--- a +++ b/tensorflow.Dockerfile @@ -0,0 +1,43 @@ +# syntax=docker/dockerfile:1 +FROM tensorflow/tensorflow:2.11.1-gpu +ARG DEBIAN_FRONTEND=noninteractive +ENV TZ=Etc/UTC + +# Install necessary packages +RUN apt update && \ + apt install -y liblapack-dev libblas-dev libgl1-mesa-glx libsm6 libxext6 wget vim g++ pkg-config libglib2.0-dev expat libexpat-dev libexif-dev libtiff-dev libgsf-1-dev openslide-tools libopenjp2-tools libpng-dev libtiff5-dev libjpeg-turbo8-dev libopenslide-dev python3-tk python3-dev && \ + sed -i '/^#\sdeb-src /s/^# *//' "/etc/apt/sources.list" && \ + apt update && \ + mkdir /scripts + +# Build libvips 8.12 from source [slideflow requires 8.9+, latest deb in Ubuntu 18.04 is 8.4] +RUN apt install build-essential devscripts -y && \ + mkdir /libvips && \ + cd /libvips && \ + wget https://github.com/libvips/libvips/releases/download/v8.12.2/vips-8.12.2.tar.gz && \ + tar zxf vips-8.12.2.tar.gz && \ + cd /libvips/vips-8.12.2 && \ + ./configure && make && make install +ENV LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib +ENV SF_VIPS_VERSION=8.12.2 + +# Repair pixman +WORKDIR "/scripts" +RUN wget https://raw.githubusercontent.com/slideflow/slideflow/2.0.1/scripts/pixman_repair.sh && \ + chmod +x pixman_repair.sh && \ + ./pixman_repair.sh + +# Install slideflow & download scripts +ENV SF_BACKEND=tensorflow +RUN pip3 install --upgrade setuptools pip wheel +RUN pip3 install slideflow[cucim]==3.0.2 cupy-cuda11x tensorflow_datasets tensorflow_probability==0.17.* versioneer && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/3.0.2/scripts/test.py && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/3.0.2/scripts/slideflow-studio.py && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/3.0.2/scripts/run_project.py && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/3.0.2/scripts/qupath_roi.groovy && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/3.0.2/scripts/qupath_roi_legacy.groovy && \ + wget https://raw.githubusercontent.com/slideflow/slideflow/master/scripts/welcome.py && \ + chmod +x /scripts/welcome.py + +# Set entrypoint +ENTRYPOINT ["bash", "-c", "python3 /scripts/welcome.py && exec /bin/bash"]