Add required to compile apt pkgs

Author: A Wokaty

Dockerfile

@@ -1,7 +1,7 @@
 ARG BASE_IMAGE=ubuntu:noble
 FROM ${BASE_IMAGE} AS build
 ARG CYCLE=release
-ARG NAME=""
+ARG NAME=
 RUN useradd -ms /bin/bash biocbuild && apt update -qq && apt install sudo systemd -y && usermod -aG sudo biocbuild && echo "biocbuild ALL=(ALL) NOPASSWD:ALL" >> /etc/sudoers
 USER biocbuild
 COPY . /home/biocbuild/bioconductor_salt

saltstack/pillar/common/init.sls

@@ -8,9 +8,6 @@
 {% set build_user = grains['cwd'].split("/")[-1] or 'biocbuild' %}
 {% endif %}
 
-{% if build_user == 'biocbuild' %}
-{% endif %}
-
 {% if create_users %}
 {% from '../custom/init.sls' import biocbuild_password, biocbuild_key,
    biocbuild_authorized_key, biocpush_password, biocpush_key,

saltstack/salt/common/linux.sls

@@ -87,7 +87,7 @@ git_clone_{{ repo.bbs.name }}_to_{{ machine.user.home }}/{{ machine.user.name }}
     - user: {{ machine.user.name }}
 
 {%- if machine.gpu %}
-{% for pkg_type in ["optional_compile_R", "cran", "bioc"] %}
+{% for pkg_type in ["required_compile_R", "optional_compile_R", "cran", "bioc"] %}
 install_{{ pkg_type }}_pkgs:
   cmd.run:
     - name: DEBIAN_FRONTEND=noninteractive apt-get -y install $(cat /home/{{ machine.user.name }}/{{ repo.bbs.name }}/{{ grains["os"] }}-files/{{ grains["osrelease"] }}/apt_{{ pkg_type }}.txt | awk '/^[^#]/ {print $1}')