reduce dependencies

Author: darsnack

packages/cheese3d-annotator/README.md

@@ -7,8 +7,8 @@ authors = [
     { name = "Kyle Daruwalla", email = "daruwal@cshl.edu"},
     { name = "Rubin Zhao", email = "rzhao@cshl.edu"}
 ]
-readme = "README.md"
-requires-python = "==3.10.*"
+readme = "../../README.md"
+requires-python = ">=3.10"
 dependencies = [
     "tables>=3.7.0",
     "pandas>=2.1.4",

packages/cheese3d-annotator/pyproject.toml

@@ -204,20 +204,6 @@ def read_3d_data(data_dir: str | Path, extra_cols = None):
     else:
         return landmarks
 
-def tiny_cmap(center, delta, n):
-    import seaborn as sns
-    import matplotlib as mpl
-
-    if isinstance(center, str):
-        _cmap = sns.color_palette(center, as_cmap=True)
-    elif isinstance(center, (list, tuple)):
-        _cmap = sns.dark_palette(tuple(center), input="rgb", as_cmap=True)
-
-    if isinstance(_cmap, list):
-        _cmap = mpl.colors.LinearSegmentedColormap.from_list("tiny_cmap", _cmap)
-
-    return list(_cmap(np.linspace(center - delta, center + delta, n)))
-
 def get_group_pattern(regex: str, group_name: str):
     """
     Return the raw regex subpattern text for the named group `group_name`, if present.

packages/cheese3d/cheese3d/utils.py

@@ -4,47 +4,45 @@ version = "0.1.0"
 description = "Sensitive detection and analysis of whole-face movement in mice."
 authors = [{ name = "Hou Lab CSHL", email = "the.hou.lab@gmail.com" }]
 readme = "../../README.md"
-requires-python = "==3.10.*"
+requires-python = ">=3.10"
 scripts = { cheese3d = "cheese3d.cli:cli" }
 dependencies = [
     "pip>=25.2,<26",
-    "ipython",
-    "ipykernel",
-    "jupyter",
-    "protobuf < 3.20",
-    "tables == 3.7.*",
-    "pandas == 2.1.*",
-    "configobj == 5.0.8",
+    # "ipython",
+    # "ipykernel",
+    # "jupyter",
+    # "protobuf < 3.20",
+    "pandas >= 2.1",
+    # "configobj == 5.0.8",
     "hydra-core == 1.3.*",
-    "joblib == 1.5.*",
-    "torch <= 1.12.0",
+    # "joblib == 1.5.*",
     "aniposelib @ git+https://github.com/Hou-Lab-CSHL/aniposelib.git@62a15fef",
     "anipose @ git+https://github.com/Hou-Lab-CSHL/anipose.git",
     "opencv-python == 4.7.*",
     "opencv-python-headless == 4.7.*",
     "opencv-contrib-python == 4.7.*",
     "pims == 0.6.*",
-    "seaborn",
+    # "seaborn",
     "filelock >= 3.24.3",
     "open-ephys-python-tools == 0.1.12",
-    "typer-slim[standard]>=0.15.3,<0.16",
+    "typer-slim[standard] >= 0.15.3, < 0.16",
     "questionary",
     "textual == 6.8.*",
     "textual-fspicker == 0.6.*",
     "textual_serve == 1.1.*",
     "cheese3d_annotator == 0.1.0",
 
     # Linux-specific deps
-    "blosc2; sys_platform == 'linux'",
-    "tensorflow == 2.10.*; sys_platform == 'linux'",
-    "jax[cuda12_pip] >=0.4,<0.5; sys_platform == 'linux'",
-    "deeplabcut[tf] @ git+https://github.com/Hou-Lab-CSHL/DeepLabCut.git ; sys_platform == 'linux'",
+    # "blosc2; sys_platform == 'linux'",
+    "tensorflow >= 2.13; sys_platform == 'linux'",
+    "jax[cuda12]; sys_platform == 'linux'",
+    "deeplabcut[tf] ; sys_platform == 'linux'",
 
     # Apple silicon-specific deps
-    "tensorflow-macos == 2.10.*; sys_platform == 'darwin'",
-    "tensorflow-metal == 0.6.*; sys_platform == 'darwin'",
-    "jax[cpu] >=0.4,<0.5; sys_platform == 'darwin'",
-    "deeplabcut[apple_mchips] @ git+https://github.com/Hou-Lab-CSHL/DeepLabCut.git ; sys_platform == 'darwin'",
+    "tensorflow-macos >= 2.13 ; sys_platform == 'darwin'",
+    "tensorflow-metal ; sys_platform == 'darwin'",
+    "jax[cpu]; sys_platform == 'darwin'",
+    "deeplabcut[apple_mchips] ; sys_platform == 'darwin'",
 ]
 
 [build-system]