VIVO-1963: Initial docker compose (#223)

* initial docker compose

* for docker volume use direct tdb filemode

* runtime properties with solr url configured

* move gitattributes to root to ensure scripts stay valid

* fix VIVO dockerfile command permissions

* use public vivoweb/vivo-solr image

* start script improvements

* pass docker compose env to containers

* generate digest.md5 of existing VIVO home

* add initial readme

* reset docker compose env defaults

* minor readme updates

start.sh

@@ -0,0 +1,52 @@
+#!/bin/bash
+
+set -e
+
+# allow easier debugging with `docker run -e VERBOSE=yes`
+if [[ "$VERBOSE" = "yes" ]]; then
+  set -x
+fi
+
+# allow easier reset home with `docker run -e RESET_HOME=true`
+if [[ "$RESET_HOME" = "true" ]]; then
+  echo 'Clearing VIVO HOME /opt/vivo/home'
+  rm -rf /opt/vivo/home/*
+fi
+
+# ensure home config directory exists
+mkdir -p /opt/vivo/home/config
+
+# generate digest.md5 for existing VIVO home if not already exist
+if [ ! -f /opt/vivo/home/digest.md5 ]; then
+  find /opt/vivo/home -type f | grep -E '^/opt/vivo/home/bin/|^/opt/vivo/home/config/|^/opt/vivo/home/rdf/' | xargs md5sum > /opt/vivo/home/digest.md5
+  echo "Generated digest.md5 for VIVO home"
+  cat /opt/vivo/home/digest.md5
+fi
+
+# only move runtime.properties first time and if it does not already exist in target home directory
+if [ -f /runtime.properties ]; then
+  # template runtime.properties vitro.local.solr.url value to $SOLR_URL value
+  echo "Templating runtime.properties vitro.local.solr.url = $SOLR_URL"
+  sed -i "s,http://localhost:8983/solr/vivocore,$SOLR_URL,g" /runtime.properties
+
+  if [ ! -f /opt/vivo/home/config/runtime.properties ]
+  then
+    echo "First time: moving /runtime.properties to /opt/vivo/home/config/runtime.properties"
+    mv -n /runtime.properties /opt/vivo/home/config/runtime.properties
+  else
+    echo "Using existing /opt/vivo/home/config/runtime.properties"
+  fi
+fi
+
+# only move applicationSetup.n3 first time and if it does not already exist in target home directory
+if [ -f /applicationSetup.n3 ]; then
+  if [ ! -f /opt/vivo/home/config/applicationSetup.n3 ]
+  then
+    echo "First time: moving /applicationSetup.n3 to /opt/vivo/home/config/applicationSetup.n3"
+    mv -n /applicationSetup.n3 /opt/vivo/home/config/applicationSetup.n3
+  else
+    echo "Using existing /opt/vivo/home/config/applicationSetup.n3"
+  fi
+fi
+
+catalina.sh run