use alpine

Dockerfile

@@ -1,103 +1,30 @@
-FROM ubuntu:latest
-
-MAINTAINER Xavier Garnier "[email protected]"
-
-# Set Virtuoso commit SHA to Virtuoso 7.2.4 release (25/04/2016)
-ENV VIRTUOSO_COMMIT 96055f6a70a92c3098a7e786592f4d8ba8aae214
-
-# Prerequisites
-RUN apt-get update && apt-get install -y \
-  #virtuoso
-  build-essential \
-  debhelper \
-  autotools-dev \
-  autoconf \
-  automake \
-  unzip \
-  wget \
-  net-tools \
-  git \
-  libtool \
-  flex \
-  bison \
-  gperf \
-  gawk \
-  m4 \
-  libssl-dev \
-  libreadline-dev \
-  libreadline-dev \
-  openssl \
-  python-pip \
-  #AskOmics
-  build-essential \
-  python3 \
-  python3-pip \
-  python3-venv \
-  vim \
-  ruby \
-  npm \
-  nodejs-legacy
-
-
-## VIRTUOSO ###################################################################
-
-# Get Virtuoso source code from GitHub and checkout specific commit
-# Make and install Virtuoso (by default in /usr/local/virtuoso-opensource)
-RUN git clone https://github.com/openlink/virtuoso-opensource.git \
-        && cd virtuoso-opensource \
-        && git checkout ${VIRTUOSO_COMMIT} \
-        && ./autogen.sh \
-        && CFLAGS="-O2 -m64" && export CFLAGS && ./configure --disable-bpel-vad --enable-conductor-vad --enable-fct-vad --disable-dbpedia-vad --disable-demo-vad --disable-isparql-vad --disable-ods-vad --disable-sparqldemo-vad --disable-syncml-vad --disable-tutorial-vad --with-readline --program-transform-name="s/isql/isql-v/" \
-        && make && make install \
-        && ln -s /usr/local/virtuoso-opensource/var/lib/virtuoso/ /var/lib/virtuoso \
-        && ln -s /var/lib/virtuoso/db /data \
-        && cd .. \
-        && rm -r /virtuoso-opensource
-
-# Add Virtuoso bin to the PATH
-ENV PATH /usr/local/virtuoso-opensource/bin/:$PATH
-
-# Add Virtuoso config
-ADD virtuoso/virtuoso.ini /virtuoso.ini
-
-# Add dump_nquads_procedure
-ADD virtuoso/dump_nquads_procedure.sql /dump_nquads_procedure.sql
-
-# Add Virtuoso log cleaning script
-ADD virtuoso/clean-logs.sh /clean-logs.sh
-
-# Add startup script
-ADD virtuoso/virtuoso.sh /virtuoso.sh
-
-# Add dum template
-ADD virtuoso/dump.template.nq /dump.template.nq
-
-ENV SPARQL_UPDATE true
-
-## ASKOMICS ###################################################################
-
-# AskOmics github repo
-ENV ASKOMICS_URL https://github.com/xgaia/askomics.git
-# AskOmics commit
-ENV ASKOMICS_COMMIT 2b61cdef966530e2365a9d810c05c8b2662a6999
-
-RUN git clone ${ASKOMICS_URL} /usr/local/askomics/
+FROM xgaia/virtuoso
+MAINTAINER Xavier Garnier '[email protected]'
+
+
+# Environment variables
+ENV ASKOMICS="https://github.com/xgaia/askomics.git" \
+    ASKOMICS_DIR="/usr/local/askomics" \
+    ASKOMICS_COMMIT="9816964e5d226888f6e4fd04e968e1fd9744adfe"
+
+# Copy files
+COPY monitor_traffic.sh /monitor_traffic.sh
+COPY start.sh /start.sh
+
+# Install prerequisites, clone repository and install
+RUN apk add --update bash make gcc g++ zlib-dev libzip-dev bzip2-dev xz-dev git python3 python3-dev nodejs nodejs-npm wget && \
+    git clone ${ASKOMICS} ${ASKOMICS_DIR} && \
+    cd ${ASKOMICS_DIR} && \
+    git checkout ${ASKOMICS_COMMIT} && \
+    npm install gulp -g && \
+    npm install --production && \
+    chmod +x startAskomics.sh && \
+    rm -rf /usr/local/askomics/venv && \
+    bash ./startAskomics.sh -b && \
+    rm -rf /var/cache/apk/* && \
+    chmod +x /start.sh
 
 WORKDIR /usr/local/askomics/
 
-RUN git checkout ${ASKOMICS_COMMIT}
-
-RUN npm install gulp -g
-RUN npm install
-RUN chmod +x startAskomics.sh
-
-# Delete the local venv if exist and build the new one
-RUN rm -rf /usr/local/askomics/venv && \
-    ./startAskomics.sh -b
-
-ADD monitor_traffic.sh /
-ADD start.sh ./
-RUN chmod +x start.sh /virtuoso.sh /monitor_traffic.sh
-
 EXPOSE 6543
-CMD ["./start.sh"]
+CMD ["/start.sh"]

README.md

@@ -1,2 +1,26 @@
-# docker-askomics-virtuoso_-ie
-Docker AskOmics + Virtuoso for Galaxy Interactive Environment
+# Docker AskOmics + Virtuoso (For Galaxy Interactive Environment)
+
+![Docker Build](https://img.shields.io/docker/pulls/xgaia/docker-askomics-virtuoso-ie.svg)
+[![Build Status](https://travis-ci.org/xgaia/docker-askomics-virtuoso-ie.svg?branch=master)](https://travis-ci.org/xgaia/docker-askomics-virtuoso-ie)
+
+AskOmics and Virtuoso dockerized
+
+## Pull from dockerHub
+
+    docker pull xgaia/askomics-ie
+
+## Or build
+
+    # Clone the repo
+    git clone https://github.com/xgaia/docker-askomics-virtuoso-ie.git
+    cd docker-askomics-virtuoso-ie
+    docker build -t askomics-ie .
+
+## Run
+
+    docker run --name myAskOmics \
+        -p 6543:6543 \
+        d xgaia/askomics-ie
+
+
+This image is for the Galaxy Interactive Environment. To use AskOmics alone, please use [this image](https://github.com/askomics/docker-askomics) or [this docker compose](https://github.com/askomics/askomics-docker-compose).

monitor_traffic.sh

@@ -1,6 +1,6 @@
 #!/bin/bash
 while true; do
-    sleep 1h # Set to 1h for testing, change to 1m in production mode
+    sleep 1m
     if [ `netstat -t | grep -v CLOSE_WAIT | grep ':6543' | wc -l` -lt 3 ]
     then
         pkill python3

start.sh

@@ -28,9 +28,11 @@ mkdir -p $ASKOMICS_FILES_DIR/upload
 ln -s /import $ASKOMICS_FILES_DIR/upload/$username
 
 # Monitor traffic
+chmod +x /monitor_traffic.sh
 /monitor_traffic.sh &
 
 # Start Virtuoso
+chmod +x /virtuoso.sh
 /virtuoso.sh &
 
 # Wait for virtuoso to be up
@@ -39,4 +41,4 @@ while ! wget -o /dev/null http://localhost:8890/conductor; do
 done
 
 # Start AskOmics
-./startAskomics.sh -r -d dev
+${ASKOMICS_DIR}/startAskomics.sh -r -d dev