cumulative.sh

#!/usr/bin/env bash
source ec2pinit.inc.sh
 
# Update system packages
sys_pkg_update_all
 
# Install additional packages
if (( $HAVE_DNF )) || (( $HAVE_YUM )); then
    sys_pkg_install \
        gcc \
        bzip2-devel \
        curl \
        gcc \
        gcc-c++ \
        gcc-gfortran \
        git \
        glibc-devel \
        kernel-devel \
        libX11-devel \
        mesa-libGL \
        mesa-libGLU \
        ncurses-devel \
        openssh-server \
        subversion \
        sudo \
        wget \
        zlib-devel \
        xauth \
        xterm
elif (( $HAVE_APT )); then
    sys_pkg_install \
    build-essential \
        gcc \
        bzip2 \
        curl \
        gcc \
        g++ \
        gfortran \
        git \
        libc6-dev \
        libx11-dev \
        libgl1-mesa-dri \
        libgl1-mesa-glx \
        libglu1-mesa \
        libncurses5-dev \
        openssh-server \
        subversion \
        sudo \
        wget \
        zlib1g-dev \
        xauth \
        xterm
fi
 
# "become" the target user
sys_user_push ec2-user
 
miniconda_root=$HOME/miniconda3
miniconda_version="py39_4.11.0"
export CFLAGS="-std=gnu99"
 
# Install miniconda
mc_install "$miniconda_version" "$miniconda_root" || true
mc_initialize "$miniconda_root"
 
# Install HST pipeline
ac_releases_install_hst "stable"
 
# Install JWST pipeline
ac_releases_install_jwst "1.5.2"
 
# Handle recently introduced packaging bug 05/2022 (old upstream tag deleted)
sed --follow-symlinks -i 's/hsluv.*/hsluv==5.0.3/' $ac_releases_path/de/f/*.yml
 
# Install 
ac_releases_install_data_analysis "f"
 
# Clean up conda packages and caches
mc_clean
 
# return to root user
sys_user_pop
 
# Reset target user's home directory permissions
sys_reset_home_ownership ec2-user
 
# Clean up package manager
sys_pkg_clean