docker/api/Dockerfile

FROM docker.mimirdb.info/alpine_oraclejdk8

# Metadata
LABEL base.image="docker.mimirdb.info/alpine_oraclejdk8"
LABEL version="0.2"
LABEL software="Vizier"
LABEL software.version="0.2.20190306"
LABEL description="an open source, provenance aware, iterative data cleaning tool"
LABEL website="http://vizierdb.info"
LABEL sourcecode="https://github.com/VizierDB"
LABEL documentation="https://github.com/VizierDB/web-api/wiki"
LABEL tags="CSV,Data Cleaning,Databases,Provenance,Workflow,Machine Learning"

ARG gituser
ARG gitpass
ARG API_BRANCH=master

ENV API_SCHEME=http
ENV API_SERVER=localhost
ENV API_SERVER_USE_PUB_IP=false
ENV API_PORT=5000
ENV API_LOCAL_PORT=5000
ENV PROFILER=0
ENV MIMIR_HOST="vizier-mimir.local"
ENV RUN_SSH=true
ENV ACME_HOSTS="api.vizier.app"
ENV GLIBC_VERSION 2.27-r0

EXPOSE 9001
EXPOSE 443
EXPOSE 22

RUN echo "@testing http://dl-4.alpinelinux.org/alpine/edge/testing" >> /etc/apk/repositories \
 && apk add --update \
              build-base alpine-sdk \
			  fuse fuse-dev \
			  automake autoconf \
			  libressl-dev \
			  curl-dev \
			  ca-certificates \
              musl \
              gcc \
              libc-dev \
			  bash \
              git \
              python \
              python-dev \
              py-pip \
    		  gfortran \
              lapack-dev \
              libxml2-dev \
              libxslt-dev \
              jpeg-dev \
              libxext \
              libsm \
              libxrender \
              curl \
              sed \
              openssh \
              supervisor \
 && pip install --upgrade pip \
 && rm /var/cache/apk/* \
 && mkdir /usr/local/source
 
RUN apk add geos py-geos geos-dev \
 --update-cache --repository http://dl-3.alpinelinux.org/alpine/edge/testing/ --allow-untrusted
 
#setup ssh
RUN echo 'root:odinlab' |chpasswd
RUN sed -ri 's/^#?PermitRootLogin\s+.*/PermitRootLogin yes/' /etc/ssh/sshd_config \
 && sed -ri 's/UsePAM yes/#UsePAM yes/g' /etc/ssh/sshd_config \
 && ssh-keygen -f /etc/ssh/ssh_host_rsa_key -N '' -t rsa \
 && ssh-keygen -f /etc/ssh/ssh_host_dsa_key -N '' -t dsa \
 && ssh-keygen -f /etc/ssh/ssh_host_ecdsa_key -N '' -t ecdsa \
 && ssh-keygen -f /etc/ssh/ssh_host_ed25519_key -N '' -t ed25519

ENV IAM_ROLE=none
ENV AWS_ACCESS_KEY_ID=value
ENV AWS_SECRET_ACCESS_KEY=value
ENV USE_S3_VOLUME=true
ENV S3_ENDPOINT=
ENV S3_BUCKET_ACL=private
ENV S3_BUCKET_NAME=none
ENV MOUNT_POINT=/usr/local/source/web-api/.vizierdb

ARG S3FS_VERSION=v1.82

RUN git clone https://github.com/s3fs-fuse/s3fs-fuse.git && \
    cd s3fs-fuse \
    git checkout tags/${S3FS_VERSION} && \
    ./autogen.sh && \
    ./configure --prefix=/usr && \
    make && \
    make install 

RUN s3fs --version

#install python 2.7
RUN echo "manylinux1_compatible = True" > /usr/lib/python2.7/_manylinux.py \
 && cd /usr/bin \
 && ln -sf easy_install-2.7 easy_install \
 && ln -sf python2.7 python \
 && ln -sf python2.7-config python-config \
 && ln -sf pip2.7 pip \
 && ln -sf /usr/include/locale.h /usr/include/xlocale.h

#install anaconda
#RUN curl -OsL "https://repo.continuum.io/archive/Anaconda2-5.1.0-Linux-x86_64.sh" \
# && /bin/bash Anaconda2-5.1.0-Linux-x86_64.sh -b -p /opt/conda \
# && rm Anaconda2-5.1.0-Linux-x86_64.sh \
# && echo 'export PATH=/opt/conda/bin:$PATH' >> /etc/profile.d/conda.sh

#install miniconda
RUN curl -OsL "https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh" \
 && /bin/bash Miniconda2-latest-Linux-x86_64.sh -b -p /opt/conda \
 && rm Miniconda2-latest-Linux-x86_64.sh \
 && echo 'export PATH=/opt/conda/bin:$PATH' >> /etc/profile.d/conda.sh 


#setup web-api
#copy local archive instead of pulling from github
#COPY web-api.tgz /usr/local/source/
#RUN tar -C /usr/local/source/ -zxvf /usr/local/source/web-api.tgz \
RUN cd /usr/local/source/ \
 && git clone https://$gituser:$gitpass@github.com/VizierDB/web-api.git \
 && cd /usr/local/source/web-api \
 && git checkout -b local_$API_BRANCH origin/$API_BRANCH \
 && sed -i 's/libiconv=1.15=0/libiconv=1.15/g' environment.yml \
 && /opt/conda/bin/conda env create -f environment.yml \
 && source /opt/conda/bin/activate vizier \
 && pip install git+https://$gituser:$gitpass@github.com/VizierDB/Vistrails.git \
 && pip install gunicorn \
 && pip install futures \
 && pip install matplotlib \
 && pip install https://github.com/matplotlib/basemap/archive/v1.1.0.tar.gz \
 && pip install -e . \
 && mkdir -p /usr/local/source/web-api/.vizierdb
 
ENV APP_PATH="/vizier-db/api/v1"
 
COPY rewrite_configs.sh /usr/local/source/rewrite_configs.sh
COPY run_init.sh /usr/local/source/run_init.sh
COPY run_web_api.sh /usr/local/source/run_web_api.sh
COPY entrypoint.sh /usr/local/source/entrypoint.sh
COPY supervisord.conf /etc/supervisord.conf

RUN chmod +x /usr/local/source/rewrite_configs.sh \
  /usr/local/source/run_init.sh \
  /usr/local/source/run_web_api.sh \
  /usr/local/source/entrypoint.sh

ENTRYPOINT ["\/bin\/bash", "-c", "/usr/local/source/entrypoint.sh"]