Finisch container

Dockerfile

@@ -48,11 +48,11 @@ ARG MMCIF_USER_ID=501
 RUN adduser --system -u ${MMCIF_USER_ID} mmcif
 
 
-#COPY --chmod=755 docker-entrypoint.sh /
+COPY --chmod=755 docker-entrypoint.sh /
 
 USER mmcif
 
-#ENTRYPOINT ["/docker-entrypoint.sh"]
+ENTRYPOINT ["/docker-entrypoint.sh"]
 
 # LocalWords:  ARG OST ARGs ENV SRC tmp PYTHONUNBUFFERED Schwede schwedelab py
 # LocalWords:  PYTHONDONTWRITEBYTECODE Bioinformatics sib swiss Biozentrum ihm

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 formating tool."
+    echo "------------------------------------------"
+    echo "Provided by SWISS-MODEL / Schwede group"
+    echo "(swissmodel.expasy.org / schwedelab.org)"
+    echo ""
+    echo "This container takes a directory of "
+    echo "AlphaFold2 models and turns them into "
+    echo "ModelCIF files."
+    echo ""
+    /usr/local/bin/translate2modelcif --help
+    exit 1
+fi
+if [ x$1 == x"translate2modelcif" ] || [ x$1 == x"2cif" ]; then
+    echo "Let's go to the CIF site of life!"
+    shift
+    # take over the process, make translate2modelcif run on PID 1
+    exec /usr/local/bin/translate2modelcif $@
+    exit $?
+fi
+
+exec "$@"
+
+#  LocalWords:  euo pipefail eq Schwede schwedelab mmcif fi