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Commit 56df32de authored by Wouter Deconinck's avatar Wouter Deconinck
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fix: rm unused base image infrastructure (now in single base)

parent 1ac4e740
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1 merge request!409fix: rm unused base image infrastructure (now in single base)
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containers/cuda/Dockerfile deleted 100644 → 0
+ 0
− 72
View file @ 1ac4e740
#syntax=docker/dockerfile:1.2
# Minimal container based on Intel oneAPI for up-to-date packages.
# Very lightweight container with a minimal build environment (LOL)
FROM nvidia/cuda:11.6.0-devel-ubuntu18.04
LABEL maintainer="Wouter Deconinck <wouter.deconinck@umanitoba.ca" \
name="cuda_base" \
march="amd64"
COPY bashrc /root/.bashrc
ENV CLICOLOR_FORCE=1 \
LANGUAGE=en_US.UTF-8 \
LANG=en_US.UTF-8 \
LC_ALL=en_US.UTF-8
## Install additional packages. Remove the auto-cleanup functionality
## for docker, as we're using the new buildkit cache instead.
## We also install gitlab-runner, from the buster package (as bullseye is not available atm)
## TODO: libyaml-cpp-dev is a dependency for afterburner. We can probably remove
## this once afterburner is added to spack
RUN --mount=type=cache,target=/var/cache/apt \
rm -f /etc/apt/apt.conf.d/docker-clean \
&& ln -fs /usr/share/zoneinfo/America/New_York /etc/localtime \
&& echo "US/Eastern" > /etc/timezone \
&& apt-get -yqq update \
&& apt-get -yqq upgrade \
&& apt-get -yqq install --no-install-recommends \
bc \
ca-certificates \
clang-format \
clang-tidy \
curl \
file \
build-essential \
gdb \
ghostscript \
git \
gnupg2 \
gv \
iproute2 \
iputils-ping \
iputils-tracepath \
less \
libcbor-xs-perl \
libjson-xs-perl \
libyaml-cpp-dev \
locales \
lua-posix \
make \
nano \
openssh-client \
parallel \
poppler-utils \
time \
unzip \
valgrind \
vim-nox \
wget \
&& localedef -i en_US -f UTF-8 en_US.UTF-8 \
&& gcc --version \
&& curl -L \
"https://packages.gitlab.com/install/repositories/runner/gitlab-runner/script.deb.sh" \
| bash \
&& sed -i "s/bookworm/buster/" \
/etc/apt/sources.list.d/runner_gitlab-runner.list \
&& apt-get -yqq update \
&& apt-get -yqq install --no-install-recommends \
gitlab-runner \
&& apt-get -yqq autoremove \
&& rm -rf /var/lib/apt/lists/*
containers/cuda/bashrc deleted 100644 → 0
+ 0
− 452
View file @ 1ac4e740
#!/bin/bash
iatest=$(expr index "$-" i)
#######################################################
# SOURCED ALIAS'S AND SCRIPTS BY zachbrowne.me
#######################################################
# Source global definitions
if [ -f /etc/bashrc ]; then
. /etc/bashrc
fi
# Enable bash programmable completion features in interactive shells
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
#######################################################
# EXPORTS
#######################################################
# Disable the bell
if [[ $iatest > 0 ]]; then bind "set bell-style visible"; fi
# Expand the history size
export HISTFILESIZE=10000
export HISTSIZE=500
# Don't put duplicate lines in the history and do not add lines that start with a space
export HISTCONTROL=erasedups:ignoredups:ignorespace
# Check the window size after each command and, if necessary, update the values of LINES and COLUMNS
shopt -s checkwinsize
# Causes bash to append to history instead of overwriting it so if you start a new terminal, you have old session history
shopt -s histappend
PROMPT_COMMAND='history -a'
# Allow ctrl-S for history navigation (with ctrl-R)
stty -ixon
# Ignore case on auto-completion
# Note: bind used instead of sticking these in .inputrc
if [[ $iatest > 0 ]]; then bind "set completion-ignore-case on"; fi
# Show auto-completion list automatically, without double tab
if [[ $iatest > 0 ]]; then bind "set show-all-if-ambiguous On"; fi
# Set the default editor
export EDITOR=vim
export VISUAL=vim
alias pico='edit'
alias spico='sedit'
alias nano='edit'
alias snano='sedit'
# To have colors for ls and all grep commands such as grep, egrep and zgrep
export CLICOLOR=1
export LS_COLORS='no=00:fi=00:di=00;34:ln=01;36:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arj=01;31:*.taz=01;31:*.lzh=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.gz=01;31:*.bz2=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.jpg=01;35:*.jpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.avi=01;35:*.fli=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.ogg=01;35:*.mp3=01;35:*.wav=01;35:*.xml=00;31:'
#export GREP_OPTIONS='--color=auto' #deprecated
#alias grep="/usr/bin/grep $GREP_OPTIONS"
#unset GREP_OPTIONS
# Color for manpages in less makes manpages a little easier to read
export LESS_TERMCAP_mb=$'\E[01;31m'
export LESS_TERMCAP_md=$'\E[01;31m'
export LESS_TERMCAP_me=$'\E[0m'
export LESS_TERMCAP_se=$'\E[0m'
export LESS_TERMCAP_so=$'\E[01;44;33m'
export LESS_TERMCAP_ue=$'\E[0m'
export LESS_TERMCAP_us=$'\E[01;32m'
#######################################################
# GENERAL ALIAS'S
#######################################################
# Alias's to modified commands
alias cp='cp -i'
alias mv='mv -i'
alias rm='rm -iv'
alias mkdir='mkdir -p'
alias ps='ps auxf'
alias ping='ping -c 10'
alias less='less -R'
alias cls='clear'
alias apt-get='apt-get'
alias multitail='multitail --no-repeat -c'
alias freshclam='freshclam'
alias vi='vim'
alias vis='vim "+set si"'
# Change directory aliases
alias home='cd ~'
alias cd..='cd ..'
alias ..='cd ..'
alias ...='cd ../..'
alias ....='cd ../../..'
alias .....='cd ../../../..'
# cd into the old directory
alias bd='cd "$OLDPWD"'
# Remove a directory and all files
alias rmd='/bin/rm --recursive --force --verbose '
# Alias's for multiple directory listing commands
alias la='ls -Alh' # show hidden files
alias ls='ls -aFh --color=always' # add colors and file type extensions
alias lx='ls -lXBh' # sort by extension
alias lk='ls -lSrh' # sort by size
alias lc='ls -lcrh' # sort by change time
alias lu='ls -lurh' # sort by access time
alias lr='ls -lRh' # recursive ls
alias lt='ls -ltrh' # sort by date
alias lm='ls -alh |more' # pipe through 'more'
alias lw='ls -xAh' # wide listing format
alias ll='ls -Fls' # long listing format
alias labc='ls -lap' #alphabetical sort
alias lf="ls -l | egrep -v '^d'" # files only
alias ldir="ls -l | egrep '^d'" # directories only
# alias chmod commands
alias mx='chmod a+x'
alias 000='chmod -R 000'
alias 644='chmod -R 644'
alias 666='chmod -R 666'
alias 755='chmod -R 755'
alias 777='chmod -R 777'
# Search command line history
alias h="history | grep "
# Search running processes
alias p="ps aux | grep "
alias topcpu="/bin/ps -eo pcpu,pid,user,args | sort -k 1 -r | head -10"
# Search files in the current folder
alias f="find . | grep "
# Count all files (recursively) in the current folder
alias countfiles="for t in files links directories; do echo \`find . -type \${t:0:1} | wc -l\` \$t; done 2> /dev/null"
# To see if a command is aliased, a file, or a built-in command
alias checkcommand="type -t"
# Show all logs in /var/log
alias logs="sudo find /var/log -type f -exec file {} \; | grep 'text' | cut -d' ' -f1 | sed -e's/:$//g' | grep -v '[0-9]$' | xargs tail -f"
# SHA1
alias sha1='openssl sha1'
#######################################################
# SPECIAL FUNCTIONS
#######################################################
# Extracts any archive(s) (if unp isn't installed)
extract () {
for archive in $*; do
if [ -f $archive ] ; then
case $archive in
*.tar.bz2) tar xvjf $archive ;;
*.tar.gz) tar xvzf $archive ;;
*.bz2) bunzip2 $archive ;;
*.rar) rar x $archive ;;
*.gz) gunzip $archive ;;
*.tar) tar xvf $archive ;;
*.tbz2) tar xvjf $archive ;;
*.tgz) tar xvzf $archive ;;
*.zip) unzip $archive ;;
*.Z) uncompress $archive ;;
*.7z) 7z x $archive ;;
*) echo "don't know how to extract '$archive'..." ;;
esac
else
echo "'$archive' is not a valid file!"
fi
done
}
# Searches for text in all files in the current folder
ftext ()
{
# -i case-insensitive
# -I ignore binary files
# -H causes filename to be printed
# -r recursive search
# -n causes line number to be printed
# optional: -F treat search term as a literal, not a regular expression
# optional: -l only print filenames and not the matching lines ex. grep -irl "$1" *
grep -iIHrn --color=always "$1" . | less -r
}
# Copy file with a progress bar
cpp()
{
set -e
strace -q -ewrite cp -- "${1}" "${2}" 2>&1 \
| awk '{
count += $NF
if (count % 10 == 0) {
percent = count / total_size * 100
printf "%3d%% [", percent
for (i=0;i<=percent;i++)
printf "="
printf ">"
for (i=percent;i<100;i++)
printf " "
printf "]\r"
}
}
END { print "" }' total_size=$(stat -c '%s' "${1}") count=0
}
# Copy and go to the directory
cpg ()
{
if [ -d "$2" ];then
cp $1 $2 && cd $2
else
cp $1 $2
fi
}
# Move and go to the directory
mvg ()
{
if [ -d "$2" ];then
mv $1 $2 && cd $2
else
mv $1 $2
fi
}
# Create and go to the directory
mkdirg ()
{
mkdir -p $1
cd $1
}
# Goes up a specified number of directories (i.e. up 4)
up ()
{
local d=""
limit=$1
for ((i=1 ; i <= limit ; i++))
do
d=$d/..
done
d=$(echo $d | sed 's/^\///')
if [ -z "$d" ]; then
d=..
fi
cd $d
}
#Automatically do an ls after each cd
# cd ()
# {
# if [ -n "$1" ]; then
# builtin cd "$@" && ls
# else
# builtin cd ~ && ls
# fi
# }
# Returns the last 2 fields of the working directory
pwdtail ()
{
pwd|awk -F/ '{nlast = NF -1;print $nlast"/"$NF}'
}
# Show the current version of the operating system
ver ()
{
local dtype
dtype=$(distribution)
if [ $dtype == "redhat" ]; then
if [ -s /etc/redhat-release ]; then
cat /etc/redhat-release && uname -a
else
cat /etc/issue && uname -a
fi
elif [ $dtype == "suse" ]; then
cat /etc/SuSE-release
elif [ $dtype == "debian" ]; then
lsb_release -a
# sudo cat /etc/issue && sudo cat /etc/issue.net && sudo cat /etc/lsb_release && sudo cat /etc/os-release # Linux Mint option 2
elif [ $dtype == "gentoo" ]; then
cat /etc/gentoo-release
elif [ $dtype == "mandriva" ]; then
cat /etc/mandriva-release
elif [ $dtype == "slackware" ]; then
cat /etc/slackware-version
else
if [ -s /etc/issue ]; then
cat /etc/issue
else
echo "Error: Unknown distribution"
exit 1
fi
fi
}
# For some reason, rot13 pops up everywhere
rot13 () {
if [ $# -eq 0 ]; then
tr '[a-m][n-z][A-M][N-Z]' '[n-z][a-m][N-Z][A-M]'
else
echo $* | tr '[a-m][n-z][A-M][N-Z]' '[n-z][a-m][N-Z][A-M]'
fi
}
# Trim leading and trailing spaces (for scripts)
trim()
{
local var=$@
var="${var#"${var%%[![:space:]]*}"}" # remove leading whitespace characters
var="${var%"${var##*[![:space:]]}"}" # remove trailing whitespace characters
echo -n "$var"
}
#######################################################
# Set the ultimate amazing command prompt
#######################################################
alias cpu="grep 'cpu ' /proc/stat | awk '{usage=(\$2+\$4)*100/(\$2+\$4+\$5)} END {print usage}' | awk '{printf(\"%.1f\n\", \$1)}'"
function __setprompt
{
local LAST_COMMAND=$? # Must come first!
# Define colors
local LIGHTGRAY="\033[0;37m"
local WHITE="\033[1;37m"
local BLACK="\033[0;30m"
local DARKGRAY="\033[1;30m"
local RED="\033[0;31m"
local LIGHTRED="\033[1;31m"
local GREEN="\033[0;32m"
local LIGHTGREEN="\033[1;32m"
local BROWN="\033[0;33m"
local YELLOW="\033[1;33m"
local BLUE="\033[0;34m"
local LIGHTBLUE="\033[1;34m"
local MAGENTA="\033[0;35m"
local LIGHTMAGENTA="\033[1;35m"
local CYAN="\033[0;36m"
local LIGHTCYAN="\033[1;36m"
local NOCOLOR="\033[0m"
# Show error exit code if there is one
if [[ $LAST_COMMAND != 0 ]]; then
# PS1="\[${RED}\](\[${LIGHTRED}\]ERROR\[${RED}\])-(\[${LIGHTRED}\]Exit Code \[${WHITE}\]${LAST_COMMAND}\[${RED}\])-(\[${LIGHTRED}\]"
PS1="\[${DARKGRAY}\](\[${LIGHTRED}\]ERROR\[${DARKGRAY}\])-(\[${RED}\]Exit Code \[${LIGHTRED}\]${LAST_COMMAND}\[${DARKGRAY}\])-(\[${RED}\]"
if [[ $LAST_COMMAND == 1 ]]; then
PS1+="General error"
elif [ $LAST_COMMAND == 2 ]; then
PS1+="Missing keyword, command, or permission problem"
elif [ $LAST_COMMAND == 126 ]; then
PS1+="Permission problem or command is not an executable"
elif [ $LAST_COMMAND == 127 ]; then
PS1+="Command not found"
elif [ $LAST_COMMAND == 128 ]; then
PS1+="Invalid argument to exit"
elif [ $LAST_COMMAND == 129 ]; then
PS1+="Fatal error signal 1"
elif [ $LAST_COMMAND == 130 ]; then
PS1+="Script terminated by Control-C"
elif [ $LAST_COMMAND == 131 ]; then
PS1+="Fatal error signal 3"
elif [ $LAST_COMMAND == 132 ]; then
PS1+="Fatal error signal 4"
elif [ $LAST_COMMAND == 133 ]; then
PS1+="Fatal error signal 5"
elif [ $LAST_COMMAND == 134 ]; then
PS1+="Fatal error signal 6"
elif [ $LAST_COMMAND == 135 ]; then
PS1+="Fatal error signal 7"
elif [ $LAST_COMMAND == 136 ]; then
PS1+="Fatal error signal 8"
elif [ $LAST_COMMAND == 137 ]; then
PS1+="Fatal error signal 9"
elif [ $LAST_COMMAND -gt 255 ]; then
PS1+="Exit status out of range"
else
PS1+="Unknown error code"
fi
PS1+="\[${DARKGRAY}\])\[${NOCOLOR}\]\n"
else
PS1=""
fi
# Date
PS1+="\[${DARKGRAY}\](\[${CYAN}\]\$(date +%a) $(date +%b-'%-m')" # Date
PS1+="${BLUE} $(date +'%-I':%M:%S%P)\[${DARKGRAY}\])-" # Time
# CPU
PS1+="(\[${MAGENTA}\]CPU $(cpu)%"
# Jobs
PS1+="\[${DARKGRAY}\]:\[${MAGENTA}\]\j"
# Network Connections (for a server - comment out for non-server)
PS1+="\[${DARKGRAY}\]:\[${MAGENTA}\]Net $(awk 'END {print NR}' /proc/net/tcp)"
PS1+="\[${DARKGRAY}\])-"
# User and server
local SSH_IP=`echo $SSH_CLIENT | awk '{ print $1 }'`
local SSH2_IP=`echo $SSH2_CLIENT | awk '{ print $1 }'`
if [ $SSH2_IP ] || [ $SSH_IP ] ; then
PS1+="(\[${RED}\]\u@\h"
else
PS1+="(\[${RED}\]\u"
fi
# Current directory
PS1+="\[${DARKGRAY}\]:\[${BROWN}\]\w\[${DARKGRAY}\])-"
# Total size of files in current directory
PS1+="(\[${GREEN}\]$(/bin/ls -lah | /bin/grep -m 1 total | /bin/sed 's/total //')\[${DARKGRAY}\]:"
# Number of files
PS1+="\[${GREEN}\]\$(/bin/ls -A -1 | /usr/bin/wc -l)\[${DARKGRAY}\])"
# Skip to the next line
PS1+="\n"
# singularity?
if [ -e /environment ] ; then
PS1+="singularity"
fi
if [[ $EUID -ne 0 ]]; then
PS1+="\[${GREEN}\]>\[${NOCOLOR}\] " # Normal user
else
PS1+="\[${RED}\]>\[${NOCOLOR}\] " # Root user
fi
# PS2 is used to continue a command using the \ character
PS2="\[${DARKGRAY}\]>\[${NOCOLOR}\] "
# PS3 is used to enter a number choice in a script
PS3='Please enter a number from above list: '
# PS4 is used for tracing a script in debug mode
PS4='\[${DARKGRAY}\]+\[${NOCOLOR}\] '
}
PROMPT_COMMAND='__setprompt'
containers/oneapi/base.Dockerfile deleted 100644 → 0
+ 0
− 70
View file @ 1ac4e740
#syntax=docker/dockerfile:1.2
ARG BASEIMAGE="intel/oneapi-hpckit:2022.2-devel-ubuntu20.04"
# Minimal container based on Intel oneAPI for up-to-date packages.
# Very lightweight container with a minimal build environment (LOL)
FROM ${BASEIMAGE}
LABEL maintainer="Wouter Deconinck <wouter.deconinck@umanitoba.ca" \
name="oneapi_base" \
march="amd64"
COPY bashrc /root/.bashrc
ENV CLICOLOR_FORCE=1 \
LANGUAGE=en_US.UTF-8 \
LANG=en_US.UTF-8 \
LC_ALL=en_US.UTF-8
## Install additional packages. Remove the auto-cleanup functionality
## for docker, as we're using the new buildkit cache instead.
## We also install gitlab-runner, from the buster package (as bullseye is not available atm)
RUN --mount=type=cache,target=/var/cache/apt \
rm -f /etc/apt/apt.conf.d/docker-clean \
&& ln -fs /usr/share/zoneinfo/America/New_York /etc/localtime \
&& echo "US/Eastern" > /etc/timezone \
&& apt-get -yqq update \
&& apt-get -yqq upgrade \
&& apt-get -yqq install --no-install-recommends \
bc \
ca-certificates \
clang-format \
clang-tidy \
curl \
file \
build-essential \
gdb \
ghostscript \
git \
gnupg2 \
gv \
iproute2 \
iputils-ping \
iputils-tracepath \
less \
libcbor-xs-perl \
libjson-xs-perl \
locales \
lua-posix \
make \
nano \
openssh-client \
parallel \
poppler-utils \
time \
unzip \
valgrind \
vim-nox \
wget \
&& localedef -i en_US -f UTF-8 en_US.UTF-8 \
&& gcc --version \
&& curl -L \
"https://packages.gitlab.com/install/repositories/runner/gitlab-runner/script.deb.sh" \
| bash \
&& sed -i "s/bookworm/buster/" \
/etc/apt/sources.list.d/runner_gitlab-runner.list \
&& apt-get -yqq update \
&& apt-get -yqq install --no-install-recommends \
gitlab-runner \
&& apt-get -yqq autoremove \
&& rm -rf /var/lib/apt/lists/*
containers/oneapi/bashrc deleted 100644 → 0
+ 0
− 452
View file @ 1ac4e740
#!/bin/bash
iatest=$(expr index "$-" i)
#######################################################
# SOURCED ALIAS'S AND SCRIPTS BY zachbrowne.me
#######################################################
# Source global definitions
if [ -f /etc/bashrc ]; then
. /etc/bashrc
fi
# Enable bash programmable completion features in interactive shells
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
#######################################################
# EXPORTS
#######################################################
# Disable the bell
if [[ $iatest > 0 ]]; then bind "set bell-style visible"; fi
# Expand the history size
export HISTFILESIZE=10000
export HISTSIZE=500
# Don't put duplicate lines in the history and do not add lines that start with a space
export HISTCONTROL=erasedups:ignoredups:ignorespace
# Check the window size after each command and, if necessary, update the values of LINES and COLUMNS
shopt -s checkwinsize
# Causes bash to append to history instead of overwriting it so if you start a new terminal, you have old session history
shopt -s histappend
PROMPT_COMMAND='history -a'
# Allow ctrl-S for history navigation (with ctrl-R)
stty -ixon
# Ignore case on auto-completion
# Note: bind used instead of sticking these in .inputrc
if [[ $iatest > 0 ]]; then bind "set completion-ignore-case on"; fi
# Show auto-completion list automatically, without double tab
if [[ $iatest > 0 ]]; then bind "set show-all-if-ambiguous On"; fi
# Set the default editor
export EDITOR=vim
export VISUAL=vim
alias pico='edit'
alias spico='sedit'
alias nano='edit'
alias snano='sedit'
# To have colors for ls and all grep commands such as grep, egrep and zgrep
export CLICOLOR=1
export LS_COLORS='no=00:fi=00:di=00;34:ln=01;36:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arj=01;31:*.taz=01;31:*.lzh=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.gz=01;31:*.bz2=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.jpg=01;35:*.jpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.avi=01;35:*.fli=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.ogg=01;35:*.mp3=01;35:*.wav=01;35:*.xml=00;31:'
#export GREP_OPTIONS='--color=auto' #deprecated
#alias grep="/usr/bin/grep $GREP_OPTIONS"
#unset GREP_OPTIONS
# Color for manpages in less makes manpages a little easier to read
export LESS_TERMCAP_mb=$'\E[01;31m'
export LESS_TERMCAP_md=$'\E[01;31m'
export LESS_TERMCAP_me=$'\E[0m'
export LESS_TERMCAP_se=$'\E[0m'
export LESS_TERMCAP_so=$'\E[01;44;33m'
export LESS_TERMCAP_ue=$'\E[0m'
export LESS_TERMCAP_us=$'\E[01;32m'
#######################################################
# GENERAL ALIAS'S
#######################################################
# Alias's to modified commands
alias cp='cp -i'
alias mv='mv -i'
alias rm='rm -iv'
alias mkdir='mkdir -p'
alias ps='ps auxf'
alias ping='ping -c 10'
alias less='less -R'
alias cls='clear'
alias apt-get='apt-get'
alias multitail='multitail --no-repeat -c'
alias freshclam='freshclam'
alias vi='vim'
alias vis='vim "+set si"'
# Change directory aliases
alias home='cd ~'
alias cd..='cd ..'
alias ..='cd ..'
alias ...='cd ../..'
alias ....='cd ../../..'
alias .....='cd ../../../..'
# cd into the old directory
alias bd='cd "$OLDPWD"'
# Remove a directory and all files
alias rmd='/bin/rm --recursive --force --verbose '
# Alias's for multiple directory listing commands
alias la='ls -Alh' # show hidden files
alias ls='ls -aFh --color=always' # add colors and file type extensions
alias lx='ls -lXBh' # sort by extension
alias lk='ls -lSrh' # sort by size
alias lc='ls -lcrh' # sort by change time
alias lu='ls -lurh' # sort by access time
alias lr='ls -lRh' # recursive ls
alias lt='ls -ltrh' # sort by date
alias lm='ls -alh |more' # pipe through 'more'
alias lw='ls -xAh' # wide listing format
alias ll='ls -Fls' # long listing format
alias labc='ls -lap' #alphabetical sort
alias lf="ls -l | egrep -v '^d'" # files only
alias ldir="ls -l | egrep '^d'" # directories only
# alias chmod commands
alias mx='chmod a+x'
alias 000='chmod -R 000'
alias 644='chmod -R 644'
alias 666='chmod -R 666'
alias 755='chmod -R 755'
alias 777='chmod -R 777'
# Search command line history
alias h="history | grep "
# Search running processes
alias p="ps aux | grep "
alias topcpu="/bin/ps -eo pcpu,pid,user,args | sort -k 1 -r | head -10"
# Search files in the current folder
alias f="find . | grep "
# Count all files (recursively) in the current folder
alias countfiles="for t in files links directories; do echo \`find . -type \${t:0:1} | wc -l\` \$t; done 2> /dev/null"
# To see if a command is aliased, a file, or a built-in command
alias checkcommand="type -t"
# Show all logs in /var/log
alias logs="sudo find /var/log -type f -exec file {} \; | grep 'text' | cut -d' ' -f1 | sed -e's/:$//g' | grep -v '[0-9]$' | xargs tail -f"
# SHA1
alias sha1='openssl sha1'
#######################################################
# SPECIAL FUNCTIONS
#######################################################
# Extracts any archive(s) (if unp isn't installed)
extract () {
for archive in $*; do
if [ -f $archive ] ; then
case $archive in
*.tar.bz2) tar xvjf $archive ;;
*.tar.gz) tar xvzf $archive ;;
*.bz2) bunzip2 $archive ;;
*.rar) rar x $archive ;;
*.gz) gunzip $archive ;;
*.tar) tar xvf $archive ;;
*.tbz2) tar xvjf $archive ;;
*.tgz) tar xvzf $archive ;;
*.zip) unzip $archive ;;
*.Z) uncompress $archive ;;
*.7z) 7z x $archive ;;
*) echo "don't know how to extract '$archive'..." ;;
esac
else
echo "'$archive' is not a valid file!"
fi
done
}
# Searches for text in all files in the current folder
ftext ()
{
# -i case-insensitive
# -I ignore binary files
# -H causes filename to be printed
# -r recursive search
# -n causes line number to be printed
# optional: -F treat search term as a literal, not a regular expression
# optional: -l only print filenames and not the matching lines ex. grep -irl "$1" *
grep -iIHrn --color=always "$1" . | less -r
}
# Copy file with a progress bar
cpp()
{
set -e
strace -q -ewrite cp -- "${1}" "${2}" 2>&1 \
| awk '{
count += $NF
if (count % 10 == 0) {
percent = count / total_size * 100
printf "%3d%% [", percent
for (i=0;i<=percent;i++)
printf "="
printf ">"
for (i=percent;i<100;i++)
printf " "
printf "]\r"
}
}
END { print "" }' total_size=$(stat -c '%s' "${1}") count=0
}
# Copy and go to the directory
cpg ()
{
if [ -d "$2" ];then
cp $1 $2 && cd $2
else
cp $1 $2
fi
}
# Move and go to the directory
mvg ()
{
if [ -d "$2" ];then
mv $1 $2 && cd $2
else
mv $1 $2
fi
}
# Create and go to the directory
mkdirg ()
{
mkdir -p $1
cd $1
}
# Goes up a specified number of directories (i.e. up 4)
up ()
{
local d=""
limit=$1
for ((i=1 ; i <= limit ; i++))
do
d=$d/..
done
d=$(echo $d | sed 's/^\///')
if [ -z "$d" ]; then
d=..
fi
cd $d
}
#Automatically do an ls after each cd
# cd ()
# {
# if [ -n "$1" ]; then
# builtin cd "$@" && ls
# else
# builtin cd ~ && ls
# fi
# }
# Returns the last 2 fields of the working directory
pwdtail ()
{
pwd|awk -F/ '{nlast = NF -1;print $nlast"/"$NF}'
}
# Show the current version of the operating system
ver ()
{
local dtype
dtype=$(distribution)
if [ $dtype == "redhat" ]; then
if [ -s /etc/redhat-release ]; then
cat /etc/redhat-release && uname -a
else
cat /etc/issue && uname -a
fi
elif [ $dtype == "suse" ]; then
cat /etc/SuSE-release
elif [ $dtype == "debian" ]; then
lsb_release -a
# sudo cat /etc/issue && sudo cat /etc/issue.net && sudo cat /etc/lsb_release && sudo cat /etc/os-release # Linux Mint option 2
elif [ $dtype == "gentoo" ]; then
cat /etc/gentoo-release
elif [ $dtype == "mandriva" ]; then
cat /etc/mandriva-release
elif [ $dtype == "slackware" ]; then
cat /etc/slackware-version
else
if [ -s /etc/issue ]; then
cat /etc/issue
else
echo "Error: Unknown distribution"
exit 1
fi
fi
}
# For some reason, rot13 pops up everywhere
rot13 () {
if [ $# -eq 0 ]; then
tr '[a-m][n-z][A-M][N-Z]' '[n-z][a-m][N-Z][A-M]'
else
echo $* | tr '[a-m][n-z][A-M][N-Z]' '[n-z][a-m][N-Z][A-M]'
fi
}
# Trim leading and trailing spaces (for scripts)
trim()
{
local var=$@
var="${var#"${var%%[![:space:]]*}"}" # remove leading whitespace characters
var="${var%"${var##*[![:space:]]}"}" # remove trailing whitespace characters
echo -n "$var"
}
#######################################################
# Set the ultimate amazing command prompt
#######################################################
alias cpu="grep 'cpu ' /proc/stat | awk '{usage=(\$2+\$4)*100/(\$2+\$4+\$5)} END {print usage}' | awk '{printf(\"%.1f\n\", \$1)}'"
function __setprompt
{
local LAST_COMMAND=$? # Must come first!
# Define colors
local LIGHTGRAY="\033[0;37m"
local WHITE="\033[1;37m"
local BLACK="\033[0;30m"
local DARKGRAY="\033[1;30m"
local RED="\033[0;31m"
local LIGHTRED="\033[1;31m"
local GREEN="\033[0;32m"
local LIGHTGREEN="\033[1;32m"
local BROWN="\033[0;33m"
local YELLOW="\033[1;33m"
local BLUE="\033[0;34m"
local LIGHTBLUE="\033[1;34m"
local MAGENTA="\033[0;35m"
local LIGHTMAGENTA="\033[1;35m"
local CYAN="\033[0;36m"
local LIGHTCYAN="\033[1;36m"
local NOCOLOR="\033[0m"
# Show error exit code if there is one
if [[ $LAST_COMMAND != 0 ]]; then
# PS1="\[${RED}\](\[${LIGHTRED}\]ERROR\[${RED}\])-(\[${LIGHTRED}\]Exit Code \[${WHITE}\]${LAST_COMMAND}\[${RED}\])-(\[${LIGHTRED}\]"
PS1="\[${DARKGRAY}\](\[${LIGHTRED}\]ERROR\[${DARKGRAY}\])-(\[${RED}\]Exit Code \[${LIGHTRED}\]${LAST_COMMAND}\[${DARKGRAY}\])-(\[${RED}\]"
if [[ $LAST_COMMAND == 1 ]]; then
PS1+="General error"
elif [ $LAST_COMMAND == 2 ]; then
PS1+="Missing keyword, command, or permission problem"
elif [ $LAST_COMMAND == 126 ]; then
PS1+="Permission problem or command is not an executable"
elif [ $LAST_COMMAND == 127 ]; then
PS1+="Command not found"
elif [ $LAST_COMMAND == 128 ]; then
PS1+="Invalid argument to exit"
elif [ $LAST_COMMAND == 129 ]; then
PS1+="Fatal error signal 1"
elif [ $LAST_COMMAND == 130 ]; then
PS1+="Script terminated by Control-C"
elif [ $LAST_COMMAND == 131 ]; then
PS1+="Fatal error signal 3"
elif [ $LAST_COMMAND == 132 ]; then
PS1+="Fatal error signal 4"
elif [ $LAST_COMMAND == 133 ]; then
PS1+="Fatal error signal 5"
elif [ $LAST_COMMAND == 134 ]; then
PS1+="Fatal error signal 6"
elif [ $LAST_COMMAND == 135 ]; then
PS1+="Fatal error signal 7"
elif [ $LAST_COMMAND == 136 ]; then
PS1+="Fatal error signal 8"
elif [ $LAST_COMMAND == 137 ]; then
PS1+="Fatal error signal 9"
elif [ $LAST_COMMAND -gt 255 ]; then
PS1+="Exit status out of range"
else
PS1+="Unknown error code"
fi
PS1+="\[${DARKGRAY}\])\[${NOCOLOR}\]\n"
else
PS1=""
fi
# Date
PS1+="\[${DARKGRAY}\](\[${CYAN}\]\$(date +%a) $(date +%b-'%-m')" # Date
PS1+="${BLUE} $(date +'%-I':%M:%S%P)\[${DARKGRAY}\])-" # Time
# CPU
PS1+="(\[${MAGENTA}\]CPU $(cpu)%"
# Jobs
PS1+="\[${DARKGRAY}\]:\[${MAGENTA}\]\j"
# Network Connections (for a server - comment out for non-server)
PS1+="\[${DARKGRAY}\]:\[${MAGENTA}\]Net $(awk 'END {print NR}' /proc/net/tcp)"
PS1+="\[${DARKGRAY}\])-"
# User and server
local SSH_IP=`echo $SSH_CLIENT | awk '{ print $1 }'`
local SSH2_IP=`echo $SSH2_CLIENT | awk '{ print $1 }'`
if [ $SSH2_IP ] || [ $SSH_IP ] ; then
PS1+="(\[${RED}\]\u@\h"
else
PS1+="(\[${RED}\]\u"
fi
# Current directory
PS1+="\[${DARKGRAY}\]:\[${BROWN}\]\w\[${DARKGRAY}\])-"
# Total size of files in current directory
PS1+="(\[${GREEN}\]$(/bin/ls -lah | /bin/grep -m 1 total | /bin/sed 's/total //')\[${DARKGRAY}\]:"
# Number of files
PS1+="\[${GREEN}\]\$(/bin/ls -A -1 | /usr/bin/wc -l)\[${DARKGRAY}\])"
# Skip to the next line
PS1+="\n"
# singularity?
if [ -e /environment ] ; then
PS1+="singularity"
fi
if [[ $EUID -ne 0 ]]; then
PS1+="\[${GREEN}\]>\[${NOCOLOR}\] " # Normal user
else
PS1+="\[${RED}\]>\[${NOCOLOR}\] " # Root user
fi
# PS2 is used to continue a command using the \ character
PS2="\[${DARKGRAY}\]>\[${NOCOLOR}\] "
# PS3 is used to enter a number choice in a script
PS3='Please enter a number from above list: '
# PS4 is used for tracing a script in debug mode
PS4='\[${DARKGRAY}\]+\[${NOCOLOR}\] '
}
PROMPT_COMMAND='__setprompt'
containers/oneapi/onedev.Dockerfile deleted 100644 → 0
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# syntax=docker/dockerfile:1.2
# Container based on Jug_dev with Intel oneAPI support.
# Start with Debian-stable and layer oneAPI on top, prevents spack compiler errors.
## ========================================================================================
## STAGE 1: spack builder image
## EIC builder image with spack
## ========================================================================================
ARG DOCKER_REGISTRY="eicweb.phy.anl.gov:4567/containers/eic_container/"
ARG BASEIMAGE="debian_base"
# Internal Tag will be set by GitLab CI
ARG INTERNAL_TAG="testing"
FROM ${DOCKER_REGISTRY}${BASEIMAGE}:${INTERNAL_TAG} as builder
## Install some extra spack dependencies
## Do not use Cache mount as it conflicts with oneapi stage
RUN \
rm -f /etc/apt/apt.conf.d/docker-clean \
&& apt-get -yqq update \
&& apt-get -yqq install --no-install-recommends \
python3 \
python3-dev \
python3-distutils \
python-is-python3 \
&& rm -rf /var/lib/apt/lists/*
## Setup spack
## parts:
ARG SPACK_ROOT=/opt/spack
ARG SPACK_VERSION="develop"
ARG SPACK_CHERRYPICKS=""
RUN echo "Part 1: regular spack install (as in containerize)" \
&& git clone https://github.com/spack/spack.git /tmp/spack-staging \
&& cd /tmp/spack-staging \
&& git checkout $SPACK_VERSION \
&& if [ -n "$SPACK_CHERRYPICKS" ] ; then \
git cherry-pick -n $SPACK_CHERRYPICKS ; \
fi \
&& cd - \
&& mkdir -p $SPACK_ROOT/opt/spack \
&& cp -r /tmp/spack-staging/bin $SPACK_ROOT/bin \
&& cp -r /tmp/spack-staging/etc $SPACK_ROOT/etc \
&& cp -r /tmp/spack-staging/lib $SPACK_ROOT/lib \
&& cp -r /tmp/spack-staging/share $SPACK_ROOT/share \
&& cp -r /tmp/spack-staging/var $SPACK_ROOT/var \
&& cp -r /tmp/spack-staging/.git $SPACK_ROOT/.git \
&& rm -rf /tmp/spack-staging \
&& echo 'export LD_LIBRARY_PATH=/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH'\
>> $SPACK_ROOT/share/setup-env.sh \
&& ln -s $SPACK_ROOT/share/spack/docker/entrypoint.bash \
/usr/sbin/docker-shell \
&& ln -s $SPACK_ROOT/share/spack/docker/entrypoint.bash \
/usr/sbin/interactive-shell \
&& ln -s $SPACK_ROOT/share/spack/docker/entrypoint.bash \
/usr/sbin/spack-env \
&& echo "Part 2: Set target to generic x86_64" \
&& echo "packages:" > $SPACK_ROOT/etc/spack/packages.yaml \
&& echo " all:" >> $SPACK_ROOT/etc/spack/packages.yaml \
&& echo " target: [x86_64]" >> $SPACK_ROOT/etc/spack/packages.yaml \
&& cat $SPACK_ROOT/etc/spack/packages.yaml \
&& echo "Part 3: Set config to allow use of more cores for builds" \
&& echo "(and some other settings)" \
&& echo "config:" > $SPACK_ROOT/etc/spack/config.yaml \
&& echo " suppress_gpg_warnings: true" \
>> $SPACK_ROOT/etc/spack/config.yaml \
&& echo " build_jobs: 64" >> $SPACK_ROOT/etc/spack/config.yaml \
&& echo " install_tree:" >> $SPACK_ROOT/etc/spack/config.yaml \
&& echo " root: /opt/software" >> $SPACK_ROOT/etc/spack/config.yaml \
&& cat $SPACK_ROOT/etc/spack/config.yaml
SHELL ["docker-shell"]
## Setup spack buildcache mirrors, including an internal
## spack mirror using the docker build cache, and
## a backup mirror on the internal B010 network
RUN --mount=type=cache,target=/var/cache/spack-mirror \
export OLD_PATH=$PATH \
&& export PATH=$PATH:$SPACK_ROOT/bin \
&& spack mirror add docker /var/cache/spack-mirror \
&& spack mirror list
## This variable will change whenevery either spack.yaml or our spack package
## overrides change, triggering a rebuild
ARG CACHE_BUST="hash"
ARG CACHE_NUKE=""
## Setup our custom package overrides
ENV EICSPACK_ROOT=$SPACK_ROOT/var/spack/repos/eic-spack
ARG EICSPACK_VERSION="$SPACK_VERSION"
RUN git clone https://github.com/eic/eic-spack.git ${EICSPACK_ROOT} \
&& git -C ${EICSPACK_ROOT} checkout ${EICSPACK_VERSION} \
&& if [ -n "${EICSPACK_CHERRYPICKS}" ] ; then \
git -C ${EICSPACK_ROOT} cherry-pick -n ${EICSPACK_CHERRYPICKS} ; \
fi \
&& spack repo add --scope site "${EICSPACK_ROOT}"
## Setup our custom environment
COPY spack.yaml /opt/spack-environment/
RUN rm -r /usr/local \
&& spack env activate /opt/spack-environment/ \
&& spack concretize
## Now execute the main build (or fetch from cache if possible)
## note, no-check-signature is needed to allow the quicker signature-less
## packages from the internal (docker) buildcache
##
## Optional, nuke the buildcache after install, before (re)caching
## This is useful when going to completely different containers,
## or intermittently to keep the buildcache step from taking too much time
##
## Update the local build cache if needed. Consists of 3 steps:
## 1. Remove the B010 network buildcache (silicon)
## 2. Get a list of all packages, and compare with what is already on
## the buildcache (using package hash)
## 3. Add packages that need to be added to buildcache if any
RUN --mount=type=cache,target=/var/cache/spack-mirror \
cd /opt/spack-environment \
&& ls /var/cache/spack-mirror \
&& spack env activate . \
&& status=0 \
&& spack install -j64 --no-check-signature \
|| spack install -j64 --no-check-signature \
|| spack install -j64 --no-check-signature \
|| status=$? \
&& [ -z "${CACHE_NUKE}" ] \
|| rm -rf /var/cache/spack-mirror/build_cache/* \
&& mkdir -p /var/cache/spack-mirror/build_cache \
&& spack buildcache update-index -d /var/cache/spack-mirror \
&& spack buildcache list --allarch --very-long \
| sed '/^$/d;/^--/d;s/@.\+//;s/\([a-z0-9]*\) \(.*\)/\2\/\1/' \
| sort > tmp.buildcache.txt \
&& spack find --format {name}/{hash} | sort \
| comm -23 - tmp.buildcache.txt \
| xargs --no-run-if-empty \
spack buildcache create --allow-root --only package --unsigned \
--directory /var/cache/spack-mirror \
--rebuild-index \
&& spack clean -a \
&& exit $status
## Extra post-spack steps:
## - Python packages
COPY requirements.txt /usr/local/etc/requirements.txt
RUN --mount=type=cache,target=/var/cache/pip \
echo "Installing additional python packages" \
&& cd /opt/spack-environment && spack env activate . \
&& python -m pip install \
--trusted-host pypi.org \
--trusted-host files.pythonhosted.org \
--cache-dir /var/cache/pip \
--requirement /usr/local/etc/requirements.txt \
--no-warn-script-location
# ^ Supress not on PATH Warnings
## Including some small fixes:
## - Somehow PODIO env isn't automatically set,
## - and Gaudi likes BINARY_TAG to be set
RUN cd /opt/spack-environment \
&& echo -n "" \
&& echo "Grabbing environment info" \
&& spack env activate --sh -d . \
| sed "s?LD_LIBRARY_PATH=?&/lib/x86_64-linux-gnu:?" \
| sed '/MANPATH/ s/;$/:;/' \
> /etc/profile.d/z10_spack_environment.sh \
&& cd /opt/spack-environment && spack env activate . \
&& echo -n "" \
&& echo "Add extra environment variables for Jug, Podio and Gaudi" \
&& echo "export PODIO=$(spack location -i podio);" \
>> /etc/profile.d/z10_spack_environment.sh \
&& echo -n "" \
&& echo "Executing cmake patch for dd4hep 16.1" \
&& sed -i "s/FIND_PACKAGE(Python/#&/" /usr/local/cmake/DD4hepBuild.cmake
## make sure we have the entrypoints setup correctly
ENTRYPOINT []
CMD ["bash", "--rcfile", "/etc/profile", "-l"]
USER 0
WORKDIR /
## ========================================================================================
## STAGE 2: staging image with unnecessariy packages removed and stripped binaries
## ========================================================================================
FROM builder AS staging
RUN cd /opt/spack-environment && spack env activate . && spack gc -y
# Strip all the binaries
# This reduces the image by factor of x2, so worth the effort
# note that we do not strip python libraries as can cause issues in some cases
RUN find -L /usr/local/* \
-type d -name site-packages -prune -false -o \
-type f -not -name "zdll.lib" -not -name libtensorflow-lite.a \
-exec realpath '{}' \; \
| xargs file -i \
| grep 'charset=binary' \
| grep 'x-executable\|x-archive\|x-sharedlib' \
| awk -F: '{print $1}' | xargs strip -s
## Bugfix to address issues loading the Qt5 libraries on Linux kernels prior to 3.15
## See
#https://askubuntu.com/questions/1034313/ubuntu-18-4-libqt5core-so-5-cannot-open-shared-object-file-no-such-file-or-dir
## and links therin for more info
RUN strip --remove-section=.note.ABI-tag /usr/local/lib/libQt5Core.so
RUN spack debug report \
| sed "s/^/ - /" | sed "s/\* \*\*//" | sed "s/\*\*//" \
>> /etc/jug_info \
&& spack find --no-groups --long --variants | sed "s/^/ - /" >> /etc/jug_info
COPY eic-shell /usr/local/bin/eic-shell
COPY eic-info /usr/local/bin/eic-info
COPY entrypoint.sh /usr/local/sbin/entrypoint.sh
COPY eic-env.sh /etc/eic-env.sh
COPY profile.d/a00_cleanup.sh /etc/profile.d
COPY profile.d/z11_jug_env.sh /etc/profile.d
COPY singularity.d /.singularity.d
## Add minio client into /usr/local/bin
ADD https://dl.min.io/client/mc/release/linux-amd64/mc /usr/local/bin
RUN chmod a+x /usr/local/bin/mc
## ========================================================================================
## STAGE 3: Set up Intel OneAPI Toolkit
## Use Intel's HPC-kit and Create Lean image from staging
## ========================================================================================
FROM intel/oneapi-hpckit:2022.2-devel-ubuntu20.04 AS oneapi
COPY bashrc /root/.bashrc
ENV CLICOLOR_FORCE=1 \
LANGUAGE=en_US.UTF-8 \
LANG=en_US.UTF-8 \
LC_ALL=en_US.UTF-8
## Install additional packages. Remove the auto-cleanup functionality
## for docker, as we're using the new buildkit cache instead.
## We install gcc-10 and g++-10 as they are not installed by default in
## Ubuntu 20.04.
## TODO: libyaml-cpp-dev is a dependency for afterburner. We can probably remove
## this once afterburner is added to spack
RUN --mount=type=cache,target=/var/cache/apt \
rm -f /etc/apt/apt.conf.d/docker-clean \
&& ln -fs /usr/share/zoneinfo/America/New_York /etc/localtime \
&& echo "US/Eastern" > /etc/timezone \
&& apt-get -yqq update \
&& apt-get -yqq upgrade \
&& apt-get -yqq install --no-install-recommends \
bc \
ca-certificates \
clang-format \
clang-tidy \
curl \
file \
build-essential \
g++-10 \
gcc-10 \
gdb \
ghostscript \
gfortran-10 \
git \
gnupg2 \
gv \
iproute2 \
iputils-ping \
iputils-tracepath \
less \
libcbor-xs-perl \
libjson-xs-perl \
libyaml-cpp-dev \
locales \
lua-posix \
make \
nano \
openssh-client \
parallel \
poppler-utils \
python3 \
python3-dev \
python3-distutils \
time \
unzip \
valgrind \
vim-nox \
wget \
&& localedef -i en_US -f UTF-8 en_US.UTF-8 \
&& update-alternatives --install /usr/bin/gcc gcc /usr/bin/gcc-10 100 \
&& update-alternatives --install /usr/bin/g++ g++ /usr/bin/g++-10 100 \
&& update-alternatives --install /usr/bin/gfortran gfortran \
/usr/bin/gfortran-10 100 \
&& gcc --version \
&& curl -L \
"https://packages.gitlab.com/install/repositories/runner/gitlab-runner/script.deb.sh" \
| bash \
&& apt-get -yqq update \
&& apt-get -yqq install --no-install-recommends \
gitlab-runner \
&& apt-get -yqq autoremove \
&& rm -rf /var/lib/apt/lists/*
## copy over everything we need from staging in a single layer
RUN --mount=from=staging,target=/staging \
rm -rf /usr/local \
&& cp -r /staging/opt/spack-environment /opt/spack-environment \
&& cp -r /staging/opt/software /opt/software \
&& cp -r /staging/usr/._local /usr/._local \
&& cd /usr/._local \
&& PREFIX_PATH=$(realpath $(ls | tail -n1)) \
&& echo "Found spack true prefix path to be $PREFIX_PATH" \
&& cd - \
&& ln -s ${PREFIX_PATH} /usr/local \
&& cp /staging/etc/profile.d/*.sh /etc/profile.d/ \
&& cp /staging/etc/eic-env.sh /etc/eic-env.sh \
&& cp /staging/etc/jug_info /etc/jug_info \
&& cp -r /staging/.singularity.d /.singularity.d
## set the jug_dev version and add the afterburner
## TODO: move afterburner to spack when possible
ARG JUG_VERSION=1
ARG AFTERBURNER_VERSION=main
RUN echo "" >> /etc/jug_info \
&& echo " - jug_dev: ${JUG_VERSION}" >> /etc/jug_info
## make entrypoint executable and set up oneAPI environment
RUN chmod +x /usr/local/sbin/entrypoint.sh \
&& echo "source /opt/intel/oneapi/setvars.sh --force 2> /dev/null" \
>> /etc/profile
## make sure we have the entrypoints setup correctly
ENTRYPOINT ["/usr/local/sbin/entrypoint.sh"]
CMD ["bash", "--rcfile", "/etc/profile", "-l"]
USER 0
WORKDIR /
SHELL ["/usr/local/bin/eic-shell"]
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