Add support for using uv.

Author: brettviren

README.org

@@ -2,64 +2,40 @@
 
 * What's here.
 
-This package holds some Python modules that support Wire Cell Toolkit.
-Currently this is a stand-alone package that does not depend directly
-on the C++ packages of WCT.
+This package provides Python modules in the ~wirecell~ namespace as well as
+various ~wirecell-*~ command line programs.  These support the Wire Cell Toolkit
+but do not depend on it.  If this package is available during the WCT build
+process then some additonal unit tests can run using ~wirecell-*~ programs.
 
-Some of the functionality provided includes converters and generators
-of major WCT input data files including:
+Some of the functionality provided includes converters and generators of major
+WCT input data files including:
 
 - field response functions
 - wire geometry
 - diagnostic plots
 
 * Installation
 
-#+BEGIN_EXAMPLE
-  $ python3 -m venv venv
-  $ source venv/bin/activate
-  $ cd wire-cell-python
-  $ pip install -r requirements/base.txt
-  $ pip install -r requirements/img.txt
-  $ pip install -r requirements/sigproc.txt
-  $ pip install -e .
-#+END_EXAMPLE
+It is recommended to use [[https://github.com/astral-sh/uv][uv]] for user and developer tasks.
 
-If you have trouble installing ~mayavi~ via ~pip~ consider installing it
-as a system package and then making the ~venv~ with:
+** User
+
+The package is not yet available in PyPI but the command line programs can be used like:
 
 #+begin_example
-  $ python3 -m venv venv --system-site-packages
+uv run --with git+https://github.com/wirecell/wire-cell-python wirecell-util --help
 #+end_example
 
-If you have trouble installing ~gojsonnet~ via ~pip~ consider replacing it
-to ~jsonnet~ in requirements/base.txt and setup.py. In addition, commenting
-out ~moo~ in setup.py might also help decouple with ~gojsonnet~
-
-* Use
-
-In fresh shells must repeat:
-
-#+BEGIN_EXAMPLE
-  $ source venv/bin/activate
-#+END_EXAMPLE
-
-* Others
-
-
-** ZIO
-
-The ZIO Python package can provide some functionality that WCT may
-make use of (flow/domo brokers).  It's installation is somewhat
-irregular so a script is provided to help.  It will also install the
-~wirecell~ Python module.
+** Developer
 
 #+begin_example
-  $ python3 -m venv venv
-  $ source venv/bin/activate
-  $ ./zioinst.sh
+git clone [email protected]:WireCell/wire-cell-python.git
+cd wire-cell-python
+uv sync
+uv run wirecell-util --help
 #+end_example
 
+
 * Command line interfaces
 
 Each main ~wirecell.<module>~ exposes most of its functionality via a

pyproject.toml

@@ -0,0 +1,59 @@
+[project]
+name = "wirecell"
+version = "0.1.0"
+description = "Add your description here"
+requires-python = ">=3.11"
+readme = {file = "README.org", content-type = "text/org"}
+authors = [
+    { name = "Brett Viren", email = "[email protected]" }
+]
+
+dependencies = [
+    "anyconfig>=0.14.0",
+    "click>=8.1.8",
+    "gojsonnet>=0.21.0",
+    "h5py>=3.13.0",
+    "jsonnet>=0.21.0",
+    "matplotlib>=3.9.4",
+    "networkx>=3.2.1",
+    "numpy>=2.0.2",
+    "scipy>=1.15.3",
+    "semver>=3.0.4",
+    "sqlalchemy>=2.0.41",
+]
+
+
+[project.scripts]
+wirecell-sigproc = "wirecell.sigproc.__main__:main"
+wirecell-util = "wirecell.util.__main__:main"
+wirecell-gen = "wirecell.gen.__main__:main"
+wirecell-pgraph = "wirecell.pgraph.__main__:main"
+wirecell-resp = "wirecell.resp.__main__:main"
+wirecell-plot = "wirecell.plot.__main__:main"
+wirecell-aux = "wirecell.aux.__main__:main"
+wirecell-ls4gan = "wirecell.ls4gan.__main__:main"
+wirecell-validate = "wirecell.validate.__main__:main"
+wirecell-img = "wirecell.img.__main__:main"
+wirecell-test = "wirecell.test.__main__:main"
+
+# needs torch
+wirecell-dnn = "wirecell.dnn.__main__:main"
+wirecell-pytorch = "wirecell.pytorch.__main__:main"
+
+[project.optional-dependencies]
+torch = [
+    "torch>=2.7.0",
+]
+
+# other dependencies to take care of gravio, gvanim, shapely, tvtk, mlflow, pygraphviz, ROOT, semver, 
+
+[build-system]
+requires = ["setuptools"]
+build-backend = "setuptools.build_meta"
+
+# we have non-standard directory layout where the top module is right here and
+# not under src.
+[tool.setuptools]
+package-dir = {"" = "."}
+[tool.setuptools.packages.find]
+where = ["."]