chore/docker: configure docker for prebuilt analysis containers

Author: wehlutyk

.dockerignore

@@ -0,0 +1,14 @@
+*.egg-info
+.cache
+data/clearpond
+data/figures
+data/FreeAssociation
+data/MemeTracker
+data/notebooks
+docs/_build
+docs/data
+Dockerfile
+.git
+.ipynb_checkpoints
+**/__pycache__
+treetagger

Dockerfile

@@ -0,0 +1,90 @@
+FROM ubuntu:16.04
+MAINTAINER Sébastien Lerique <sl@mehho.net>
+
+# Install all the system and build dependencies.
+ENV PYTHON_VERSION 3.5
+ENV PG_VERSION 9.5
+RUN set -x \
+    && apt-get update \
+    && apt-get install -y --no-install-recommends \
+        build-essential \
+        ca-certificates \
+        git \
+        libfreetype6-dev \
+        libpng12-0 \
+        libpng12-dev \
+        locales \
+        pkg-config \
+        postgresql-${PG_VERSION} \
+        postgresql-server-dev-${PG_VERSION} \
+        python${PYTHON_VERSION} \
+        python${PYTHON_VERSION}-dev \
+        python3 \
+        python3-pip \
+        sudo \
+        unzip \
+        wget \
+    && rm -rf /var/lib/apt/lists/*
+
+# Make the "en_US.UTF-8" locale so postgres and python Click will be utf-8
+# enabled by default.
+RUN set -x \
+    && localedef -i en_US -c -f UTF-8 -A /usr/share/locale/locale.alias en_US.UTF-8
+ENV LC_ALL en_US.utf8
+ENV LANG en_US.utf8
+
+# Set up postgres with user and analysis and test databases for brainscopypaste.
+RUN set -x \
+    && service postgresql start \
+    && sudo -u postgres psql -c 'create user brainscopypaste;' \
+    && sudo -u postgres psql -c 'create database brainscopypaste;' \
+    && sudo -u postgres psql -c 'alter database brainscopypaste owner to brainscopypaste;' \
+    && sudo -u postgres psql -c 'create database brainscopypaste_test;' \
+    && sudo -u postgres psql -c 'alter database brainscopypaste_test owner to brainscopypaste;' \
+    && sed -i 's/^\(\(local\|host\) \+all \+all \+.* \+\)\(peer\|md5\)$/\1trust/g' /etc/postgresql/${PG_VERSION}/main/pg_hba.conf
+
+# Copy the originating repository, and install requirements.
+COPY . /home/brainscopypaste
+RUN set -x \
+    && cd /home/brainscopypaste \
+    && pip3 install --upgrade pip setuptools \
+    && pip install $(cat requirements.txt | grep "^numpy") \
+    && pip install -r requirements.txt \
+    && pip install --editable .
+
+# Configure the brainscopypaste user.
+RUN set -x \
+    && useradd brainscopypaste \
+    && echo "brainscopypaste ALL=(ALL) NOPASSWD: ALL" > /etc/sudoers.d/brainscopypaste \
+    && chown -R brainscopypaste:brainscopypaste /home/brainscopypaste
+USER brainscopypaste
+
+# Install treetagger and datasets.
+RUN set -x \
+    && cd /home/brainscopypaste \
+    && ./install_treetagger.sh \
+    && ./install_datasets.sh
+
+# Clean up to reduce image size.
+RUN set -x \
+    && sudo rm -rf /root/.cache/pip \
+    && sudo apt-get purge -y --auto-remove \
+        build-essential \
+        ca-certificates \
+        libfreetype6-dev \
+        libpng12-dev \
+        pkg-config \
+        postgresql-server-dev-${PG_VERSION} \
+        python${PYTHON_VERSION}-dev \
+        python3-pip \
+        unzip \
+        wget
+
+# Check the software runs its tests.
+RUN set -x \
+    && cd /home/brainscopypaste \
+    && sudo service postgresql restart \
+    && py.test
+
+# Use the CLI tool, for easier use.
+CMD ["/home/brainscopypaste/dockerstart.sh"]

dockerstart.sh

@@ -0,0 +1,7 @@
+#!/bin/bash
+set -e
+
+# Start postgres and run command.
+sudo service postgresql start
+cd /home/brainscopypaste
+brainscopypaste "$@"

install_datasets.sh

@@ -2,7 +2,7 @@
 set -e
 
 # Find python3 command
-if which python3; then
+if which python3  >/dev/null 2>&1; then
   PYTHON=python3
 else
   PYTHON=python