined name `kinetic_species`
src/struphy/post_processing/pproc_struphy.py:170:82: F821 Undefined name `kinetic_kinds`
src/struphy/post_processing/pproc_struphy.py:173:28: F821 Undefined name `kinetic_kinds`
src/struphy/post_processing/pproc_struphy.py:181:20: F821 Undefined name `kinetic_kinds`
src/struphy/propagators/propagators_fields.py:1642:27: F821 Undefined name `pcg`
src/struphy/propagators/propagators_fields.py:8488:28: F821 Undefined name `u`
Found 51 errors.

[max-models]

@spossann Is src/struphy/post_processing/pproc_struphy.py still used? kinetic_species and kinetic_kinds are undefined there.

[max-models]

Current status:

❯ ruff check --output-format=concise
src/struphy/post_processing/orbits/orbits_tools.py:50:21: F821 Undefined name `model`
src/struphy/post_processing/pproc_struphy.py:158:37: F821 Undefined name `kinetic_species`
src/struphy/post_processing/pproc_struphy.py:170:82: F821 Undefined name `kinetic_kinds`
src/struphy/post_processing/pproc_struphy.py:173:28: F821 Undefined name `kinetic_kinds`
src/struphy/post_processing/pproc_struphy.py:181:20: F821 Undefined name `kinetic_kinds`
Found 5 errors.