From 4c67d498cdaff59583ad3217e16a9b0d0f976f67 Mon Sep 17 00:00:00 2001
From: wolearyc <wolearyc@gmail.com>
Date: Sun, 22 Sep 2024 10:36:29 -0700
Subject: [PATCH] renamed most *_utils.py to utils.py, globals.py to
 constants.py

---
 ramannoodle/{globals.py => constants.py}               | 0
 ramannoodle/dynamics/phonon.py                         | 2 +-
 ramannoodle/dynamics/trajectory.py                     | 2 +-
 ramannoodle/io/{io_utils.py => utils.py}               | 2 +-
 ramannoodle/io/vasp/outcar.py                          | 4 ++--
 ramannoodle/io/vasp/poscar.py                          | 4 ++--
 ramannoodle/io/vasp/vasprun.py                         | 4 ++--
 ramannoodle/io/vasp/xdatcar.py                         | 2 +-
 ramannoodle/polarizability/art.py                      | 2 +-
 ramannoodle/polarizability/interpolation.py            | 6 +++---
 ramannoodle/spectrum/raman.py                          | 4 ++--
 ramannoodle/spectrum/{spectrum_utils.py => utils.py}   | 0
 ramannoodle/structure/displace.py                      | 4 ++--
 ramannoodle/structure/reference.py                     | 4 ++--
 ramannoodle/structure/{structure_utils.py => utils.py} | 0
 test/tests/test_io.py                                  | 2 +-
 test/tests/test_outcar.py                              | 2 +-
 test/tests/test_phonon_spectrum.py                     | 2 +-
 test/tests/test_structure.py                           | 2 +-
 test/tests/test_trajectory_spectrum.py                 | 2 +-
 20 files changed, 25 insertions(+), 25 deletions(-)
 rename ramannoodle/{globals.py => constants.py} (100%)
 rename ramannoodle/io/{io_utils.py => utils.py} (99%)
 rename ramannoodle/spectrum/{spectrum_utils.py => utils.py} (100%)
 rename ramannoodle/structure/{structure_utils.py => utils.py} (100%)

diff --git a/ramannoodle/globals.py b/ramannoodle/constants.py
similarity index 100%
rename from ramannoodle/globals.py
rename to ramannoodle/constants.py
diff --git a/ramannoodle/dynamics/phonon.py b/ramannoodle/dynamics/phonon.py
index cf5ce44..2af2989 100644
--- a/ramannoodle/dynamics/phonon.py
+++ b/ramannoodle/dynamics/phonon.py
@@ -4,7 +4,7 @@
 from numpy.typing import NDArray
 
 from ramannoodle.dynamics.abstract import Dynamics
-from ramannoodle.globals import RAMAN_TENSOR_CENTRAL_DIFFERENCE
+from ramannoodle.constants import RAMAN_TENSOR_CENTRAL_DIFFERENCE
 from ramannoodle.polarizability.abstract import PolarizabilityModel
 from ramannoodle.spectrum.raman import PhononRamanSpectrum
 from ramannoodle.exceptions import verify_ndarray_shape
diff --git a/ramannoodle/dynamics/trajectory.py b/ramannoodle/dynamics/trajectory.py
index c1e81c8..1a09c0f 100644
--- a/ramannoodle/dynamics/trajectory.py
+++ b/ramannoodle/dynamics/trajectory.py
@@ -10,7 +10,7 @@
 from ramannoodle.polarizability.abstract import PolarizabilityModel
 from ramannoodle.exceptions import verify_ndarray_shape, get_type_error
 from ramannoodle.spectrum.raman import MDRamanSpectrum
-from ramannoodle.structure.structure_utils import apply_pbc
+from ramannoodle.structure.utils import apply_pbc
 
 
 class Trajectory(Dynamics, Sequence[NDArray[np.float64]]):
diff --git a/ramannoodle/io/io_utils.py b/ramannoodle/io/utils.py
similarity index 99%
rename from ramannoodle/io/io_utils.py
rename to ramannoodle/io/utils.py
index abbc40a..1bee38e 100644
--- a/ramannoodle/io/io_utils.py
+++ b/ramannoodle/io/utils.py
@@ -16,7 +16,7 @@
     get_torch_missing_error,
     UserError,
 )
-from ramannoodle.globals import ATOM_SYMBOLS
+from ramannoodle.constants import ATOM_SYMBOLS
 
 TORCH_PRESENT = True
 try:
diff --git a/ramannoodle/io/vasp/outcar.py b/ramannoodle/io/vasp/outcar.py
index e1fcc2c..8eabe77 100644
--- a/ramannoodle/io/vasp/outcar.py
+++ b/ramannoodle/io/vasp/outcar.py
@@ -5,13 +5,13 @@
 import numpy as np
 from numpy.typing import NDArray
 
-from ramannoodle.io.io_utils import (
+from ramannoodle.io.utils import (
     _skip_file_until_line_contains,
     pathify,
     _read_polarizability_dataset,
 )
 from ramannoodle.exceptions import InvalidFileException, NoMatchingLineFoundException
-from ramannoodle.globals import ATOMIC_WEIGHTS, ATOMIC_NUMBERS
+from ramannoodle.constants import ATOMIC_WEIGHTS, ATOMIC_NUMBERS
 from ramannoodle.exceptions import get_type_error, UserError
 from ramannoodle.dynamics.phonon import Phonons
 from ramannoodle.dynamics.trajectory import Trajectory
diff --git a/ramannoodle/io/vasp/poscar.py b/ramannoodle/io/vasp/poscar.py
index 2a0cfdc..26fbcbb 100644
--- a/ramannoodle/io/vasp/poscar.py
+++ b/ramannoodle/io/vasp/poscar.py
@@ -6,9 +6,9 @@
 import numpy as np
 from numpy.typing import NDArray
 
-from ramannoodle.io.io_utils import verify_structure, pathify
+from ramannoodle.io.utils import verify_structure, pathify
 from ramannoodle.exceptions import InvalidFileException
-from ramannoodle.globals import ATOM_SYMBOLS, ATOMIC_NUMBERS
+from ramannoodle.constants import ATOM_SYMBOLS, ATOMIC_NUMBERS
 from ramannoodle.structure.reference import ReferenceStructure
 from ramannoodle.io.vasp.outcar import _get_lattice_vector_from_outcar_line
 
diff --git a/ramannoodle/io/vasp/vasprun.py b/ramannoodle/io/vasp/vasprun.py
index a0d76a3..321d29a 100644
--- a/ramannoodle/io/vasp/vasprun.py
+++ b/ramannoodle/io/vasp/vasprun.py
@@ -8,9 +8,9 @@
 import numpy as np
 from numpy.typing import NDArray
 
-from ramannoodle.io.io_utils import pathify, _read_polarizability_dataset
+from ramannoodle.io.utils import pathify, _read_polarizability_dataset
 from ramannoodle.exceptions import InvalidFileException, UserError
-from ramannoodle.globals import ATOMIC_WEIGHTS, ATOMIC_NUMBERS
+from ramannoodle.constants import ATOMIC_WEIGHTS, ATOMIC_NUMBERS
 from ramannoodle.dynamics.phonon import Phonons
 from ramannoodle.dynamics.trajectory import Trajectory
 from ramannoodle.structure.reference import ReferenceStructure
diff --git a/ramannoodle/io/vasp/xdatcar.py b/ramannoodle/io/vasp/xdatcar.py
index 35360d9..3f4bafa 100644
--- a/ramannoodle/io/vasp/xdatcar.py
+++ b/ramannoodle/io/vasp/xdatcar.py
@@ -5,7 +5,7 @@
 import numpy as np
 from numpy.typing import NDArray
 
-from ramannoodle.io.io_utils import verify_trajectory, pathify
+from ramannoodle.io.utils import verify_trajectory, pathify
 from ramannoodle.exceptions import InvalidFileException
 from ramannoodle.dynamics.trajectory import Trajectory
 from ramannoodle.io.vasp.poscar import (
diff --git a/ramannoodle/polarizability/art.py b/ramannoodle/polarizability/art.py
index 5ec56d6..36328c5 100644
--- a/ramannoodle/polarizability/art.py
+++ b/ramannoodle/polarizability/art.py
@@ -8,7 +8,7 @@
 from numpy.typing import NDArray
 from tabulate import tabulate
 
-from ramannoodle.globals import ANSICOLORS
+from ramannoodle.constants import ANSICOLORS
 from ramannoodle.polarizability.interpolation import InterpolationModel
 from ramannoodle.exceptions import (
     get_type_error,
diff --git a/ramannoodle/polarizability/interpolation.py b/ramannoodle/polarizability/interpolation.py
index 289370d..7b719a2 100644
--- a/ramannoodle/polarizability/interpolation.py
+++ b/ramannoodle/polarizability/interpolation.py
@@ -14,9 +14,9 @@
 from numpy.typing import NDArray, ArrayLike
 from scipy.interpolate import make_interp_spline, BSpline
 
-from ramannoodle.globals import ANSICOLORS
+from ramannoodle.constants import ANSICOLORS
 from ramannoodle.polarizability.abstract import PolarizabilityModel
-from ramannoodle.structure.structure_utils import calc_displacement
+from ramannoodle.structure.utils import calc_displacement
 from ramannoodle.structure.symmetry_utils import (
     is_orthogonal_to_all,
     is_collinear_with_all,
@@ -31,7 +31,7 @@
     UserError,
 )
 import ramannoodle.io.generic as generic_io
-from ramannoodle.io.io_utils import pathify_as_list
+from ramannoodle.io.utils import pathify_as_list
 
 
 def get_amplitude(
diff --git a/ramannoodle/spectrum/raman.py b/ramannoodle/spectrum/raman.py
index 6f39ee1..86bd886 100644
--- a/ramannoodle/spectrum/raman.py
+++ b/ramannoodle/spectrum/raman.py
@@ -4,10 +4,10 @@
 from numpy.typing import NDArray
 
 from ramannoodle.exceptions import get_type_error, verify_ndarray_shape
-from ramannoodle.globals import BOLTZMANN_CONSTANT
+from ramannoodle.constants import BOLTZMANN_CONSTANT
 from ramannoodle.spectrum.abstract import RamanSpectrum
 
-from ramannoodle.spectrum.spectrum_utils import calc_signal_spectrum
+from ramannoodle.spectrum.utils import calc_signal_spectrum
 
 
 def get_bose_einstein_correction(
diff --git a/ramannoodle/spectrum/spectrum_utils.py b/ramannoodle/spectrum/utils.py
similarity index 100%
rename from ramannoodle/spectrum/spectrum_utils.py
rename to ramannoodle/spectrum/utils.py
diff --git a/ramannoodle/structure/displace.py b/ramannoodle/structure/displace.py
index 1beeaa2..af5b172 100644
--- a/ramannoodle/structure/displace.py
+++ b/ramannoodle/structure/displace.py
@@ -17,14 +17,14 @@
 from numpy.typing import NDArray
 
 from ramannoodle.structure.reference import ReferenceStructure
-from ramannoodle.structure.structure_utils import displace_positions
+from ramannoodle.structure.utils import displace_positions
 from ramannoodle.exceptions import (
     get_type_error,
     get_shape_error,
     verify_ndarray_shape,
     verify_list_len,
 )
-from ramannoodle.io.io_utils import pathify_as_list
+from ramannoodle.io.utils import pathify_as_list
 import ramannoodle.io.generic as generic_io
 
 
diff --git a/ramannoodle/structure/reference.py b/ramannoodle/structure/reference.py
index ccea379..00197a7 100644
--- a/ramannoodle/structure/reference.py
+++ b/ramannoodle/structure/reference.py
@@ -13,13 +13,13 @@
     verify_list_len,
     get_shape_error,
 )
-from ramannoodle.structure.structure_utils import (
+from ramannoodle.structure.utils import (
     displace_positions,
     transform_positions,
     apply_pbc_displacement,
     calc_displacement,
 )
-from ramannoodle.globals import ATOM_SYMBOLS
+from ramannoodle.constants import ATOM_SYMBOLS
 from ramannoodle.structure import symmetry_utils
 
 
diff --git a/ramannoodle/structure/structure_utils.py b/ramannoodle/structure/utils.py
similarity index 100%
rename from ramannoodle/structure/structure_utils.py
rename to ramannoodle/structure/utils.py
diff --git a/test/tests/test_io.py b/test/tests/test_io.py
index f604502..e6228cc 100644
--- a/test/tests/test_io.py
+++ b/test/tests/test_io.py
@@ -8,7 +8,7 @@
 from numpy.typing import NDArray
 
 import ramannoodle.io.generic as generic_io
-from ramannoodle.io.io_utils import pathify_as_list
+from ramannoodle.io.utils import pathify_as_list
 
 
 @pytest.mark.parametrize(
diff --git a/test/tests/test_outcar.py b/test/tests/test_outcar.py
index 9b63201..a9cd22a 100644
--- a/test/tests/test_outcar.py
+++ b/test/tests/test_outcar.py
@@ -8,7 +8,7 @@
 import pytest
 
 import ramannoodle.io.generic as generic_io
-from ramannoodle.globals import ATOMIC_WEIGHTS
+from ramannoodle.constants import ATOMIC_WEIGHTS
 from ramannoodle.exceptions import InvalidFileException
 
 
diff --git a/test/tests/test_phonon_spectrum.py b/test/tests/test_phonon_spectrum.py
index 8abb031..5d4a5cf 100644
--- a/test/tests/test_phonon_spectrum.py
+++ b/test/tests/test_phonon_spectrum.py
@@ -15,7 +15,7 @@
     get_laser_correction,
 )
 from ramannoodle.structure.reference import ReferenceStructure
-from ramannoodle.spectrum.spectrum_utils import convolve_spectrum
+from ramannoodle.spectrum.utils import convolve_spectrum
 
 # pylint: disable=protected-access,too-many-locals
 
diff --git a/test/tests/test_structure.py b/test/tests/test_structure.py
index eb6c4eb..36baaf9 100644
--- a/test/tests/test_structure.py
+++ b/test/tests/test_structure.py
@@ -6,7 +6,7 @@
 from numpy.typing import NDArray
 import pytest
 
-from ramannoodle.structure.structure_utils import apply_pbc, apply_pbc_displacement
+from ramannoodle.structure.utils import apply_pbc, apply_pbc_displacement
 from ramannoodle.structure.symmetry_utils import (
     is_collinear_with_all,
     is_non_collinear_with_all,
diff --git a/test/tests/test_trajectory_spectrum.py b/test/tests/test_trajectory_spectrum.py
index 10bce51..99ab33b 100644
--- a/test/tests/test_trajectory_spectrum.py
+++ b/test/tests/test_trajectory_spectrum.py
@@ -6,7 +6,7 @@
 from numpy.typing import NDArray
 import pytest
 
-from ramannoodle.spectrum.spectrum_utils import calc_signal_spectrum
+from ramannoodle.spectrum.utils import calc_signal_spectrum
 import ramannoodle.io.vasp as vasp_io
 from ramannoodle.structure.reference import ReferenceStructure
 from ramannoodle.polarizability.interpolation import InterpolationModel