Replace /bin/sh with a wrapper to /bin/bash

This is needed to be able to set umask=022 for the Linux aarch64
images that use umask=027 by default.

/bin/sh does not load /etc/profile nor any other rcfile.

See bioconda/bioconda-recipes#46177 for full
details and galaxyproject/galaxy#17631 for a
summary.

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

Author: martin-g

images/base-glibc-busybox-bash/Dockerfile.busybox

@@ -17,6 +17,10 @@ RUN [ ! -f /etc/apt/sources.list ] || sed --in-place= --regexp-extended \
 WORKDIR /build
 COPY build-busybox ./
 ARG busybox_version
+
+RUN echo "umask 022" >> /etc/profile
+RUN echo "umask 022" >> /root/.bashrc
+
 RUN ./build-busybox \
     "${busybox_version}" \
     x86_64 aarch64

images/base-glibc-debian-bash/Dockerfile

@@ -127,5 +127,9 @@ RUN touch /usr/local/env-activate.sh \
       > /usr/local/env-execute
 
 ENV LANG=C.UTF-8
+
+RUN echo "umask 022" >> /etc/profile
+RUN echo "umask 022" >> /root/.bashrc
+
 ENTRYPOINT [ "/usr/local/env-execute" ]
 CMD [ "bash" ]

images/create-env/Dockerfile

@@ -40,5 +40,16 @@ RUN \
       >>   /etc/skel/.bashrc
 ENV ENV=/etc/profile.d/conda.sh
 
+SHELL ["/bin/bash", "-c"]
+
+RUN echo "umask 022" >> /etc/profile
+RUN echo "umask 022" >> /root/.bashrc
+
+# replace /bin/sh with a thin wrapper to /bin/bash
+RUN unlink /bin/sh
+RUN echo 'bash -l "$@"' >> /bin/sh
+RUN chmod +x /bin/sh
+
+
 ENTRYPOINT [ "/opt/create-env/bin/tini", "--", "/opt/create-env/env-execute" ]
 CMD [ "bash" ]