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  • empyre/empyre
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  • wessels/empyre
  • bryan/empyre
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.gitlab-ci.yml
View file @ 6e3128b8
workflow:
rules:
- if: $CI_PIPELINE_SOURCE == "merge_request_event"
- if: $CI_COMMIT_BRANCH && $CI_OPEN_MERGE_REQUESTS
when: never
- if: $CI_COMMIT_BRANCH
- if: $CI_COMMIT_TAG
before_script:
# Install requirements for empyre:
- conda env create -q # -q: quiet/ no progressbar, because it spams the log!
- conda init bash # needed from conda 4.4 onwards, see https://stackoverflow.com/a/55507956/2286972
- source ~/.bashrc # Reldad bashrc to apply changes made by conda init
- source ${CONDA_DIR}/etc/profile.d/conda.sh
- conda create -q --name empyre # -q: quiet/ no progressbar, because it spams the log!
- conda activate empyre
- conda install -y python numpy sphinx pip setuptools jupyter pandoc uv
- uv pip install .[tests,docs]
- conda info --envs
# Install jutil via deploy token access: # TODO: still needed?
#- pip install git+https://empyre:"$JUTIL_DEPLOY_TOKEN"@jugit.fz-juelich.de/j.ungermann/jutil.git
......@@ -14,18 +23,19 @@ stages:
test_style:
stage: test
image: continuumio/miniconda3:latest
image: condaforge/miniforge3:latest
script:
# -m: only run tests marked with "flake8"
- pyroma . --min=10 # Checks setup.py for cheese! Maximum cheese 10!
- python setup.py test --addopts "--flake8 -m flake8"
- pip install pre-commit
- pre-commit install
- pre-commit run --all-files
test_function:
stage: test
image: continuumio/miniconda3:latest
image: condaforge/miniforge3:latest
script:
# Execute all tests and also check coverage with --cov:
- python setup.py test --addopts "--cov"
- pip install "numpy>=2"
- pytest --cov
artifacts:
paths:
- .coverage
......@@ -33,13 +43,13 @@ test_function:
test_docs:
stage: test
image: continuumio/miniconda3:latest
image: condaforge/miniforge3:latest
script:
# -f: Force overwriting of any existing generated files.
# -e: Put documentation for each module on its own page.
# -o: Directory to place the output files. If it does not exist, it is created.
# last parameter: module path
- python setup.py clean # TODO: Simplest way to generate version.py without doing anything else?
# - python setup.py clean # TODO: Simplest way to generate version.py without doing anything else?
#- sphinx-apidoc -f -e -o docs/api src/empyre
# Build the documentation from 'docs' and put into 'build/sphinx':
- sphinx-build docs build/sphinx -W # -w fails the build if warnings appear!
......@@ -50,9 +60,10 @@ test_docs:
test_install:
stage: test
image: continuumio/miniconda3:latest
image: condaforge/miniforge3:latest
before_script: [] # before_script not needed here!
script:
- conda install -y "python<3.12"
- pip install .[all]
pages:
......@@ -71,11 +82,11 @@ pages:
pypi:
stage: deploy
image: continuumio/miniconda3:latest
image: condaforge/miniforge3:latest
before_script: [] # before_script not needed here!
script:
- pip install twine
- python setup.py sdist bdist_wheel
- pip install hatch twine
- hatch build
- twine upload -u __token__ -p $PYPI_ACCESS_TOKEN dist/* # -u user -p password upload_source
rules: # similar to only/except, but newer!
# Job is executed if branch is master AND if a tag is building which matches the regular expression!
......
.pre-commit-config.yaml 0 → 100644
View file @ 6e3128b8
# See https://pre-commit.com for more information
# See https://pre-commit.com/hooks.html for more hooks
repos:
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v4.6.0
hooks:
- id: trailing-whitespace
files: ^src/
- id: end-of-file-fixer
files: ^src/
- id: check-yaml
- id: check-added-large-files
- repo: https://github.com/pycqa/flake8
rev: 7.0.0
hooks:
- id: flake8
exclude: ^prototypes/
- repo: https://github.com/regebro/pyroma
rev: "4.2"
hooks:
- id: pyroma
\ No newline at end of file
MANIFEST.in
View file @ 6e3128b8
include src/empyre/vis/mplstyles/*.mplstyle
graft tests
authors.json
View file @ 6e3128b8
......@@ -38,5 +38,13 @@
"gitlab": "wessels",
"contribution": "Discussions, testing",
"orcid": "0000-0001-5526-639X"
},
{
"displayname": "Matthew Bryan",
"authorname": "Bryan, Matthew",
"affiliation": "CEA-Leti",
"gitlab": "bryan",
"orcid": "0000-0001-9134-384X",
"contribution": "Small bugfixes, CI and conda packaging"
}
]
\ No newline at end of file
]
demos/demo1_first_steps.ipynb
View file @ 6e3128b8
This diff is collapsed.
demos/demo2_handling_3d_fields.ipynb
View file @ 6e3128b8
This diff is collapsed.
docs/conf.py
View file @ 6e3128b8
......@@ -33,13 +33,11 @@ author = 'Jan Caron'
# Add any Sphinx extension module names here, as strings. They can be
# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
# ones.
extensions = [
'sphinx.ext.autodoc',
'sphinx.ext.viewcode',
'numpydoc',
'nbsphinx',
'nbsphinx_link'
]
extensions = ['sphinx.ext.autodoc',
'sphinx.ext.viewcode',
'numpydoc',
'nbsphinx',
'nbsphinx_link']
numpydoc_show_class_members = False
add_module_names = False
......@@ -78,3 +76,7 @@ html_logo = 'EMPyRe Logo.png'
# the doc. This file should be a Windows icon file (.ico) being 16x16 or 32x32
# pixels large.
html_favicon = 'icon.ico'
# cannot cache unpickable configuration value: 'nbsphinx_custom_formats
# See https://github.com/sphinx-doc/sphinx/issues/12300
suppress_warnings = ["config.cache"]
environment.yml deleted 100644 → 0
View file @ 12e341c7
# Create environment with "conda env create", update with "conda env update"!
# This file contains the top level dependencies of the empyre project!
# requirements.txt also contains sub-dependencies, generated by "pip freeze > requirements.txt"!
# Add new dependencies here, then "conda env update", then "pip freeze > requirements.txt"!
# To see if compatible upgrades are available for the current packages, use "conda upgrade --all"!
# When packages are deprecated/deleted, it may be best to recreate the environment from scratch!
name: empyre
channels:
- defaults # Default conda channels, on top to keep highest priority!
- conda-forge # Used for hyperspy, pyFFTW!
dependencies:
# Basic:
- python=3.7
- setuptools
- numpy=1.17
- scipy=1.3
- tqdm=4.36
- scikit-image=0.15
# File IO:
- hyperspy=1.5
- hyperspy-gui-ipywidgets=1.2
#- h5py=2.9 # TODO: dependency of hyperspy? Not needed here?
# Plotting and colors:
- matplotlib=3.1
- Pillow=6.1
- cmocean=2.0
# 3D plotting:
- mayavi=4.7
- ipyevents=0.7
- ipywidgets=7.5
# Testing:
- pytest=5.0
- pytest-cov=2.7
- pytest-flake8=1.0
- pytest-runner=5.1
- pyroma # Checks setup.py for cheese!
#- pytest-mpl=0.10 # Needed for testing hyperspy! # TODO: Use for pyramid/plotting library, too!
- coverage=4.5
# Documentation:
- sphinx=2.4
- numpydoc=0.9
- sphinx_rtd_theme=0.4
- nbsphinx=0.7
- nbsphinx-link=1.3
- pandoc=2.11
# IPython and notebooks:
- ipython=7.7
- jupyter=1.0
- nb_conda=2.2
#- ptvsd=4.3 # Cell debugging in VS Code
- rope=0.16 # for refactoring in VS Code
# TODO: - ipywidgets
# TODO: Add back GUI dependencies!
# TODO: Get Jutil from gitlab (currently doesn't work, git and cygwin don't play nice,...
# TODO: ...because one is Unix, ond is Windows).
# Fast computation:
- pyFFTW=0.11
# TODO: ? - pathos # pathos.multiprocessing uses dill instead of pickle
# PIP installations:
#- pip=19.0
# - pip:
# # ALSO NEEDS JUTIL!
# - "git+ssh://gitlab@iffgit.fz-juelich.de/unger/jutil.git"
# Misc.:
- nodejs=12.8 # TODO: Needs to be fixed to prevent errors! Check again if needed in future!
pyproject.toml 0 → 100644
View file @ 6e3128b8
[build-system]
requires = ["hatchling"]
build-backend = "hatchling.build"
[project]
name = "empyre"
dynamic = ["version"]
description = "Electron Microscopy Python Reconstruction"
readme = "README.rst"
license = "GPL-3.0-or-later"
requires-python = ">=3.6"
authors = [
{ name = "Jan Caron", email = "j.caron@fz-juelich.de" },
]
keywords = [
"Electron Microscopy",
"Inverse Problem Solving",
"Model-based Reconstrution",
]
classifiers = [
"Development Status :: 3 - Alpha",
"Intended Audience :: Developers",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
"Operating System :: OS Independent",
"Programming Language :: Python :: 3.6",
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Topic :: Scientific/Engineering",
]
dependencies = [
"matplotlib >= 3.2",
"numpy >= 1.17",
"Pillow",
"scikit-image",
"scipy",
"tqdm",
]
[project.optional-dependencies]
3d = [
"mayavi >= 4.7",
]
all = [
"cmocean",
"pyfftw",
]
colors = [
"cmocean",
]
docs = [
"nbsphinx",
"nbsphinx_link",
"numpydoc",
"pandoc",
"sphinx",
"sphinx_rtd_theme",
]
fftw = [
"pyfftw",
]
io = [
"hyperspy",
"tvtk",
]
tests = [
"coverage",
"pyroma",
"pytest",
"pytest-cov",
"pytest-flake8",
"pytest-runner",
]
[project.urls]
Homepage = "https://iffgit.fz-juelich.de/empyre/empyre"
[tool.hatch.version]
path = "src/empyre/__init__.py"
[tool.hatch.build.targets.sdist]
include = [
"/src",
"/tests",
]
setup.cfg
View file @ 6e3128b8
......@@ -2,71 +2,6 @@
# setup.cfg
# :copyright: Copyright 2020 Jan Caron
# CONFIGURATION FOR SETUP.PY:
[metadata]
name = empyre
version = 0.2.1
author = Jan Caron
author-email = j.caron@fz-juelich.de
description = Electron Microscopy Python Reconstruction
long-description = file: README.rst
url = https://iffgit.fz-juelich.de/empyre/empyre
license = GPLv3
classifiers =
Development Status :: 3 - Alpha
Intended Audience :: Developers
Intended Audience :: Science/Research
License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Programming Language :: Python :: 3.7
Topic :: Scientific/Engineering
Operating System :: OS Independent
keywords =
Electron Microscopy
Inverse Problem Solving
Model-based Reconstrution
[options]
zip_safe = False
include_package_data = True
package_dir =
=src
packages = find:
python_requires = >=3.6
setup_requires =
setuptools
install_requires =
numpy >= 1.17
matplotlib >= 3
scikit-image
tqdm
scipy
Pillow
[options.packages.find]
where = src
[options.extras_require]
io =
hyperspy
tvtk
fftw =
pyfftw
colors =
cmocean
3d =
mayavi >= 4.7
all =
pyfftw
cmocean
tests =
pyroma
coverage
pytest
pytest-cov
pytest-flake8
pytest-runner
# TODO: pip install .[io] is not working because hyperspy depends on trait which has no wheels on PyPI at the moment...
# TODO: See https://github.com/hyperspy/hyperspy/issues/2315 and https://github.com/enthought/traits/issues/357
# TODO: Add hyperspy back as soon (if?) this is resolved... Until then: install hyperspy with conda!
......@@ -86,13 +21,20 @@ omit =
[flake8]
max-line-length = 120
ignore =
E402 # module import not at top of file
E124 # closing bracket does not match visual indentation
E125 # continuation line with same indent as next logical line
E226 # missing whitespace around arithmetic operator
W503 # line break before binary operator
W504 # line break after binary operator
E741 # do not use variables named ‘l’, ‘O’, or ‘I’
# module import not at top of file
E402
# closing bracket does not match visual indentation
E124
# continuation line with same indent as next logical line
E125
# missing whitespace around arithmetic operator
E226
# line break before binary operator
W503
# line break after binary operator
W504
# do not use variables named ‘l’, ‘O’, or ‘I’
E741
per-file-ignores =
*/__init__.py: F401, F403, F405, F821
# F401: module imported but unused
......
setup.py deleted 100644 → 0
View file @ 12e341c7
#!python
# coding=utf-8
"""Setup for testing, building, distributing and installing the 'EMPyRe'-package"""
import os
import subprocess
from setuptools import setup, config
# Read version from setup.py:
version = config.read_configuration('setup.cfg')['metadata']['version']
# Get current git revision:
try:
git_rev = subprocess.check_output(['git', 'rev-parse', 'HEAD']).strip().decode()
except Exception:
git_rev = "???"
# Write both to version.py:
print(R'writing src\empyre\version.py')
with open(os.path.join(os.path.dirname(__file__), 'src', 'empyre', 'version.py'), 'w') as vfile:
vfile.write('# -*- coding: utf-8 -*-\n' +
'""""This file was automatically generated by `setup.py`"""\n' +
f'version = "{version}"\n' +
f'git_revision = "{git_rev}"\n')
# Run setup (reads metadata & options from setup.cfg):
print(R'running setup.py')
setup()
src/empyre/__init__.py
View file @ 6e3128b8
......@@ -11,16 +11,13 @@ from . import models
from . import reconstruct
from . import vis
from . import utils
from .version import version as __version__
from .version import git_revision as __git_revision__
__version__ = "0.3.4"
__git_revision__ = "undefined"
import logging
_log = logging.getLogger(__name__)
_log.info(f'Imported EMPyRe V-{__version__} GIT-{__git_revision__}')
_log.info(f'Imported EMPyRe V-{__version__}')
del logging
__all__ = ['fields', 'io', 'models', 'reconstruct', 'vis', 'utils']
del version
src/empyre/fields/field.py
View file @ 6e3128b8
......@@ -10,8 +10,13 @@ from numbers import Number
from numpy.lib.mixins import NDArrayOperatorsMixin
import numpy as np
from numpy.core import numeric
from scipy.ndimage import interpolation
try:
# numpy >= 2
from numpy.lib.array_utils import normalize_axis_tuple
except ModuleNotFoundError:
# numpy < 2
from numpy.core.numeric import normalize_axis_tuple
from scipy import ndimage
from ..utils import Quaternion
......@@ -163,6 +168,8 @@ class Field(NDArrayOperatorsMixin):
# outputs = kwargs.pop('out', ()) # TODO: Necessary?
outputs = kwargs.pop('out', (None,)*ufunc.nout) # Defaults to tuple of None (currently: nout=1 all the time)
outputs_arr = tuple([np.asarray(out) if isinstance(out, Field) else out for out in outputs])
if all(a is None for a in outputs_arr):
outputs_arr = None
# Cannot handle items that have __array_ufunc__ (other than our own).
for item in inputs + outputs:
if hasattr(item, '__array_ufunc__') and not isinstance(item, Field): # Something else with __array_ufunc__:
......@@ -197,7 +204,7 @@ class Field(NDArrayOperatorsMixin):
axis = ax_full if axis is None else axis # This keeps possible components untouched if axis was None!
# axis=-1 reduces over the vector components, if they exist
# Takes care of pot. neg. indices, ensures tuple!
axis = numeric.normalize_axis_tuple(axis, len(field.shape))
axis = normalize_axis_tuple(axis, len(field.shape))
kwargs['axis'] = axis # Put normalized axis back into kwargs!
if tuple(sorted(axis)) in (ax_full, ax_full_wc):
full_reduction = True # Full reduction (or reduction to just components) takes place:
......@@ -386,7 +393,7 @@ class Field(NDArrayOperatorsMixin):
return Field(self.data.copy(), self.scale, self.vector)
def rotate(self, angle, axis='z', **kwargs):
"""Rotate the :class:`~.Field`, based on :meth:`~scipy.ndimage.interpolation.rotate`.
"""Rotate the :class:`~.Field`, based on :meth:`~scipy.ndimage.rotate`.
Rotation direction is from the first towards the second axis. Works for 2D and 3D Fields.
......@@ -404,9 +411,9 @@ class Field(NDArrayOperatorsMixin):
Notes
-----
All additional kwargs are passed through to :meth:`~scipy.ndimage.interpolation.rotate`.
All additional kwargs are passed through to :meth:`~scipy.ndimage.rotate`.
The `reshape` parameter, controlling if the output shape is adapted so that the input array is contained
completely in the output is False per default, contrary to :meth:`~scipy.ndimage.interpolation.rotate`,
completely in the output is False per default, contrary to :meth:`~scipy.ndimage.rotate`,
where it is True.
"""
......@@ -425,12 +432,12 @@ class Field(NDArrayOperatorsMixin):
if axis in ('x', 'z'):
np_angle *= -1
if not self.vector: # Scalar field:
data_new = interpolation.rotate(self.data, np_angle, axes=axes, **kwargs)
data_new = ndimage.rotate(self.data, np_angle, axes=axes, **kwargs)
else: # Vector field:
# Rotate coordinate system:
comps = [np.asarray(comp) for comp in self.comp]
if self.ncomp == 3:
data_new = np.stack([interpolation.rotate(c, np_angle, axes=axes, **kwargs) for c in comps], axis=-1)
data_new = np.stack([ndimage.rotate(c, np_angle, axes=axes, **kwargs) for c in comps], axis=-1)
# Up till now, only the coordinates are rotated, now we need to rotate the vectors inside the voxels:
rot_axis = {'x': 2, 'y': 1, 'z': 0}[axis]
i, j, k = axes[0], axes[1], rot_axis # next line only works if i != j != k
......@@ -442,8 +449,8 @@ class Field(NDArrayOperatorsMixin):
data_new = quat.matrix.dot(data_new.reshape((-1, 3)).T).T.reshape(data_new.shape)
elif self.ncomp == 2:
u_comp, v_comp = comps
u_rot = interpolation.rotate(u_comp, np_angle, axes=axes, **kwargs)
v_rot = interpolation.rotate(v_comp, np_angle, axes=axes, **kwargs)
u_rot = ndimage.rotate(u_comp, np_angle, axes=axes, **kwargs)
v_rot = ndimage.rotate(v_comp, np_angle, axes=axes, **kwargs)
# Up till now, only the coordinates are rotated, now we need to rotate the vectors inside the voxels:
ang_rad = np.deg2rad(angle)
u_mix = np.cos(ang_rad)*u_rot - np.sin(ang_rad)*v_rot
......@@ -667,10 +674,10 @@ class Field(NDArrayOperatorsMixin):
"""
self._log.debug('Calling zoom')
if not self.vector: # Scalar field:
data_new = interpolation.zoom(self.data, zoom, **kwargs)
data_new = ndimage.zoom(self.data, zoom, **kwargs)
else: # Vector field:
comps = [np.asarray(comp) for comp in self.comp]
data_new = np.stack([interpolation.zoom(comp, zoom, **kwargs) for comp in comps], axis=-1)
data_new = np.stack([ndimage.zoom(comp, zoom, **kwargs) for comp in comps], axis=-1)
if isinstance(zoom, Number): # Zoom is the same for each dimension!
zoom = (zoom,) * len(self.dim)
scale_new = tuple([self.scale[i]/z for i, z in enumerate(zoom)])
......@@ -687,7 +694,7 @@ class Field(NDArrayOperatorsMixin):
self._log.debug('Calling flip')
if self.vector and axis is None:
axis = tuple(range(len(self.dim)))
axis = numeric.normalize_axis_tuple(axis, len(self.shape)) # Make sure, axis is a tuple!
axis = normalize_axis_tuple(axis, len(self.shape)) # Make sure, axis is a tuple!
data_new = np.flip(self.data, axis, **kwargs).copy() # Only flips space, not component direction!
if self.vector:
flip_vec = [
......
src/empyre/io/field_plugins/vtk.py
View file @ 6e3128b8
......@@ -11,7 +11,7 @@ from numbers import Number
import numpy as np
from ...fields.field import Field
from ...utils.misc import interp_to_regular_grid
from ...utils.misc import interp_to_regular_grid, restrict_points
from ...vis import colors
......@@ -20,7 +20,7 @@ _log = logging.getLogger(__name__)
file_extensions = ('.vtk',) # Recognised file extensions
def reader(filename, scale=None, vector=None, **kwargs):
def reader(filename, scale=None, vector=None, bounds=None, **kwargs):
"""More infos at:
overview: https://docs.enthought.com/mayavi/mayavi/data.html
......@@ -88,6 +88,10 @@ def reader(filename, scale=None, vector=None, **kwargs):
scale = (scale,) * 3
elif isinstance(scale, tuple):
assert len(scale) == 3, f'Each dimension (z, y, x) needs a scale, but {scale} was given!'
# Crop data to required range, if necessary
if bounds is not None:
_log.info('Restrict data')
point_array, data_array = restrict_points(point_array, data_array, bounds)
data = interp_to_regular_grid(point_array, data_array, scale, **kwargs)
else:
raise TypeError('Data type of {} not understood!'.format(output))
......
src/empyre/utils/misc.py
View file @ 6e3128b8
......@@ -15,7 +15,7 @@ from scipy.spatial import cKDTree, qhull
from scipy.interpolate import LinearNDInterpolator
__all__ = ['levi_civita', 'interp_to_regular_grid']
__all__ = ['levi_civita', 'interp_to_regular_grid', 'restrict_points']
_log = logging.getLogger(__name__)
......@@ -121,3 +121,39 @@ def interp_to_regular_grid(points, values, scale, scale_factor=1, step=1, convex
# Set these points to zero (NOTE: This can take a looooong time):
interpolation[mask, :] = 0
return np.squeeze(interpolation)
def restrict_points(point_array, data_array, bounds):
"""Restrict range of point_array and data_array
Parameters
----------
points_array : np.ndarray, (N, 3)
Array of points, describing the location of the values that should be interpolated. Three columns x, y, z!
data_array : np.ndarray, (N, c)
Array of values that should be interpolated to the new grid. `c` is the number of components (`1` for scalar
fields, `3` for normal 3D vector fields).
bounds : tuple of 6 values
Restrict data range to given bounds, x0, x1, y0, y1, z0, z1.
Returns
-------
point_restricted: np.ndarray
Cut out of the array of points inside the bounds, describing the location of the values that should be
interpolated. Three columns x, y, z!
value_restricted: np.ndarray
Cut out of the array of values inside the bounds, describing the location of the values that should be
interpolated. Three columns x, y, z!
"""
point_restricted = []
data_restricted = []
for i, pos in enumerate(point_array):
if bounds[0] <= pos[0] <= bounds[1]:
if bounds[2] <= pos[1] <= bounds[3]:
if bounds[4] <= pos[2] <= bounds[5]:
point_restricted.append(pos)
data_restricted.append(data_array[i])
point_restricted = np.array(point_restricted)
data_restricted = np.array(data_restricted)
return point_restricted, data_restricted
src/empyre/vis/colors.py
View file @ 6e3128b8
......@@ -64,7 +64,7 @@ class Colormap3D(colors.Colormap, metaclass=abc.ABCMeta):
"""
self._log.debug('Calling rgb_from_vector')
x, y, z = np.asarray(vector)
x, y, z = vector
R = np.sqrt(x ** 2 + y ** 2 + z ** 2)
R_max = vmax if vmax is not None else R.max() + 1E-30
# FIRST color dimension: HUE (1D ring/angular direction)
......
src/empyre/vis/mplstyles/empyre-image.mplstyle
View file @ 6e3128b8
### MATPLOTLIB STYLESHEET FOR EMPYRE IMAGES
text.usetex : True ## use TeX to render text
font.family : serif ## default font family (use serifs)
font.serif : cm ## Computer Modern (LaTeX font)
......
src/empyre/vis/mplstyles/empyre-plot.mplstyle
View file @ 6e3128b8
### MATPLOTLIB STYLESHEET FOR EMPYRE PLOTS
text.usetex : True ## use TeX to render text
font.family : serif ## default font family (use serifs)
font.serif : cm ## Computer Modern (LaTeX font)
......
src/empyre/vis/mplstyles/empyre-save.mplstyle
View file @ 6e3128b8
### MATPLOTLIB STYLESHEET FOR SAVING EMPYRE IMAGES AND PLOTS
text.usetex : True ## use TeX to render text
font.family : serif ## default font family (use serifs)
font.serif : cm ## Computer Modern (LaTeX font)
......