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chore: add SOPA_VERSION build arg #251

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Merged
merged 2 commits into from
May 12, 2025
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chore: add SOPA_VERSION build arg #251

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0ba2ac7
chore: add SOPA_VERSION build arg
Clemsazert Apr 30, 2025
a5a5fdc
prevent using old sopa version in dockerfile
quentinblampey Apr 30, 2025
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2 changes: 2 additions & 0 deletions .github/workflows/ci.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -110,3 +110,5 @@ jobs:
platforms: linux/amd64
tags: ${{ vars.DOCKERHUB_USERNAME }}/sopa:${{ env.VERSION }}${{ matrix.extra-name }}
context: ./docker/sopa${{ matrix.extra-name }}
build-args: |
SOPA_VERSION=${{ env.VERSION }}
4 changes: 3 additions & 1 deletion docker/sopa-baysor/Dockerfile
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@@ -1,5 +1,7 @@
FROM python:3.10-slim

ARG SOPA_VERSION

RUN apt-get update && apt-get install -y wget unzip procps && apt-get clean && rm -rf /var/lib/apt/lists/*

RUN cd /tmp && wget 'https://github.com/kharchenkolab/Baysor/releases/download/v0.7.1/baysor-x86_x64-linux-v0.7.1_build.zip' && unzip baysor-x86_x64-linux-v0.7.1_build.zip && mv ./bin/baysor /opt/ && rm ./baysor-x86_x64-linux-v0.7.1_build.zip
Expand All @@ -8,6 +10,6 @@ ENV PATH="/opt/baysor/bin:${PATH}"
# to avoid permission issues with the numba cache
ENV NUMBA_CACHE_DIR=/tmp/numba_cache

RUN pip install --no-cache-dir sopa[baysor]
RUN pip install --no-cache-dir sopa[baysor]==${SOPA_VERSION}

ENV PYTHONUNBUFFERED=1
4 changes: 3 additions & 1 deletion docker/sopa-cellpose/Dockerfile
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@@ -1,5 +1,7 @@
FROM python:3.10-slim

ARG SOPA_VERSION

# needed for the open-cv dependency
RUN apt-get update && apt-get install -y \
ffmpeg \
Expand All @@ -11,6 +13,6 @@ RUN apt-get update && apt-get install -y \
# to avoid permission issues with the numba cache
ENV NUMBA_CACHE_DIR=/tmp/numba_cache

RUN pip install --no-cache-dir sopa[cellpose]
RUN pip install --no-cache-dir sopa[cellpose]==${SOPA_VERSION}

ENV PYTHONUNBUFFERED=1
4 changes: 3 additions & 1 deletion docker/sopa-proseg/Dockerfile
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Expand Up @@ -4,13 +4,15 @@ RUN cargo install proseg

FROM python:3.10-slim

ARG SOPA_VERSION

COPY --from=rust-builder /usr/local/cargo/bin/proseg /usr/local/bin/proseg

RUN apt-get update && apt-get install -y procps && apt-get clean && rm -rf /var/lib/apt/lists/*

# to avoid permission issues with the numba cache
ENV NUMBA_CACHE_DIR=/tmp/numba_cache

RUN pip install --no-cache-dir sopa
RUN pip install --no-cache-dir sopa==${SOPA_VERSION}

ENV PYTHONUNBUFFERED=1
4 changes: 3 additions & 1 deletion docker/sopa-stardist/Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,5 +1,7 @@
FROM python:3.10-slim

ARG SOPA_VERSION

# needed for the open-cv dependency
RUN apt-get update && apt-get install -y \
ffmpeg \
Expand All @@ -11,6 +13,6 @@ RUN apt-get update && apt-get install -y \
# to avoid permission issues with the numba cache
ENV NUMBA_CACHE_DIR=/tmp/numba_cache

RUN pip install --no-cache-dir sopa[stardist]
RUN pip install --no-cache-dir sopa[stardist]==${SOPA_VERSION}

ENV PYTHONUNBUFFERED=1
4 changes: 3 additions & 1 deletion docker/sopa/Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,5 +1,7 @@
FROM python:3.10-slim

ARG SOPA_VERSION

# needed for the open-cv dependency
RUN apt-get update && apt-get install -y \
ffmpeg \
Expand All @@ -11,6 +13,6 @@ RUN apt-get update && apt-get install -y \
# to avoid permission issues with the numba cache
ENV NUMBA_CACHE_DIR=/tmp/numba_cache

RUN pip install --no-cache-dir sopa
RUN pip install --no-cache-dir sopa==${SOPA_VERSION}

ENV PYTHONUNBUFFERED=1
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