Extend todo list, improve Dockerfile

Dockerfile

@@ -25,7 +25,7 @@ WORKDIR ${SRC_DIR}
 RUN set -e pipefail; \
     apt-get update -y; \
     # for development, install venv
-    apt-get install -y git pip python3.8-venv; \
+    apt-get install -y git pip; \
     pip install -r requirements.txt; \
     # for development, install black & PyLint
     pip install black pylint; \

translate2modelcif.py

@@ -410,6 +410,7 @@ def _get_protocol_steps_and_software(config_data):
             "name": "MMseqs2",
             "classification": "data collection",
             "description": "Many-against-Many sequence searching",
+            # ToDo: add citation to ihm.citations
             "citation": ihm.Citation(
                 pmid="30615063",
                 title="MMseqs2 desktop and local web server app for fast, "