updated sage build

jupyter-sage/Dockerfile

@@ -1,36 +1,44 @@
-FROM debian:latest
-RUN apt-get update && apt-get upgrade
-RUN apt-get install -y bc binutils bzip2 ca-certificates cliquer cmake curl \
-        ecl eclib-tools fflas-ffpack g++ gap gcc gengetopt gfan gfortran \
-        glpk-utils gmp-ecm lcalc libatomic-ops-dev libboost-dev \
-        libbraiding-dev libbrial-dev libbrial-groebner-dev libbz2-dev \
-        libcdd-dev libcdd-tools libcliquer-dev libcurl4-openssl-dev libec-dev \
-        libecm-dev libffi-dev libflint-dev libfplll-dev libfreetype-dev \
-        libgap-dev libgc-dev libgd-dev libgf2x-dev libgiac-dev libgivaro-dev \
-        libglpk-dev libgmp-dev libgsl-dev libhomfly-dev libiml-dev \
-        liblfunction-dev liblinbox-dev liblrcalc-dev liblzma-dev libm4ri-dev \
-        libm4rie-dev libmpc-dev libmpfi-dev libmpfr-dev libncurses5-dev \
-        libntl-dev libopenblas-dev libpari-dev libplanarity-dev libppl-dev \
-        libprimesieve-dev libpython3-dev libqhull-dev libreadline-dev \
-        librw-dev libsingular4-dev libsqlite3-dev libssl-dev \
-        libsuitesparse-dev libsymmetrica2-dev libz-dev libzmq3-dev m4 make \
-        maxima maxima-sage meson nauty ninja-build openssl palp pari-doc \
-        pari-elldata pari-galdata pari-galpol pari-gp2c pari-seadata patch \
-        patchelf perl pkg-config planarity ppl-dev python3 python3-setuptools \
-        python3-venv singular singular-doc sqlite3 sympow tachyon tar texinfo \
-        tox xcas xz-utils git
-RUN apt-get install -y default-jdk dvipng ffmpeg fonts-freefont-otf \
-        imagemagick latexmk libavdevice-dev libjpeg-dev pandoc tex-gyre \
-        texlive-fonts-recommended texlive-lang-cyrillic texlive-lang-english \
-        texlive-lang-european texlive-lang-french texlive-lang-german \
-        texlive-lang-italian texlive-lang-japanese texlive-lang-polish \
-        texlive-lang-portuguese texlive-lang-spanish texlive-latex-extra \
-        texlive-luatex texlive-xetex xindy
-RUN useradd jovyan -u 1000 -s /bin/bash -m -h /home/jovyan
+FROM debian:stable AS build
+RUN --mount=type=cache,target=/var/cache/apt,sharing=locked \
+    --mount=type=cache,target=/var/lib/apt,sharing=locked \
+    apt update &&\
+    apt install -y python3 python3-dev pipx gcc g++ libffi-dev cargo cmake autoconf swig ninja-build patchelf meson python3-faiss adduser
+RUN adduser -u 1000 --system --shell /bin/sh --home /home/jovyan jovyan
 USER jovyan
 WORKDIR /home/jovyan
-COPY build.sh build.sh
-RUN git clone -c core.symlinks=true --filter blob:none  \
-    --origin upstream --branch master --tags \
-    https://github.com/sagemath/sage.git
-RUN export srcdir=/home/jovyan/sage source build.sh && prepare && build
+RUN python3 -m venv venv
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install sagemath
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install jupyter-core
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install jupyterhub
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install jupyterlab
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install notebook
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install ipywidgets
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install jupyterlab-lsp
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install python-lsp-server[yapf,rope,pyflakes] 
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install jupyter-ai
+RUN --mount=type=cache,target=/home/jovyan/.cache/pip,uid=1000,gid=1000 venv/bin/pip install langchain-openai langchain_ollama
+
+ENV PATH="/home/jovyan/venv/bin/:$PATH"
+
+FROM debian:stable
+RUN --mount=type=cache,target=/var/cache/apt,sharing=locked \
+    --mount=type=cache,target=/var/lib/apt,sharing=locked \
+    apt update &&\
+    apt install -y python3 adduser
+RUN adduser -u 1000 --system --shell /bin/sh --home /home/jovyan jovyan
+USER jovyan
+COPY --from=build /home/jovyan /home/jovyan
+COPY jupyter_server_config.py docker_healthcheck.py /etc/jupyter/
+COPY start-notebook.py start-singleuser.py /usr/local/bin/
+RUN mkdir /home/jovyan/work
+WORKDIR /home/jovyan/work
+ENV JUPYTER_PORT=8888
+EXPOSE $JUPYTER_PORT
+ENV PATH="/home/jovyan/venv/bin/:$PATH"
+CMD ["start-notebook.py"]
+
+# HEALTHCHECK documentation: https://docs.docker.com/engine/reference/builder/#healthcheck
+# This healtcheck works well for `lab`, `notebook`, `nbclassic`, `server`, and `retro` jupyter commands
+# https://github.com/jupyter/docker-stacks/issues/915#issuecomment-1068528799
+HEALTHCHECK --interval=3s --timeout=1s --start-period=3s --retries=3 \
+    CMD /etc/jupyter/docker_healthcheck.py || exit 1