build: add Dockerfile

Dockerfile

+##### BASE #####
+FROM rocker/r-ver:4.2.1
+
+##### METADATA #####
+MAINTAINER zavolab-biozentrum@unibas.ch
+LABEL base.image="rocker/r-ver:4.2.1"
+LABEL version="1"
+LABEL software="ascii_alignment_pileup.R"
+LABEL software.version="1.0.1"
+LABEL software.description="Generates an ASCII-style pileup of read alignments in one or more BAM files against one or more regions specified in a BED file"
+LABEL software.website="https://git.scicore.unibas.ch/zavolan_group/tools/ascii-alignment-pileup"
+LABEL software.documentation="https://git.scicore.unibas.ch/zavolan_group/tools/ascii-alignment-pileup"
+LABEL software.license="https://spdx.org/licenses/Apache-2.0"
+LABEL software.tags="bioinformatics"
+LABEL maintainer="zavolab-biozentrum@unibas.ch"
+LABEL maintainer.organisation="Biozentrum, University of Basel"
+LABEL maintainer.location="Spitalstrasse 41, CH-4056 Basel, Switzerland"
+LABEL maintainer.lab="Zavolab"
+LABEL maintainer.license="https://spdx.org/licenses/Apache-2.0"
+
+##### INSTALL #####
+RUN \
+  apt-get update -y \
+  && apt-get install -y --no-install-recommends \
+    apt-transport-https \
+    curl \
+    libbamtools-dev \
+    libbz2-dev \
+    libcurl4-gnutls-dev \
+    liblzma-dev \
+    libssl-dev \
+    libxml2-dev \
+    software-properties-common \
+    zlib1g-dev \
+  && apt-get autoremove -y \
+  && apt-get clean \
+  && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/*
+RUN \
+  install2.r \
+    --error \
+    --skipinstalled \
+    -r "https://cran.rstudio.com" \
+    -r "http://www.bioconductor.org/packages/release/bioc" \
+    -r "https://bioconductor.org/packages/3.15/data/annotation" \
+    optparse \
+    rtracklayer \
+  && rm -rf /tmp/downloaded_packages/
+
+##### VARIABLES #####
+ARG WORKDIR="/home/bioc/"
+ARG USER="bioc"
+ARG GROUP="bioc"
+ENV PATH="${WORKDIR}:${PATH}"
+
+##### COPY #####
+COPY ./ascii_alignment_pileup.R ${WORKDIR}
+COPY ./tests ${WORKDIR}/tests
+
+##### USER #####
+RUN groupadd -r ${GROUP} && useradd --no-log-init -r -g ${GROUP} ${USER}
+
+##### ENVIRONMENT  #####
+WORKDIR ${WORKDIR}
+RUN chown -R ${USER}:${GROUP} ${WORKDIR} \
+  && chmod 700 ${WORKDIR}
+USER ${USER}
+