Removed docker subdir to reintroduce later

projects/docker/Dockerfile

-ARG VERSION_OST="2.3.0"
-FROM registry.scicore.unibas.ch/schwede/openstructure:${VERSION_OST}
-# We need to declare ARGs again which were declared before the build stage
-# (FROM directive), otherwise they won't be available in this stage.
-ARG VERSION_OST
-
-## Set up environment
-ENV SRC_DIR="/tmp" \
-    VERSION_OST=${VERSION_OST} \
-    PYTHONUNBUFFERED=1 \
-    PYTHONDONTWRITEBYTECODE=1
-
-
-LABEL org.openstructure.base-image="${VERSION_OST}"
-LABEL org.openstructure.translate2modelcif="2022-04-08.1"
-LABEL maintainer="Stefan Bienert <stefan.bienert@unibas.ch>"
-LABEL vendor1="Schwede Group (schwedelab.org)"
-LABEL vendor2="SIB - Swiss Institute of Bioinformatics (sib.swiss)"
-LABEL vendor3="Biozentrum - University of Basel (biozentrum.unibas.ch)"
-
-
-## Install python-modelcif and python-ihm
-COPY docker/requirements.txt ${SRC_DIR}
-WORKDIR ${SRC_DIR}
-RUN set -e pipefail; \
-    apt-get update -y; \
-    # for development, install venv
-    apt-get install -y git pip python3.8-venv; \
-    pip install -r requirements.txt; \
-    # for development, install black & PyLint
-    pip install black pylint; \
-    git clone https://github.com/ihmwg/python-ihm.git ihm.git; \
-    cd ihm.git; \
-    python3 setup.py build; \
-    python3 setup.py install; \
-    rm -rf ${SRC_DIR}/ihm.git; \
-    cd ${SRC_DIR}; \
-    git clone https://github.com/ihmwg/python-modelcif.git modelcif.git; \
-    cd modelcif.git; \
-    python3 setup.py build; \
-    python3 setup.py install; \
-    rm -rf /var/lib/apt/lists/*; \
-    apt-get purge -y --auto-remove git pip gcc
-
-## Add a dedicated user
-## MMCIF_USER_ID can be used to avoid file permission issues.
-ARG MMCIF_USER_ID=501
-RUN adduser --system -u ${MMCIF_USER_ID} mmcif
-
-
-COPY --chmod=755 docker/entrypoint.sh /
-
-## Copy tool(s)
-ARG CONVERTERSCRIPT=projects/pointmutations-haddock/convert2modelcif.py
-COPY --chmod=755 $CONVERTERSCRIPT /usr/local/bin/convert2modelcif
-
-USER mmcif
-
-ENTRYPOINT ["/entrypoint.sh"]
-
-# LocalWords:  ARG OST ARGs ENV SRC tmp PYTHONUNBUFFERED Schwede schwedelab py
-# LocalWords:  PYTHONDONTWRITEBYTECODE Bioinformatics sib swiss Biozentrum ihm
-# LocalWords:  modelcif txt WORKDIR pipefail chmod adduser mmcif ENTRYPOINT cd
-# LocalWords:  pylint rf entrypoint

projects/docker/README.md

-# Docker container (base) for the converter software
-
-This directory contains all the files needed to create the base Docker image used for the converter software in [projects](projects/).
-
-<!--
-build:
-- go to repo root
-- execute: docker build -f docker/Dockerfile -t mmcifconverter:20220427
-
-run interactive shell for development:
-- make sure files exist: /Users/stefan/Projects/ma-converters.git/projects/pointmutations-haddock/.docker-bash-history
-- execute:
-docker run --rm -i -v /Users/stefan/.bash_profile:/home/mmcif/.bash_profile -v /Users/stefan/.bash_aliases:/home/mmcif/.bash_aliases -v /Users/stefan/.bashrc:/home/mmcif/.bashrc -v /Users/stefan/Projects/ma-converters.git/projects/pointmutations-haddock/.docker-bash-history:/home/mmcif/.bash_history -v /Users/stefan/Projects/ma-converters.git/:/develop -t mmcifconverter:20220427 bash
-
- -->

projects/docker/entrypoint.sh

-#!/bin/bash
-## (We use sh since Alpine does not have Bash by default)
-
-
-## exit immediately on commands with a non-zero exit status.
-set -euo pipefail
-
-## When started without any arguments, "-h", "--help", "-help" or "help", print
-## usage.
-if [ $# -eq 0 ] || [ x$1 == x"-h" ] || [ x$1 == x"--help" ] ||
-   [ x$1 == x"-help" ] || [ x$1 == x"help" ]; then
-    echo "        ModelCIF file converter"
-    echo "----------------------------------------"
-    echo "Provided by SWISS-MODEL / Schwede group"
-    echo "(swissmodel.expasy.org / schwedelab.org)"
-    echo ""
-    /usr/local/bin/convert2modelcif --help
-    exit 1
-fi
-if [ x$1 == x"convert2modelcif" ] || [ x$1 == x"2cif" ]; then
-    shift
-    # take over the process, make translate2modelcif run on PID 1
-    exec /usr/local/bin/convert2modelcif $@
-    exit $?
-fi
-
-exec "$@"
-
-#  LocalWords:  euo pipefail eq Schwede schwedelab mmcif fi

projects/docker/requirements.txt

-requests
-ujson