added tools
ci/woodpecker/push/woodpecker Pipeline failed Details

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maltegrosse 2023-01-24 15:38:15 +01:00
parent bd984ae9d9
commit 62d3bd0bc9
2 changed files with 183 additions and 3 deletions

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@ -1,8 +1,12 @@
ARG NVIDIA_IMAGE=nvcr.io/nvidia/tensorflow:22.12-tf2-py3
FROM ${NVIDIA_IMAGE}
############################################################################
#################### Dependency: jupyter/base-image ########################
############################################################################
#### copied from https://github.com/jupyter/docker-stacks/tree/main/docker-stacks-foundation
# Copyright (c) Jupyter Development Team.
# Distributed under the terms of the Modified BSD License.
@ -97,8 +101,8 @@ RUN mkdir "/home/${NB_USER}/work" && \
# Correct permissions
# Do all this in a single RUN command to avoid duplicating all of the
# files across image layers when the permissions change
RUN sleep 120
COPY --chown="${NB_UID}:${NB_GID}" ./jupyterlab-datascience-gpu/initial-condarc "${CONDA_DIR}/.condarc"
COPY --chown="${NB_UID}:${NB_GID}" initial-condarc "${CONDA_DIR}/.condarc"
WORKDIR /tmp
RUN set -x && \
arch=$(uname -m) && \
@ -139,8 +143,138 @@ USER ${NB_UID}
WORKDIR "${HOME}"
############################################################################
################# Dependency: jupyter/minimal-notebook #####################
############################################################################
# Copyright (c) Jupyter Development Team.
# Distributed under the terms of the Modified BSD License.
ARG OWNER=jupyter
LABEL maintainer="Jupyter Project <jupyter@googlegroups.com>"
# Fix: https://github.com/hadolint/hadolint/wiki/DL4006
# Fix: https://github.com/koalaman/shellcheck/wiki/SC3014
SHELL ["/bin/bash", "-o", "pipefail", "-c"]
USER root
# Install all OS dependencies for fully functional notebook server
RUN apt-get update --yes && \
apt-get install --yes --no-install-recommends \
# Common useful utilities
git \
nano-tiny \
tzdata \
unzip \
vim-tiny \
# Inkscape is installed to be able to convert SVG files
inkscape \
# git-over-ssh
openssh-client \
# less is needed to run help in R
# see: https://github.com/jupyter/docker-stacks/issues/1588
less \
# nbconvert dependencies
# https://nbconvert.readthedocs.io/en/latest/install.html#installing-tex
texlive-xetex \
texlive-fonts-recommended \
texlive-plain-generic && \
apt-get clean && rm -rf /var/lib/apt/lists/*
# Create alternative for nano -> nano-tiny
RUN update-alternatives --install /usr/bin/nano nano /bin/nano-tiny 10
# Switch back to jovyan to avoid accidental container runs as root
USER ${NB_UID}
############################################################################
################# Dependency: jupyter/scipy-notebook #######################
############################################################################
# Copyright (c) Jupyter Development Team.
# Distributed under the terms of the Modified BSD License.
ARG OWNER=jupyter
LABEL maintainer="Jupyter Project <jupyter@googlegroups.com>"
# Fix: https://github.com/hadolint/hadolint/wiki/DL4006
# Fix: https://github.com/koalaman/shellcheck/wiki/SC3014
SHELL ["/bin/bash", "-o", "pipefail", "-c"]
USER root
RUN apt-get update --yes && \
apt-get install --yes --no-install-recommends \
# for cython: https://cython.readthedocs.io/en/latest/src/quickstart/install.html
build-essential \
# for latex labels
cm-super \
dvipng \
# for matplotlib anim
ffmpeg && \
apt-get clean && rm -rf /var/lib/apt/lists/*
USER ${NB_UID}
# Install Python 3 packages
RUN mamba install --quiet --yes \
'altair' \
'beautifulsoup4' \
'bokeh' \
'bottleneck' \
'cloudpickle' \
'conda-forge::blas=*=openblas' \
'cython' \
'dask' \
'dill' \
'h5py' \
'ipympl'\
'ipywidgets' \
'matplotlib-base' \
'numba' \
'numexpr' \
'pandas' \
'patsy' \
'protobuf' \
'pytables' \
'scikit-image' \
'scikit-learn' \
'scipy' \
'seaborn' \
'sqlalchemy' \
'statsmodels' \
'sympy' \
'widgetsnbextension'\
'xlrd' && \
mamba clean --all -f -y && \
fix-permissions "${CONDA_DIR}" && \
fix-permissions "/home/${NB_USER}"
# Install facets which does not have a pip or conda package at the moment
WORKDIR /tmp
RUN git clone https://github.com/PAIR-code/facets.git && \
jupyter nbextension install facets/facets-dist/ --sys-prefix && \
rm -rf /tmp/facets && \
fix-permissions "${CONDA_DIR}" && \
fix-permissions "/home/${NB_USER}"
# Import matplotlib the first time to build the font cache.
ENV XDG_CACHE_HOME="/home/${NB_USER}/.cache/"
RUN MPLBACKEND=Agg python -c "import matplotlib.pyplot" && \
fix-permissions "/home/${NB_USER}"
USER ${NB_UID}
WORKDIR "${HOME}"
################ copied from https://github.com/iot-salzburg/gpu-jupyter/tree/master/src
# LABEL authors="Christoph Schranz <christoph.schranz@salzburgresearch.at>, Mathematical Michael <consistentbayes@gmail.com>"
@ -184,3 +318,49 @@ RUN git clone https://github.com/Syllo/nvtop.git /run/nvtop && \
RUN fix-permissions /home/$NB_USER
USER $NB_UID
############################################################################
############################ Useful packages ###############################
############################################################################
LABEL authors="Christoph Schranz <christoph.schranz@salzburgresearch.at>, Mathematical Michael <consistentbayes@gmail.com>"
USER root
RUN pip install --no-cache-dir ipyleaflet "plotly>=4.14.3" "ipywidgets>=7.5"
# Install important packages and Graphviz
RUN set -ex \
&& buildDeps=' \
graphviz==0.19.1 \
' \
&& apt-get update \
&& apt-get -y install htop apt-utils iputils-ping graphviz libgraphviz-dev openssh-client \
&& pip install --no-cache-dir $buildDeps
# Install various extensions
RUN fix-permissions $CONDA_DIR
# RUN jupyter labextension install @jupyterlab/github
# RUN pip install jupyterlab-git
RUN pip install jupyterlab-drawio
RUN jupyter nbextension enable --py --sys-prefix ipyleaflet
RUN jupyter labextension install jupyterlab-plotly
RUN jupyter labextension install @jupyter-widgets/jupyterlab-manager plotlywidget
# RUN pip install --no-cache-dir jupyter-tabnine --user && \
# jupyter nbextension install --py jupyter_tabnine --user && \
# jupyter nbextension enable --py jupyter_tabnine --user && \
# jupyter serverextension enable --py jupyter_tabnine --user
RUN pip install --no-cache-dir jupyter_contrib_nbextensions \
jupyter_nbextensions_configurator rise
# jupyter nbextension enable codefolding/main
RUN jupyter labextension install @ijmbarr/jupyterlab_spellchecker
RUN fix-permissions /home/$NB_USER
# Switch back to jovyan to avoid accidental container runs as root
USER $NB_UID
# Copy jupyter_notebook_config.json
#COPY jupyter_notebook_config.json /etc/jupyter/