From b3b7414420d60ee2e253c2888e40e3a3e7b2d757 Mon Sep 17 00:00:00 2001
From: Laurent Guerard <laurent.guerard@unibas.ch>
Date: Tue, 23 Jun 2026 14:47:56 +0200
Subject: [PATCH] =?UTF-8?q?build:=20=F0=9F=94=A7=20include=20napari=20in?=
 =?UTF-8?q?=20the=20[all]=20extra?=
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patchworks[all] now also installs the napari viewer plugin; docs/README
updated to match.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
---
 README.md                     | 2 +-
 docs/guide/ome_zarr_napari.md | 4 ++--
 pyproject.toml                | 9 +++++++--
 3 files changed, 10 insertions(+), 5 deletions(-)

diff --git a/README.md b/README.md
index 2970f58..7913078 100644
--- a/README.md
+++ b/README.md
@@ -37,7 +37,7 @@ pip install "patchworks[cellpose]" # Cellpose plugin
 pip install "patchworks[bioio]"    # convert any image format to OME-ZARR
 pip install "patchworks[imaris]"   # convert Imaris .ims files to OME-ZARR
 pip install "patchworks[napari]"   # interactive napari viewer plugin
-pip install "patchworks[all]"      # Everything (except napari GUI)
+pip install "patchworks[all]"      # Everything, incl. the napari viewer
 ```
 
 > `bioio` reads CZI/LIF/ND2/OME-TIFF/… The `[bioio]` extra bundles the common
diff --git a/docs/guide/ome_zarr_napari.md b/docs/guide/ome_zarr_napari.md
index 5ee97af..2a069b4 100644
--- a/docs/guide/ome_zarr_napari.md
+++ b/docs/guide/ome_zarr_napari.md
@@ -144,8 +144,8 @@ view_in_napari("scan.zarr", labels="labels.zarr")
 ```
 
 !!! note
-    napari is a GUI-heavy extra and is **not** included in `patchworks[all]`.
-    Install it explicitly: `pip install "patchworks[napari]"`.
+    napari ships in `patchworks[all]`, or install just it with
+    `pip install "patchworks[napari]"`.
 
 ## End-to-end
 
diff --git a/pyproject.toml b/pyproject.toml
index 72082ca..94b9b12 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -56,11 +56,16 @@ bioio = [
 ]
 # imaris reads .ims files natively (HDF5, no JVM) for OME-ZARR conversion.
 imaris = ["imaris-ims-file-reader"]
-# napari enables the interactive viewer plugin (GUI-heavy, kept out of [all]).
+# napari enables the interactive viewer plugin.
 napari = ["napari[all]"]
 dev = ["pytest", "pytest-cov", "scikit-image", "psutil", "tqdm"]
 docs = ["mkdocs-material>=9.0", "mkdocstrings[python]>=0.24"]
-all = ["patchworks[io,gpu,bioio,imaris]", "psutil", "tqdm", "scikit-image"]
+all = [
+    "patchworks[io,gpu,bioio,imaris,napari]",
+    "psutil",
+    "tqdm",
+    "scikit-image",
+]
 
 [project.urls]
 Homepage = "https://github.com/imcf/patchworks"