From 1bbb3b701a2b9132b134cf9819df782ed28375cd Mon Sep 17 00:00:00 2001
From: Pat Gunn <pgunn01@gmail.com>
Date: Fri, 6 Dec 2024 11:32:06 -0500
Subject: [PATCH] Move dependencies into pyproject

---
 pyproject.toml       | 37 +++++++++++++++++++++++++++++++++++++
 requirements.txt     | 30 ------------------------------
 requirements_gpu.txt | 28 ----------------------------
 3 files changed, 37 insertions(+), 58 deletions(-)
 delete mode 100644 requirements.txt
 delete mode 100644 requirements_gpu.txt

diff --git a/pyproject.toml b/pyproject.toml
index d9f85e955..96941901d 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -11,6 +11,43 @@ authors = [
 	{ name = "Jeremie Kalfon"}]
 readme = "README.md"
 dynamic = ["classifiers", "keywords", "license", "scripts", "version"]
+dependencies = [
+  "av",
+  "bokeh",
+  "coverage",
+  "cython",
+  "h5py",
+  "holoviews",
+  "ipykernel",
+  "ipython",
+  "ipyparallel",
+  "ipywidgets",
+  "keras",
+  "matplotlib",
+  "mypy",
+  "numpy",
+  "numpydoc",
+  "opencv-python",
+  "peakutils",
+  "pims",
+  "psutil",
+  "pynwb",
+  "scikit-image",
+  "scikit-learn",
+  "scipy",
+  "tensorflow",
+  "tifffile",
+  "tqdm",
+  "yapf",
+  "zarr"
+]
+
+[project.optional-dependencies]
+jupyter = [
+  "jupyter",
+  "pyqtgraph",
+  "tk"
+]
 
 [build-system]
 requires = ["cython", "numpy", "setuptools", "wheel"]
diff --git a/requirements.txt b/requirements.txt
deleted file mode 100644
index f3a39222c..000000000
--- a/requirements.txt
+++ /dev/null
@@ -1,30 +0,0 @@
-av
-bokeh
-coverage
-cython
-h5py
-holoviews
-ipykernel
-ipython
-ipyparallel
-jupyter
-keras
-matplotlib
-mypy
-numpy
-numpydoc
-opencv-python
-peakutils
-pims
-psutil
-pynwb
-pyqtgraph
-scikit-image
-scikit-learn
-scipy
-tensorflow
-tifffile
-tk
-tqdm
-yapf
-zarr
diff --git a/requirements_gpu.txt b/requirements_gpu.txt
deleted file mode 100644
index 6ab23e301..000000000
--- a/requirements_gpu.txt
+++ /dev/null
@@ -1,28 +0,0 @@
-av
-coverage
-cython
-h5py
-ipykernel
-ipython
-ipyparallel
-jupyter
-keras
-matplotlib
-mypy
-numpy
-numpydoc
-opencv-python
-peakutils
-pims
-psutil
-pynwb
-scikit-image
-scikit-learn
-scipy
-tensorflow
-tensorflow-addons
-tifffile
-tk
-tqdm
-yapf
-zarr