Merge pull request #156 from Pale-Blue-Dot-97/fix-unetr

Minerva 0.23.1

Dockerfile

@@ -1,4 +1,4 @@
-FROM python:3.10.10 as base
+FROM python:3.11.3 as base
 
 # Update package listings, install git and OpenCV.
 RUN apt-get -y update && apt-get install git && apt-get install -y python3-opencv -y

Pipfile

@@ -4,62 +4,62 @@ verify_ssl = true
 name = "pypi"
 
 [packages]
-alive_progress = "==3.0.1"
-argcomplete = "==2.1.1"
+alive_progress = "==3.1.1"
+argcomplete = "==3.0.5"
 catalyst = "==22.4"
 fiona = ">=1.9.1"
 geopy = "==2.3.0"
-imageio = "==2.26.0"
+imageio = "==2.27.0"
 inputimeout = "==1.0.4"
-ipykernel = "==6.21.3"
-lightly = "==1.3.0"
+ipykernel = "==6.22.0"
+lightly = "==1.4.1"
 matplotlib = "==3.7.1"
-mlflow = "==2.2.1"
+mlflow = "==2.2.2"
 nptyping = "==2.5.0"
+numba = ">=0.57.0rc1" # not directly required but pinned to ensure Python 3.11 compatibility.
 numpy = "==1.23.5"
 onnx = "==1.13.1"
 onnx2torch = "==1.5.6"
 overload = "==1.1"
-pandas = "==1.5.3"
+pandas = "==2.0.0"
 protobuf = ">=3.19.5" # not directly required, pinned by Snyk to avoid a vulnerability
-psutil = "==5.9.4"
+psutil = "==5.9.5"
 pygments = ">=2.7.4" # not directly required, pinned by Snyk to avoid a vulnerability
 pyyaml = "==6.0"
 rasterio = ">=1.3.6"
 requests = "==2.28.2"
-scikit-learn = "==1.2.1"
+scikit-learn = "==1.2.2"
 seaborn = "==0.12.2"
 setuptools = "==65.5.1"
 tabulate = "==0.9.0"
-tensorflow = "==2.12.0rc0"
-torchgeo = "==0.4.0"
+tensorflow = "==2.12.0"
+torchgeo = "==0.4.1"
 torchinfo = "==1.7.2"
 tqdm = "==4.65.0"
-types-PyYAML = "==6.0.12.8"
-types-requests = "==2.28.11.15"
-types-tabulate = "==0.9.0.1"
-wandb = "==0.13.11"
+types-PyYAML = "==6.0.12.9"
+types-requests = "==2.28.11.17"
+types-tabulate = "==0.9.0.2"
+wandb = "==0.14.2"
 Werkzeug = ">=2.2.3" # Patches a potential security vulnerability.
 wheel = ">=0.38.0" # not directly required, pinned by Snyk to avoid a vulnerability
 
 [dev-packages]
 certifi = ">=2022.12.7" # not directly required, pinned by Snyk to avoid a vulnerability
 internet-sabotage3 = "==0.1.6"
 flake8 = "==6.0.0"
-mypy = "==1.1.1"
-myst_parser= "==0.18.1"
-pre-commit = "==3.1.1"
-pytest = "==7.2.2"
+mypy = "==1.2.0"
+myst_parser= "==1.0.0"
+pre-commit = "==3.2.2"
+pytest = "==7.3.1"
 pytest-cov = "==4.0.0"
 pygments = ">=2.7.4" # not directly required, pinned by Snyk to avoid a vulnerability
 sphinx-rtd-theme = "==1.2.0"
 sphinx = ">=3.0.4" # not directly required, pinned by Snyk to avoid a vulnerability
-tox = "==4.4.6"
-# minerva = {editable = true, path = "."}
+tox = "==4.4.12"
 
 [requires]
-python_version = "3.10"
-python_full_version = "3.10.9"
+python_version = "3.11"
+python_full_version = "3.11.3"
 
 [pipenv]
 allow_prereleases = true