From 8ce71f38db4ddb9409fc9930db5ae04b43748665 Mon Sep 17 00:00:00 2001
From: Mike Sarahan <msarahan@gmail.com>
Date: Fri, 7 Feb 2025 11:24:37 -0600
Subject: [PATCH 1/5] add telemetry (#822)

Enables telemetry during cucim CI runs. This is done by parsing GitHub Actions run log metadata and should have no impact on build or test times.

xref https://github.com/rapidsai/build-infra/issues/139

Authors:
  - Mike Sarahan (https://github.com/msarahan)

Approvers:
  - Gil Forsyth (https://github.com/gforsyth)

URL: https://github.com/rapidsai/cucim/pull/822
---
 .github/workflows/pr.yaml | 25 +++++++++++++++++++++++++
 1 file changed, 25 insertions(+)

diff --git a/.github/workflows/pr.yaml b/.github/workflows/pr.yaml
index 35836dce..f55eb225 100644
--- a/.github/workflows/pr.yaml
+++ b/.github/workflows/pr.yaml
@@ -19,11 +19,26 @@ jobs:
       - docs-build
       - wheel-build
       - wheel-tests
+      - telemetry-setup
     secrets: inherit
     uses: rapidsai/shared-workflows/.github/workflows/pr-builder.yaml@nvks-runners
+  telemetry-setup:
+    runs-on: ubuntu-latest
+    continue-on-error: true
+    env:
+      OTEL_SERVICE_NAME: "pr-cucim"
+    steps:
+      - name: Telemetry setup
+        # This gate is here and not at the job level because we need the job to not be skipped,
+        # since other jobs depend on it.
+        if: ${{ vars.TELEMETRY_ENABLED == 'true' }}
+        uses: rapidsai/shared-actions/telemetry-dispatch-stash-base-env-vars@main
   checks:
     secrets: inherit
+    needs: telemetry-setup
     uses: rapidsai/shared-workflows/.github/workflows/checks.yaml@nvks-runners
+    with:
+      ignored_pr_jobs: telemetry-summarize
   conda-cpp-build:
     needs: checks
     secrets: inherit
@@ -66,3 +81,13 @@ jobs:
     with:
       build_type: pull-request
       script: ci/test_wheel.sh
+
+  telemetry-summarize:
+    # This job must use a self-hosted runner to record telemetry traces.
+    runs-on: linux-amd64-cpu4
+    needs: pr-builder
+    if: ${{ vars.TELEMETRY_ENABLED == 'true' && !cancelled() }}
+    continue-on-error: true
+    steps:
+      - name: Telemetry summarize
+        uses: rapidsai/shared-actions/telemetry-dispatch-summarize@main

From de937c0b34233ef736d1364c22199ad70cbc00b6 Mon Sep 17 00:00:00 2001
From: Bradley Dice <bdice@bradleydice.com>
Date: Fri, 7 Feb 2025 14:21:06 -0800
Subject: [PATCH 2/5] Use shared-workflows branch-25.04 (#826)

This completes the migration to NVKS runners now that all libraries have been tested and https://github.com/rapidsai/shared-workflows/pull/273 has been merged.

xref: https://github.com/rapidsai/build-infra/issues/184

Authors:
  - Bradley Dice (https://github.com/bdice)
  - James Lamb (https://github.com/jameslamb)

Approvers:
  - James Lamb (https://github.com/jameslamb)

URL: https://github.com/rapidsai/cucim/pull/826
---
 .github/workflows/build.yaml                     | 12 ++++++------
 .github/workflows/pr.yaml                        | 16 ++++++++--------
 .github/workflows/test.yaml                      |  4 ++--
 .../workflows/trigger-breaking-change-alert.yaml |  2 +-
 4 files changed, 17 insertions(+), 17 deletions(-)

diff --git a/.github/workflows/build.yaml b/.github/workflows/build.yaml
index 4ac5c98b..06abfcce 100644
--- a/.github/workflows/build.yaml
+++ b/.github/workflows/build.yaml
@@ -28,7 +28,7 @@ concurrency:
 jobs:
   cpp-build:
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-cpp-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-cpp-build.yaml@branch-25.04
     with:
       build_type: ${{ inputs.build_type || 'branch' }}
       branch: ${{ inputs.branch }}
@@ -38,7 +38,7 @@ jobs:
     if: github.ref_type == 'branch'
     needs: [python-build]
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/custom-job.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/custom-job.yaml@branch-25.04
     with:
       arch: "amd64"
       branch: ${{ inputs.branch }}
@@ -51,7 +51,7 @@ jobs:
   python-build:
     needs: [cpp-build]
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-python-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-python-build.yaml@branch-25.04
     with:
       build_type: ${{ inputs.build_type || 'branch' }}
       branch: ${{ inputs.branch }}
@@ -60,7 +60,7 @@ jobs:
   upload-conda:
     needs: [cpp-build, python-build]
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-upload-packages.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-upload-packages.yaml@branch-25.04
     with:
       build_type: ${{ inputs.build_type || 'branch' }}
       branch: ${{ inputs.branch }}
@@ -68,7 +68,7 @@ jobs:
       sha: ${{ inputs.sha }}
   wheel-build:
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/wheels-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/wheels-build.yaml@branch-25.04
     with:
       build_type: ${{ inputs.build_type || 'branch' }}
       branch: ${{ inputs.branch }}
@@ -78,7 +78,7 @@ jobs:
   wheel-publish:
     needs: wheel-build
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/wheels-publish.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/wheels-publish.yaml@branch-25.04
     with:
       build_type: ${{ inputs.build_type || 'branch' }}
       branch: ${{ inputs.branch }}
diff --git a/.github/workflows/pr.yaml b/.github/workflows/pr.yaml
index f55eb225..e8c9efc9 100644
--- a/.github/workflows/pr.yaml
+++ b/.github/workflows/pr.yaml
@@ -21,7 +21,7 @@ jobs:
       - wheel-tests
       - telemetry-setup
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/pr-builder.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/pr-builder.yaml@branch-25.04
   telemetry-setup:
     runs-on: ubuntu-latest
     continue-on-error: true
@@ -36,31 +36,31 @@ jobs:
   checks:
     secrets: inherit
     needs: telemetry-setup
-    uses: rapidsai/shared-workflows/.github/workflows/checks.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/checks.yaml@branch-25.04
     with:
       ignored_pr_jobs: telemetry-summarize
   conda-cpp-build:
     needs: checks
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-cpp-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-cpp-build.yaml@branch-25.04
     with:
       build_type: pull-request
   conda-python-build:
     needs: conda-cpp-build
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-python-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-python-build.yaml@branch-25.04
     with:
       build_type: pull-request
   conda-python-tests:
     needs: conda-python-build
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-python-tests.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-python-tests.yaml@branch-25.04
     with:
       build_type: pull-request
   docs-build:
     needs: conda-python-build
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/custom-job.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/custom-job.yaml@branch-25.04
     with:
       build_type: pull-request
       node_type: "gpu-l4-latest-1"
@@ -70,14 +70,14 @@ jobs:
   wheel-build:
     needs: checks
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/wheels-build.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/wheels-build.yaml@branch-25.04
     with:
       build_type: pull-request
       script: ci/build_wheel.sh
   wheel-tests:
     needs: wheel-build
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/wheels-test.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/wheels-test.yaml@branch-25.04
     with:
       build_type: pull-request
       script: ci/test_wheel.sh
diff --git a/.github/workflows/test.yaml b/.github/workflows/test.yaml
index cb91f4fe..a96bf529 100644
--- a/.github/workflows/test.yaml
+++ b/.github/workflows/test.yaml
@@ -16,7 +16,7 @@ on:
 jobs:
   conda-python-tests:
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/conda-python-tests.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/conda-python-tests.yaml@branch-25.04
     with:
       build_type: nightly
       branch: ${{ inputs.branch }}
@@ -24,7 +24,7 @@ jobs:
       sha: ${{ inputs.sha }}
   wheel-tests:
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/wheels-test.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/wheels-test.yaml@branch-25.04
     with:
       build_type: nightly
       branch: ${{ inputs.branch }}
diff --git a/.github/workflows/trigger-breaking-change-alert.yaml b/.github/workflows/trigger-breaking-change-alert.yaml
index 7b5b4810..9764c62c 100644
--- a/.github/workflows/trigger-breaking-change-alert.yaml
+++ b/.github/workflows/trigger-breaking-change-alert.yaml
@@ -12,7 +12,7 @@ jobs:
   trigger-notifier:
     if: contains(github.event.pull_request.labels.*.name, 'breaking')
     secrets: inherit
-    uses: rapidsai/shared-workflows/.github/workflows/breaking-change-alert.yaml@nvks-runners
+    uses: rapidsai/shared-workflows/.github/workflows/breaking-change-alert.yaml@branch-25.04
     with:
       sender_login: ${{ github.event.sender.login }}
       sender_avatar: ${{ github.event.sender.avatar_url }}

From ae7f90e700837c2d46c2457bf0fe47624b7b404e Mon Sep 17 00:00:00 2001
From: Jake Awe <jawe@nvidia.com>
Date: Thu, 13 Feb 2025 09:40:37 -0600
Subject: [PATCH 3/5] Update Changelog [skip ci]

---
 CHANGELOG.md | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 370881f0..f9a9166b 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -1,3 +1,24 @@
+# cucim 25.02.00 (13 Feb 2025)
+
+## 🐛 Bug Fixes
+
+- Fix primitives benchmark code ([#812](https://github.com/rapidsai/cucim/pull/812)) [@gigony](https://github.com/gigony)
+- CuPy 14.0 compatibility ([#808](https://github.com/rapidsai/cucim/pull/808)) [@grlee77](https://github.com/grlee77)
+
+## 🛠️ Improvements
+
+- Use `rapids-pip-retry` in CI jobs that might need retries ([#824](https://github.com/rapidsai/cucim/pull/824)) [@gforsyth](https://github.com/gforsyth)
+- Revert CUDA 12.8 shared workflow branch changes ([#818](https://github.com/rapidsai/cucim/pull/818)) [@vyasr](https://github.com/vyasr)
+- Build and test with CUDA 12.8.0 ([#815](https://github.com/rapidsai/cucim/pull/815)) [@bdice](https://github.com/bdice)
+- Add shellcheck to pre-commit and fix warnings ([#814](https://github.com/rapidsai/cucim/pull/814)) [@gforsyth](https://github.com/gforsyth)
+- Update vendored ndimage code with axes support ([#813](https://github.com/rapidsai/cucim/pull/813)) [@grlee77](https://github.com/grlee77)
+- Use GCC 13 in CUDA 12 conda builds. ([#811](https://github.com/rapidsai/cucim/pull/811)) [@bdice](https://github.com/bdice)
+- Improve performance of color distance calculations by kernel fusion ([#809](https://github.com/rapidsai/cucim/pull/809)) [@grlee77](https://github.com/grlee77)
+- Incorporate upstream changes from scikit-image 0.25 ([#806](https://github.com/rapidsai/cucim/pull/806)) [@grlee77](https://github.com/grlee77)
+- Update version references in workflow ([#803](https://github.com/rapidsai/cucim/pull/803)) [@AyodeAwe](https://github.com/AyodeAwe)
+- Require approval to run CI on draft PRs ([#798](https://github.com/rapidsai/cucim/pull/798)) [@bdice](https://github.com/bdice)
+- Add breaking change workflow trigger ([#795](https://github.com/rapidsai/cucim/pull/795)) [@AyodeAwe](https://github.com/AyodeAwe)
+
 # cucim 24.12.00 (11 Dec 2024)
 
 ## 🚨 Breaking Changes

From abb90be68c99aada8c60967ebe5d0026625126fd Mon Sep 17 00:00:00 2001
From: Kyle Edwards <kyedwards@nvidia.com>
Date: Thu, 13 Feb 2025 11:53:24 -0500
Subject: [PATCH 4/5] Create Conda CI test env in one step (#833)

Issue: https://github.com/rapidsai/build-planning/issues/22

Authors:
  - Kyle Edwards (https://github.com/KyleFromNVIDIA)

Approvers:
  - James Lamb (https://github.com/jameslamb)

URL: https://github.com/rapidsai/cucim/pull/833
---
 ci/release/update-version.sh | 12 ++++++++++++
 ci/test_python.sh            | 21 ++++++++-------------
 dependencies.yaml            | 12 ++++++++++++
 3 files changed, 32 insertions(+), 13 deletions(-)

diff --git a/ci/release/update-version.sh b/ci/release/update-version.sh
index fd0e47be..a8802866 100755
--- a/ci/release/update-version.sh
+++ b/ci/release/update-version.sh
@@ -21,6 +21,7 @@ CURRENT_LONG_TAG=${CURRENT_MAJOR}.${CURRENT_MINOR}.${CURRENT_PATCH}
 NEXT_MAJOR=$(echo "$NEXT_FULL_TAG" | awk '{split($0, a, "."); print a[1]}')
 NEXT_MINOR=$(echo "$NEXT_FULL_TAG" | awk '{split($0, a, "."); print a[2]}')
 NEXT_SHORT_TAG=${NEXT_MAJOR}.${NEXT_MINOR}
+NEXT_SHORT_TAG_PEP440=$(python -c "from packaging.version import Version; print(Version('${NEXT_SHORT_TAG}'))")
 
 echo "Preparing release $CURRENT_TAG => $NEXT_FULL_TAG"
 
@@ -37,3 +38,14 @@ sed_runner "s#cucim.kit.cuslide@${CURRENT_LONG_TAG}.so#cucim.kit.cuslide@${NEXT_
 for FILE in .github/workflows/*.yaml; do
   sed_runner "/shared-workflows/ s/@.*/@branch-${NEXT_SHORT_TAG}/g" "${FILE}"
 done
+
+DEPENDENCIES=(
+  cucim
+  libcucim
+)
+for DEP in "${DEPENDENCIES[@]}"; do
+  for FILE in dependencies.yaml conda/environments/*.yaml; do
+    sed_runner "/-.* ${DEP}\(-cu[[:digit:]]\{2\}\)\{0,1\}==/ s/==.*/==${NEXT_SHORT_TAG_PEP440}.*,>=0.0.0a0/g" "${FILE}"
+  done
+  sed_runner "/\"${DEP}==/ s/==.*\"/==${NEXT_SHORT_TAG_PEP440}.*,>=0.0.0a0\"/g" pyproject.toml
+done
diff --git a/ci/test_python.sh b/ci/test_python.sh
index ae14da4a..83b092af 100755
--- a/ci/test_python.sh
+++ b/ci/test_python.sh
@@ -5,15 +5,20 @@
 
 set -euo pipefail
 
-RAPIDS_VERSION_NUMBER=$(rapids-generate-version)
-
 . /opt/conda/etc/profile.d/conda.sh
 
+rapids-logger "Downloading artifacts from previous jobs"
+CPP_CHANNEL=$(rapids-download-conda-from-s3 cpp)
+PYTHON_CHANNEL=$(rapids-download-conda-from-s3 python)
+
 rapids-logger "Generate Python testing dependencies"
 rapids-dependency-file-generator \
   --output conda \
   --file-key test_python \
-  --matrix "cuda=${RAPIDS_CUDA_VERSION%.*};arch=$(arch);py=${RAPIDS_PY_VERSION}" | tee env.yaml
+  --matrix "cuda=${RAPIDS_CUDA_VERSION%.*};arch=$(arch);py=${RAPIDS_PY_VERSION}" \
+  --prepend-channel "${CPP_CHANNEL}" \
+  --prepend-channel "${PYTHON_CHANNEL}" \
+  | tee env.yaml
 
 rapids-mamba-retry env create --yes -f env.yaml -n test
 
@@ -22,22 +27,12 @@ set +u
 conda activate test
 set -u
 
-rapids-logger "Downloading artifacts from previous jobs"
-CPP_CHANNEL=$(rapids-download-conda-from-s3 cpp)
-PYTHON_CHANNEL=$(rapids-download-conda-from-s3 python)
-
 RAPIDS_TESTS_DIR=${RAPIDS_TESTS_DIR:-"${PWD}/test-results"}
 RAPIDS_COVERAGE_DIR=${RAPIDS_COVERAGE_DIR:-"${PWD}/coverage-results"}
 mkdir -p "${RAPIDS_TESTS_DIR}" "${RAPIDS_COVERAGE_DIR}"
 
 rapids-print-env
 
-rapids-mamba-retry install \
-  --channel "${CPP_CHANNEL}" \
-  --channel "${PYTHON_CHANNEL}" \
-  "libcucim=${RAPIDS_VERSION_NUMBER}" \
-  "cucim=${RAPIDS_VERSION_NUMBER}"
-
 rapids-logger "Check GPU usage"
 nvidia-smi
 
diff --git a/dependencies.yaml b/dependencies.yaml
index 7ed0cedd..814a8abd 100644
--- a/dependencies.yaml
+++ b/dependencies.yaml
@@ -20,6 +20,8 @@ files:
       - cuda_version
       - py_version
       - test_python
+      - depends_on_cucim
+      - depends_on_libcucim
   checks:
     output: none
     includes:
@@ -220,6 +222,16 @@ dependencies:
               cuda: "12.*"
             packages:
               - libcufile-dev
+  depends_on_cucim:
+    common:
+      - output_types: conda
+        packages:
+          - cucim==25.4.*,>=0.0.0a0
+  depends_on_libcucim:
+    common:
+      - output_types: conda
+        packages:
+          - libcucim==25.4.*,>=0.0.0a0
   develop:
     common:
       - output_types: [conda, requirements, pyproject]

From 74b06d0b9e9d6e3b6b12056690d00679b502dee0 Mon Sep 17 00:00:00 2001
From: Kyle Edwards <kyedwards@nvidia.com>
Date: Fri, 14 Feb 2025 15:51:00 -0500
Subject: [PATCH 5/5] Consolidate more Conda solves in CI (#835)

Issue: https://github.com/rapidsai/build-planning/issues/22

Authors:
  - Kyle Edwards (https://github.com/KyleFromNVIDIA)

Approvers:
  - James Lamb (https://github.com/jameslamb)

URL: https://github.com/rapidsai/cucim/pull/835
---
 ci/build_docs.sh  | 21 ++++++++-------------
 dependencies.yaml |  2 ++
 2 files changed, 10 insertions(+), 13 deletions(-)

diff --git a/ci/build_docs.sh b/ci/build_docs.sh
index 915fbfe7..cad5b432 100755
--- a/ci/build_docs.sh
+++ b/ci/build_docs.sh
@@ -2,31 +2,26 @@
 
 set -euo pipefail
 
+rapids-logger "Downloading artifacts from previous jobs"
+CPP_CHANNEL=$(rapids-download-conda-from-s3 cpp)
+PYTHON_CHANNEL=$(rapids-download-conda-from-s3 python)
+
 rapids-logger "Create test conda environment"
 . /opt/conda/etc/profile.d/conda.sh
 
-RAPIDS_VERSION="$(rapids-version)"
-
 rapids-dependency-file-generator \
     --output conda \
     --file-key docs \
-    --matrix "cuda=${RAPIDS_CUDA_VERSION%.*};arch=$(arch);py=${RAPIDS_PY_VERSION}" | tee env.yaml
+    --matrix "cuda=${RAPIDS_CUDA_VERSION%.*};arch=$(arch);py=${RAPIDS_PY_VERSION}" \
+    --prepend-channel "${CPP_CHANNEL}" \
+    --prepend-channel "${PYTHON_CHANNEL}" \
+    | tee env.yaml
 
 rapids-mamba-retry env create --yes -f env.yaml -n docs
 conda activate docs
 
 rapids-print-env
 
-rapids-logger "Downloading artifacts from previous jobs"
-CPP_CHANNEL=$(rapids-download-conda-from-s3 cpp)
-PYTHON_CHANNEL=$(rapids-download-conda-from-s3 python)
-
-rapids-mamba-retry install \
-    --channel "${CPP_CHANNEL}" \
-    --channel "${PYTHON_CHANNEL}" \
-    "cucim=${RAPIDS_VERSION}" \
-    "libcucim=${RAPIDS_VERSION}"
-
 RAPIDS_DOCS_DIR="$(mktemp -d)"
 export RAPIDS_DOCS_DIR
 
diff --git a/dependencies.yaml b/dependencies.yaml
index 814a8abd..56add54d 100644
--- a/dependencies.yaml
+++ b/dependencies.yaml
@@ -33,6 +33,8 @@ files:
       - cuda_version
       - docs
       - py_version
+      - depends_on_cucim
+      - depends_on_libcucim
   py_build_cucim:
     output: pyproject
     pyproject_dir: python/cucim