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Valentin Boettcher 2024-11-13 11:35:39 -05:00
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use flake

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.direnv
output
# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
*$py.class
# C extensions
*.so
# Distribution / packaging
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
share/python-wheels/
*.egg-info/
.installed.cfg
*.egg
MANIFEST
# PyInstaller
# Usually these files are written by a python script from a template
# before PyInstaller builds the exe, so as to inject date/other infos into it.
*.manifest
*.spec
# Installer logs
pip-log.txt
pip-delete-this-directory.txt
# Unit test / coverage reports
htmlcov/
.tox/
.nox/
.coverage
.coverage.*
.cache
nosetests.xml
coverage.xml
*.cover
*.py,cover
.hypothesis/
.pytest_cache/
cover/
# Translations
*.mo
*.pot
# Django stuff:
*.log
local_settings.py
db.sqlite3
db.sqlite3-journal
# Flask stuff:
instance/
.webassets-cache
# Scrapy stuff:
.scrapy
# Sphinx documentation
docs/_build/
# PyBuilder
.pybuilder/
target/
# Jupyter Notebook
.ipynb_checkpoints
# IPython
profile_default/
ipython_config.py
# pyenv
# For a library or package, you might want to ignore these files since the code is
# intended to run in multiple environments; otherwise, check them in:
# .python-version
# pipenv
# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
# However, in case of collaboration, if having platform-specific dependencies or dependencies
# having no cross-platform support, pipenv may install dependencies that don't work, or not
# install all needed dependencies.
#Pipfile.lock
# poetry
# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.
# This is especially recommended for binary packages to ensure reproducibility, and is more
# commonly ignored for libraries.
# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control
#poetry.lock
# pdm
# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.
#pdm.lock
# pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it
# in version control.
# https://pdm.fming.dev/latest/usage/project/#working-with-version-control
.pdm.toml
.pdm-python
.pdm-build/
# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm
__pypackages__/
# Celery stuff
celerybeat-schedule
celerybeat.pid
# SageMath parsed files
*.sage.py
# Environments
.env
.venv
env/
venv/
ENV/
env.bak/
venv.bak/
# Spyder project settings
.spyderproject
.spyproject
# Rope project settings
.ropeproject
# mkdocs documentation
/site
# mypy
.mypy_cache/
.dmypy.json
dmypy.json
# Pyre type checker
.pyre/
# pytype static type analyzer
.pytype/
# Cython debug symbols
cython_debug/
# PyCharm
# JetBrains specific template is maintained in a separate JetBrains.gitignore that can
# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore
# and can be added to the global gitignore or merged into this file. For a more nuclear
# option (not recommended) you can uncomment the following to ignore the entire idea folder.
#.idea/

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README.md Normal file
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These are my private utilities to save data and plots with a lot of metadata to aid reproduction.

144
flake.lock generated Normal file
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{
"nodes": {
"flake-utils": {
"inputs": {
"systems": "systems"
},
"locked": {
"lastModified": 1726560853,
"narHash": "sha256-X6rJYSESBVr3hBoH0WbKE5KvhPU5bloyZ2L4K60/fPQ=",
"owner": "numtide",
"repo": "flake-utils",
"rev": "c1dfcf08411b08f6b8615f7d8971a2bfa81d5e8a",
"type": "github"
},
"original": {
"owner": "numtide",
"repo": "flake-utils",
"type": "github"
}
},
"nix-github-actions": {
"inputs": {
"nixpkgs": [
"poetry2nix",
"nixpkgs"
]
},
"locked": {
"lastModified": 1729742964,
"narHash": "sha256-B4mzTcQ0FZHdpeWcpDYPERtyjJd/NIuaQ9+BV1h+MpA=",
"owner": "nix-community",
"repo": "nix-github-actions",
"rev": "e04df33f62cdcf93d73e9a04142464753a16db67",
"type": "github"
},
"original": {
"owner": "nix-community",
"repo": "nix-github-actions",
"type": "github"
}
},
"nixpkgs": {
"locked": {
"lastModified": 1731474235,
"narHash": "sha256-wcteA0D0PKmULhuHKhIsnXpngAAmbMMrWxvGwi/eITM=",
"owner": "NixOS",
"repo": "nixpkgs",
"rev": "1641c8d30380e2507a5ccff8f4a4800311bdfe5a",
"type": "github"
},
"original": {
"owner": "NixOS",
"ref": "nixos-unstable-small",
"repo": "nixpkgs",
"type": "github"
}
},
"poetry2nix": {
"inputs": {
"flake-utils": [
"flake-utils"
],
"nix-github-actions": "nix-github-actions",
"nixpkgs": [
"nixpkgs"
],
"systems": "systems_2",
"treefmt-nix": "treefmt-nix"
},
"locked": {
"lastModified": 1731205797,
"narHash": "sha256-F7N1mxH1VrkVNHR3JGNMRvp9+98KYO4b832KS8Gl2xI=",
"owner": "nix-community",
"repo": "poetry2nix",
"rev": "f554d27c1544d9c56e5f1f8e2b8aff399803674e",
"type": "github"
},
"original": {
"owner": "nix-community",
"repo": "poetry2nix",
"type": "github"
}
},
"root": {
"inputs": {
"flake-utils": "flake-utils",
"nixpkgs": "nixpkgs",
"poetry2nix": "poetry2nix"
}
},
"systems": {
"locked": {
"lastModified": 1681028828,
"narHash": "sha256-Vy1rq5AaRuLzOxct8nz4T6wlgyUR7zLU309k9mBC768=",
"owner": "nix-systems",
"repo": "default",
"rev": "da67096a3b9bf56a91d16901293e51ba5b49a27e",
"type": "github"
},
"original": {
"owner": "nix-systems",
"repo": "default",
"type": "github"
}
},
"systems_2": {
"locked": {
"lastModified": 1681028828,
"narHash": "sha256-Vy1rq5AaRuLzOxct8nz4T6wlgyUR7zLU309k9mBC768=",
"owner": "nix-systems",
"repo": "default",
"rev": "da67096a3b9bf56a91d16901293e51ba5b49a27e",
"type": "github"
},
"original": {
"id": "systems",
"type": "indirect"
}
},
"treefmt-nix": {
"inputs": {
"nixpkgs": [
"poetry2nix",
"nixpkgs"
]
},
"locked": {
"lastModified": 1730120726,
"narHash": "sha256-LqHYIxMrl/1p3/kvm2ir925tZ8DkI0KA10djk8wecSk=",
"owner": "numtide",
"repo": "treefmt-nix",
"rev": "9ef337e492a5555d8e17a51c911ff1f02635be15",
"type": "github"
},
"original": {
"owner": "numtide",
"repo": "treefmt-nix",
"type": "github"
}
}
},
"root": "root",
"version": 7
}

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{
description = "Valentin (hiro) Boettcher's plotting and metadata utitilies.";
inputs = {
flake-utils.url = "github:numtide/flake-utils";
nixpkgs.url = "github:NixOS/nixpkgs/nixos-unstable-small";
poetry2nix = {
url = "github:nix-community/poetry2nix";
inputs.nixpkgs.follows = "nixpkgs";
inputs.flake-utils.follows = "flake-utils";
};
};
outputs = { self, nixpkgs, flake-utils, poetry2nix }:
flake-utils.lib.eachDefaultSystem (system:
let
# see https://github.com/nix-community/poetry2nix/tree/master#api for more functions and examples.
hiroPlotUtils = { poetry2nix, lib }: poetry2nix.mkPoetryApplication {
projectDir = self;
overrides = poetry2nix.overrides.withDefaults (final: super:
lib.mapAttrs
(attr: systems: super.${attr}.overridePythonAttrs
(old: {
nativeBuildInputs = (old.nativeBuildInputs or [ ]) ++ map (a: final.${a}) systems;
}))
{
# https://github.com/nix-community/poetry2nix/blob/master/docs/edgecases.md#modulenotfounderror-no-module-named-packagename
# package = [ "setuptools" ];
}
);
};
pkgs = import nixpkgs {
inherit system;
overlays = [
poetry2nix.overlays.default
(final: _: {
hiroPlotUtils = final.callPackage hiroPlotUtils { };
})
];
};
in
{
packages.default = pkgs.hiroPlotUtils;
devShells = {
# Shell for app dependencies.
#
# nix develop
#
# Use this shell for developing your app.
default = pkgs.mkShell {
inputsFrom = [ pkgs.hiroplotutils ];
};
# Shell for poetry.
#
# nix develop .#poetry
#
# Use this shell for changes to pyproject.toml and poetry.lock.
poetry = pkgs.mkShell {
packages = [ pkgs.poetry ];
};
};
legacyPackages = pkgs;
}
);
}

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import matplotlib.pyplot as plt
from typing import Callable, Any
from functools import wraps
from typing_extensions import ParamSpec, TypeVar, Concatenate
import yaml
import inspect
import subprocess
import pathlib
import sys
import numpy as np
P = ParamSpec("P")
R = TypeVar("R")
def noop_if_interactive(f):
@wraps(f)
def wrapped(*args, **kwargs):
if hasattr(sys, "ps1"):
print("NOOP as the session is interactive!")
return
return f(*args, **kwargs)
return wrapped
def make_figure(fig_name: str = "interactive", *args, **kwargs):
fig = plt.figure(fig_name, *args, **kwargs)
fig.clf()
return fig
def wrap_plot(
plot_function: Callable[Concatenate[plt.Figure | None, P], R], # pyright: ignore [reportPrivateImportUsage]
) -> Callable[Concatenate[plt.Figure | None, P], tuple[plt.Figure, R]]: # pyright: ignore [reportPrivateImportUsage]
"""Decorator to wrap a plot function to inject the correct figure
for interactive use. The function that this decorator wraps
should accept the figure as first argument.
:param fig_name: Name of the figure to create. By default it is
"interactive", so that one plot window will be reused.
:param setup_function: Function that returns a figure to use. If
it is provided, the ``fig_name`` will be ignored.
"""
def wrapped(fig, *args: P.args, **kwargs: P.kwargs):
if fig is None:
fig = make_figure()
ret_val = plot_function(fig, *args, **kwargs)
return (fig, ret_val)
return wrapped
def autoclose(f):
def wrapped(*args, **kwargs):
plt.close()
return f(*args, **kwargs)
return wrapped
def lighten_color(color, amount=0.5):
"""
Lightens the given color by multiplying (1-luminosity) by the given amount.
Input can be matplotlib color string, hex string, or RGB tuple.
Examples:
>> lighten_color('g', 0.3)
>> lighten_color('#F034A3', 0.6)
>> lighten_color((.3,.55,.1), 0.5)
"""
import matplotlib.colors as mc
import colorsys
try:
c = mc.cnames[color]
except:
c = color
c = colorsys.rgb_to_hls(*mc.to_rgb(c))
return colorsys.hls_to_rgb(c[0], 1 - amount * (1 - c[1]), c[2])
def get_jj_info(type):
return subprocess.run(
["jj", "log", "-T", type, "-n", "1", "--no-graph"],
stdout=subprocess.PIPE,
).stdout.decode("utf-8")
def write_meta(path, include_kwags=True, **kwargs):
"""Write metatdata for result that has been written to a file
under ``path``.
The metadata includes the change_id, commit_id and the description
of the current ``jj`` state, and the source file that generated
the result. Additional metadata can be provided through the
keyword arguments. If ``include_kwargs`` is set to True, the
keyword arguments will of the calling function be included in the
metadata.
"""
change_id = get_jj_info("change_id")
commit_id = get_jj_info("commit_id")
description = get_jj_info("description")
project_dir = (
subprocess.run("git rev-parse --show-toplevel", shell=True, capture_output=True)
.stdout.decode("utf-8")
.strip()
)
frame = inspect.stack()[3]
module = inspect.getmodule(frame[0])
filename = str(
pathlib.Path(module.__file__).relative_to(project_dir) # type: ignore
if module
else "<unknown>"
)
function = frame.function
outpath = f"{path}.meta.yaml"
with open(outpath, "w") as f:
yaml.dump(
dict(
source=filename,
function=function,
function_args=get_kwargs() if include_kwags else {},
change_id=change_id,
commit_id=commit_id,
description=description.strip(),
refers_to=str(path),
)
| kwargs,
f,
allow_unicode=True,
)
print(f"Metadata written to {outpath}")
def get_kwargs():
frame = inspect.currentframe().f_back.f_back.f_back.f_back
keys, _, _, values = inspect.getargvalues(frame)
kwargs = {}
for key in keys:
if key != "self":
kwargs[key] = values[key]
return kwargs
@noop_if_interactive
def save_figure(fig, name, extra_meta=None, include_kwags=True, *args, **kwargs):
import pickle
dir = pathlib.Path(f"./figs/")
dir.mkdir(exist_ok=True)
fig.tight_layout()
write_meta(
f"./figs/{name}.pdf",
name=name,
include_kwags=include_kwags,
extra_meta=extra_meta,
)
plt.savefig(f"./figs/{name}.pdf", *args, **kwargs)
plt.savefig(f"./figs/{name}.png", *args, dpi=600, **kwargs)
print(f"Figure saved as ./figs/{name}.pdf")
pickle_path = dir / f"{name}.pkl"
with open(pickle_path, "wb") as f:
pickle.dump(fig, f)
@noop_if_interactive
def quick_save_pickle(obj, name, include_kwags=False, **kwargs):
"""Quickly save an object to a pickle file with metadata."""
import pickle
path = pathlib.Path(f"./outputs/{name}.pkl")
path.parent.mkdir(exist_ok=True)
with open(path, "wb") as f:
pickle.dump(obj, f)
write_meta(path, include_kwags=include_kwags, **kwargs)
def quick_load_pickle(name):
"""Quickly load an object from a pickle file."""
import pickle
path = pathlib.Path(f"./outputs/{name}.pkl")
with open(path, "rb") as f:
return pickle.load(f)
def scientific_round(val, *err, retprec=False):
"""Scientifically rounds the values to the given errors."""
val, err = np.asarray(val), np.asarray(err)
if len(err.shape) == 1:
err = np.array([err])
err = err.T
err = err.T
if err.size == 1 and val.size > 1:
err = np.ones_like(val) * err
if len(err.shape) == 0:
err = np.array([err])
if val.size == 1 and err.shape[0] > 1:
val = np.ones_like(err) * val
i = np.floor(np.log10(err))
first_digit = (err // 10**i).astype(int)
prec = (-i + np.ones_like(err) * (first_digit <= 3)).astype(int)
prec = np.max(prec, axis=1)
def smart_round(value, precision):
value = np.round(value, precision)
if precision <= 0:
value = value.astype(int)
return value
if val.size > 1:
rounded = np.empty_like(val)
rounded_err = np.empty_like(err)
for n, (value, error, precision) in enumerate(zip(val, err, prec)):
rounded[n] = smart_round(value, precision)
rounded_err[n] = smart_round(error, precision)
if retprec:
return rounded, rounded_err, prec
else:
return rounded, rounded_err
else:
prec = prec[0]
if retprec:
return (smart_round(val, prec), *smart_round(err, prec)[0], prec)
else:
return (smart_round(val, prec), *smart_round(err, prec)[0])

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# This file is automatically @generated by Poetry 1.8.4 and should not be changed by hand.
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description = "Python library for calculating contours of 2D quadrilateral grids"
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21
pyproject.toml Normal file
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@ -0,0 +1,21 @@
[tool.poetry]
name = "hiroplotutils"
version = "0.1.0"
description = "Valentin (hiro) Boettcher's plotting and metadata utitilies."
authors = ["Valentin Boettcher <hiro at protagon dot space>"]
license = "MIT"
readme = "README.md"
repository = "https://github.com/vale981/hiroplotutils"
packages = [
{ include = "hiroplotutils" },
]
[tool.poetry.dependencies]
python = "^3.11"
matplotlib = "^3.9.2"
pyyaml = "^6.0.2"
[build-system]
requires = ["poetry-core"]
build-backend = "poetry.core.masonry.api"