redo pyproject.toml and env.

INSTALL.md

@@ -5,22 +5,34 @@ git config --global credential.helper "cache --timeout 7200"
 conda config --set solver libmamba
 
 > create a python virtual environment
-mkdir pudev
+mkdir ~/software/pudev
 
-virtualenv pudev
+virtualenv ~/software/pudev
 
 source ~/software/pudev/bin/activate
 
+> pip install maturin
+pip install -U pip maturin
+
 > pip install poetry, pre-commit, etc.
-pip install poetry
 pip install pre-commit
-pip install polars
-pip install pytest-cov
 pip install sphinx
 pip install line_profiler
 pip install pipx
 pip install furo
 
+> install ruff
+> see https://github.com/astral-sh/ruff
+pip install ruff
+
+> pytest
+> https://docs.pytest.org/en/7.4.x/how-to/fixtures.html
+pip install pytest
+
+> optional
+pip install polars
+pip install pytest-cov
+
 > pipx installs
 pipx install poetry
 
@@ -29,16 +41,8 @@ pipx install poetry
 > https://github.com/PyO3/pyo3
 pipx install maturin
 
-> install ruff
-> see https://github.com/astral-sh/ruff
-pip install ruff
-
 > rust-clippy
 > https://github.com/rust-lang/rust-clippy
 
 > apptainer / singularity
 https://apptainer.org/docs/user/latest/quick_start.html
-
-> pytest
-> https://docs.pytest.org/en/7.4.x/how-to/fixtures.html
-pip install pytest

pyproject.toml

@@ -15,10 +15,52 @@ license = {file = "LICENSE"}
 requires-python = ">=3.9.18"
 repository = "https://github.com/michaelJwilson/foundation"
 dependencies = [
-    "numpy",
-    "furo"="^2024.1.29",
-    "sphinx"="7.1.2",
-    "sphinx-rtd-theme"="1.3.0rc1",
+  "alabaster==0.7.16",
+  "argcomplete==3.2.2",
+  "Babel==2.14.0",
+  "beautifulsoup4==4.12.3",
+  "certifi==2023.11.17",
+  "cfgv==3.4.0",
+  "charset-normalizer==3.3.2",
+  "click==8.1.7",
+  "distlib==0.3.8",
+  "docutils==0.20.1",
+  "exceptiongroup==1.2.0",
+  "filelock==3.13.1",
+  "furo==2024.1.29",
+  "identify==2.5.33",
+  "idna==3.6",
+  "imagesize==1.4.1",
+  "iniconfig==2.0.0",
+  "Jinja2==3.1.3",
+  "line-profiler==4.1.2",
+  "MarkupSafe==2.1.4",
+  "maturin==1.4.0",
+  "nodeenv==1.8.0",
+  "packaging==23.2",
+  "pipx==1.4.3",
+  "platformdirs==4.2.0",
+  "pluggy==1.4.0",
+  "pre-commit==3.6.0",
+  "Pygments==2.17.2",
+  "pytest==8.0.0",
+  "PyYAML==6.0.1",
+  "requests==2.31.0",
+  "ruff==0.1.15",
+  "snowballstemmer==2.2.0",
+  "soupsieve==2.5",
+  "Sphinx==7.2.6",
+  "sphinx-basic-ng==1.0.0b2",
+  "sphinxcontrib-applehelp==1.0.8",
+  "sphinxcontrib-devhelp==1.0.6",
+  "sphinxcontrib-htmlhelp==2.0.5",
+  "sphinxcontrib-jsmath==1.0.1",
+  "sphinxcontrib-qthelp==1.0.7",
+  "sphinxcontrib-serializinghtml==1.1.10",
+  "tomli==2.0.1",
+  "urllib3==2.2.0",
+  "userpath==1.9.1",
+  "virtualenv==20.25.0",
 ]
 
 [project.optional-dependencies]