create a uv workspace

README.md

@@ -6,9 +6,11 @@ This is the main repository of the `spfluo-app`.
 
 `spfluo-app` is built on top of a fork [Scipion](https://scipion.i2pc.es/), so that it runs on Windows.
 
-nvidia gpu compatibility: https://docs.nvidia.com/deploy/cuda-compatibility/#cuda-11-and-later-defaults-to-minor-version-compatibility
+## Install
 
-## Run
+Go to `spfluo-app` [installation page](https://spfluo.icube.unistra.fr/en/usage/installation.html) and follow the instructions. 
+
+## Install for developement
 
 Run with uv:
 ```sh

packages/napari-bbox/pyproject.toml

@@ -41,16 +41,6 @@ dependencies = [
 "Source Code" = "https://github.com/bauerdavid/napari-bbox"
 "User Support" = "https://github.com/bauerdavid/napari-bbox/issues"
 
-[project.optional-dependencies]
-testing = [
-    "tox",
-    "pytest",
-    "pytest-cov",
-    "pytest-qt",
-    "napari",
-    "pyqt5",
-]
-
 [tool.setuptools]
 package-dir = {"" = "src"}
 include-package-data = true
@@ -70,3 +60,13 @@ line-length = 79
 [tool.isort]
 profile = "black"
 line_length = 79
+
+[tool.uv]
+dev-dependencies = [
+    "tox",
+    "pytest",
+    "pytest-cov",
+    "pytest-qt",
+    "napari",
+    "pyqt5",
+]

packages/napari-spfluo/pyproject.toml

@@ -35,15 +35,6 @@ dependencies = [
     "spfluo[ab-initio-reconstruction]",
 ]
 
-[project.optional-dependencies]
-testing = [
-    "napari",
-    "pyqt5",
-    "pytest",
-    "pytest-cov",
-    "pytest-qt",
-]
-
 [project.entry-points."napari.manifest"]
 napari-spfluo = "napari_spfluo:napari.yaml"
 
@@ -58,5 +49,14 @@ Homepage = "https://github.com/jplumail/napari-spfluo"
 line-length = 79
 target-version = ['py39', 'py310', 'py311']
 
+[tool.uv]
+dev-dependencies = [
+    "napari",
+    "pyqt5",
+    "pytest",
+    "pytest-cov",
+    "pytest-qt",
+]
+
 [tool.uv.sources]
-spfluo = {path = "../spfluo"}
+spfluo = {workspace = true}

packages/scipion-app/pyproject.toml

@@ -40,4 +40,4 @@ guiplugin = "scipion.guiplugin"
 "scipion" = ["templates/*.template", "templates/*.json"]
 
 [tool.uv.sources]
-scipion-fluo = {path = "../scipion-fluo"}
+scipion-fluo = {workspace = true}

packages/scipion-fluo-singleparticle/pyproject.toml

@@ -27,7 +27,7 @@ Repository = "https://github.com/jplumail/scipion-fluo-singleparticle"
 singleparticle = "singleparticle"
 
 [tool.uv.sources]
-scipion-pyworkflow = {path="../scipion-pyworkflow"}
-scipion-fluo = {path="../scipion-fluo"}
-spfluo = {path="../spfluo"}
-napari-spfluo = {path="../napari-spfluo"}
+scipion-pyworkflow = {workspace=true}
+scipion-fluo = {workspace=true}
+spfluo = {workspace=true}
+napari-spfluo = {workspace=true}

packages/scipion-fluo/pyproject.toml

@@ -35,4 +35,4 @@ scipion-fluo = "pwfluo.__main__:main"
 pwfluo = "pwfluo"
 
 [tool.uv.sources]
-scipion-pyworkflow = {path = "../scipion-pyworkflow"}
+scipion-pyworkflow = {workspace = true}

packages/spfluo/pyproject.toml

@@ -32,15 +32,6 @@ classifiers = [
 ]
 
 [project.optional-dependencies]
-dev = [
-  "pytest",
-  "pytest-mock",
-  "hypothesis",
-  "pyfigtree",
-  "scikit-image[data]",
-  "pytest-qt",
-]
-array-api-strict = ["array-api-strict"]
 manual-picking = [
   "spfluo[visualisation]"
 ]
@@ -72,5 +63,18 @@ markers = [
     "slow: marks tests as slow (deselect with '-m \"not slow\"')",
 ]
 
+[tool.uv]
+dev-dependencies = [
+  "pytest",
+  "pytest-mock",
+  "hypothesis",
+  "pyfigtree",
+  "scikit-image[data]",
+  "pytest-qt",
+  "pyqt5",
+  "array-api-strict",
+  "spfluo[all]",
+]
+
 [tool.uv.sources]
-napari-bbox = {path = "../napari-bbox"}
+napari-bbox = {workspace = true}

pyproject.toml

@@ -28,6 +28,9 @@ source = "vcs"
 packages = ["src/spfluo_app"]
 
 [tool.uv.sources]
-scipion-fluo-singleparticle = { path = "packages/scipion-fluo-singleparticle" }
-scipion-app = { path = "packages/scipion-app" }
-spfluo = { path = "packages/spfluo" }
+scipion-fluo-singleparticle = { workspace = true }
+scipion-app = { workspace = true }
+spfluo = { workspace = true }
+
+[tool.uv.workspace]
+members = ["packages/*"]