From eb3d61975549f75ac52561fbaa9215134a39e3f1 Mon Sep 17 00:00:00 2001
From: Ross Barnowski <rossbar@caltech.edu>
Date: Thu, 8 Aug 2024 15:15:10 -0700
Subject: [PATCH] Prepare 0.12.10 release (#726)

* Bump deepcell-tracking patch in deps.

* Update release job.

* Bump version number.

* Explicit role to silence sphinx complaint.

* Bump Python version for doc testing workflow.

* Add .git-blame-ignore-revs.
---
 .git-blame-ignore-revs                 | 1 +
 .github/workflows/pypi.yaml            | 8 ++++----
 .github/workflows/test-docs.yaml       | 2 +-
 deepcell/_version.py                   | 2 +-
 deepcell/applications/cell_tracking.py | 2 +-
 docs/source/conf.py                    | 2 +-
 requirements.txt                       | 2 +-
 setup.py                               | 2 +-
 8 files changed, 11 insertions(+), 10 deletions(-)
 create mode 100644 .git-blame-ignore-revs

diff --git a/.git-blame-ignore-revs b/.git-blame-ignore-revs
new file mode 100644
index 00000000..80366a13
--- /dev/null
+++ b/.git-blame-ignore-revs
@@ -0,0 +1 @@
+1634b5fbe939e93f463e0385511f91170655839d
diff --git a/.github/workflows/pypi.yaml b/.github/workflows/pypi.yaml
index e5696531..bd74baa9 100644
--- a/.github/workflows/pypi.yaml
+++ b/.github/workflows/pypi.yaml
@@ -18,14 +18,14 @@ jobs:
     - name: Set up Python
       uses: actions/setup-python@v5
       with:
-        python-version: '3.x'
+        python-version: "3.10"
 
     - name: Build a source distribution
       run: python setup.py sdist
 
     - name: Publish distribution 📦 to PyPI
       if: startsWith(github.ref, 'refs/tags')
-      uses: pypa/gh-action-pypi-publish@master
+      uses: pypa/gh-action-pypi-publish@release/v1
       with:
         user: __token__
         password: ${{ secrets.PYPI_PASSWORD }}
@@ -40,7 +40,7 @@ jobs:
     - name: Set up Python
       uses: actions/setup-python@v5
       with:
-        python-version: '3.x'
+        python-version: "3.10"
 
     - name: Build a source distribution
       run: |
@@ -54,7 +54,7 @@ jobs:
 
     - name: Publish distribution 📦 to PyPI
       if: startsWith(github.ref, 'refs/tags')
-      uses: pypa/gh-action-pypi-publish@master
+      uses: pypa/gh-action-pypi-publish@release/v1
       with:
         user: __token__
         password: ${{ secrets.PYPI_PASSWORD }}
diff --git a/.github/workflows/test-docs.yaml b/.github/workflows/test-docs.yaml
index 933759da..c113f562 100644
--- a/.github/workflows/test-docs.yaml
+++ b/.github/workflows/test-docs.yaml
@@ -18,7 +18,7 @@ jobs:
     - name: Set up Python
       uses: actions/setup-python@v5
       with:
-        python-version: 3.8
+        python-version: "3.10"
 
     - name: Install Dependencies
       run: |
diff --git a/deepcell/_version.py b/deepcell/_version.py
index b1c515d3..f5e0556e 100644
--- a/deepcell/_version.py
+++ b/deepcell/_version.py
@@ -27,7 +27,7 @@
 __title__ = 'DeepCell'
 __description__ = 'Deep learning for single cell image segmentation'
 __url__ = 'https://github.com/vanvalenlab/deepcell-tf'
-__version__ = '0.12.9'
+__version__ = '0.12.10'
 __download_url__ = f'{__url__}/tarball/{__version__}'
 __author__ = 'The Van Valen Lab'
 __author_email__ = 'vanvalen@caltech.edu'
diff --git a/deepcell/applications/cell_tracking.py b/deepcell/applications/cell_tracking.py
index 71c0a05f..2ef1e32c 100644
--- a/deepcell/applications/cell_tracking.py
+++ b/deepcell/applications/cell_tracking.py
@@ -144,7 +144,7 @@ def from_version(cls, version='1.1'):
         1.0: Original Caliban model released with the September 2023 preprint
 
         Args:
-            version (str, optional): Defaults to '1.1'.
+            version (:obj:`str`, optional): Defaults to '1.1'.
         """
         if version not in CONFIGS:
             raise ValueError(f'Selected version {version} is not available. '
diff --git a/docs/source/conf.py b/docs/source/conf.py
index 8c2d73da..83096dae 100644
--- a/docs/source/conf.py
+++ b/docs/source/conf.py
@@ -31,7 +31,7 @@
 author = 'Van Valen Lab at Caltech'
 
 # The short X.Y.Z version - overriden by rtd
-version = release = '0.12.9'
+version = release = '0.12.10'
 
 import subprocess
 try:
diff --git a/requirements.txt b/requirements.txt
index dc6008dd..6d56709f 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -8,7 +8,7 @@ tensorflow_addons~=0.16.1
 spektral~=1.0.4
 jupyterlab
 matplotlib
-deepcell-tracking~=0.6.1
+deepcell-tracking~=0.6.5
 deepcell-toolbox>=0.12.1
 
 # Required for keras.utils.plot_model
diff --git a/setup.py b/setup.py
index e532c521..315d6b54 100644
--- a/setup.py
+++ b/setup.py
@@ -69,7 +69,7 @@
         'jupyter>=1.0.0,<2',
         'matplotlib',
         'opencv-python-headless<5',
-        'deepcell-tracking~=0.6.1',
+        'deepcell-tracking~=0.6.5',
         'deepcell-toolbox>=0.12.1'
     ],
     extras_require={