init

.flake8

+[flake8]
+# Ignore style and complexity
+# E: style errors
+# W: style warnings
+# C: complexity
+# F401: module imported but unused
+# F403: import *
+# F811: redefinition of unused `name` from line `N`
+# F841: local variable assigned but never used
+# E402: module level import not at top of file
+# I100: Import statements are in the wrong order
+# I101: Imported names are in the wrong order. Should be
+ignore = E, C, W, F401, F403, F811, F841, E402, I100, I101, D400
+builtins = c, get_config
+exclude =
+    .cache,
+    .github,
+    docs,
+    jupyterhub/alembic*,
+    onbuild,
+    scripts,
+    share,
+    tools,
+    setup.py

.pre-commit-config.yaml

+repos:
+- repo: https://github.com/asottile/reorder_python_imports
+  rev: v1.9.0
+  hooks:
+  - id: reorder-python-imports
+- repo: https://github.com/psf/black
+  rev: 20.8b1
+  hooks:
+  - id: black
+- repo: https://github.com/pre-commit/pre-commit-hooks
+  rev: v2.4.0
+  hooks:
+  - id: end-of-file-fixer
+  - id: check-json
+  - id: check-yaml
+  - id: check-case-conflict
+  - id: check-executables-have-shebangs
+  - id: requirements-txt-fixer
+  - id: flake8

Dockerfile

+# Ubuntu 20.04 (focal)
+# https://hub.docker.com/_/ubuntu/?tab=tags&name=focal
+# OS/ARCH: linux/amd64
+ARG ROOT_CONTAINER=ubuntu:focal-20210119@sha256:3093096ee188f8ff4531949b8f6115af4747ec1c58858c091c8cb4579c39cc4e
+
+ARG BASE_CONTAINER=$ROOT_CONTAINER
+FROM $BASE_CONTAINER
+
+LABEL maintainer="Jupyter-JSC <jupyter-jsc@fz-juelich.de>"
+ARG NB_USER="jovyan"
+ARG NB_UID="1094"
+ARG NB_GID="100"
+
+# Install global packages.
+USER root
+
+ENV DEBIAN_FRONTEND noninteractive
+RUN apt-get update \
+ && apt-get install -yq --no-install-recommends \
+    wget \
+    ca-certificates \
+    sudo \
+    locales \
+    fonts-liberation \
+    run-one \
+    python3.8 python3.8-dev python3.8-distutils python3.8-venv \
+ && apt-get clean && rm -rf /var/lib/apt/lists/*
+
+# Copy a script that we will use to correct permissions after running certain commands
+COPY fix-permissions /usr/local/bin/fix-permissions
+RUN chmod a+rx /usr/local/bin/fix-permissions
+
+# Enable prompt color in the skeleton .bashrc before creating the default NB_USER
+RUN sed -i 's/^#force_color_prompt=yes/force_color_prompt=yes/' /etc/skel/.bashrc
+
+# Create NB_USER with name jovyan user with UID=1000 and in the 'users' group
+# and make sure these dirs are writable by the `users` group.
+RUN echo "auth requisite pam_deny.so" >> /etc/pam.d/su && \
+    sed -i.bak -e 's/^%admin/#%admin/' /etc/sudoers && \
+    sed -i.bak -e 's/^%sudo/#%sudo/' /etc/sudoers && \
+    useradd -m -s /bin/bash -N -u $NB_UID $NB_USER && \
+    chmod g+w /etc/passwd && \
+    fix-permissions $HOME
+
+# Download lua and lmod 
+RUN mkdir -p /opt/apps/install
+RUN wget -O /opt/apps/install/lua-5.1.4.9.tar.bz2 https://sourceforge.net/projects/lmod/files/lua-5.1.4.9.tar.bz2/download
+RUN wget -O /opt/apps/install/lmod-8.4.tar.bz2 https://sourceforge.net/projects/lmod/files/Lmod-8.4.tar.bz2/download
+
+RUN apt-get update \
+ && apt-get install -yq --no-install-recommends \
+    build-essential \
+    make \
+    rsync \
+    tcl-dev \
+ && apt-get clean && rm -rf /var/lib/apt/lists/*
+
+# Install lua
+COPY --chown=root:root ./install_files/lua /opt/apps/install/lua
+RUN /bin/bash /opt/apps/install/lua/install_lua_5.1.4.9.sh
+# Install lmod
+COPY --chown=root:root ./install_files/lmod /opt/apps/install/lmod
+RUN /bin/bash /opt/apps/install/lmod/install_lmod_8.4.sh
+
+RUN apt-get update \
+ && apt-get install -yq --no-install-recommends \
+    curl \
+    curlftpfs \
+    davfs2 \
+    fuse \
+    git \
+    less \
+    vim \
+ && apt-get clean && rm -rf /var/lib/apt/lists/*
+
+RUN curl -sL https://deb.nodesource.com/setup_14.x | bash - && apt install -y gcc g++ nodejs
+RUN wget -O /tmp/libssl1.0.0.deb http://security.ubuntu.com/ubuntu/pool/main/o/openssl1.0/libssl1.0.0_1.0.2n-1ubuntu5.6_amd64.deb && apt install /tmp/libssl1.0.0.deb
+
+
+WORKDIR /home/$NB_USER
+COPY --chown=$NB_UID:$NB_GID bashrc /etc/bash.bashrc
+RUN chown -R root:root /root && chmod o-w /tmp && chmod 644 /etc/bash.bashrc
+RUN mkdir -p /mnt/JUDAC && chown ${NB_UID}:${NB_GID} /mnt/JUDAC
+RUN mkdir -p /mnt/B2DROP && usermod -aG davfs2 jovyan && echo "https://b2drop.eudat.eu/remote.php/webdav /mnt/B2DROP davfs user,rw,noauto 0 0" >> /etc/fstab && chmod u+s /usr/sbin/mount.davfs && chown ${NB_UID}:${NB_GID} /mnt/B2DROP
+
+USER jovyan

bashrc

+# System-wide .bashrc file for interactive bash(1) shells.
+
+# To enable the settings / commands in this file for login shells as well,
+# this file has to be sourced in /etc/profile.
+
+# If not running interactively, don't do anything
+[ -z "$PS1" ] && return
+
+# check the window size after each command and, if necessary,
+# update the values of LINES and COLUMNS.
+shopt -s checkwinsize
+
+# set variable identifying the chroot you work in (used in the prompt below)
+if [ -z "${debian_chroot:-}" ] && [ -r /etc/debian_chroot ]; then
+    debian_chroot=$(cat /etc/debian_chroot)
+fi
+
+# set a fancy prompt (non-color, overwrite the one in /etc/profile)
+# but only if not SUDOing and have SUDO_PS1 set; then assume smart user.
+if ! [ -n "${SUDO_USER}" -a -n "${SUDO_PS1}" ]; then
+  PS1='${debian_chroot:+($debian_chroot)}\u@\h:\w\$ '
+fi
+
+# Commented out, don't overwrite xterm -T "title" -n "icontitle" by default.
+# If this is an xterm set the title to user@host:dir
+#case "$TERM" in
+#xterm*|rxvt*)
+#    PROMPT_COMMAND='echo -ne "\033]0;${USER}@${HOSTNAME}: ${PWD}\007"'
+#    ;;
+#*)
+#    ;;
+#esac
+
+# enable bash completion in interactive shells
+#if ! shopt -oq posix; then
+#  if [ -f /usr/share/bash-completion/bash_completion ]; then
+#    . /usr/share/bash-completion/bash_completion
+#  elif [ -f /etc/bash_completion ]; then
+#    . /etc/bash_completion
+#  fi
+#fi
+
+# sudo hint
+if [ ! -e "$HOME/.sudo_as_admin_successful" ] && [ ! -e "$HOME/.hushlogin" ] ; then
+    case " $(groups) " in *\ admin\ *|*\ sudo\ *)
+    if [ -x /usr/bin/sudo ]; then
+	cat <<-EOF
+	To run a command as administrator (user "root"), use "sudo <command>".
+	See "man sudo_root" for details.
+	
+	EOF
+    fi
+    esac
+fi
+
+# if the command-not-found package is installed, use it
+if [ -x /usr/lib/command-not-found -o -x /usr/share/command-not-found/command-not-found ]; then
+	function command_not_found_handle {
+	        # check because c-n-f could've been removed in the meantime
+                if [ -x /usr/lib/command-not-found ]; then
+		   /usr/lib/command-not-found -- "$1"
+                   return $?
+                elif [ -x /usr/share/command-not-found/command-not-found ]; then
+		   /usr/share/command-not-found/command-not-found -- "$1"
+                   return $?
+		else
+		   printf "%s: command not found\n" "$1" >&2
+		   return 127
+		fi
+	}
+fi
+
+# module package should be loaded even if it's not a login shell
+if [ -f "/etc/profile.d/z00_lmod.sh" ]; then
+    . "/etc/profile.d/z00_lmod.sh"
+fi

fix-permissions

+#!/bin/bash
+# set permissions on a directory
+# after any installation, if a directory needs to be (human) user-writable,
+# run this script on it.
+# It will make everything in the directory owned by the group $NB_GID
+# and writable by that group.
+# Deployments that want to set a specific user id can preserve permissions
+# by adding the `--group-add users` line to `docker run`.
+
+# uses find to avoid touching files that already have the right permissions,
+# which would cause massive image explosion
+
+# right permissions are:
+# group=$NB_GID
+# AND permissions include group rwX (directory-execute)
+# AND directories have setuid,setgid bits set
+
+set -e
+
+for d in "$@"; do
+    find "$d" \
+        ! \( \
+            -group $NB_GID \
+            -a -perm -g+rwX  \
+        \) \
+        -exec chgrp $NB_GID {} \; \
+        -exec chmod g+rwX {} \;
+    # setuid, setgid *on directories only*
+    find "$d" \
+        \( \
+            -type d \
+            -a ! -perm -6000  \
+        \) \
+        -exec chmod +6000 {} \;
+done

install_files/lmod/install_lmod_8.4.sh

+#!/bin/bash
+cd /opt/apps/install
+tar xf lmod-8.4.tar.bz2
+cd /opt/apps/install/Lmod-8.4
+./configure --prefix /opt/apps
+make install
+ln -s /opt/apps/lmod/lmod/init/profile /etc/profile.d/z00_lmod.sh 
+ln -s /opt/apps/lmod/lmod/init/cshrc   /etc/profile.d/z00_lmod.csh

install_files/lua/install_lua_5.1.4.9.sh

+#!/bin/bash
+cd /opt/apps/install
+tar xf lua-5.1.4.9.tar.bz2
+cd /opt/apps/install/lua-5.1.4.9
+./configure --prefix /opt/apps/lua/5.1.4.9
+make
+make install
+ln -s /opt/apps/lua/5.1.4.9 /opt/apps/lua/lua
+ln -s /opt/apps/lua/lua/bin/lua /usr/local/bin
+ln -s /opt/apps/lua/lua/bin/luac /usr/local/bin