Update suite2p to 1.1.0 (fixes Python 3.13 dataclass error); update README Python version to 3.13

Author: rcpeene

README.md

@@ -11,13 +11,13 @@ We are releasing this code to the public as a tool we expect others to use and a
 ## Environment Setup
 
 ### Preferred (uv lockfile, mirrors CI)
-- Use Python 3.10
+- Use Python 3.13
 - Install uv: `python -m pip install uv`
-- Sync from lockfile: `uv sync --frozen --extra dev --python 3.10`
+- Sync from lockfile: `uv sync --frozen --extra dev --python 3.13`
 - Run tooling through uv, e.g. `uv run jupyter notebook ./docs`
 
 ### Pip-only fallback (no uv required)
-- Create and activate a Python 3.10 virtual environment
+- Create and activate a Python 3.13 virtual environment
 - Install dependencies: `python -m pip install -r requirements-ci.txt`
 - Install project: `python -m pip install -e .`
 

pyproject.toml

@@ -52,7 +52,7 @@ dependencies = [
     "seaborn>=0.13.2",
     "ssm @ git+https://github.com/rcpeene/ssm",
     "statsmodels==0.14.6",
-    "suite2p==0.14",
+    "suite2p==1.1.0",
     "tensortools==0.4",
     "torch==2.12.1",
     "tqdm==4.68.3",

requirements-ci.txt

@@ -413,7 +413,6 @@ natsort==8.4.0
     # via
     #   cellpose
     #   nwbinspector
-    #   rastermap
     #   suite2p
 nbclient==0.6.8
     # via
@@ -456,7 +455,6 @@ numba==0.65.1
     # via
     #   pynapple
     #   pynndescent
-    #   rastermap
     #   ssm
     #   suite2p
     #   tensortools
@@ -507,9 +505,9 @@ numpy==2.4.6
     #   pynapple
     #   pynwb
     #   quantities
-    #   rastermap
     #   remfile
     #   roifile
+    #   scanimage-tiff-reader
     #   scikit-image
     #   scikit-learn
     #   scipy
@@ -750,8 +748,6 @@ quantities==0.16.4
     #   elephant
     #   neo
     #   openscope-databook
-rastermap==1.0
-    # via suite2p
 referencing==0.37.0
     # via
     #   jsonschema
@@ -786,6 +782,8 @@ ruamel-yaml==0.19.1
     #   hdmf
 sbxreader==0.2.3
     # via openscope-databook
+scanimage-tiff-reader==1.4.1.4
+    # via suite2p
 scikit-image==0.26.0
     # via
     #   openscope-databook
@@ -796,7 +794,6 @@ scikit-learn==1.8.0
     #   nemos
     #   openscope-databook
     #   pynndescent
-    #   rastermap
     #   ssm
     #   suite2p
     #   umap-learn
@@ -812,7 +809,6 @@ scipy==1.17.1
     #   openscope-databook
     #   pynapple
     #   pynndescent
-    #   rastermap
     #   sbxreader
     #   scikit-image
     #   scikit-learn
@@ -846,7 +842,7 @@ stack-data==0.6.3
     # via ipython
 statsmodels==0.14.6
     # via openscope-databook
-suite2p==0.14.0
+suite2p==1.1.0
     # via openscope-databook
 sympy==1.14.0
     # via torch
@@ -900,7 +896,6 @@ tqdm==4.68.3
     #   elephant
     #   nwbinspector
     #   openscope-databook
-    #   rastermap
     #   ssm
     #   tensortools
     #   umap-learn