#

# - [ BROAD'21 ] -

#

# A docker instance for accessing AWS resources

# This wraps the Fiji docker registry

#

FROM fiji/fiji:fiji-openjdk-8

USER root

# Install S3FS

RUN apt-get -y update && \

apt-get -y upgrade && \

apt-get -y install \

automake \

autotools-dev \

g++ \

git \

libcurl4-gnutls-dev \

libfuse-dev \

libssl-dev \

libxml2-dev \

make pkg-config \

sysstat \

curl

WORKDIR /usr/local/src

RUN git clone https://github.com/s3fs-fuse/s3fs-fuse.git

WORKDIR /usr/local/src/s3fs-fuse

RUN ./autogen.sh

RUN ./configure

RUN make

RUN make install

# Install AWS CLI

RUN apt-get -y upgrade python2.7

RUN apt-get -y install python-pip

RUN \

pip install awscli

# Install boto3

RUN \

pip install -U boto3

# Install watchtower for logging

RUN \

pip install watchtower==0.8.0

# Install pandas for optional file downloading

RUN pip install pandas==0.24.2

# SETUP NEW ENTRYPOINT

WORKDIR /opt/fiji

COPY fiji-worker.py .

COPY instance-monitor.py .

COPY run-worker.sh .

RUN chmod 755 run-worker.sh

ENTRYPOINT ["./run-worker.sh"]

CMD [""]