Merge branch 'main' into external_flats

Author: dkazanc

.github/workflows/container.yaml

@@ -0,0 +1,47 @@
+name: Build and Push Container Image
+
+on:
+  push:
+    tags:
+      - v*
+
+jobs:
+  build-and-push-image:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      packages: write
+    steps:
+      - name: Checkout Code
+        uses: actions/checkout@v4
+
+      - name: Log in to GitHub Container Registry
+        uses: docker/login-action@v3
+        with:
+          registry: ghcr.io
+          username: ${{ github.actor }}
+          password: ${{ secrets.GITHUB_TOKEN }}
+
+      - name: Extract Version from Tag
+        id: tags
+        run: echo version=$(echo "${{ github.ref_name }}" | cut -c 2-) >> $GITHUB_OUTPUT
+
+      - name: Docker Metadata
+        id: meta
+        uses: docker/metadata-action@v5
+        with:
+          images: ghcr.io/${{ github.repository }}
+          tags: |
+            type=raw,value=${{ steps.tags.outputs.version }}
+            type=raw,value=latest
+
+      - name: Set up Docker Buildx
+        uses: docker/setup-buildx-action@v3
+
+      - name: Build and Push Image
+        uses: docker/build-push-action@v6
+        with:
+          push: true
+          context: .
+          tags: ${{ steps.meta.outputs.tags }}
+          target: deploy

Dockerfile

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+FROM mambaorg/micromamba:2.0.8-debian12-slim AS build
+
+USER root
+
+RUN apt update && apt install -y git && apt clean
+
+RUN micromamba install -y python=3.11 blas[build=mkl] 'numpy<2' scipy scikit-image tqdm pyyaml pillow click cuda-version=12.8
+RUN micromamba install -y openmpi=4.1.6 mpi
+RUN micromamba install -y h5py[build=*openmpi*] hdf5plugin
+RUN micromamba install -y mpi4py
+RUN micromamba install -y aiofiles graypy imageio loguru pluggy pytest iniconfig
+RUN micromamba install -y tomopy=1.15
+RUN micromamba install -y cupy=12.3.0 nvtx
+RUN micromamba install -y -c astra-toolbox astra-toolbox
+RUN micromamba run python -m pip install ccpi-regularisation-cupy
+RUN micromamba run python -m pip install tomobar
+RUN micromamba run python -m pip install --no-deps httomolib httomolibgpu httomo-backends
+RUN micromamba clean -y --all --force-pkgs-dirs
+
+COPY . .
+RUN micromamba run python -m pip install --no-deps .
+
+FROM mambaorg/micromamba:cuda12.8.1-ubuntu22.04 AS deploy
+
+COPY --from=build /opt/conda /opt/conda
+
+ENTRYPOINT ["micromamba", "run", "python", "-m", "httomo", "run"]