Add Version 3.0 to versions

Conflicts:
	src/main/twirl/issues/list.scala.html
	src/main/twirl/issues/listparts.scala.html

.travis.yml

@@ -0,0 +1,3 @@
+language: scala
+scala:
+  - 2.11.2

README.md

@@ -1,7 +1,7 @@
-GitBucket [![Gitter chat](https://badges.gitter.im/takezoe/gitbucket.png)](https://gitter.im/takezoe/gitbucket) [![Build Status](https://buildhive.cloudbees.com/job/takezoe/job/gitbucket/badge/icon)](https://buildhive.cloudbees.com/job/takezoe/job/gitbucket/)
+GitBucket [![Gitter chat](https://badges.gitter.im/takezoe/gitbucket.png)](https://gitter.im/takezoe/gitbucket) [![Build Status](https://travis-ci.org/takezoe/gitbucket.svg?branch=master)](https://travis-ci.org/takezoe/gitbucket)
 =========
 
-GitBucket is the easily installable Github clone written with Scala.
+GitBucket is the easily installable GitHub clone powered by Scala.
 
 
 Features
@@ -23,7 +23,6 @@ The current version of GitBucket provides a basic features below:
 
 Following features are not implemented, but we will make them in the future release!
 
-- Comment for the changeset
 - Network graph
 - Statistics
 - Watch / Star
@@ -80,6 +79,64 @@ Run the following commands in `Terminal` to
 
 Release Notes
 --------
+### 3.0 - 3 Mar 2015
+- New plug-in system is available
+- Connection pooling by c3p0
+- New branch UI
+- Compare between specified commit ids
+
+### 2.8 - 1 Feb 2015
+- New logo and icons
+- New system setting options to control visibility
+- Comment on side-by-side diff
+- Information message on sign-in page
+- Fork repository by group account
+
+### 2.7 - 29 Dec 2014
+- Comment for commit and diff
+- Fix security issue in markdown rendering
+- Some bug fix and improvements
+
+### 2.6 - 24 Nov 2014
+- Search box at issues and pull requests
+- Information from administrator
+- Pull request UI has been updated
+- Move to TravisCI from Buildhive
+- Some bug fix and improvements
+
+### 2.5 - 4 Nov 2014
+- New Dashboard
+- Change datetime format
+- Create branch from Web UI
+- Task list in Markdown
+- Some bug fix and improvements
+
+### 2.4.1 - 6 Oct 2014
+- Bug fix
+
+### 2.4 - 6 Oct 2014
+- New UI is applied to Issues and Pull requests
+- Side-by-side diff is available
+- Fix relative path problem in Markdown links and images
+- Plugin System is disabled in default
+- Some bug fix and improvements
+
+### 2.3 - 1 Sep 2014
+- Scala based plugin system
+- Embedded Jetty war extraction directory moved to `GITBUCKET_HOME/tmp`
+- Some bug fix and improvements
+
+### 2.2.1 - 5 Aug 2014
+- Bug fix
+
+### 2.2 - 4 Aug 2014
+- Plug-in system is available
+- Move to Scala 2.11, Scalatra 2.3 and Slick 2.1
+- tar.gz export for repository contents
+- LDAP authentication improvement (mail address became optional)
+- Show news feed of a private repository to members
+- Some bug fix and improvements
+
 ### 2.1 - 6 Jul 2014
 - Upgrade to Slick 2.0 from 1.9
 - Base part of the plug-in system is merged

build.xml

@@ -4,8 +4,8 @@
   <property name="target.dir" value="target"/>
   <property name="embed.classes.dir" value="${target.dir}/embed-classes"/>
   <property name="jetty.dir" value="embed-jetty"/>
-  <property name="scala.version" value="2.10"/>
+  <property name="scala.version" value="2.11"/>
-  <property name="gitbucket.version" value="0.0.1"/>
+  <property name="gitbucket.version" value="3.0.0"/>
   <property name="jetty.version" value="8.1.8.v20121106"/>
   <property name="servlet.version" value="3.0.0.v201112011016"/>
 

contrib/README.md

@@ -0,0 +1,13 @@
+# Contrib Notes #
+
+The configuration script adapts according to the OS.
+The `linux` directory contains scripts for Ubuntu and RedHat.
+The Mac scripts have been folded in as well.
+Common scripts are in this directory.
+
+This version of scripts has so far only been tested on Ubuntu and Mac. Someone else will have to test on RedHat.
+
+To run:
+
+  1. Edit `gitbucket.conf` to suit.
+  2. Type: `install`

contrib/gitbucket.conf

@@ -0,0 +1,62 @@
+# Configuration section is below. Ignore this part
+
+function isUbuntu {
+  if [ -f /etc/lsb-release ]; then
+    grep -i ubuntu /etc/lsb-release | head -n 1 | cut -d \  -f 1 | cut -d = -f 2
+  fi
+}
+
+function isRedHat {
+  if [ -d "/etc/rc.d/init.d" ]; then echo yes; fi
+}
+
+function isMac {
+  if [[ "$(uname -a | cut -d \  -f 1 )" == "Darwin" ]]; then echo yes; fi
+}
+
+# 
+# Configuration section start
+#
+
+# Bind host
+GITBUCKET_HOST=0.0.0.0
+
+# Other Java option
+GITBUCKET_JVM_OPTS=-Dmail.smtp.starttls.enable=true
+
+# Data directory, holds repositories
+GITBUCKET_HOME=/var/lib/gitbucket
+
+GITBUCKET_LOG_DIR=/var/log/gitbucket
+
+# Server port
+GITBUCKET_PORT=8080
+
+# URL prefix for the GitBucket page (http://<host>:<port>/<prefix>/)
+GITBUCKET_PREFIX=
+
+# Directory where GitBucket is installed
+# Configuration is stored here:
+GITBUCKET_DIR=/usr/share/gitbucket
+GITBUCKET_WAR_DIR=$GITBUCKET_DIR/lib
+
+# Path to the WAR file
+GITBUCKET_WAR_FILE=$GITBUCKET_WAR_DIR/gitbucket.war
+
+# GitBucket version to fetch when installing
+GITBUCKET_VERSION=2.1
+
+#
+# End of configuration section. Ignore this part
+#
+if [ `isUbuntu` ]; then
+  GITBUCKET_SERVICE=/etc/init.d/gitbucket
+elif [ `isRedHat` ]; then
+  GITBUCKET_SERVICE=/etc/rc.d/init.d
+elif [ `isMac` ]; then
+  GITBUCKET_SERVICE=/Library/StartupItems/GitBucket/GitBucket
+else
+  echo "Don't know how to install onto this OS"
+  exit -2
+fi
+

contrib/gitbucket.init

@@ -1,6 +1,8 @@
 #!/bin/bash
 #
-# /etc/rc.d/init.d/gitbucket
+# RedHat: /etc/rc.d/init.d/gitbucket
+# Ubuntu: /etc/init.d/gitbucket
+# Mac OS/X: /Library/StartupItems/GitBucket
 #
 # Starts the GitBucket server
 #
@@ -8,28 +10,44 @@
 # description: Run GitBucket server
 # processname: java
 
-# Source function library
+set -e
-. /etc/rc.d/init.d/functions
+
+[ -f /etc/rc.d/init.d/functions ] && source /etc/rc.d/init.d/functions  # RedHat
+[ -f /etc/rc.common ] && source /etc/rc.common # Mac OS/X
 
 # Default values
 GITBUCKET_HOME=/var/lib/gitbucket
 GITBUCKET_WAR_FILE=/usr/share/gitbucket/lib/gitbucket.war
 
 # Pull in cq settings
-[ -f /etc/sysconfig/gitbucket ] && . /etc/sysconfig/gitbucket
+[ -f /etc/sysconfig/gitbucket ] && source /etc/sysconfig/gitbucket # RedHat
+[ -f gitbucket.conf ] && source gitbucket.conf  # For all systems
 
 # Location of the log and PID file
-LOG_FILE=/var/log/gitbucket/run.log
+LOG_FILE=$GITBUCKET_LOG_DIR/run.log
 PID_FILE=/var/run/gitbucket.pid
 
-# Default return value
+RED='\033[1m\E[37;41m'
-RETVAL=0
+GREEN='\033[1m\E[37;42m'
+OFF='\E[0m'
 
+if [ -z "$(which success)" ]; then
+	function success {
+	  printf "%b\n" "$GREEN $* $OFF"
+  }
+fi
+if [ -z "$(which failure)" ]; then
+	function failure {
+	  printf "%b\n" "$RED $* $OFF"
+  }
+fi
+
+RETVAL=0
 
 start() {
 	echo -n $"Starting GitBucket server: "
 
-	# Compile statup parameters
+  START_OPTS=
 	if [ $GITBUCKET_PORT ]; then
 		START_OPTS="${START_OPTS} --port=${GITBUCKET_PORT}"
 	fi
@@ -40,17 +58,15 @@ start() {
 		START_OPTS="${START_OPTS} --host=${GITBUCKET_HOST}"
 	fi
 
-	# Run the Java process
 	GITBUCKET_HOME="${GITBUCKET_HOME}" java $GITBUCKET_JVM_OPTS -jar $GITBUCKET_WAR_FILE $START_OPTS >>$LOG_FILE 2>&1 &
 	RETVAL=$?
 
-	# Store PID of the Java process into a file
 	echo $! > $PID_FILE
 
 	if [ $RETVAL -eq 0 ] ; then
-		success "GitBucket startup"
+		success "Success"
 	else
-		failure "GitBucket startup"
+		failure "Exit code $RETVAL"
 	fi
 
 	echo
@@ -82,25 +98,41 @@ restart() {
 	start
 }
 
-
+## MacOS proxies for System V service hooks:
-case "$1" in
+StartService() {
-start)
 	start
-	;;
+}
-stop)
+
+StopService() {
 	stop
-	;;
+}
-restart)
+
+RestartService() {
 	restart
-	;;
+}
-status)
-	status -p $PID_FILE java
-	RETVAL=$?
-	;;
-*)
-	echo $"Usage: $0 [start|stop|restart|status]"
-	RETVAL=2
-esac
 
 
-exit $RETVAL
+if [ `isMac` ]; then
+  RunService "$1"
+else
+	case "$1" in
+		start)
+			start
+			;;
+		stop)
+			stop
+			;;
+		restart)
+			restart
+			;;
+		status)
+			status -p $PID_FILE java
+			RETVAL=$?
+			;;
+		*)
+			echo $"Usage: $0 [start|stop|restart|status]"
+			RETVAL=2
+	esac
+  exit $RETVAL
+fi
+

contrib/install

@@ -0,0 +1,69 @@
+#!/bin/bash
+
+# Only tested on Ubuntu 14.04
+
+# Uses information stored in GitBucket git repo on GitHub as defaults.
+# Edit gitbucket.conf before running this
+
+set -e
+
+GITBUCKET_VERSION=2.1
+
+if [ ! -f gitbucket.conf ]; then
+  echo "gitbucket.conf not found, aborting"
+  exit -3
+fi
+source gitbucket.conf
+
+function createDir {
+  if [ ! -d "$1" ]; then
+    echo "Making $1 directory."
+    sudo mkdir -p "$1"
+  fi
+}
+
+if [ "$(which iptables)" ]; then
+  echo "Opening port $GITBUCKET_PORT in firewall."
+  sudo iptables -A INPUT -p tcp --dport $GITBUCKET_PORT -j ACCEPT
+  echo "Please use iptables-persistent:"
+  echo "  sudo apt-get install iptables-persistent"
+  echo "After installed, you can save/reload iptables rules anytime:"
+  echo "  sudo /etc/init.d/iptables-persistent save"
+  echo "  sudo /etc/init.d/iptables-persistent reload"
+fi
+
+createDir "$GITBUCKET_HOME"
+createDir "$GITBUCKET_WAR_DIR"
+createDir "$GITBUCKET_DIR"
+createDir "$GITBUCKET_LOG_DIR"
+
+echo "Fetching GitBucket v$GITBUCKET_VERSION and saving as $GITBUCKET_WAR_FILE"
+sudo wget -qO "$GITBUCKET_WAR_FILE" https://github.com/takezoe/gitbucket/releases/download/$GITBUCKET_VERSION/gitbucket.war
+
+sudo rm -f "$GITBUCKET_LOG_DIR/run.log"
+
+echo "Copying gitbucket.conf to $GITBUCKET_DIR"
+sudo cp gitbucket.conf $GITBUCKET_DIR
+if [ `isUbuntu` ] || [ `isRedHat` ]; then
+  sudo cp gitbucket.init "$GITBUCKET_SERVICE"
+  # Install gitbucket as a service that starts when system boots
+  sudo chown root:root $GITBUCKET_SERVICE
+  sudo chmod 755 $GITBUCKET_SERVICE
+  sudo update-rc.d "$(basename $GITBUCKET_SERVICE)" defaults 98 02
+  echo "Starting GitBucket service"
+  sudo $GITBUCKET_SERVICE start
+elif [ `isMac` ]; then
+  sudo macosx/makePlist
+  echo "Starting GitBucket service"
+  sudo cp gitbucket.conf "$GITBUCKET_SERVICE"
+  sudo cp gitbucket.init "$GITBUCKET_SERVICE"
+  sudo chmod a+x "$GITBUCKET_SERVICE"
+  sudo "$GITBUCKET_SERVICE" start
+else
+  echo "Don't know how to install this OS"
+  exit -2
+fi
+
+if [ $? != 0 ]; then
+  less "$GITBUCKET_LOG_DIR/run.log"
+fi

contrib/linux/redhat/README.md

@@ -0,0 +1,15 @@
+# Contrib Notes #
+
+RPM spec file and init script for Red Hat Enterprise Linux 6.x. 
+
+To create RPM:
+1. Edit `../../gitbucket.conf` to suit.
+2. Edit `gitbucket.init` to suit.
+3. Edit `gitbucket.spec` to suit.
+4. Place `gitbucket.spec` to rpm/SPECS/.
+5. Place `gitbucket.init` and `gitbucket.war` to rpm/SOURCES/.
+6. Execute `rpmbuild -ba rpm/SPECS/gitbucket.spec`
+
+This rpm runs gitbucket not as root user but as gitbucket user.
+This rpm creates user and group named `gitbucket` at installation.
+This rpm make chkconfig of gitbucket to be on.

contrib/linux/redhat/gitbucket.init

@@ -0,0 +1,108 @@
+#!/bin/bash
+#
+# RedHat: /etc/rc.d/init.d/gitbucket
+#
+# Starts the GitBucket server
+#
+# chkconfig: 345 60 40
+# description: Run GitBucket server
+# processname: java
+
+[ -f /etc/rc.d/init.d/functions ] && source /etc/rc.d/init.d/functions  # RedHat
+
+# Default values
+GITBUCKET_HOME=/var/lib/gitbucket
+GITBUCKET_WAR_FILE=/usr/share/gitbucket/lib/gitbucket.war
+
+# Pull in cq settings
+[ -f /etc/sysconfig/gitbucket ] && source /etc/sysconfig/gitbucket # RedHat
+[ -f gitbucket.conf ] && source gitbucket.conf  # For all systems
+
+# Location of the log and PID file
+LOG_FILE=$GITBUCKET_LOG_DIR/run.log
+
+RED='\033[1m\E[37;41m'
+GREEN='\033[1m\E[37;42m'
+OFF='\E[0m'
+
+RETVAL=0
+
+start() {
+	echo -n $"Starting GitBucket server: "
+
+  START_OPTS=
+	if [ $GITBUCKET_PORT ]; then
+		START_OPTS="${START_OPTS} --port=${GITBUCKET_PORT}"
+	fi
+	if [ $GITBUCKET_PREFIX ]; then
+		START_OPTS="${START_OPTS} --prefix=${GITBUCKET_PREFIX}"
+	fi
+	if [ $GITBUCKET_HOST ]; then
+		START_OPTS="${START_OPTS} --host=${GITBUCKET_HOST}"
+	fi
+
+	GITBUCKET_HOME="${GITBUCKET_HOME}" daemon --user=gitbucket java $GITBUCKET_JVM_OPTS -jar $GITBUCKET_WAR_FILE $START_OPTS >>$LOG_FILE 2>&1 &
+  sleep 3
+  pgrep -f $GITBUCKET_WAR_FILE >> $LOG_FILE 2>&1
+  RETVAL=$?
+
+	if [ $RETVAL -eq 0 ] ; then
+		success "Success"
+	else
+		failure "Exit code $RETVAL"
+	fi
+
+	echo
+	return $RETVAL
+}
+
+
+stop() {
+	echo -n $"Stopping GitBucket server: "
+
+	# Run the Java process
+	pkill -f $GITBUCKET_WAR_FILE >>$LOG_FILE 2>&1
+	RETVAL=$?
+
+	if [ $RETVAL -eq 0 ] ; then
+		success "GitBucket stopping"
+	else
+		failure "GitBucket stopping"
+	fi
+
+	echo
+	return $RETVAL
+}
+
+
+restart() {
+	stop
+	start
+}
+
+case "$1" in
+	start)
+		start
+		;;
+	stop)
+		stop
+		;;
+	restart)
+		restart
+		;;
+	status)
+    pgrep -f $GITBUCKET_WAR_FILE >> $LOG_FILE 2>&1
+		RETVAL=$?
+    if [ $RETVAL -eq 0 ]; then
+      echo $"GitBucket is running...."
+    else
+      echo $"GitBucket is stopped"
+    fi
+		;;
+	*)
+		echo $"Usage: $0 [start|stop|restart|status]"
+		RETVAL=2
+esac
+
+exit $RETVAL
+

contrib/linux/redhat/gitbucket.spec

@@ -1,6 +1,6 @@
 Name:		gitbucket
 Summary:	GitHub clone written with Scala.
-Version:	1.7
+Version:	2.6
 Release:	1%{?dist}
 License:	Apache
 URL:		https://github.com/takezoe/gitbucket
@@ -26,6 +26,25 @@ GitBucket is the easily installable GitHub clone written with Scala.
 %{__install} -m 0644 %{SOURCE2} %{buildroot}%{_sysconfdir}/sysconfig/%{name}
 touch %{buildroot}%{_localstatedir}/log/%{name}/run.log
 
+%pre
+/usr/sbin/groupadd -r gitbucket &> /dev/null || :
+/usr/sbin/useradd -g gitbucket -s /bin/false -r -c "GitBucket GitHub clone" -d %{_sharedstatedir}/%{name} gitbucket &> /dev/null || :
+
+%post
+/sbin/chkconfig --add gitbucket
+
+%preun
+if [ "$1" = 0 ]; then
+  /sbin/service gitbucket stop > /dev/null 2>&1
+  /sbin/chkconfig --del gitbucket
+fi
+exit 0
+
+%postun
+if [ "$1" -ge 1 ]; then
+  /sbin/service gitbucket restart > /dev/null 2>&1
+fi
+exit 0
 
 %clean
 [ "%{buildroot}" != / ] && %{__rm} -rf "%{buildroot}"
@@ -34,12 +53,28 @@ touch %{buildroot}%{_localstatedir}/log/%{name}/run.log
 %files
 %defattr(-,root,root,-)
 %{_datarootdir}/%{name}/lib/%{name}.war
-%{_sysconfdir}/init.d/%{name}
+%config %{_sysconfdir}/init.d/%{name}
-%config %{_sysconfdir}/sysconfig/%{name}
+%config(noreplace) %{_sysconfdir}/sysconfig/%{name}
-%{_localstatedir}/log/%{name}/run.log
+%attr(0755,gitbucket,gitbucket) %{_sharedstatedir}/%{name}
+%attr(0750,gitbucket,gitbucket) %{_localstatedir}/log/%{name}
 
 
 %changelog
+* Mon Nov 24 2014 Toru Takahashi <torutk at gmail.com>
+- Version bump to v2.6
+
+* Sun Nov 09 2014 Toru Takahashi <torutk at gmail.com>
+- Version bump to v2.5
+
+* Sun Oct 26 2014 Toru Takahashi <torutk at gmail.com>
+- Version bump to v2.4.1
+
+* Mon Jul 21 2014 Toru Takahashi <torutk at gmail.com>
+- execute as gitbucket user
+
+* Sun Jul 20 2014 Toru Takahashi <torutk at gmail.com>
+- Version bump to v2.1.
+
 * Mon Oct 28 2013 Jiri Tyr <jiri_DOT_tyr at gmail.com>
 - Version bump to v1.7.
 

contrib/macosx/makePlist

@@ -1,3 +1,10 @@
+#!/bin/bash
+
+# From http://docstore.mik.ua/orelly/unix3/mac/ch02_02.htm
+source gitbucket.conf
+GITBUCKET_SERVICE_DIR=`dirname "$GITBUCKET_SERVICE"`
+mkdir -p "$GITBUCKET_SERVICE_DIR"
+cat << EOF > "$GITBUCKET_SERVICE_DIR/gitbucket.plist"
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
 <plist version="1.0">
@@ -7,14 +14,15 @@
     <key>ProgramArguments</key>
     <array>
       <string>/usr/bin/java</string>
-      <string>-Dmail.smtp.starttls.enable=true</string>
+      <string>$GITBUCKET_JVM_OPTS</string>
       <string>-jar</string>
       <string>gitbucket.war</string>
-      <string>--host=127.0.0.1</string>
+      <string>--host=$GITBUCKET_HOST</string>
-      <string>--port=8080</string>
+      <string>--port=$GITBUCKET_PORT</string>
       <string>--https=true</string>
     </array>
     <key>RunAtLoad</key>
     <true/>
   </dict>
 </plist>
+EOF

contrib/redhat/gitbucket.conf

@@ -1,17 +0,0 @@
-# Bind host
-#GITBUCKET_HOST=0.0.0.0
-
-# Server port
-#GITBUCKET_PORT=8080
-
-# Data directory (GITBUCKET_HOME/gitbucket)
-#GITBUCKET_HOME=/var/lib/gitbucket
-
-# Path to the WAR file
-#GITBUCKET_WAR_FILE=/usr/share/gitbucket/lib/gitbucket.war
-
-# URL prefix for the GitBucket page (http://<host>:<port>/<prefix>/)
-#GITBUCKET_PREFIX=
-
-# Other Java option
-#GITBUCKET_JVM_OPTS=

etc/deploy-assemby-jar.sh

@@ -0,0 +1,9 @@
+#!/bin/sh
+mvn deploy:deploy-file \
+  -DgroupId=gitbucket\
+  -DartifactId=gitbucket-assembly\
+  -Dversion=3.0.0\
+  -Dpackaging=jar\
+  -Dfile=../target/scala-2.11/gitbucket-assembly-3.0.0.jar\
+  -DrepositoryId=sourceforge.jp\
+  -Durl=scp://shell.sourceforge.jp/home/groups/a/am/amateras/htdocs/mvn/

etc/pom.xml

@@ -0,0 +1,17 @@
+<?xml version="1.0"?>
+<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
+    <modelVersion>4.0.0</modelVersion>
+    <groupId>jp.sf.amateras</groupId>
+    <artifactId>gitbucket-assembly</artifactId>
+    <version>0.0.1</version>
+    <build>
+        <extensions>
+            <extension>
+                <groupId>org.apache.maven.wagon</groupId>
+                <artifactId>wagon-ssh</artifactId>
+                <version>1.0-beta-6</version>
+            </extension>
+        </extensions>
+    </build>
+</project>

project/build.properties

@@ -1 +1 @@
-sbt.version=0.13.1
+sbt.version=0.13.5

project/build.scala

@@ -1,57 +1,75 @@
 import sbt._
 import Keys._
 import org.scalatra.sbt._
-import twirl.sbt.TwirlPlugin._
 import com.typesafe.sbteclipse.plugin.EclipsePlugin.EclipseKeys
+import play.twirl.sbt.SbtTwirl
+import play.twirl.sbt.Import.TwirlKeys._
+import sbtassembly._
+import sbtassembly.AssemblyKeys._
 
 object MyBuild extends Build {
-  val Organization = "jp.sf.amateras"
+  val Organization = "gitbucket"
   val Name = "gitbucket"
-  val Version = "0.0.1"
+  val Version = "3.0.0"
-  val ScalaVersion = "2.10.3"
+  val ScalaVersion = "2.11.2"
-  val ScalatraVersion = "2.2.1"
+  val ScalatraVersion = "2.3.0"
 
   lazy val project = Project (
     "gitbucket",
-    file("."),
+    file(".")
-    settings = Defaults.defaultSettings ++ ScalatraPlugin.scalatraWithJRebel ++ Seq(
-      sourcesInBase := false,
-      organization := Organization,
-      name := Name,
-      version := Version,
-      scalaVersion := ScalaVersion,
-      resolvers ++= Seq(
-        Classpaths.typesafeReleases,
-        "amateras-repo" at "http://amateras.sourceforge.jp/mvn/"
-      ),
-      scalacOptions := Seq("-deprecation", "-language:postfixOps"),
-      libraryDependencies ++= Seq(
-        "org.eclipse.jgit" % "org.eclipse.jgit.http.server" % "3.0.0.201306101825-r",
-        "org.scalatra" %% "scalatra" % ScalatraVersion,
-        "org.scalatra" %% "scalatra-specs2" % ScalatraVersion % "test",
-        "org.scalatra" %% "scalatra-json" % ScalatraVersion,
-        "org.json4s" %% "json4s-jackson" % "3.2.5",
-        "jp.sf.amateras" %% "scalatra-forms" % "0.0.14",
-        "commons-io" % "commons-io" % "2.4",
-        "org.pegdown" % "pegdown" % "1.4.1",
-        "org.apache.commons" % "commons-compress" % "1.5",
-        "org.apache.commons" % "commons-email" % "1.3.1",
-        "org.apache.httpcomponents" % "httpclient" % "4.3",
-        "org.apache.sshd" % "apache-sshd" % "0.11.0",
-        "com.typesafe.slick" %% "slick" % "2.0.2",
-        "org.mozilla" % "rhino" % "1.7R4",
-        "com.novell.ldap" % "jldap" % "2009-10-07",
-        "org.quartz-scheduler" % "quartz" % "2.2.1",
-        "com.h2database" % "h2" % "1.3.173",
-        "ch.qos.logback" % "logback-classic" % "1.0.13" % "runtime",
-        "org.eclipse.jetty" % "jetty-webapp" % "8.1.8.v20121106" % "container;provided",
-        "org.eclipse.jetty.orbit" % "javax.servlet" % "3.0.0.v201112011016" % "container;provided;test" artifacts Artifact("javax.servlet", "jar", "jar"),
-        "junit" % "junit" % "4.11" % "test"
-      ),
-      EclipseKeys.withSource := true,
-      javacOptions in compile ++= Seq("-target", "6", "-source", "6"),
-      testOptions in Test += Tests.Argument(TestFrameworks.Specs2, "junitxml", "console"),
-      packageOptions += Package.MainClass("JettyLauncher")
-    ) ++ seq(Twirl.settings: _*)
   )
+  .settings(ScalatraPlugin.scalatraWithJRebel: _*)
+  .settings(
+    test in assembly := {},
+    assemblyMergeStrategy in assembly := {
+      case PathList("META-INF", xs @ _*) =>
+        (xs map {_.toLowerCase}) match {
+          case ("manifest.mf" :: Nil) => MergeStrategy.discard
+          case _ => MergeStrategy.discard
+      }
+      case x => MergeStrategy.first
+    }
+  )
+  .settings(
+    sourcesInBase := false,
+    organization := Organization,
+    name := Name,
+    version := Version,
+    scalaVersion := ScalaVersion,
+    resolvers ++= Seq(
+      Classpaths.typesafeReleases,
+      "amateras-repo" at "http://amateras.sourceforge.jp/mvn/"
+    ),
+    scalacOptions := Seq("-deprecation", "-language:postfixOps"),
+    libraryDependencies ++= Seq(
+      "org.eclipse.jgit" % "org.eclipse.jgit.http.server" % "3.4.1.201406201815-r",
+      "org.eclipse.jgit" % "org.eclipse.jgit.archive" % "3.4.1.201406201815-r",
+      "org.scalatra" %% "scalatra" % ScalatraVersion,
+      "org.scalatra" %% "scalatra-specs2" % ScalatraVersion % "test",
+      "org.scalatra" %% "scalatra-json" % ScalatraVersion,
+      "org.json4s" %% "json4s-jackson" % "3.2.10",
+      "jp.sf.amateras" %% "scalatra-forms" % "0.1.0",
+      "commons-io" % "commons-io" % "2.4",
+      "org.pegdown" % "pegdown" % "1.4.1",
+      "org.apache.commons" % "commons-compress" % "1.5",
+      "org.apache.commons" % "commons-email" % "1.3.1",
+      "org.apache.httpcomponents" % "httpclient" % "4.3",
+      "org.apache.sshd" % "apache-sshd" % "0.11.0",
+      "com.typesafe.slick" %% "slick" % "2.1.0",
+      "com.novell.ldap" % "jldap" % "2009-10-07",
+      "com.h2database" % "h2" % "1.4.180",
+//      "ch.qos.logback" % "logback-classic" % "1.0.13" % "runtime",
+      "org.eclipse.jetty" % "jetty-webapp" % "8.1.8.v20121106" % "container;provided",
+      "org.eclipse.jetty.orbit" % "javax.servlet" % "3.0.0.v201112011016" % "container;provided;test" artifacts Artifact("javax.servlet", "jar", "jar"),
+      "junit" % "junit" % "4.11" % "test",
+      "com.mchange" % "c3p0" % "0.9.5",
+      "com.typesafe" % "config" % "1.2.1",
+      "com.typesafe.play" %% "twirl-compiler" % "1.0.2"
+    ),
+    play.twirl.sbt.Import.TwirlKeys.templateImports += "gitbucket.core._",
+    EclipseKeys.withSource := true,
+    javacOptions in compile ++= Seq("-target", "7", "-source", "7"),
+    testOptions in Test += Tests.Argument(TestFrameworks.Specs2, "junitxml", "console"),
+    packageOptions += Package.MainClass("JettyLauncher")
+  ).enablePlugins(SbtTwirl)
 }

project/plugins.sbt

@@ -4,8 +4,8 @@ addSbtPlugin("com.github.mpeltonen" % "sbt-idea" % "1.6.0")
 
 addSbtPlugin("org.scalatra.sbt" % "scalatra-sbt" % "0.3.5")
 
-resolvers += "spray repo" at "http://repo.spray.io"
+addSbtPlugin("com.typesafe.sbt" % "sbt-twirl" % "1.0.2")
-
-addSbtPlugin("io.spray" % "sbt-twirl" % "0.7.0")
 
 addSbtPlugin("com.timushev.sbt" % "sbt-updates" % "0.1.4")
+
+addSbtPlugin("com.eed3si9n" % "sbt-assembly" % "0.12.0")

sbt.bat

@@ -1,2 +1,2 @@
 set SCRIPT_DIR=%~dp0
-java -Dsbt.log.noformat=true -XX:+CMSClassUnloadingEnabled -XX:MaxPermSize=256m -Xmx512M -Xss2M -Xdebug -Xrunjdwp:transport=dt_socket,server=y,suspend=n,address=5005 -jar "%SCRIPT_DIR%\sbt-launch-0.13.1.jar" %*
+java -Dsbt.log.noformat=true -XX:+CMSClassUnloadingEnabled -XX:MaxPermSize=256m -Xmx512M -Xss2M -Xdebug -Xrunjdwp:transport=dt_socket,server=y,suspend=n,address=5005 -jar "%SCRIPT_DIR%\sbt-launch-0.13.5.jar" %*

sbt.sh

@@ -1 +1,2 @@
-java -Dsbt.log.noformat=true -XX:+CMSClassUnloadingEnabled -XX:MaxPermSize=256m -Xmx512M -Xss2M -Xdebug -Xrunjdwp:transport=dt_socket,server=y,suspend=n,address=5005 -jar `dirname $0`/sbt-launch-0.13.1.jar "$@"
+#!/bin/sh
+java -Dsbt.log.noformat=true -XX:+CMSClassUnloadingEnabled -XX:MaxPermSize=256m -Xmx512M -Xss2M -Xdebug -Xrunjdwp:transport=dt_socket,server=y,suspend=n,address=5005 -jar `dirname $0`/sbt-launch-0.13.5.jar "$@"

src/main/java/JettyLauncher.java

@@ -1,10 +1,8 @@
-import org.eclipse.jetty.io.EndPoint;
-import org.eclipse.jetty.server.Request;
 import org.eclipse.jetty.server.Server;
 import org.eclipse.jetty.server.nio.SelectChannelConnector;
 import org.eclipse.jetty.webapp.WebAppContext;
 
-import java.io.IOException;
+import java.io.File;
 import java.net.URL;
 import java.security.ProtectionDomain;
 
@@ -44,6 +42,14 @@ public class JettyLauncher {
         server.addConnector(connector);
 
         WebAppContext context = new WebAppContext();
+
+        File tmpDir = new File(getGitBucketHome(), "tmp");
+        if(tmpDir.exists()){
+            deleteDirectory(tmpDir);
+        }
+        tmpDir.mkdirs();
+        context.setTempDirectory(tmpDir);
+
         ProtectionDomain domain = JettyLauncher.class.getProtectionDomain();
         URL location = domain.getCodeSource().getLocation();
 
@@ -59,4 +65,27 @@ public class JettyLauncher {
         server.start();
         server.join();
     }
+
+    private static File getGitBucketHome(){
+        String home = System.getProperty("gitbucket.home");
+        if(home != null && home.length() > 0){
+            return new File(home);
+        }
+        home = System.getenv("GITBUCKET_HOME");
+        if(home != null && home.length() > 0){
+            return new File(home);
+        }
+        return new File(System.getProperty("user.home"), ".gitbucket");
+    }
+
+    private static void deleteDirectory(File dir){
+        for(File file: dir.listFiles()){
+            if(file.isFile()){
+                file.delete();
+            } else if(file.isDirectory()){
+                deleteDirectory(file);
+            }
+        }
+        dir.delete();
+    }
 }

src/main/java/gitbucket/core/util/PatchUtil.java

@@ -1,4 +1,4 @@
-package util;
+package gitbucket.core.util;
 
 import org.eclipse.jgit.api.errors.PatchApplyException;
 import org.eclipse.jgit.diff.RawText;

src/main/resources/database.conf

@@ -0,0 +1,6 @@
+db {
+  driver = "org.h2.Driver"
+  url = "jdbc:h2:${DatabaseHome};MVCC=true"
+  user = "sa"
+  password = "sa"
+}

src/main/resources/update/2_3.sql

@@ -0,0 +1,6 @@
+CREATE TABLE PLUGIN (
+  PLUGIN_ID VARCHAR(100) NOT NULL,
+  VERSION   VARCHAR(100) NOT NULL
+);
+
+ALTER TABLE PLUGIN ADD CONSTRAINT IDX_PLUGIN_PK PRIMARY KEY (PLUGIN_ID);

src/main/resources/update/2_7.sql

@@ -0,0 +1,18 @@
+CREATE TABLE COMMIT_COMMENT (
+    USER_NAME VARCHAR(100) NOT NULL,
+    REPOSITORY_NAME VARCHAR(100) NOT NULL,
+    COMMIT_ID VARCHAR(100) NOT NULL,
+    COMMENT_ID INT AUTO_INCREMENT,
+    COMMENTED_USER_NAME VARCHAR(100) NOT NULL,
+    CONTENT TEXT NOT NULL,
+    FILE_NAME NVARCHAR(100),
+    OLD_LINE_NUMBER INT,
+    NEW_LINE_NUMBER INT,
+    REGISTERED_DATE TIMESTAMP NOT NULL,
+    UPDATED_DATE TIMESTAMP NOT NULL,
+    PULL_REQUEST BOOLEAN NOT NULL
+);
+
+ALTER TABLE COMMIT_COMMENT ADD CONSTRAINT IDX_COMMIT_COMMENT_PK PRIMARY KEY (COMMENT_ID);
+ALTER TABLE COMMIT_COMMENT ADD CONSTRAINT IDX_COMMIT_COMMENT_FK0 FOREIGN KEY (USER_NAME, REPOSITORY_NAME) REFERENCES REPOSITORY (USER_NAME, REPOSITORY_NAME);
+ALTER TABLE COMMIT_COMMENT ADD CONSTRAINT IDX_COMMIT_COMMENT_1 UNIQUE (USER_NAME, REPOSITORY_NAME, COMMIT_ID, COMMENT_ID);

src/main/resources/update/2_8.sql

@@ -0,0 +1 @@
+ALTER TABLE COMMIT_COMMENT ALTER COLUMN FILE_NAME NVARCHAR(260);

src/main/scala/ScalatraBootstrap.scala

@@ -1,5 +1,9 @@
-import _root_.servlet.{PluginActionInvokeFilter, BasicAuthenticationFilter, TransactionFilter}
+
-import app._
+import gitbucket.core.controller._
+import gitbucket.core.plugin.PluginRegistry
+import gitbucket.core.servlet.{TransactionFilter, BasicAuthenticationFilter}
+import gitbucket.core.util.Directory
+
 //import jp.sf.amateras.scalatra.forms.ValidationJavaScriptProvider
 import org.scalatra._
 import javax.servlet._
@@ -10,12 +14,16 @@ class ScalatraBootstrap extends LifeCycle {
     // Register TransactionFilter and BasicAuthenticationFilter at first
     context.addFilter("transactionFilter", new TransactionFilter)
     context.getFilterRegistration("transactionFilter").addMappingForUrlPatterns(EnumSet.allOf(classOf[DispatcherType]), true, "/*")
-    context.addFilter("pluginActionInvokeFilter", new PluginActionInvokeFilter)
-    context.getFilterRegistration("pluginActionInvokeFilter").addMappingForUrlPatterns(EnumSet.allOf(classOf[DispatcherType]), true, "/*")
     context.addFilter("basicAuthenticationFilter", new BasicAuthenticationFilter)
     context.getFilterRegistration("basicAuthenticationFilter").addMappingForUrlPatterns(EnumSet.allOf(classOf[DispatcherType]), true, "/git/*")
 
     // Register controllers
+    context.mount(new AnonymousAccessController, "/*")
+
+    PluginRegistry().getControllers.foreach { case (controller, path) =>
+      context.mount(controller, path)
+    }
+
     context.mount(new IndexController, "/")
     context.mount(new SearchController, "/")
     context.mount(new FileUploadController, "/upload")
@@ -32,7 +40,7 @@ class ScalatraBootstrap extends LifeCycle {
     context.mount(new RepositorySettingsController, "/*")
 
     // Create GITBUCKET_HOME directory if it does not exist
-    val dir = new java.io.File(_root_.util.Directory.GitBucketHome)
+    val dir = new java.io.File(Directory.GitBucketHome)
     if(!dir.exists){
       dir.mkdirs()
     }

src/main/scala/app/DashboardController.scala

@@ -1,109 +0,0 @@
-package app
-
-import service._
-import util.{UsersAuthenticator, Keys}
-import util.Implicits._
-
-class DashboardController extends DashboardControllerBase
-  with IssuesService with PullRequestService with RepositoryService with AccountService
-  with UsersAuthenticator
-
-trait DashboardControllerBase extends ControllerBase {
-  self: IssuesService with PullRequestService with RepositoryService with UsersAuthenticator =>
-
-  get("/dashboard/issues/repos")(usersOnly {
-    searchIssues("all")
-  })
-
-  get("/dashboard/issues/assigned")(usersOnly {
-    searchIssues("assigned")
-  })
-
-  get("/dashboard/issues/created_by")(usersOnly {
-    searchIssues("created_by")
-  })
-
-  get("/dashboard/pulls")(usersOnly {
-    searchPullRequests("created_by", None)
-  })
-
-  get("/dashboard/pulls/owned")(usersOnly {
-    searchPullRequests("created_by", None)
-  })
-
-  get("/dashboard/pulls/public")(usersOnly {
-    searchPullRequests("not_created_by", None)
-  })
-
-  get("/dashboard/pulls/for/:owner/:repository")(usersOnly {
-    searchPullRequests("all", Some(params("owner") + "/" + params("repository")))
-  })
-
-  private def searchIssues(filter: String) = {
-    import IssuesService._
-
-    // condition
-    val condition = session.putAndGet(Keys.Session.DashboardIssues,
-      if(request.hasQueryString) IssueSearchCondition(request)
-      else session.getAs[IssueSearchCondition](Keys.Session.DashboardIssues).getOrElse(IssueSearchCondition())
-    )
-
-    val userName = context.loginAccount.get.userName
-    val repositories = getUserRepositories(userName, context.baseUrl).map(repo => repo.owner -> repo.name)
-    val filterUser = Map(filter -> userName)
-    val page = IssueSearchCondition.page(request)
-    // 
-    dashboard.html.issues(
-        issues.html.listparts(
-            searchIssue(condition, filterUser, false, (page - 1) * IssueLimit, IssueLimit, repositories: _*),
-            page,
-            countIssue(condition.copy(state = "open"), filterUser, false, repositories: _*),
-            countIssue(condition.copy(state = "closed"), filterUser, false, repositories: _*),
-            condition),
-        countIssue(condition, Map.empty, false, repositories: _*),
-        countIssue(condition, Map("assigned" -> userName), false, repositories: _*),
-        countIssue(condition, Map("created_by" -> userName), false, repositories: _*),
-        countIssueGroupByRepository(condition, filterUser, false, repositories: _*),
-        condition,
-        filter)    
-    
-  }
-
-  private def searchPullRequests(filter: String, repository: Option[String]) = {
-    import IssuesService._
-    import PullRequestService._
-
-    // condition
-    val condition = session.putAndGet(Keys.Session.DashboardPulls, {
-      if(request.hasQueryString) IssueSearchCondition(request)
-      else session.getAs[IssueSearchCondition](Keys.Session.DashboardPulls).getOrElse(IssueSearchCondition())
-    }.copy(repo = repository))
-
-    val userName = context.loginAccount.get.userName
-    val repositories = getUserRepositories(userName, context.baseUrl).map(repo => repo.owner -> repo.name)
-    val filterUser = Map(filter -> userName)
-    val page = IssueSearchCondition.page(request)
-
-    val counts = countIssueGroupByRepository(
-      IssueSearchCondition().copy(state = condition.state), Map.empty, true, repositories: _*)
-
-    dashboard.html.pulls(
-      pulls.html.listparts(
-        searchIssue(condition, filterUser, true, (page - 1) * PullRequestLimit, PullRequestLimit, repositories: _*),
-        page,
-        countIssue(condition.copy(state = "open"), filterUser, true, repositories: _*),
-        countIssue(condition.copy(state = "closed"), filterUser, true, repositories: _*),
-        condition,
-        None,
-        false),
-      getPullRequestCountGroupByUser(condition.state == "closed", None, None),
-      getRepositoryNamesOfUser(userName).map { RepoName =>
-        (userName, RepoName, counts.collectFirst { case (_, RepoName, count) => count }.getOrElse(0))
-      }.sortBy(_._3).reverse,
-      condition,
-      filter)
-
-  }
-
-
-}

src/main/scala/app/LabelsController.scala

@@ -1,66 +0,0 @@
-package app
-
-import jp.sf.amateras.scalatra.forms._
-import service._
-import util.CollaboratorsAuthenticator
-import util.Implicits._
-import org.scalatra.i18n.Messages
-
-class LabelsController extends LabelsControllerBase
-  with LabelsService with RepositoryService with AccountService with CollaboratorsAuthenticator
-
-trait LabelsControllerBase extends ControllerBase {
-  self: LabelsService with RepositoryService with CollaboratorsAuthenticator =>
-
-  case class LabelForm(labelName: String, color: String)
-
-  val newForm = mapping(
-    "newLabelName" -> trim(label("Label name", text(required, labelName, maxlength(100)))),
-    "newColor"     -> trim(label("Color",      text(required, color)))
-  )(LabelForm.apply)
-
-  val editForm = mapping(
-    "editLabelName" -> trim(label("Label name", text(required, labelName, maxlength(100)))),
-    "editColor"     -> trim(label("Color",      text(required, color)))
-  )(LabelForm.apply)
-
-  post("/:owner/:repository/issues/label/new", newForm)(collaboratorsOnly { (form, repository) =>
-    createLabel(repository.owner, repository.name, form.labelName, form.color.substring(1))
-    redirect(s"/${repository.owner}/${repository.name}/issues")
-  })
-
-  ajaxGet("/:owner/:repository/issues/label/edit")(collaboratorsOnly { repository =>
-    issues.labels.html.editlist(getLabels(repository.owner, repository.name), repository)
-  })
-
-  ajaxGet("/:owner/:repository/issues/label/:labelId/edit")(collaboratorsOnly { repository =>
-    getLabel(repository.owner, repository.name, params("labelId").toInt).map { label =>
-      issues.labels.html.edit(Some(label), repository)
-    } getOrElse NotFound()
-  })
-
-  ajaxPost("/:owner/:repository/issues/label/:labelId/edit", editForm)(collaboratorsOnly { (form, repository) =>
-    updateLabel(repository.owner, repository.name, params("labelId").toInt, form.labelName, form.color.substring(1))
-    issues.labels.html.editlist(getLabels(repository.owner, repository.name), repository)
-  })
-
-  ajaxGet("/:owner/:repository/issues/label/:labelId/delete")(collaboratorsOnly { repository =>
-    deleteLabel(repository.owner, repository.name, params("labelId").toInt)
-    issues.labels.html.editlist(getLabels(repository.owner, repository.name), repository)
-  })
-
-  /**
-   * Constraint for the identifier such as user name, repository name or page name.
-   */
-  private def labelName: Constraint = new Constraint(){
-    override def validate(name: String, value: String, messages: Messages): Option[String] =
-      if(value.contains(',')){
-        Some(s"${name} contains invalid character.")
-      } else if(value.startsWith("_") || value.startsWith("-")){
-        Some(s"${name} starts with invalid character.")
-      } else {
-        None
-      }
-  }
-
-}

src/main/scala/app/SystemSettingsController.scala

@@ -1,184 +0,0 @@
-package app
-
-import service.{AccountService, SystemSettingsService}
-import SystemSettingsService._
-import util.AdminAuthenticator
-import util.Directory._
-import util.ControlUtil._
-import jp.sf.amateras.scalatra.forms._
-import ssh.SshServer
-import org.apache.commons.io.FileUtils
-import java.io.FileInputStream
-import plugin.{Plugin, PluginSystem}
-
-class SystemSettingsController extends SystemSettingsControllerBase
-  with AccountService with AdminAuthenticator
-
-trait SystemSettingsControllerBase extends ControllerBase {
-  self: AccountService with AdminAuthenticator =>
-
-  private val form = mapping(
-    "baseUrl"                  -> trim(label("Base URL", optional(text()))),
-    "allowAccountRegistration" -> trim(label("Account registration", boolean())),
-    "gravatar"                 -> trim(label("Gravatar", boolean())),
-    "notification"             -> trim(label("Notification", boolean())),
-    "ssh"                      -> trim(label("SSH access", boolean())),
-    "sshPort"                  -> trim(label("SSH port", optional(number()))),
-    "smtp"                     -> optionalIfNotChecked("notification", mapping(
-        "host"                     -> trim(label("SMTP Host", text(required))),
-        "port"                     -> trim(label("SMTP Port", optional(number()))),
-        "user"                     -> trim(label("SMTP User", optional(text()))),
-        "password"                 -> trim(label("SMTP Password", optional(text()))),
-        "ssl"                      -> trim(label("Enable SSL", optional(boolean()))),
-        "fromAddress"              -> trim(label("FROM Address", optional(text()))),
-        "fromName"                 -> trim(label("FROM Name", optional(text())))
-    )(Smtp.apply)),
-    "ldapAuthentication"       -> trim(label("LDAP", boolean())),
-    "ldap"                     -> optionalIfNotChecked("ldapAuthentication", mapping(
-        "host"                     -> trim(label("LDAP host", text(required))),
-        "port"                     -> trim(label("LDAP port", optional(number()))),
-        "bindDN"                   -> trim(label("Bind DN", optional(text()))),
-        "bindPassword"             -> trim(label("Bind Password", optional(text()))),
-        "baseDN"                   -> trim(label("Base DN", text(required))),
-        "userNameAttribute"        -> trim(label("User name attribute", text(required))),
-        "fullNameAttribute"        -> trim(label("Full name attribute", optional(text()))),
-        "mailAttribute"            -> trim(label("Mail address attribute", text(required))),
-        "tls"                      -> trim(label("Enable TLS", optional(boolean()))),
-        "keystore"                 -> trim(label("Keystore", optional(text())))
-    )(Ldap.apply))
-  )(SystemSettings.apply).verifying { settings =>
-    if(settings.ssh && settings.baseUrl.isEmpty){
-      Seq("baseUrl" -> "Base URL is required if SSH access is enabled.")
-    } else Nil
-  }
-
-  private val pluginForm = mapping(
-    "pluginId" -> list(trim(label("", text())))
-  )(PluginForm.apply)
-
-  case class PluginForm(pluginIds: List[String])
-
-  get("/admin/system")(adminOnly {
-    admin.html.system(flash.get("info"))
-  })
-
-  post("/admin/system", form)(adminOnly { form =>
-    saveSystemSettings(form)
-
-    if(form.ssh && SshServer.isActive && context.settings.sshPort != form.sshPort){
-      SshServer.stop()
-    }
-
-    if(form.ssh && !SshServer.isActive && form.baseUrl.isDefined){
-      SshServer.start(request.getServletContext,
-        form.sshPort.getOrElse(SystemSettingsService.DefaultSshPort),
-        form.baseUrl.get)
-    } else if(!form.ssh && SshServer.isActive){
-      SshServer.stop()
-    }
-
-    flash += "info" -> "System settings has been updated."
-    redirect("/admin/system")
-  })
-
-// TODO Enable commented code to enable plug-in system
-//  get("/admin/plugins")(adminOnly {
-//    val installedPlugins = plugin.PluginSystem.plugins
-//    val updatablePlugins = getAvailablePlugins(installedPlugins).filter(_.status == "updatable")
-//    admin.plugins.html.installed(installedPlugins, updatablePlugins)
-//  })
-//
-//  post("/admin/plugins/_update", pluginForm)(adminOnly { form =>
-//    deletePlugins(form.pluginIds)
-//    installPlugins(form.pluginIds)
-//    redirect("/admin/plugins")
-//  })
-//
-//  post("/admin/plugins/_delete", pluginForm)(adminOnly { form =>
-//    deletePlugins(form.pluginIds)
-//    redirect("/admin/plugins")
-//  })
-//
-//  get("/admin/plugins/available")(adminOnly {
-//    val installedPlugins = plugin.PluginSystem.plugins
-//    val availablePlugins = getAvailablePlugins(installedPlugins).filter(_.status == "available")
-//    admin.plugins.html.available(availablePlugins)
-//  })
-//
-//  post("/admin/plugins/_install", pluginForm)(adminOnly { form =>
-//    installPlugins(form.pluginIds)
-//    redirect("/admin/plugins")
-//  })
-
-//  get("/admin/plugins/console")(adminOnly {
-//    admin.plugins.html.console()
-//  })
-//
-//  post("/admin/plugins/console")(adminOnly {
-//    val script = request.getParameter("script")
-//    val result = plugin.JavaScriptPlugin.evaluateJavaScript(script)
-//    Ok(result)
-//  })
-
-  // TODO Move these methods to PluginSystem or Service?
-  private def deletePlugins(pluginIds: List[String]): Unit = {
-    pluginIds.foreach { pluginId =>
-      plugin.PluginSystem.uninstall(pluginId)
-      val dir = new java.io.File(PluginHome, pluginId)
-      if(dir.exists && dir.isDirectory){
-        FileUtils.deleteQuietly(dir)
-        PluginSystem.uninstall(pluginId)
-      }
-    }
-  }
-
-  private def installPlugins(pluginIds: List[String]): Unit = {
-    val dir = getPluginCacheDir()
-    val installedPlugins = plugin.PluginSystem.plugins
-    getAvailablePlugins(installedPlugins).filter(x => pluginIds.contains(x.id)).foreach { plugin =>
-      val pluginDir = new java.io.File(PluginHome, plugin.id)
-      if(!pluginDir.exists){
-        FileUtils.copyDirectory(new java.io.File(dir, plugin.repository + "/" + plugin.id), pluginDir)
-      }
-      PluginSystem.installPlugin(plugin.id)
-    }
-  }
-
-  private def getAvailablePlugins(installedPlugins: List[Plugin]): List[SystemSettingsControllerBase.AvailablePlugin] = {
-    val repositoryRoot = getPluginCacheDir()
-
-    if(repositoryRoot.exists && repositoryRoot.isDirectory){
-      PluginSystem.repositories.flatMap { repo =>
-        val repoDir = new java.io.File(repositoryRoot, repo.id)
-        if(repoDir.exists && repoDir.isDirectory){
-          repoDir.listFiles.filter(d => d.isDirectory && !d.getName.startsWith(".")).map { plugin =>
-            val propertyFile = new java.io.File(plugin, "plugin.properties")
-            val properties = new java.util.Properties()
-            if(propertyFile.exists && propertyFile.isFile){
-              using(new FileInputStream(propertyFile)){ in =>
-                properties.load(in)
-              }
-            }
-            SystemSettingsControllerBase.AvailablePlugin(
-              repository  = repo.id,
-              id          = properties.getProperty("id"),
-              version     = properties.getProperty("version"),
-              author      = properties.getProperty("author"),
-              url         = properties.getProperty("url"),
-              description = properties.getProperty("description"),
-              status      = installedPlugins.find(_.id == properties.getProperty("id")) match {
-                case Some(x) if(PluginSystem.isUpdatable(x.version, properties.getProperty("version")))=> "updatable"
-                case Some(x) => "installed"
-                case None    => "available"
-              })
-          }
-        } else Nil
-      }
-    } else Nil
-  }
-}
-
-object SystemSettingsControllerBase {
-  case class AvailablePlugin(repository: String, id: String, version: String,
-                             author: String, url: String, description: String, status: String)
-}

src/main/scala/gitbucket/core/controller/AccountController.scala

@@ -1,19 +1,22 @@
-package app
+package gitbucket.core.controller
 
-import service._
+import gitbucket.core.account.html
-import util._
+import gitbucket.core.helper
-import util.StringUtil._
+import gitbucket.core.model.GroupMember
-import util.Directory._
+import gitbucket.core.util._
-import util.ControlUtil._
+import gitbucket.core.util.Implicits._
-import util.Implicits._
+import gitbucket.core.util.Directory._
-import ssh.SshUtil
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.StringUtil._
+import gitbucket.core.ssh.SshUtil
+import gitbucket.core.service._
 import jp.sf.amateras.scalatra.forms._
 import org.apache.commons.io.FileUtils
 import org.scalatra.i18n.Messages
 import org.eclipse.jgit.api.Git
 import org.eclipse.jgit.lib.{FileMode, Constants}
 import org.eclipse.jgit.dircache.DirCache
-import model.GroupMember
+
 
 class AccountController extends AccountControllerBase
   with AccountService with RepositoryService with ActivityService with WikiService with LabelsService with SshKeyService
@@ -88,6 +91,12 @@ trait AccountControllerBase extends AccountManagementControllerBase {
     "name"  -> trim(label("Repository name",  text(required)))
   )(ForkRepositoryForm.apply)
 
+  case class AccountForm(accountName: String)
+
+  val accountForm = mapping(
+    "account" -> trim(label("Group/User name", text(required, validAccountName)))
+  )(AccountForm.apply)
+
   /**
    * Displays user information.
    */
@@ -97,21 +106,21 @@ trait AccountControllerBase extends AccountManagementControllerBase {
       params.getOrElse("tab", "repositories") match {
         // Public Activity
         case "activity" =>
-          _root_.account.html.activity(account,
+          gitbucket.core.account.html.activity(account,
             if(account.isGroupAccount) Nil else getGroupsByUserName(userName),
             getActivitiesByUser(userName, true))
 
         // Members
         case "members" if(account.isGroupAccount) => {
           val members = getGroupMembers(account.userName)
-          _root_.account.html.members(account, members.map(_.userName),
+          gitbucket.core.account.html.members(account, members.map(_.userName),
             context.loginAccount.exists(x => members.exists { member => member.userName == x.userName && member.isManager }))
         }
 
         // Repositories
         case _ => {
           val members = getGroupMembers(account.userName)
-          _root_.account.html.repositories(account,
+          gitbucket.core.account.html.repositories(account,
             if(account.isGroupAccount) Nil else getGroupsByUserName(userName),
             getVisibleRepositories(context.loginAccount, context.baseUrl, Some(userName)),
             context.loginAccount.exists(x => members.exists { member => member.userName == x.userName && member.isManager }))
@@ -129,8 +138,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
   get("/:userName/_avatar"){
     val userName = params("userName")
     getAccountByUserName(userName).flatMap(_.image).map { image =>
-      contentType = FileUtil.getMimeType(image)
+      RawData(FileUtil.getMimeType(image), new java.io.File(getUserUploadDir(userName), image))
-      new java.io.File(getUserUploadDir(userName), image)
     } getOrElse {
       contentType = "image/png"
       Thread.currentThread.getContextClassLoader.getResourceAsStream("noimage.png")
@@ -140,7 +148,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
   get("/:userName/_edit")(oneselfOnly {
     val userName = params("userName")
     getAccountByUserName(userName).map { x =>
-      account.html.edit(x, flash.get("info"))
+      html.edit(x, flash.get("info"))
     } getOrElse NotFound
   })
 
@@ -184,7 +192,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
   get("/:userName/_ssh")(oneselfOnly {
     val userName = params("userName")
     getAccountByUserName(userName).map { x =>
-      account.html.ssh(x, getPublicKeys(x.userName))
+      html.ssh(x, getPublicKeys(x.userName))
     } getOrElse NotFound
   })
 
@@ -206,7 +214,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
       if(context.loginAccount.isDefined){
         redirect("/")
       } else {
-        account.html.register()
+        html.register()
       }
     } else NotFound
   }
@@ -220,7 +228,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
   }
 
   get("/groups/new")(usersOnly {
-    account.html.group(None, List(GroupMember("", context.loginAccount.get.userName, true)))
+    html.group(None, List(GroupMember("", context.loginAccount.get.userName, true)))
   })
 
   post("/groups/new", newGroupForm)(usersOnly { form =>
@@ -236,7 +244,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
 
   get("/:groupName/_editgroup")(managersOnly {
     defining(params("groupName")){ groupName =>
-      account.html.group(getAccountByUserName(groupName, true), getGroupMembers(groupName))
+      html.group(getAccountByUserName(groupName, true), getGroupMembers(groupName))
     }
   })
 
@@ -285,7 +293,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
    * Show the new repository form.
    */
   get("/new")(usersOnly {
-    account.html.newrepo(getGroupsByUserName(context.loginAccount.get.userName))
+    html.newrepo(getGroupsByUserName(context.loginAccount.get.userName), context.settings.isCreateRepoOptionPublic)
   })
 
   /**
@@ -335,7 +343,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
             builder.finish()
 
             JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter),
-              loginAccount.fullName, loginAccount.mailAddress, "Initial commit")
+              Constants.HEAD, loginAccount.fullName, loginAccount.mailAddress, "Initial commit")
           }
         }
 
@@ -354,11 +362,31 @@ trait AccountControllerBase extends AccountManagementControllerBase {
   get("/:owner/:repository/fork")(readableUsersOnly { repository =>
     val loginAccount   = context.loginAccount.get
     val loginUserName  = loginAccount.userName
+    val groups         = getGroupsByUserName(loginUserName)
+    groups match {
+      case _: List[String] =>
+        val managerPermissions = groups.map { group =>
+          val members = getGroupMembers(group)
+          context.loginAccount.exists(x => members.exists { member => member.userName == x.userName && member.isManager })
+        }
+        helper.html.forkrepository(
+          repository,
+          (groups zip managerPermissions).toMap
+        )
+      case _ => redirect(s"/${loginUserName}")
+    }
+  })
 
-    LockUtil.lock(s"${loginUserName}/${repository.name}"){
+  post("/:owner/:repository/fork", accountForm)(readableUsersOnly { (form, repository) =>
-      if(repository.owner == loginUserName || getRepository(loginAccount.userName, repository.name, baseUrl).isDefined){
+    val loginAccount  = context.loginAccount.get
+    val loginUserName = loginAccount.userName
+    val accountName   = form.accountName
+
+    LockUtil.lock(s"${accountName}/${repository.name}"){
+      if(getRepository(accountName, repository.name, baseUrl).isDefined ||
+          (accountName != loginUserName && !getGroupsByUserName(loginUserName).contains(accountName))){
         // redirect to the repository if repository already exists
-        redirect(s"/${loginUserName}/${repository.name}")
+        redirect(s"/${accountName}/${repository.name}")
       } else {
         // Insert to the database at first
         val originUserName = repository.repository.originUserName.getOrElse(repository.owner)
@@ -366,7 +394,7 @@ trait AccountControllerBase extends AccountManagementControllerBase {
 
         createRepository(
           repositoryName       = repository.name,
-          userName             = loginUserName,
+          userName             = accountName,
           description          = repository.repository.description,
           isPrivate            = repository.repository.isPrivate,
           originRepositoryName = Some(originRepositoryName),
@@ -376,22 +404,22 @@ trait AccountControllerBase extends AccountManagementControllerBase {
         )
 
         // Insert default labels
-        insertDefaultLabels(loginUserName, repository.name)
+        insertDefaultLabels(accountName, repository.name)
 
         // clone repository actually
         JGitUtil.cloneRepository(
           getRepositoryDir(repository.owner, repository.name),
-          getRepositoryDir(loginUserName, repository.name))
+          getRepositoryDir(accountName, repository.name))
 
         // Create Wiki repository
         JGitUtil.cloneRepository(
           getWikiRepositoryDir(repository.owner, repository.name),
-          getWikiRepositoryDir(loginUserName, repository.name))
+          getWikiRepositoryDir(accountName, repository.name))
 
         // Record activity
-        recordForkActivity(repository.owner, repository.name, loginUserName)
+        recordForkActivity(repository.owner, repository.name, loginUserName, accountName)
         // redirect to the repository
-        redirect(s"/${loginUserName}/${repository.name}")
+        redirect(s"/${accountName}/${repository.name}")
       }
     }
   })
@@ -431,4 +459,13 @@ trait AccountControllerBase extends AccountManagementControllerBase {
      case None => Some("Key is invalid.")
     }
   }
+
+  private def validAccountName: Constraint = new Constraint(){
+    override def validate(name: String, value: String, messages: Messages): Option[String] = {
+      getAccountByUserName(value) match {
+        case Some(_) => None
+        case None => Some("Invalid Group/User Account.")
+      }
+    }
+  }
 }

src/main/scala/gitbucket/core/controller/AnonymousAccessController.scala

@@ -0,0 +1,14 @@
+package gitbucket.core.controller
+
+class AnonymousAccessController extends AnonymousAccessControllerBase
+
+trait AnonymousAccessControllerBase extends ControllerBase {
+  get(!context.settings.allowAnonymousAccess, context.loginAccount.isEmpty) {
+    if(!context.currentPath.startsWith("/assets") && !context.currentPath.startsWith("/signin") &&
+      !context.currentPath.startsWith("/register")) {
+      Unauthorized()
+    } else {
+      pass()
+    }
+  }
+}

src/main/scala/gitbucket/core/controller/ControllerBase.scala

@@ -1,16 +1,16 @@
-package app
+package gitbucket.core.controller
 
-import _root_.util.Directory._
+import gitbucket.core.service.{AccountService, SystemSettingsService}
-import _root_.util.Implicits._
+import gitbucket.core.util._
-import _root_.util.ControlUtil._
+import gitbucket.core.util.Implicits._
-import _root_.util.{StringUtil, FileUtil, Validations, Keys}
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.Directory._
+import gitbucket.core.model.Account
 import org.scalatra._
 import org.scalatra.json._
 import org.json4s._
 import jp.sf.amateras.scalatra.forms._
 import org.apache.commons.io.FileUtils
-import model._
-import service.{SystemSettingsService, AccountService}
 import javax.servlet.http.{HttpServletResponse, HttpServletRequest}
 import javax.servlet.{FilterChain, ServletResponse, ServletRequest}
 import org.scalatra.i18n._
@@ -24,8 +24,9 @@ abstract class ControllerBase extends ScalatraFilter
 
   implicit val jsonFormats = DefaultFormats
 
-  // Don't set content type via Accept header.
+// TODO Scala 2.11
-  override def format(implicit request: HttpServletRequest) = ""
+//  // Don't set content type via Accept header.
+//  override def format(implicit request: HttpServletRequest) = ""
 
   override def doFilter(request: ServletRequest, response: ServletResponse, chain: FilterChain): Unit = try {
     val httpRequest  = request.asInstanceOf[HttpServletRequest]
@@ -103,10 +104,10 @@ abstract class ControllerBase extends ScalatraFilter
     if(request.hasAttribute(Keys.Request.Ajax)){
       org.scalatra.NotFound()
     } else {
-      org.scalatra.NotFound(html.error("Not Found"))
+      org.scalatra.NotFound(gitbucket.core.html.error("Not Found"))
     }
 
-  protected def Unauthorized()(implicit context: app.Context) =
+  protected def Unauthorized()(implicit context: Context) =
     if(request.hasAttribute(Keys.Request.Ajax)){
       org.scalatra.Unauthorized()
     } else {
@@ -125,12 +126,26 @@ abstract class ControllerBase extends ScalatraFilter
       }
     }
 
-  override def fullUrl(path: String, params: Iterable[(String, Any)] = Iterable.empty,
+  // TODO Scala 2.11
-                       includeContextPath: Boolean = true, includeServletPath: Boolean = true)
+  override def url(path: String, params: Iterable[(String, Any)] = Iterable.empty,
-                      (implicit request: HttpServletRequest, response: HttpServletResponse) =
+                   includeContextPath: Boolean = true, includeServletPath: Boolean = true,
+                   absolutize: Boolean = true, withSessionId: Boolean = true)
+                  (implicit request: HttpServletRequest, response: HttpServletResponse): String =
     if (path.startsWith("http")) path
-    else baseUrl + url(path, params, false, false, false)
+    else baseUrl + super.url(path, params, false, false, false)
 
+  /**
+   * Use this method to response the raw data against XSS.
+   */
+  protected def RawData[T](contentType: String, rawData: T): T = {
+    if(contentType.split(";").head.trim.toLowerCase.startsWith("text/html")){
+      this.contentType = "text/plain"
+    } else {
+      this.contentType = contentType
+    }
+    response.addHeader("X-Content-Type-Options", "nosniff")
+    rawData
+  }
 }
 
 /**

src/main/scala/gitbucket/core/controller/DashboardController.scala

@@ -0,0 +1,138 @@
+package gitbucket.core.controller
+
+import gitbucket.core.dashboard.html
+import gitbucket.core.service.{RepositoryService, PullRequestService, AccountService, IssuesService}
+import gitbucket.core.util.{StringUtil, Keys, UsersAuthenticator}
+import gitbucket.core.util.Implicits._
+import gitbucket.core.service.IssuesService._
+
+class DashboardController extends DashboardControllerBase
+  with IssuesService with PullRequestService with RepositoryService with AccountService
+  with UsersAuthenticator
+
+trait DashboardControllerBase extends ControllerBase {
+  self: IssuesService with PullRequestService with RepositoryService with AccountService
+    with UsersAuthenticator =>
+
+  get("/dashboard/issues")(usersOnly {
+    val q = request.getParameter("q")
+    val account = context.loginAccount.get
+    Option(q).map { q =>
+      val condition = IssueSearchCondition(q, Map[String, Int]())
+      q match {
+        case q if(q.contains("is:pr")) => redirect(s"/dashboard/pulls?q=${StringUtil.urlEncode(q)}")
+        case q if(q.contains(s"author:${account.userName}")) => redirect(s"/dashboard/issues/created_by${condition.toURL}")
+        case q if(q.contains(s"assignee:${account.userName}")) => redirect(s"/dashboard/issues/assigned${condition.toURL}")
+        case q if(q.contains(s"mentions:${account.userName}")) => redirect(s"/dashboard/issues/mentioned${condition.toURL}")
+        case _ => searchIssues("created_by")
+      }
+    } getOrElse {
+      searchIssues("created_by")
+    }
+  })
+
+  get("/dashboard/issues/assigned")(usersOnly {
+    searchIssues("assigned")
+  })
+
+  get("/dashboard/issues/created_by")(usersOnly {
+    searchIssues("created_by")
+  })
+
+  get("/dashboard/issues/mentioned")(usersOnly {
+    searchIssues("mentioned")
+  })
+
+  get("/dashboard/pulls")(usersOnly {
+    val q = request.getParameter("q")
+    val account = context.loginAccount.get
+    Option(q).map { q =>
+      val condition = IssueSearchCondition(q, Map[String, Int]())
+      q match {
+        case q if(q.contains("is:issue")) => redirect(s"/dashboard/issues?q=${StringUtil.urlEncode(q)}")
+        case q if(q.contains(s"author:${account.userName}")) => redirect(s"/dashboard/pulls/created_by${condition.toURL}")
+        case q if(q.contains(s"assignee:${account.userName}")) => redirect(s"/dashboard/pulls/assigned${condition.toURL}")
+        case q if(q.contains(s"mentions:${account.userName}")) => redirect(s"/dashboard/pulls/mentioned${condition.toURL}")
+        case _ => searchPullRequests("created_by")
+      }
+    } getOrElse {
+      searchPullRequests("created_by")
+    }
+  })
+
+  get("/dashboard/pulls/created_by")(usersOnly {
+    searchPullRequests("created_by")
+  })
+
+  get("/dashboard/pulls/assigned")(usersOnly {
+    searchPullRequests("assigned")
+  })
+
+  get("/dashboard/pulls/mentioned")(usersOnly {
+    searchPullRequests("mentioned")
+  })
+
+  private def getOrCreateCondition(key: String, filter: String, userName: String) = {
+    val condition = session.putAndGet(key, if(request.hasQueryString){
+      val q = request.getParameter("q")
+      if(q == null){
+        IssueSearchCondition(request)
+      } else {
+        IssueSearchCondition(q, Map[String, Int]())
+      }
+    } else session.getAs[IssueSearchCondition](key).getOrElse(IssueSearchCondition()))
+
+    filter match {
+      case "assigned"  => condition.copy(assigned = Some(userName), author = None          , mentioned = None)
+      case "mentioned" => condition.copy(assigned = None          , author = None          , mentioned = Some(userName))
+      case _           => condition.copy(assigned = None          , author = Some(userName), mentioned = None)
+    }
+  }
+
+  private def searchIssues(filter: String) = {
+    import IssuesService._
+
+    val userName  = context.loginAccount.get.userName
+    val condition = getOrCreateCondition(Keys.Session.DashboardIssues, filter, userName)
+    val userRepos = getUserRepositories(userName, context.baseUrl, true).map(repo => repo.owner -> repo.name)
+    val page      = IssueSearchCondition.page(request)
+
+    html.issues(
+      searchIssue(condition, false, (page - 1) * IssueLimit, IssueLimit, userRepos: _*),
+      page,
+      countIssue(condition.copy(state = "open"  ), false, userRepos: _*),
+      countIssue(condition.copy(state = "closed"), false, userRepos: _*),
+      filter match {
+        case "assigned"  => condition.copy(assigned  = Some(userName))
+        case "mentioned" => condition.copy(mentioned = Some(userName))
+        case _           => condition.copy(author    = Some(userName))
+      },
+      filter,
+      getGroupNames(userName))
+  }
+
+  private def searchPullRequests(filter: String) = {
+    import IssuesService._
+    import PullRequestService._
+
+    val userName  = context.loginAccount.get.userName
+    val condition = getOrCreateCondition(Keys.Session.DashboardPulls, filter, userName)
+    val allRepos  = getAllRepositories(userName)
+    val page      = IssueSearchCondition.page(request)
+
+    html.pulls(
+      searchIssue(condition, true, (page - 1) * PullRequestLimit, PullRequestLimit, allRepos: _*),
+      page,
+      countIssue(condition.copy(state = "open"  ), true, allRepos: _*),
+      countIssue(condition.copy(state = "closed"), true, allRepos: _*),
+      filter match {
+        case "assigned"  => condition.copy(assigned  = Some(userName))
+        case "mentioned" => condition.copy(mentioned = Some(userName))
+        case _           => condition.copy(author    = Some(userName))
+      },
+      filter,
+      getGroupNames(userName))
+  }
+
+
+}

src/main/scala/gitbucket/core/controller/FileUploadController.scala

@@ -1,8 +1,8 @@
-package app
+package gitbucket.core.controller
 
-import util.{Keys, FileUtil}
+import gitbucket.core.util.{Keys, FileUtil}
-import util.ControlUtil._
+import gitbucket.core.util.ControlUtil._
-import util.Directory._
+import gitbucket.core.util.Directory._
 import org.scalatra._
 import org.scalatra.servlet.{MultipartConfig, FileUploadSupport, FileItem}
 import org.apache.commons.io.FileUtils

src/main/scala/gitbucket/core/controller/IndexController.scala

@@ -1,8 +1,11 @@
-package app
+package gitbucket.core.controller
 
-import util._
+import gitbucket.core.html
-import util.Implicits._
+import gitbucket.core.helper.xml
-import service._
+import gitbucket.core.model.Account
+import gitbucket.core.service.{RepositoryService, ActivityService, AccountService}
+import gitbucket.core.util.{LDAPUtil, Keys, UsersAuthenticator}
+import gitbucket.core.util.Implicits._
 import jp.sf.amateras.scalatra.forms._
 
 class IndexController extends IndexControllerBase 
@@ -20,11 +23,23 @@ trait IndexControllerBase extends ControllerBase {
 
   get("/"){
     val loginAccount = context.loginAccount
+    if(loginAccount.isEmpty) {
+        html.index(getRecentActivities(),
+            getVisibleRepositories(loginAccount, context.baseUrl, withoutPhysicalInfo = true),
+            loginAccount.map{ account => getUserRepositories(account.userName, context.baseUrl, withoutPhysicalInfo = true) }.getOrElse(Nil)
+        )
+    } else {
+        val loginUserName = loginAccount.get.userName
+        val loginUserGroups = getGroupsByUserName(loginUserName)
+        var visibleOwnerSet : Set[String] = Set(loginUserName)
+        
+        visibleOwnerSet ++= loginUserGroups
 
-    html.index(getRecentActivities(),
+        html.index(getRecentActivitiesByOwners(visibleOwnerSet),
-      getVisibleRepositories(loginAccount, context.baseUrl, withoutPhysicalInfo = true),
+            getVisibleRepositories(loginAccount, context.baseUrl, withoutPhysicalInfo = true),
-      loginAccount.map{ account => getUserRepositories(account.userName, context.baseUrl, withoutPhysicalInfo = true) }.getOrElse(Nil)
+            loginAccount.map{ account => getUserRepositories(account.userName, context.baseUrl, withoutPhysicalInfo = true) }.getOrElse(Nil) 
-    )
+        )
+    }
   }
 
   get("/signin"){
@@ -49,16 +64,20 @@ trait IndexControllerBase extends ControllerBase {
 
   get("/activities.atom"){
     contentType = "application/atom+xml; type=feed"
-    helper.xml.feed(getRecentActivities())
+    xml.feed(getRecentActivities())
   }
 
   /**
    * Set account information into HttpSession and redirect.
    */
-  private def signin(account: model.Account) = {
+  private def signin(account: Account) = {
     session.setAttribute(Keys.Session.LoginAccount, account)
     updateLastLoginDate(account.userName)
 
+    if(LDAPUtil.isDummyMailAddress(account)) {
+      redirect("/" + account.userName + "/_edit")
+    }
+
     flash.get(Keys.Flash.Redirect).asInstanceOf[Option[String]].map { redirectUrl =>
       if(redirectUrl.stripSuffix("/") == request.getContextPath){
         redirect("/")
@@ -72,8 +91,6 @@ trait IndexControllerBase extends ControllerBase {
 
   /**
    * JSON API for collaborator completion.
-   *
-   * TODO Move to other controller?
    */
   get("/_user/proposals")(usersOnly {
     contentType = formats("json")
@@ -82,5 +99,11 @@ trait IndexControllerBase extends ControllerBase {
     )
   })
 
+  /**
+   * JSON APU for checking user existence.
+   */
+  post("/_user/existence")(usersOnly {
+    getAccountByUserName(params("userName")).isDefined
+  })
 
 }

src/main/scala/gitbucket/core/controller/IssuesController.scala

@@ -1,14 +1,17 @@
-package app
+package gitbucket.core.controller
 
+import gitbucket.core.issues.html
+import gitbucket.core.model.Issue
+import gitbucket.core.service._
+import gitbucket.core.util._
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.view
+import gitbucket.core.view.Markdown
 import jp.sf.amateras.scalatra.forms._
 
-import service._
 import IssuesService._
-import util._
-import util.Implicits._
-import util.ControlUtil._
 import org.scalatra.Ok
-import model.Issue
 
 class IssuesController extends IssuesControllerBase
   with IssuesService with RepositoryService with AccountService with LabelsService with MilestonesService with ActivityService
@@ -20,7 +23,6 @@ trait IssuesControllerBase extends ControllerBase {
 
   case class IssueCreateForm(title: String, content: Option[String],
     assignedUserName: Option[String], milestoneId: Option[Int], labelNames: Option[String])
-  case class IssueEditForm(title: String, content: Option[String])
   case class CommentForm(issueId: Int, content: String)
   case class IssueStateForm(issueId: Int, content: Option[String])
 
@@ -32,10 +34,12 @@ trait IssuesControllerBase extends ControllerBase {
       "labelNames"       -> trim(optional(text()))
     )(IssueCreateForm.apply)
 
+  val issueTitleEditForm = mapping(
+    "title" -> trim(label("Title", text(required)))
+    )(x => x)
   val issueEditForm = mapping(
-      "title"   -> trim(label("Title", text(required))),
+    "content" -> trim(optional(text()))
-      "content" -> trim(optional(text()))
+    )(x => x)
-    )(IssueEditForm.apply)
 
   val commentForm = mapping(
       "issueId" -> label("Issue Id", number()),
@@ -47,22 +51,19 @@ trait IssuesControllerBase extends ControllerBase {
       "content" -> trim(optional(text()))
     )(IssueStateForm.apply)
 
-  get("/:owner/:repository/issues")(referrersOnly {
+  get("/:owner/:repository/issues")(referrersOnly { repository =>
-    searchIssues("all", _)
+    val q = request.getParameter("q")
-  })
+    if(Option(q).exists(_.contains("is:pr"))){
-
+      redirect(s"/${repository.owner}/${repository.name}/pulls?q=" + StringUtil.urlEncode(q))
-  get("/:owner/:repository/issues/assigned/:userName")(referrersOnly {
+    } else {
-    searchIssues("assigned", _)
+      searchIssues(repository)
-  })
+    }
-
-  get("/:owner/:repository/issues/created_by/:userName")(referrersOnly {
-    searchIssues("created_by", _)
   })
 
   get("/:owner/:repository/issues/:id")(referrersOnly { repository =>
     defining(repository.owner, repository.name, params("id")){ case (owner, name, issueId) =>
       getIssue(owner, name, issueId) map {
-        issues.html.issue(
+        html.issue(
           _,
           getComments(owner, name, issueId.toInt),
           getIssueLabels(owner, name, issueId.toInt),
@@ -77,7 +78,7 @@ trait IssuesControllerBase extends ControllerBase {
 
   get("/:owner/:repository/issues/new")(readableUsersOnly { repository =>
     defining(repository.owner, repository.name){ case (owner, name) =>
-      issues.html.create(
+      html.create(
         (getCollaborators(owner, name) ::: (if(getAccountByUserName(owner).get.isGroupAccount) Nil else List(owner))).sorted,
           getMilestones(owner, name),
           getLabels(owner, name),
@@ -125,14 +126,29 @@ trait IssuesControllerBase extends ControllerBase {
     }
   })
 
-  ajaxPost("/:owner/:repository/issues/edit/:id", issueEditForm)(readableUsersOnly { (form, repository) =>
+  ajaxPost("/:owner/:repository/issues/edit_title/:id", issueTitleEditForm)(readableUsersOnly { (title, repository) =>
     defining(repository.owner, repository.name){ case (owner, name) =>
       getIssue(owner, name, params("id")).map { issue =>
         if(isEditable(owner, name, issue.openedUserName)){
           // update issue
-          updateIssue(owner, name, issue.issueId, form.title, form.content)
+          updateIssue(owner, name, issue.issueId, title, issue.content)
           // extract references and create refer comment
-          createReferComment(owner, name, issue, form.title + " " + form.content.getOrElse(""))
+          createReferComment(owner, name, issue.copy(title = title), title)
+
+          redirect(s"/${owner}/${name}/issues/_data/${issue.issueId}")
+        } else Unauthorized
+      } getOrElse NotFound
+    }
+  })
+
+  ajaxPost("/:owner/:repository/issues/edit/:id", issueEditForm)(readableUsersOnly { (content, repository) =>
+    defining(repository.owner, repository.name){ case (owner, name) =>
+      getIssue(owner, name, params("id")).map { issue =>
+        if(isEditable(owner, name, issue.openedUserName)){
+          // update issue
+          updateIssue(owner, name, issue.issueId, issue.title, content)
+          // extract references and create refer comment
+          createReferComment(owner, name, issue, content.getOrElse(""))
 
           redirect(s"/${owner}/${name}/issues/_data/${issue.issueId}")
         } else Unauthorized
@@ -179,14 +195,14 @@ trait IssuesControllerBase extends ControllerBase {
     getIssue(repository.owner, repository.name, params("id")) map { x =>
       if(isEditable(x.userName, x.repositoryName, x.openedUserName)){
         params.get("dataType") collect {
-          case t if t == "html" => issues.html.editissue(
+          case t if t == "html" => html.editissue(
-              x.title, x.content, x.issueId, x.userName, x.repositoryName)
+              x.content, x.issueId, x.userName, x.repositoryName)
         } getOrElse {
           contentType = formats("json")
           org.json4s.jackson.Serialization.write(
               Map("title"   -> x.title,
-                  "content" -> view.Markdown.toHtml(x.content getOrElse "No description given.",
+                  "content" -> Markdown.toHtml(x.content getOrElse "No description given.",
-                      repository, false, true)
+                      repository, false, true, true, isEditable(x.userName, x.repositoryName, x.openedUserName))
               ))
         }
       } else Unauthorized
@@ -197,13 +213,13 @@ trait IssuesControllerBase extends ControllerBase {
     getComment(repository.owner, repository.name, params("id")) map { x =>
       if(isEditable(x.userName, x.repositoryName, x.commentedUserName)){
         params.get("dataType") collect {
-          case t if t == "html" => issues.html.editcomment(
+          case t if t == "html" => html.editcomment(
               x.content, x.commentId, x.userName, x.repositoryName)
         } getOrElse {
           contentType = formats("json")
           org.json4s.jackson.Serialization.write(
               Map("content" -> view.Markdown.toHtml(x.content,
-                  repository, false, true)
+                  repository, false, true, true, isEditable(x.userName, x.repositoryName, x.commentedUserName))
               ))
         }
       } else Unauthorized
@@ -213,14 +229,14 @@ trait IssuesControllerBase extends ControllerBase {
   ajaxPost("/:owner/:repository/issues/:id/label/new")(collaboratorsOnly { repository =>
     defining(params("id").toInt){ issueId =>
       registerIssueLabel(repository.owner, repository.name, issueId, params("labelId").toInt)
-      issues.html.labellist(getIssueLabels(repository.owner, repository.name, issueId))
+      html.labellist(getIssueLabels(repository.owner, repository.name, issueId))
     }
   })
 
   ajaxPost("/:owner/:repository/issues/:id/label/delete")(collaboratorsOnly { repository =>
     defining(params("id").toInt){ issueId =>
       deleteIssueLabel(repository.owner, repository.name, issueId, params("labelId").toInt)
-      issues.html.labellist(getIssueLabels(repository.owner, repository.name, issueId))
+      html.labellist(getIssueLabels(repository.owner, repository.name, issueId))
     }
   })
 
@@ -234,15 +250,17 @@ trait IssuesControllerBase extends ControllerBase {
     milestoneId("milestoneId").map { milestoneId =>
       getMilestonesWithIssueCount(repository.owner, repository.name)
           .find(_._1.milestoneId == milestoneId).map { case (_, openCount, closeCount) =>
-        issues.milestones.html.progress(openCount + closeCount, closeCount, false)
+        gitbucket.core.issues.milestones.html.progress(openCount + closeCount, closeCount)
       } getOrElse NotFound
     } getOrElse Ok()
   })
 
   post("/:owner/:repository/issues/batchedit/state")(collaboratorsOnly { repository =>
     defining(params.get("value")){ action =>
-      executeBatch(repository) {
+      action match {
-        handleComment(_, None, repository)( _ => action)
+        case Some("open")  => executeBatch(repository) { handleComment(_, None, repository)( _ => Some("reopen")) }
+        case Some("close") => executeBatch(repository) { handleComment(_, None, repository)( _ => Some("close"))  }
+        case _ => // TODO BadRequest
       }
     }
   })
@@ -277,8 +295,7 @@ trait IssuesControllerBase extends ControllerBase {
     (Directory.getAttachedDir(repository.owner, repository.name) match {
       case dir if(dir.exists && dir.isDirectory) =>
         dir.listFiles.find(_.getName.startsWith(params("file") + ".")).map { file =>
-          contentType = FileUtil.getMimeType(file.getName)
+          RawData(FileUtil.getMimeType(file.getName), file)
-          file
         }
       case _ => None
     }) getOrElse NotFound
@@ -287,12 +304,15 @@ trait IssuesControllerBase extends ControllerBase {
   val assignedUserName = (key: String) => params.get(key) filter (_.trim != "")
   val milestoneId: String => Option[Int] = (key: String) => params.get(key).flatMap(_.toIntOpt)
 
-  private def isEditable(owner: String, repository: String, author: String)(implicit context: app.Context): Boolean =
+  private def isEditable(owner: String, repository: String, author: String)(implicit context: Context): Boolean =
     hasWritePermission(owner, repository, context.loginAccount) || author == context.loginAccount.get.userName
 
   private def executeBatch(repository: RepositoryService.RepositoryInfo)(execute: Int => Unit) = {
     params("checked").split(',') map(_.toInt) foreach execute
-    redirect(s"/${repository.owner}/${repository.name}/issues")
+    params("from") match {
+      case "issues" => redirect(s"/${repository.owner}/${repository.name}/issues")
+      case "pulls"  => redirect(s"/${repository.owner}/${repository.name}/pulls")
+    }
   }
 
   private def createReferComment(owner: String, repository: String, fromIssue: Issue, message: String) = {
@@ -308,35 +328,34 @@ trait IssuesControllerBase extends ControllerBase {
    * @see [[https://github.com/takezoe/gitbucket/wiki/CommentAction]]
    */
   private def handleComment(issueId: Int, content: Option[String], repository: RepositoryService.RepositoryInfo)
-      (getAction: model.Issue => Option[String] =
+      (getAction: Issue => Option[String] =
            p1 => params.get("action").filter(_ => isEditable(p1.userName, p1.repositoryName, p1.openedUserName))) = {
 
     defining(repository.owner, repository.name){ case (owner, name) =>
       val userName = context.loginAccount.get.userName
 
-      getIssue(owner, name, issueId.toString) map { issue =>
+      getIssue(owner, name, issueId.toString) flatMap { issue =>
         val (action, recordActivity) =
           getAction(issue)
             .collect {
-            case "close"  => true  -> (Some("close")  ->
+              case "close" if(!issue.closed) => true  ->
-              Some(if(issue.isPullRequest) recordClosePullRequestActivity _ else recordCloseIssueActivity _))
+                (Some("close")  -> Some(if(issue.isPullRequest) recordClosePullRequestActivity _ else recordCloseIssueActivity _))
-            case "reopen" => false -> (Some("reopen") ->
+              case "reopen" if(issue.closed) => false ->
-              Some(recordReopenIssueActivity _))
+                (Some("reopen") -> Some(recordReopenIssueActivity _))
-          }
+            }
             .map { case (closed, t) =>
-            updateClosed(owner, name, issueId, closed)
+              updateClosed(owner, name, issueId, closed)
-            t
+              t
-          }
+            }
             .getOrElse(None -> None)
 
-        val commentId = content
+        val commentId = (content, action) match {
-          .map       ( _ -> action.map( _ + "_comment" ).getOrElse("comment") )
+          case (None, None) => None
-          .getOrElse ( action.get.capitalize -> action.get )
+          case (None, Some(action)) => Some(createComment(owner, name, userName, issueId, action.capitalize, action))
-        match {
+          case (Some(content), _) => Some(createComment(owner, name, userName, issueId, content, action.map(_+ "_comment").getOrElse("comment")))
-          case (content, action) => createComment(owner, name, userName, issueId, content, action)
         }
 
-        // record activity
+        // record comment activity if comment is entered
         content foreach {
           (if(issue.isPullRequest) recordCommentPullRequestActivity _ else recordCommentIssueActivity _)
           (owner, name, userName, issueId, _)
@@ -354,7 +373,7 @@ trait IssuesControllerBase extends ControllerBase {
             content foreach {
               f.toNotify(repository, issueId, _){
                 Notifier.msgComment(s"${context.baseUrl}/${owner}/${name}/${
-                  if(issue.isPullRequest) "pull" else "issues"}/${issueId}#comment-${commentId}")
+                  if(issue.isPullRequest) "pull" else "issues"}/${issueId}#comment-${commentId.get}")
               }
             }
             action foreach {
@@ -364,37 +383,38 @@ trait IssuesControllerBase extends ControllerBase {
             }
         }
 
-        issue -> commentId
+        commentId.map( issue -> _ )
       }
     }
   }
 
-  private def searchIssues(filter: String, repository: RepositoryService.RepositoryInfo) = {
+  private def searchIssues(repository: RepositoryService.RepositoryInfo) = {
     defining(repository.owner, repository.name){ case (owner, repoName) =>
-      val filterUser = Map(filter -> params.getOrElse("userName", ""))
       val page       = IssueSearchCondition.page(request)
       val sessionKey = Keys.Session.Issues(owner, repoName)
 
       // retrieve search condition
       val condition = session.putAndGet(sessionKey,
-        if(request.hasQueryString) IssueSearchCondition(request)
+        if(request.hasQueryString){
-        else session.getAs[IssueSearchCondition](sessionKey).getOrElse(IssueSearchCondition())
+          val q = request.getParameter("q")
+          if(q == null || q.trim.isEmpty){
+            IssueSearchCondition(request)
+          } else {
+            IssueSearchCondition(q, getMilestones(owner, repoName).map(x => (x.title, x.milestoneId)).toMap)
+          }
+        } else session.getAs[IssueSearchCondition](sessionKey).getOrElse(IssueSearchCondition())
       )
 
-      issues.html.list(
+      html.list(
-          searchIssue(condition, filterUser, false, (page - 1) * IssueLimit, IssueLimit, owner -> repoName),
+          "issues",
+          searchIssue(condition, false, (page - 1) * IssueLimit, IssueLimit, owner -> repoName),
           page,
           (getCollaborators(owner, repoName) :+ owner).sorted,
           getMilestones(owner, repoName),
           getLabels(owner, repoName),
-          countIssue(condition.copy(state = "open"), filterUser, false, owner -> repoName),
+          countIssue(condition.copy(state = "open"  ), false, owner -> repoName),
-          countIssue(condition.copy(state = "closed"), filterUser, false, owner -> repoName),
+          countIssue(condition.copy(state = "closed"), false, owner -> repoName),
-          countIssue(condition, Map.empty, false, owner -> repoName),
-          context.loginAccount.map(x => countIssue(condition, Map("assigned" -> x.userName), false, owner -> repoName)),
-          context.loginAccount.map(x => countIssue(condition, Map("created_by" -> x.userName), false, owner -> repoName)),
-          countIssueGroupByLabels(owner, repoName, condition, filterUser),
           condition,
-          filter,
           repository,
           hasWritePermission(owner, repoName, context.loginAccount))
     }

src/main/scala/gitbucket/core/controller/LabelsController.scala

@@ -0,0 +1,83 @@
+package gitbucket.core.controller
+
+import gitbucket.core.issues.labels.html
+import gitbucket.core.service.{RepositoryService, AccountService, IssuesService, LabelsService}
+import gitbucket.core.util.{ReferrerAuthenticator, CollaboratorsAuthenticator}
+import gitbucket.core.util.Implicits._
+import jp.sf.amateras.scalatra.forms._
+import org.scalatra.i18n.Messages
+import org.scalatra.Ok
+
+class LabelsController extends LabelsControllerBase
+  with LabelsService with IssuesService with RepositoryService with AccountService
+with ReferrerAuthenticator with CollaboratorsAuthenticator
+
+trait LabelsControllerBase extends ControllerBase {
+  self: LabelsService with IssuesService with RepositoryService
+    with ReferrerAuthenticator with CollaboratorsAuthenticator =>
+
+  case class LabelForm(labelName: String, color: String)
+
+  val labelForm = mapping(
+    "labelName"  -> trim(label("Label name", text(required, labelName, maxlength(100)))),
+    "labelColor" -> trim(label("Color",      text(required, color)))
+  )(LabelForm.apply)
+
+  get("/:owner/:repository/issues/labels")(referrersOnly { repository =>
+    html.list(
+      getLabels(repository.owner, repository.name),
+      countIssueGroupByLabels(repository.owner, repository.name, IssuesService.IssueSearchCondition(), Map.empty),
+      repository,
+      hasWritePermission(repository.owner, repository.name, context.loginAccount))
+  })
+
+  ajaxGet("/:owner/:repository/issues/labels/new")(collaboratorsOnly { repository =>
+    html.edit(None, repository)
+  })
+
+  ajaxPost("/:owner/:repository/issues/labels/new", labelForm)(collaboratorsOnly { (form, repository) =>
+    val labelId = createLabel(repository.owner, repository.name, form.labelName, form.color.substring(1))
+    html.label(
+      getLabel(repository.owner, repository.name, labelId).get,
+      // TODO futility
+      countIssueGroupByLabels(repository.owner, repository.name, IssuesService.IssueSearchCondition(), Map.empty),
+      repository,
+      hasWritePermission(repository.owner, repository.name, context.loginAccount))
+  })
+
+  ajaxGet("/:owner/:repository/issues/labels/:labelId/edit")(collaboratorsOnly { repository =>
+    getLabel(repository.owner, repository.name, params("labelId").toInt).map { label =>
+      html.edit(Some(label), repository)
+    } getOrElse NotFound()
+  })
+
+  ajaxPost("/:owner/:repository/issues/labels/:labelId/edit", labelForm)(collaboratorsOnly { (form, repository) =>
+    updateLabel(repository.owner, repository.name, params("labelId").toInt, form.labelName, form.color.substring(1))
+    html.label(
+      getLabel(repository.owner, repository.name, params("labelId").toInt).get,
+      // TODO futility
+      countIssueGroupByLabels(repository.owner, repository.name, IssuesService.IssueSearchCondition(), Map.empty),
+      repository,
+      hasWritePermission(repository.owner, repository.name, context.loginAccount))
+  })
+
+  ajaxPost("/:owner/:repository/issues/labels/:labelId/delete")(collaboratorsOnly { repository =>
+    deleteLabel(repository.owner, repository.name, params("labelId").toInt)
+    Ok()
+  })
+
+  /**
+   * Constraint for the identifier such as user name, repository name or page name.
+   */
+  private def labelName: Constraint = new Constraint(){
+    override def validate(name: String, value: String, messages: Messages): Option[String] =
+      if(value.contains(',')){
+        Some(s"${name} contains invalid character.")
+      } else if(value.startsWith("_") || value.startsWith("-")){
+        Some(s"${name} starts with invalid character.")
+      } else {
+        None
+      }
+  }
+
+}

src/main/scala/gitbucket/core/controller/MilestonesController.scala

@@ -1,11 +1,11 @@
-package app
+package gitbucket.core.controller
 
+import gitbucket.core.issues.milestones.html
+import gitbucket.core.service.{RepositoryService, MilestonesService, AccountService}
+import gitbucket.core.util.{ReferrerAuthenticator, CollaboratorsAuthenticator}
+import gitbucket.core.util.Implicits._
 import jp.sf.amateras.scalatra.forms._
 
-import service._
-import util.{CollaboratorsAuthenticator, ReferrerAuthenticator}
-import util.Implicits._
-
 class MilestonesController extends MilestonesControllerBase
   with MilestonesService with RepositoryService with AccountService
   with ReferrerAuthenticator with CollaboratorsAuthenticator
@@ -23,7 +23,7 @@ trait MilestonesControllerBase extends ControllerBase {
   )(MilestoneForm.apply)
 
   get("/:owner/:repository/issues/milestones")(referrersOnly { repository =>
-    issues.milestones.html.list(
+    html.list(
       params.getOrElse("state", "open"),
       getMilestonesWithIssueCount(repository.owner, repository.name),
       repository,
@@ -31,7 +31,7 @@ trait MilestonesControllerBase extends ControllerBase {
   })
 
   get("/:owner/:repository/issues/milestones/new")(collaboratorsOnly {
-    issues.milestones.html.edit(None, _)
+    html.edit(None, _)
   })
 
   post("/:owner/:repository/issues/milestones/new", milestoneForm)(collaboratorsOnly { (form, repository) =>
@@ -41,7 +41,7 @@ trait MilestonesControllerBase extends ControllerBase {
 
   get("/:owner/:repository/issues/milestones/:milestoneId/edit")(collaboratorsOnly { repository =>
     params("milestoneId").toIntOpt.map{ milestoneId =>
-      issues.milestones.html.edit(getMilestone(repository.owner, repository.name, milestoneId), repository)
+      html.edit(getMilestone(repository.owner, repository.name, milestoneId), repository)
     } getOrElse NotFound
   })
 

src/main/scala/gitbucket/core/controller/PullRequestsController.scala

@@ -1,31 +1,34 @@
-package app
+package gitbucket.core.controller
 
-import util.{LockUtil, CollaboratorsAuthenticator, JGitUtil, ReferrerAuthenticator, Notifier, Keys}
+import gitbucket.core.pulls.html
-import util.Directory._
+import gitbucket.core.util._
-import util.Implicits._
+import gitbucket.core.util.JGitUtil._
-import util.ControlUtil._
+import gitbucket.core.util.ControlUtil._
-import service._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.util.Directory._
+import gitbucket.core.view
+import gitbucket.core.view.helpers
 import org.eclipse.jgit.api.Git
 import jp.sf.amateras.scalatra.forms._
 import org.eclipse.jgit.transport.RefSpec
 import scala.collection.JavaConverters._
 import org.eclipse.jgit.lib.{ObjectId, CommitBuilder, PersonIdent}
-import service.IssuesService._
+import gitbucket.core.service._
-import service.PullRequestService._
+import gitbucket.core.service.IssuesService._
-import util.JGitUtil.DiffInfo
+import gitbucket.core.service.PullRequestService._
-import util.JGitUtil.CommitInfo
+import gitbucket.core.service.WebHookService.WebHookPayload
 import org.slf4j.LoggerFactory
 import org.eclipse.jgit.merge.MergeStrategy
 import org.eclipse.jgit.errors.NoMergeBaseException
-import service.WebHookService.WebHookPayload
+
 
 class PullRequestsController extends PullRequestsControllerBase
   with RepositoryService with AccountService with IssuesService with PullRequestService with MilestonesService with LabelsService
-  with ActivityService with WebHookService with ReferrerAuthenticator with CollaboratorsAuthenticator
+  with CommitsService with ActivityService with WebHookService with ReferrerAuthenticator with CollaboratorsAuthenticator
 
 trait PullRequestsControllerBase extends ControllerBase {
   self: RepositoryService with AccountService with IssuesService with MilestonesService with LabelsService
-    with ActivityService with PullRequestService with WebHookService with ReferrerAuthenticator with CollaboratorsAuthenticator =>
+    with CommitsService with ActivityService with PullRequestService with WebHookService with ReferrerAuthenticator with CollaboratorsAuthenticator =>
 
   private val logger = LoggerFactory.getLogger(classOf[PullRequestsControllerBase])
 
@@ -59,11 +62,12 @@ trait PullRequestsControllerBase extends ControllerBase {
   case class MergeForm(message: String)
 
   get("/:owner/:repository/pulls")(referrersOnly { repository =>
-    searchPullRequests(None, repository)
+    val q = request.getParameter("q")
-  })
+    if(Option(q).exists(_.contains("is:issue"))){
-
+      redirect(s"/${repository.owner}/${repository.name}/issues?q=" + StringUtil.urlEncode(q))
-  get("/:owner/:repository/pulls/:userName")(referrersOnly { repository =>
+    } else {
-    searchPullRequests(Some(params("userName")), repository)
+      searchPullRequests(None, repository)
+    }
   })
 
   get("/:owner/:repository/pull/:id")(referrersOnly { repository =>
@@ -75,9 +79,10 @@ trait PullRequestsControllerBase extends ControllerBase {
           val (commits, diffs) =
             getRequestCompareInfo(owner, name, pullreq.commitIdFrom, owner, name, pullreq.commitIdTo)
 
-          pulls.html.pullreq(
+          html.pullreq(
             issue, pullreq,
-            getComments(owner, name, issueId),
+            (commits.flatten.map(commit => getCommitComments(owner, name, commit.id, true)).flatten.toList ::: getComments(owner, name, issueId))
+              .sortWith((a, b) => a.registeredDate before b.registeredDate),
             getIssueLabels(owner, name, issueId),
             (getCollaborators(owner, name) ::: (if(getAccountByUserName(owner).get.isGroupAccount) Nil else List(owner))).sorted,
             getMilestonesWithIssueCount(owner, name),
@@ -96,7 +101,7 @@ trait PullRequestsControllerBase extends ControllerBase {
       val owner = repository.owner
       val name  = repository.name
       getPullRequest(owner, name, issueId) map { case(issue, pullreq) =>
-        pulls.html.mergeguide(
+        html.mergeguide(
           checkConflictInPullRequest(owner, name, pullreq.branch, pullreq.requestUserName, name, pullreq.requestBranch, issueId),
           pullreq,
           s"${context.baseUrl}/git/${pullreq.requestUserName}/${pullreq.requestRepositoryName}.git")
@@ -156,7 +161,7 @@ trait PullRequestsControllerBase extends ControllerBase {
             val personIdent = new PersonIdent(loginAccount.fullName, loginAccount.mailAddress)
             mergeCommit.setAuthor(personIdent)
             mergeCommit.setCommitter(personIdent)
-            mergeCommit.setMessage(s"Merge pull request #${issueId} from ${pullreq.requestUserName}/${pullreq.requestRepositoryName}\n\n" +
+            mergeCommit.setMessage(s"Merge pull request #${issueId} from ${pullreq.requestUserName}/${pullreq.requestBranch}\n\n" +
                                    form.message)
 
             // insertObject and got mergeCommit Object Id
@@ -239,8 +244,8 @@ trait PullRequestsControllerBase extends ControllerBase {
 
   get("/:owner/:repository/compare/*...*")(referrersOnly { forkedRepository =>
     val Seq(origin, forked) = multiParams("splat")
-    val (originOwner, tmpOriginBranch) = parseCompareIdentifie(origin, forkedRepository.owner)
+    val (originOwner, originId) = parseCompareIdentifie(origin, forkedRepository.owner)
-    val (forkedOwner, tmpForkedBranch) = parseCompareIdentifie(forked, forkedRepository.owner)
+    val (forkedOwner, forkedId) = parseCompareIdentifie(forked, forkedRepository.owner)
 
     (for(
       originRepositoryName <- if(originOwner == forkedOwner){
@@ -256,29 +261,33 @@ trait PullRequestsControllerBase extends ControllerBase {
         Git.open(getRepositoryDir(originRepository.owner, originRepository.name)),
         Git.open(getRepositoryDir(forkedRepository.owner, forkedRepository.name))
       ){ case (oldGit, newGit) =>
-        val originBranch = JGitUtil.getDefaultBranch(oldGit, originRepository, tmpOriginBranch).get._2
+        val (oldId, newId) =
-        val forkedBranch = JGitUtil.getDefaultBranch(newGit, forkedRepository, tmpForkedBranch).get._2
+          if(originRepository.branchList.contains(originId) && forkedRepository.branchList.contains(forkedId)){
+            // Branch name
+            val rootId = JGitUtil.getForkedCommitId(oldGit, newGit,
+              originRepository.owner, originRepository.name, originId,
+              forkedRepository.owner, forkedRepository.name, forkedId)
 
-        val forkedId = JGitUtil.getForkedCommitId(oldGit, newGit,
+            (oldGit.getRepository.resolve(rootId),  newGit.getRepository.resolve(forkedId))
-          originRepository.owner, originRepository.name, originBranch,
+          } else {
-          forkedRepository.owner, forkedRepository.name, forkedBranch)
+            // Commit id
-
+            (oldGit.getRepository.resolve(originId), newGit.getRepository.resolve(forkedId))
-        val oldId = oldGit.getRepository.resolve(forkedId)
+          }
-        val newId = newGit.getRepository.resolve(forkedBranch)
 
         val (commits, diffs) = getRequestCompareInfo(
           originRepository.owner, originRepository.name, oldId.getName,
           forkedRepository.owner, forkedRepository.name, newId.getName)
 
-        pulls.html.compare(
+        html.compare(
           commits,
           diffs,
           (forkedRepository.repository.originUserName, forkedRepository.repository.originRepositoryName) match {
             case (Some(userName), Some(repositoryName)) => (userName, repositoryName) :: getForkedRepositories(userName, repositoryName)
             case _ => (forkedRepository.owner, forkedRepository.name) :: getForkedRepositories(forkedRepository.owner, forkedRepository.name)
           },
-          originBranch,
+          commits.flatten.map(commit => getCommitComments(forkedRepository.owner, forkedRepository.name, commit.id, false)).flatten.toList,
-          forkedBranch,
+          originId,
+          forkedId,
           oldId.getName,
           newId.getName,
           forkedRepository,
@@ -311,7 +320,7 @@ trait PullRequestsControllerBase extends ControllerBase {
         val originBranch = JGitUtil.getDefaultBranch(oldGit, originRepository, tmpOriginBranch).get._2
         val forkedBranch = JGitUtil.getDefaultBranch(newGit, forkedRepository, tmpForkedBranch).get._2
 
-        pulls.html.mergecheck(
+        html.mergecheck(
           checkConflict(originRepository.owner, originRepository.name, originBranch,
                         forkedRepository.owner, forkedRepository.name, forkedBranch))
       }
@@ -443,7 +452,7 @@ trait PullRequestsControllerBase extends ControllerBase {
       val commits = newGit.log.addRange(oldId, newId).call.iterator.asScala.map { revCommit =>
         new CommitInfo(revCommit)
       }.toList.splitWith { (commit1, commit2) =>
-        view.helpers.date(commit1.time) == view.helpers.date(commit2.time)
+        helpers.date(commit1.commitTime) == view.helpers.date(commit2.commitTime)
       }
 
       val diffs = JGitUtil.getDiffs(newGit, oldId.getName, newId.getName, true)
@@ -453,7 +462,6 @@ trait PullRequestsControllerBase extends ControllerBase {
 
   private def searchPullRequests(userName: Option[String], repository: RepositoryService.RepositoryInfo) =
     defining(repository.owner, repository.name){ case (owner, repoName) =>
-      val filterUser = userName.map { x => Map("created_by" -> x) } getOrElse Map("all" -> "")
       val page       = IssueSearchCondition.page(request)
       val sessionKey = Keys.Session.Pulls(owner, repoName)
 
@@ -463,14 +471,15 @@ trait PullRequestsControllerBase extends ControllerBase {
         else session.getAs[IssueSearchCondition](sessionKey).getOrElse(IssueSearchCondition())
       )
 
-      pulls.html.list(
+      gitbucket.core.issues.html.list(
-        searchIssue(condition, filterUser, true, (page - 1) * PullRequestLimit, PullRequestLimit, owner -> repoName),
+        "pulls",
-        getPullRequestCountGroupByUser(condition.state == "closed", Some(owner), Some(repoName)),
+        searchIssue(condition, true, (page - 1) * PullRequestLimit, PullRequestLimit, owner -> repoName),
-        userName,
         page,
-        countIssue(condition.copy(state = "open"  ), filterUser, true, owner -> repoName),
+        (getCollaborators(owner, repoName) :+ owner).sorted,
-        countIssue(condition.copy(state = "closed"), filterUser, true, owner -> repoName),
+        getMilestones(owner, repoName),
-        countIssue(condition, Map.empty, true, owner -> repoName),
+        getLabels(owner, repoName),
+        countIssue(condition.copy(state = "open"  ), true, owner -> repoName),
+        countIssue(condition.copy(state = "closed"), true, owner -> repoName),
         condition,
         repository,
         hasWritePermission(owner, repoName, context.loginAccount))

src/main/scala/gitbucket/core/controller/RepositorySettingsController.scala

@@ -1,18 +1,19 @@
-package app
+package gitbucket.core.controller
 
-import service._
+import gitbucket.core.settings.html
-import util.Directory._
+import gitbucket.core.model.WebHook
-import util.ControlUtil._
+import gitbucket.core.service.{RepositoryService, AccountService, WebHookService}
-import util.Implicits._
+import gitbucket.core.service.WebHookService.WebHookPayload
-import util.{LockUtil, UsersAuthenticator, OwnerAuthenticator}
+import gitbucket.core.util._
-import util.JGitUtil.CommitInfo
+import gitbucket.core.util.JGitUtil._
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.util.Directory._
 import jp.sf.amateras.scalatra.forms._
 import org.apache.commons.io.FileUtils
 import org.scalatra.i18n.Messages
-import service.WebHookService.WebHookPayload
-import util.JGitUtil.CommitInfo
-import util.ControlUtil._
 import org.eclipse.jgit.api.Git
+import org.eclipse.jgit.lib.Constants
 
 class RepositorySettingsController extends RepositorySettingsControllerBase
   with RepositoryService with AccountService with WebHookService
@@ -64,18 +65,19 @@ trait RepositorySettingsControllerBase extends ControllerBase {
    * Display the Options page.
    */
   get("/:owner/:repository/settings/options")(ownerOnly {
-    settings.html.options(_, flash.get("info"))
+    html.options(_, flash.get("info"))
   })
   
   /**
    * Save the repository options.
    */
   post("/:owner/:repository/settings/options", optionsForm)(ownerOnly { (form, repository) =>
+    val defaultBranch = if(repository.branchList.isEmpty) "master" else form.defaultBranch
     saveRepositoryOptions(
       repository.owner,
       repository.name,
       form.description,
-      if(repository.branchList.isEmpty) "master" else form.defaultBranch,
+      defaultBranch,
       repository.repository.parentUserName.map { _ =>
         repository.repository.isPrivate
       } getOrElse form.isPrivate
@@ -93,6 +95,10 @@ trait RepositorySettingsControllerBase extends ControllerBase {
         FileUtils.moveDirectory(dir, getWikiRepositoryDir(repository.owner, form.repositoryName))
       }
     }
+    // Change repository HEAD
+    using(Git.open(getRepositoryDir(repository.owner, form.repositoryName))) { git =>
+      git.getRepository.updateRef(Constants.HEAD, true).link(Constants.R_HEADS + defaultBranch)
+    }
     flash += "info" -> "Repository settings has been updated."
     redirect(s"/${repository.owner}/${form.repositoryName}/settings/options")
   })
@@ -101,7 +107,7 @@ trait RepositorySettingsControllerBase extends ControllerBase {
    * Display the Collaborators page.
    */
   get("/:owner/:repository/settings/collaborators")(ownerOnly { repository =>
-    settings.html.collaborators(
+    html.collaborators(
       getCollaborators(repository.owner, repository.name),
       getAccountByUserName(repository.owner).get.isGroupAccount,
       repository)
@@ -131,7 +137,7 @@ trait RepositorySettingsControllerBase extends ControllerBase {
    * Display the web hook page.
    */
   get("/:owner/:repository/settings/hooks")(ownerOnly { repository =>
-    settings.html.hooks(getWebHookURLs(repository.owner, repository.name), repository, flash.get("info"))
+    html.hooks(getWebHookURLs(repository.owner, repository.name), flash.get("url"), repository, flash.get("info"))
   })
 
   /**
@@ -153,7 +159,7 @@ trait RepositorySettingsControllerBase extends ControllerBase {
   /**
    * Send the test request to registered web hook URLs.
    */
-  get("/:owner/:repository/settings/hooks/test")(ownerOnly { repository =>
+  post("/:owner/:repository/settings/hooks/test", webHookForm)(ownerOnly { (form, repository) =>
     using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
       import scala.collection.JavaConverters._
       val commits = git.log
@@ -161,15 +167,13 @@ trait RepositorySettingsControllerBase extends ControllerBase {
         .setMaxCount(3)
         .call.iterator.asScala.map(new CommitInfo(_))
 
-      getWebHookURLs(repository.owner, repository.name) match {
+      getAccountByUserName(repository.owner).foreach { ownerAccount =>
-        case webHookURLs if(webHookURLs.nonEmpty) =>
+        callWebHook(repository.owner, repository.name,
-          for(ownerAccount <- getAccountByUserName(repository.owner)){
+          List(WebHook(repository.owner, repository.name, form.url)),
-            callWebHook(repository.owner, repository.name, webHookURLs,
+          WebHookPayload(git, ownerAccount, "refs/heads/" + repository.repository.defaultBranch, repository, commits.toList, ownerAccount)
-              WebHookPayload(git, ownerAccount, "refs/heads/" + repository.repository.defaultBranch, repository, commits.toList, ownerAccount))
+        )
-          }
-        case _ =>
       }
-
+      flash += "url"  -> form.url
       flash += "info" -> "Test payload deployed!"
     }
     redirect(s"/${repository.owner}/${repository.name}/settings/hooks")
@@ -179,7 +183,7 @@ trait RepositorySettingsControllerBase extends ControllerBase {
    * Display the danger zone.
    */
   get("/:owner/:repository/settings/danger")(ownerOnly {
-    settings.html.danger(_)
+    html.danger(_)
   })
 
   /**

src/main/scala/gitbucket/core/controller/RepositoryViewerController.scala

@@ -1,30 +1,42 @@
-package app
+package gitbucket.core.controller
 
-import _root_.util.JGitUtil.CommitInfo
+import gitbucket.core.repo.html
-import util.Directory._
+import gitbucket.core.helper
-import util.Implicits._
+import gitbucket.core.service._
-import _root_.util.ControlUtil._
+import gitbucket.core.util._
-import _root_.util._
+import gitbucket.core.util.JGitUtil._
-import service._
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.util.Directory._
+import gitbucket.core.model.Account
+import gitbucket.core.service.WebHookService.WebHookPayload
+import gitbucket.core.view
+import gitbucket.core.view.helpers
 import org.scalatra._
-import java.io.File
+
-import org.eclipse.jgit.api.Git
+import org.eclipse.jgit.api.{ArchiveCommand, Git}
+import org.eclipse.jgit.archive.{TgzFormat, ZipFormat}
 import org.eclipse.jgit.lib._
 import org.apache.commons.io.FileUtils
 import org.eclipse.jgit.treewalk._
-import java.util.zip.{ZipEntry, ZipOutputStream}
 import jp.sf.amateras.scalatra.forms._
 import org.eclipse.jgit.dircache.DirCache
-import org.eclipse.jgit.revwalk.{RevCommit, RevWalk}
+import org.eclipse.jgit.revwalk.RevCommit
 
 class RepositoryViewerController extends RepositoryViewerControllerBase
-  with RepositoryService with AccountService with ActivityService with ReferrerAuthenticator with CollaboratorsAuthenticator
+  with RepositoryService with AccountService with ActivityService with IssuesService with WebHookService with CommitsService
+  with ReadableUsersAuthenticator with ReferrerAuthenticator with CollaboratorsAuthenticator with PullRequestService
+
 
 /**
  * The repository viewer.
  */
 trait RepositoryViewerControllerBase extends ControllerBase {
-  self: RepositoryService with AccountService with ActivityService with ReferrerAuthenticator with CollaboratorsAuthenticator =>
+  self: RepositoryService with AccountService with ActivityService with IssuesService with WebHookService with CommitsService
+    with ReadableUsersAuthenticator with ReferrerAuthenticator with CollaboratorsAuthenticator with PullRequestService =>
+
+  ArchiveCommand.registerFormat("zip", new ZipFormat)
+  ArchiveCommand.registerFormat("tar.gz", new TgzFormat)
 
   case class EditorForm(
     branch: String,
@@ -32,6 +44,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     content: String,
     message: Option[String],
     charset: String,
+    lineSeparator: String,
     newFileName: String,
     oldFileName: Option[String]
   )
@@ -43,14 +56,23 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     fileName: String
   )
 
+  case class CommentForm(
+    fileName: Option[String],
+    oldLineNumber: Option[Int],
+    newLineNumber: Option[Int],
+    content: String,
+    issueId: Option[Int]
+  )
+
   val editorForm = mapping(
-    "branch"      -> trim(label("Branch", text(required))),
+    "branch"        -> trim(label("Branch", text(required))),
-    "path"        -> trim(label("Path", text())),
+    "path"          -> trim(label("Path", text())),
-    "content"     -> trim(label("Content", text(required))),
+    "content"       -> trim(label("Content", text(required))),
-    "message"     -> trim(label("Message", optional(text()))),
+    "message"       -> trim(label("Message", optional(text()))),
-    "charset"     -> trim(label("Charset", text(required))),
+    "charset"       -> trim(label("Charset", text(required))),
-    "newFileName" -> trim(label("Filename", text(required))),
+    "lineSeparator" -> trim(label("Line Separator", text(required))),
-    "oldFileName" -> trim(label("Old filename", optional(text())))
+    "newFileName"   -> trim(label("Filename", text(required))),
+    "oldFileName"   -> trim(label("Old filename", optional(text())))
   )(EditorForm.apply)
 
   val deleteForm = mapping(
@@ -60,14 +82,24 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     "fileName" -> trim(label("Filename", text(required)))
   )(DeleteForm.apply)
 
+  val commentForm = mapping(
+    "fileName"      -> trim(label("Filename", optional(text()))),
+    "oldLineNumber" -> trim(label("Old line number", optional(number()))),
+    "newLineNumber" -> trim(label("New line number", optional(number()))),
+    "content"       -> trim(label("Content", text(required))),
+    "issueId"       -> trim(label("Issue Id", optional(number())))
+  )(CommentForm.apply)
+
   /**
    * Returns converted HTML from Markdown for preview.
    */
   post("/:owner/:repository/_preview")(referrersOnly { repository =>
     contentType = "text/html"
-    view.helpers.markdown(params("content"), repository,
+    helpers.markdown(params("content"), repository,
       params("enableWikiLink").toBoolean,
-      params("enableRefsLink").toBoolean)
+      params("enableRefsLink").toBoolean,
+      params("enableTaskList").toBoolean,
+      hasWritePermission(repository.owner, repository.name, context.loginAccount))
   })
 
   /**
@@ -99,10 +131,10 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
       JGitUtil.getCommitLog(git, branchName, page, 30, path) match {
         case Right((logs, hasNext)) =>
-          repo.html.commits(if(path.isEmpty) Nil else path.split("/").toList, branchName, repository,
+          html.commits(if(path.isEmpty) Nil else path.split("/").toList, branchName, repository,
             logs.splitWith{ (commit1, commit2) =>
-              view.helpers.date(commit1.time) == view.helpers.date(commit2.time)
+              view.helpers.date(commit1.commitTime) == view.helpers.date(commit2.commitTime)
-            }, page, hasNext)
+            }, page, hasNext, hasWritePermission(repository.owner, repository.name, context.loginAccount))
         case Left(_) => NotFound
       }
     }
@@ -110,7 +142,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
 
   get("/:owner/:repository/new/*")(collaboratorsOnly { repository =>
     val (branch, path) = splitPath(repository, multiParams("splat").head)
-    repo.html.editor(branch, repository, if(path.length == 0) Nil else path.split("/").toList,
+    html.editor(branch, repository, if(path.length == 0) Nil else path.split("/").toList,
       None, JGitUtil.ContentInfo("text", None, Some("UTF-8")))
   })
 
@@ -122,7 +154,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
 
       getPathObjectId(git, path, revCommit).map { objectId =>
         val paths = path.split("/")
-        repo.html.editor(branch, repository, paths.take(paths.size - 1).toList, Some(paths.last),
+        html.editor(branch, repository, paths.take(paths.size - 1).toList, Some(paths.last),
           JGitUtil.getContentInfo(git, path, objectId))
       } getOrElse NotFound
     }
@@ -135,14 +167,15 @@ trait RepositoryViewerControllerBase extends ControllerBase {
 
       getPathObjectId(git, path, revCommit).map { objectId =>
         val paths = path.split("/")
-        repo.html.delete(branch, repository, paths.take(paths.size - 1).toList, paths.last,
+        html.delete(branch, repository, paths.take(paths.size - 1).toList, paths.last,
           JGitUtil.getContentInfo(git, path, objectId))
       } getOrElse NotFound
     }
   })
 
   post("/:owner/:repository/create", editorForm)(collaboratorsOnly { (form, repository) =>
-    commitFile(repository, form.branch, form.path, Some(form.newFileName), None, form.content, form.charset,
+    commitFile(repository, form.branch, form.path, Some(form.newFileName), None,
+      StringUtil.convertLineSeparator(form.content, form.lineSeparator), form.charset,
       form.message.getOrElse(s"Create ${form.newFileName}"))
 
     redirect(s"/${repository.owner}/${repository.name}/blob/${form.branch}/${
@@ -151,7 +184,8 @@ trait RepositoryViewerControllerBase extends ControllerBase {
   })
 
   post("/:owner/:repository/update", editorForm)(collaboratorsOnly { (form, repository) =>
-    commitFile(repository, form.branch, form.path, Some(form.newFileName), form.oldFileName, form.content, form.charset,
+    commitFile(repository, form.branch, form.path, Some(form.newFileName), form.oldFileName,
+      StringUtil.convertLineSeparator(form.content, form.lineSeparator), form.charset,
       if(form.oldFileName.exists(_ == form.newFileName)){
         form.message.getOrElse(s"Update ${form.newFileName}")
       } else {
@@ -179,16 +213,16 @@ trait RepositoryViewerControllerBase extends ControllerBase {
 
     using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
       val revCommit = JGitUtil.getRevCommitFromId(git, git.getRepository.resolve(id))
+      val lastModifiedCommit = JGitUtil.getLastModifiedCommit(git, revCommit, path)
       getPathObjectId(git, path, revCommit).map { objectId =>
         if(raw){
           // Download
           defining(JGitUtil.getContentFromId(git, objectId, false).get){ bytes =>
-            contentType = FileUtil.getContentType(path, bytes)
+            RawData(FileUtil.getContentType(path, bytes), bytes)
-            bytes
           }
         } else {
-          repo.html.blob(id, repository, path.split("/").toList, JGitUtil.getContentInfo(git, path, objectId),
+          html.blob(id, repository, path.split("/").toList, JGitUtil.getContentInfo(git, path, objectId),
-            new JGitUtil.CommitInfo(revCommit), hasWritePermission(repository.owner, repository.name, context.loginAccount))
+            new JGitUtil.CommitInfo(lastModifiedCommit), hasWritePermission(repository.owner, repository.name, context.loginAccount))
         }
       } getOrElse NotFound
     }
@@ -203,26 +237,117 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
       defining(JGitUtil.getRevCommitFromId(git, git.getRepository.resolve(id))){ revCommit =>
         JGitUtil.getDiffs(git, id) match { case (diffs, oldCommitId) =>
-          repo.html.commit(id, new JGitUtil.CommitInfo(revCommit),
+          html.commit(id, new JGitUtil.CommitInfo(revCommit),
             JGitUtil.getBranchesOfCommit(git, revCommit.getName),
             JGitUtil.getTagsOfCommit(git, revCommit.getName),
-            repository, diffs, oldCommitId)
+            getCommitComments(repository.owner, repository.name, id, false),
+            repository, diffs, oldCommitId, hasWritePermission(repository.owner, repository.name, context.loginAccount))
         }
       }
     }
   })
 
+  post("/:owner/:repository/commit/:id/comment/new", commentForm)(readableUsersOnly { (form, repository) =>
+    val id = params("id")
+    createCommitComment(repository.owner, repository.name, id, context.loginAccount.get.userName, form.content,
+      form.fileName, form.oldLineNumber, form.newLineNumber, form.issueId.isDefined)
+    form.issueId match {
+      case Some(issueId) => recordCommentPullRequestActivity(repository.owner, repository.name, context.loginAccount.get.userName, issueId, form.content)
+      case None => recordCommentCommitActivity(repository.owner, repository.name, context.loginAccount.get.userName, id, form.content)
+    }
+    redirect(s"/${repository.owner}/${repository.name}/commit/${id}")
+  })
+
+  ajaxGet("/:owner/:repository/commit/:id/comment/_form")(readableUsersOnly { repository =>
+    val id            = params("id")
+    val fileName      = params.get("fileName")
+    val oldLineNumber = params.get("oldLineNumber") map (_.toInt)
+    val newLineNumber = params.get("newLineNumber") map (_.toInt)
+    val issueId   = params.get("issueId") map (_.toInt)
+    html.commentform(
+      commitId = id,
+      fileName, oldLineNumber, newLineNumber, issueId,
+      hasWritePermission = hasWritePermission(repository.owner, repository.name, context.loginAccount),
+      repository = repository
+    )
+  })
+
+  ajaxPost("/:owner/:repository/commit/:id/comment/_data/new", commentForm)(readableUsersOnly { (form, repository) =>
+    val id = params("id")
+    val commentId = createCommitComment(repository.owner, repository.name, id, context.loginAccount.get.userName,
+      form.content, form.fileName, form.oldLineNumber, form.newLineNumber, form.issueId.isDefined)
+    form.issueId match {
+      case Some(issueId) => recordCommentPullRequestActivity(repository.owner, repository.name, context.loginAccount.get.userName, issueId, form.content)
+      case None => recordCommentCommitActivity(repository.owner, repository.name, context.loginAccount.get.userName, id, form.content)
+    }
+    helper.html.commitcomment(getCommitComment(repository.owner, repository.name, commentId.toString).get,
+      hasWritePermission(repository.owner, repository.name, context.loginAccount), repository)
+  })
+
+  ajaxGet("/:owner/:repository/commit_comments/_data/:id")(readableUsersOnly { repository =>
+    getCommitComment(repository.owner, repository.name, params("id")) map { x =>
+      if(isEditable(x.userName, x.repositoryName, x.commentedUserName)){
+        params.get("dataType") collect {
+          case t if t == "html" => html.editcomment(
+            x.content, x.commentId, x.userName, x.repositoryName)
+        } getOrElse {
+          contentType = formats("json")
+          org.json4s.jackson.Serialization.write(
+            Map("content" -> view.Markdown.toHtml(x.content,
+              repository, false, true, true, isEditable(x.userName, x.repositoryName, x.commentedUserName))
+            ))
+        }
+      } else Unauthorized
+    } getOrElse NotFound
+  })
+
+  ajaxPost("/:owner/:repository/commit_comments/edit/:id", commentForm)(readableUsersOnly { (form, repository) =>
+    defining(repository.owner, repository.name){ case (owner, name) =>
+      getCommitComment(owner, name, params("id")).map { comment =>
+        if(isEditable(owner, name, comment.commentedUserName)){
+          updateCommitComment(comment.commentId, form.content)
+          redirect(s"/${owner}/${name}/commit_comments/_data/${comment.commentId}")
+        } else Unauthorized
+      } getOrElse NotFound
+    }
+  })
+
+  ajaxPost("/:owner/:repository/commit_comments/delete/:id")(readableUsersOnly { repository =>
+    defining(repository.owner, repository.name){ case (owner, name) =>
+      getCommitComment(owner, name, params("id")).map { comment =>
+        if(isEditable(owner, name, comment.commentedUserName)){
+          Ok(deleteCommitComment(comment.commentId))
+        } else Unauthorized
+      } getOrElse NotFound
+    }
+  })
+
   /**
    * Displays branches.
    */
   get("/:owner/:repository/branches")(referrersOnly { repository =>
+    val branches = JGitUtil.getBranches(repository.owner, repository.name, repository.repository.defaultBranch)
+      .sortBy(br => (br.mergeInfo.isEmpty, br.commitTime))
+      .map(br => br -> getPullRequestByRequestCommit(repository.owner, repository.name, repository.repository.defaultBranch, br.name, br.commitId))
+      .reverse
+    html.branches(branches, hasWritePermission(repository.owner, repository.name, context.loginAccount), repository)
+  })
+
+  /**
+   * Creates a branch.
+   */
+  post("/:owner/:repository/branches")(collaboratorsOnly { repository =>
+    val newBranchName = params.getOrElse("new", halt(400))
+    val fromBranchName = params.getOrElse("from", halt(400))
     using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
-      // retrieve latest update date of each branch
+      JGitUtil.createBranch(git, fromBranchName, newBranchName)
-      val branchInfo = repository.branchList.map { branchName =>
+    } match {
-        val revCommit = git.log.add(git.getRepository.resolve(branchName)).setMaxCount(1).call.iterator.next
+      case Right(message) =>
-        (branchName, revCommit.getCommitterIdent.getWhen)
+        flash += "info" -> message
-      }
+        redirect(s"/${repository.owner}/${repository.name}/tree/${StringUtil.urlEncode(newBranchName).replace("%2F", "/")}")
-      repo.html.branches(branchInfo, hasWritePermission(repository.owner, repository.name, context.loginAccount), repository)
+      case Left(message) =>
+        flash += "error" -> message
+        redirect(s"/${repository.owner}/${repository.name}/tree/${fromBranchName}")
     }
   })
 
@@ -245,62 +370,24 @@ trait RepositoryViewerControllerBase extends ControllerBase {
    * Displays tags.
    */
   get("/:owner/:repository/tags")(referrersOnly {
-    repo.html.tags(_)
+    html.tags(_)
   })
 
   /**
    * Download repository contents as an archive.
    */
   get("/:owner/:repository/archive/*")(referrersOnly { repository =>
-    val name = multiParams("splat").head
+    multiParams("splat").head match {
-
+      case name if name.endsWith(".zip") =>
-    if(name.endsWith(".zip")){
+        archiveRepository(name, ".zip", repository)
-      val revision = name.stripSuffix(".zip")
+      case name if name.endsWith(".tar.gz") =>
-      val workDir = getDownloadWorkDir(repository.owner, repository.name, session.getId)
+        archiveRepository(name, ".tar.gz", repository)
-      if(workDir.exists){
+      case _ => BadRequest
-        FileUtils.deleteDirectory(workDir)
-      }
-      workDir.mkdirs
-
-      val zipFile = new File(workDir, repository.name + "-" +
-        (if(revision.length == 40) revision.substring(0, 10) else revision).replace('/', '_') + ".zip")
-
-      using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
-        val revCommit = JGitUtil.getRevCommitFromId(git, git.getRepository.resolve(revision))
-        using(new TreeWalk(git.getRepository)){ walk =>
-          val reader   = walk.getObjectReader
-          val objectId = new MutableObjectId
-
-          using(new ZipOutputStream(new java.io.FileOutputStream(zipFile))){ out =>
-            walk.addTree(revCommit.getTree)
-            walk.setRecursive(true)
-
-            while(walk.next){
-              val name = walk.getPathString
-              val mode = walk.getFileMode(0)
-              if(mode == FileMode.REGULAR_FILE || mode == FileMode.EXECUTABLE_FILE){
-                walk.getObjectId(objectId, 0)
-                val entry = new ZipEntry(name)
-                val loader = reader.open(objectId)
-                entry.setSize(loader.getSize)
-                out.putNextEntry(entry)
-                loader.copyTo(out)
-              }
-            }
-          }
-        }
-      }
-
-      contentType = "application/octet-stream"
-      response.setHeader("Content-Disposition", s"attachment; filename=${zipFile.getName}")
-      zipFile
-    } else {
-      BadRequest
     }
   })
 
   get("/:owner/:repository/network/members")(referrersOnly { repository =>
-    repo.html.forked(
+    html.forked(
       getRepository(
         repository.repository.originUserName.getOrElse(repository.owner),
         repository.repository.originRepositoryName.getOrElse(repository.name),
@@ -311,7 +398,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
       repository)
   })
 
-  private def splitPath(repository: service.RepositoryService.RepositoryInfo, path: String): (String, String) = {
+  private def splitPath(repository: RepositoryService.RepositoryInfo, path: String): (String, String) = {
     val id = repository.branchList.collectFirst {
       case branch if(path == branch || path.startsWith(branch + "/")) => branch
     } orElse repository.tags.collectFirst {
@@ -334,13 +421,13 @@ trait RepositoryViewerControllerBase extends ControllerBase {
    */
   private def fileList(repository: RepositoryService.RepositoryInfo, revstr: String = "", path: String = ".") = {
     if(repository.commitCount == 0){
-      repo.html.guide(repository, hasWritePermission(repository.owner, repository.name, context.loginAccount))
+      html.guide(repository, hasWritePermission(repository.owner, repository.name, context.loginAccount))
     } else {
       using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
-        //val revisions = Seq(if(revstr.isEmpty) repository.repository.defaultBranch else revstr, repository.branchList.head)
         // get specified commit
         JGitUtil.getDefaultBranch(git, repository, revstr).map { case (objectId, revision) =>
           defining(JGitUtil.getRevCommitFromId(git, objectId)) { revCommit =>
+            val lastModifiedCommit = if(path == ".") revCommit else JGitUtil.getLastModifiedCommit(git, revCommit, path)
             // get files
             val files = JGitUtil.getFileList(git, revision, path)
             val parentPath = if (path == ".") Nil else path.split("/").toList
@@ -353,17 +440,22 @@ trait RepositoryViewerControllerBase extends ControllerBase {
                 Git.open(getRepositoryDir(repository.owner, repository.name)), file.id, true).get)
             }
 
-            repo.html.files(revision, repository,
+            html.files(revision, repository,
               if(path == ".") Nil else path.split("/").toList, // current path
-              new JGitUtil.CommitInfo(revCommit), // latest commit
+              context.loginAccount match {
-              files, readme, hasWritePermission(repository.owner, repository.name, context.loginAccount))
+                case None => List()
+                case account: Option[Account] => getGroupsByUserName(account.get.userName)
+              }, // groups of current user
+              new JGitUtil.CommitInfo(lastModifiedCommit), // last modified commit
+              files, readme, hasWritePermission(repository.owner, repository.name, context.loginAccount),
+              flash.get("info"), flash.get("error"))
           }
         } getOrElse NotFound
       }
     }
   }
 
-  private def commitFile(repository: service.RepositoryService.RepositoryInfo,
+  private def commitFile(repository: RepositoryService.RepositoryInfo,
                          branch: String, path: String, newFileName: Option[String], oldFileName: Option[String],
                          content: String, charset: String, message: String) = {
 
@@ -376,7 +468,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
         val builder  = DirCache.newInCore.builder()
         val inserter = git.getRepository.newObjectInserter()
         val headName = s"refs/heads/${branch}"
-        val headTip  = git.getRepository.resolve(s"refs/heads/${branch}")
+        val headTip  = git.getRepository.resolve(headName)
 
         JGitUtil.processTree(git, headTip){ (path, tree) =>
           if(!newPath.exists(_ == path) && !oldPath.exists(_ == path)){
@@ -391,7 +483,7 @@ trait RepositoryViewerControllerBase extends ControllerBase {
         builder.finish()
 
         val commitId = JGitUtil.createNewCommit(git, inserter, headTip, builder.getDirCache.writeTree(inserter),
-          loginAccount.fullName, loginAccount.mailAddress, message)
+          headName, loginAccount.fullName, loginAccount.mailAddress, message)
 
         inserter.flush()
         inserter.release()
@@ -404,12 +496,26 @@ trait RepositoryViewerControllerBase extends ControllerBase {
         //refUpdate.setRefLogMessage("merged", true)
         refUpdate.update()
 
+        // update pull request
+        updatePullRequests(repository.owner, repository.name, branch)
+
         // record activity
         recordPushActivity(repository.owner, repository.name, loginAccount.userName, branch,
           List(new CommitInfo(JGitUtil.getRevCommitFromId(git, commitId))))
 
-        // TODO invoke hook
+        // close issue by commit message
+        closeIssuesFromMessage(message, loginAccount.userName, repository.owner, repository.name)
 
+        // call web hook
+        val commit = new JGitUtil.CommitInfo(JGitUtil.getRevCommitFromId(git, commitId))
+        getWebHookURLs(repository.owner, repository.name) match {
+          case webHookURLs if(webHookURLs.nonEmpty) =>
+            for(ownerAccount <- getAccountByUserName(repository.owner)){
+              callWebHook(repository.owner, repository.name, webHookURLs,
+                WebHookPayload(git, loginAccount, headName, repository, List(commit), ownerAccount))
+            }
+          case _ =>
+        }
       }
     }
   }
@@ -429,4 +535,34 @@ trait RepositoryViewerControllerBase extends ControllerBase {
     }
   }
 
+  private def archiveRepository(name: String, suffix: String, repository: RepositoryService.RepositoryInfo): Unit = {
+    val revision = name.stripSuffix(suffix)
+    val workDir = getDownloadWorkDir(repository.owner, repository.name, session.getId)
+    if(workDir.exists) {
+      FileUtils.deleteDirectory(workDir)
+    }
+    workDir.mkdirs
+
+    val filename = repository.name + "-" +
+      (if(revision.length == 40) revision.substring(0, 10) else revision).replace('/', '_') + suffix
+
+    using(Git.open(getRepositoryDir(repository.owner, repository.name))){ git =>
+      val revCommit = JGitUtil.getRevCommitFromId(git, git.getRepository.resolve(revision))
+
+      contentType = "application/octet-stream"
+      response.setHeader("Content-Disposition", s"attachment; filename=${filename}")
+      response.setBufferSize(1024 * 1024);
+
+      git.archive
+         .setFormat(suffix.tail)
+         .setTree(revCommit.getTree)
+         .setOutputStream(response.getOutputStream)
+         .call()
+
+      Unit
+    }
+  }
+
+  private def isEditable(owner: String, repository: String, author: String)(implicit context: Context): Boolean =
+    hasWritePermission(owner, repository, context.loginAccount) || author == context.loginAccount.get.userName
 }

src/main/scala/gitbucket/core/controller/SearchController.scala

@@ -1,9 +1,10 @@
-package app
+package gitbucket.core.controller
 
-import util._
+import gitbucket.core.search.html
+import gitbucket.core.service._
+import gitbucket.core.util.{StringUtil, ControlUtil, ReferrerAuthenticator, Implicits}
 import ControlUtil._
 import Implicits._
-import service._
 import jp.sf.amateras.scalatra.forms._
 
 class SearchController extends SearchControllerBase
@@ -34,12 +35,12 @@ trait SearchControllerBase extends ControllerBase { self: RepositoryService
       }
 
       target.toLowerCase match {
-        case "issue" => search.html.issues(
+        case "issue" => html.issues(
           searchIssues(repository.owner, repository.name, query),
           countFiles(repository.owner, repository.name, query),
           query, page, repository)
 
-        case _ => search.html.code(
+        case _ => html.code(
           searchFiles(repository.owner, repository.name, query),
           countIssues(repository.owner, repository.name, query),
           query, page, repository)

src/main/scala/gitbucket/core/controller/SystemSettingsController.scala

@@ -0,0 +1,85 @@
+package gitbucket.core.controller
+
+import gitbucket.core.admin.html
+import gitbucket.core.service.{AccountService, SystemSettingsService}
+import gitbucket.core.util.AdminAuthenticator
+import gitbucket.core.ssh.SshServer
+import SystemSettingsService._
+import jp.sf.amateras.scalatra.forms._
+
+class SystemSettingsController extends SystemSettingsControllerBase
+  with AccountService with AdminAuthenticator
+
+trait SystemSettingsControllerBase extends ControllerBase {
+  self: AccountService with AdminAuthenticator =>
+
+  private val form = mapping(
+    "baseUrl"                  -> trim(label("Base URL", optional(text()))),
+    "information"              -> trim(label("Information", optional(text()))),
+    "allowAccountRegistration" -> trim(label("Account registration", boolean())),
+    "allowAnonymousAccess"     -> trim(label("Anonymous access", boolean())),
+    "isCreateRepoOptionPublic" -> trim(label("Default option to create a new repository", boolean())),
+    "gravatar"                 -> trim(label("Gravatar", boolean())),
+    "notification"             -> trim(label("Notification", boolean())),
+    "ssh"                      -> trim(label("SSH access", boolean())),
+    "sshPort"                  -> trim(label("SSH port", optional(number()))),
+    "smtp"                     -> optionalIfNotChecked("notification", mapping(
+        "host"                     -> trim(label("SMTP Host", text(required))),
+        "port"                     -> trim(label("SMTP Port", optional(number()))),
+        "user"                     -> trim(label("SMTP User", optional(text()))),
+        "password"                 -> trim(label("SMTP Password", optional(text()))),
+        "ssl"                      -> trim(label("Enable SSL", optional(boolean()))),
+        "fromAddress"              -> trim(label("FROM Address", optional(text()))),
+        "fromName"                 -> trim(label("FROM Name", optional(text())))
+    )(Smtp.apply)),
+    "ldapAuthentication"       -> trim(label("LDAP", boolean())),
+    "ldap"                     -> optionalIfNotChecked("ldapAuthentication", mapping(
+        "host"                     -> trim(label("LDAP host", text(required))),
+        "port"                     -> trim(label("LDAP port", optional(number()))),
+        "bindDN"                   -> trim(label("Bind DN", optional(text()))),
+        "bindPassword"             -> trim(label("Bind Password", optional(text()))),
+        "baseDN"                   -> trim(label("Base DN", text(required))),
+        "userNameAttribute"        -> trim(label("User name attribute", text(required))),
+        "additionalFilterCondition"-> trim(label("Additional filter condition", optional(text()))),
+        "fullNameAttribute"        -> trim(label("Full name attribute", optional(text()))),
+        "mailAttribute"            -> trim(label("Mail address attribute", optional(text()))),
+        "tls"                      -> trim(label("Enable TLS", optional(boolean()))),
+        "ssl"                      -> trim(label("Enable SSL", optional(boolean()))),
+        "keystore"                 -> trim(label("Keystore", optional(text())))
+    )(Ldap.apply))
+  )(SystemSettings.apply).verifying { settings =>
+    if(settings.ssh && settings.baseUrl.isEmpty){
+      Seq("baseUrl" -> "Base URL is required if SSH access is enabled.")
+    } else Nil
+  }
+
+  private val pluginForm = mapping(
+    "pluginId" -> list(trim(label("", text())))
+  )(PluginForm.apply)
+
+  case class PluginForm(pluginIds: List[String])
+
+  get("/admin/system")(adminOnly {
+    html.system(flash.get("info"))
+  })
+
+  post("/admin/system", form)(adminOnly { form =>
+    saveSystemSettings(form)
+
+    if(form.ssh && SshServer.isActive && context.settings.sshPort != form.sshPort){
+      SshServer.stop()
+    }
+
+    if(form.ssh && !SshServer.isActive && form.baseUrl.isDefined){
+      SshServer.start(
+        form.sshPort.getOrElse(SystemSettingsService.DefaultSshPort),
+        form.baseUrl.get)
+    } else if(!form.ssh && SshServer.isActive){
+      SshServer.stop()
+    }
+
+    flash += "info" -> "System settings has been updated."
+    redirect("/admin/system")
+  })
+
+}

src/main/scala/gitbucket/core/controller/UserManagementController.scala

@@ -1,11 +1,12 @@
-package app
+package gitbucket.core.controller
 
-import service._
+import gitbucket.core.service.{RepositoryService, AccountService}
-import util.AdminAuthenticator
+import gitbucket.core.admin.users.html
-import util.StringUtil._
+import gitbucket.core.util._
-import util.ControlUtil._
+import gitbucket.core.util.ControlUtil._
-import util.Directory._
+import gitbucket.core.util.StringUtil._
-import util.Implicits._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.util.Directory._
 import jp.sf.amateras.scalatra.forms._
 import org.scalatra.i18n.Messages
 import org.apache.commons.io.FileUtils
@@ -49,7 +50,7 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
     "url"         -> trim(label("URL"          ,optional(text(maxlength(200))))),
     "fileId"      -> trim(label("File ID"      ,optional(text()))),
     "clearImage"  -> trim(label("Clear image"  ,boolean())),
-    "removed"     -> trim(label("Disable"      ,boolean()))
+    "removed"     -> trim(label("Disable"      ,boolean(disableByNotYourself("userName"))))
   )(EditUserForm.apply)
 
   val newGroupForm = mapping(
@@ -75,11 +76,11 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
       account.userName -> getGroupMembers(account.userName).map(_.userName)
     }.toMap
 
-    admin.users.html.list(users, members, includeRemoved)
+    html.list(users, members, includeRemoved)
   })
   
   get("/admin/users/_newuser")(adminOnly {
-    admin.users.html.user(None)
+    html.user(None)
   })
   
   post("/admin/users/_newuser", newUserForm)(adminOnly { form =>
@@ -90,7 +91,7 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
   
   get("/admin/users/:userName/_edituser")(adminOnly {
     val userName = params("userName")
-    admin.users.html.user(getAccountByUserName(userName, true))
+    html.user(getAccountByUserName(userName, true))
   })
   
   post("/admin/users/:name/_edituser", editUserForm)(adminOnly { form =>
@@ -124,7 +125,7 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
   })
 
   get("/admin/users/_newgroup")(adminOnly {
-    admin.users.html.group(None, Nil)
+    html.group(None, Nil)
   })
 
   post("/admin/users/_newgroup", newGroupForm)(adminOnly { form =>
@@ -140,7 +141,7 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
 
   get("/admin/users/:groupName/_editgroup")(adminOnly {
     defining(params("groupName")){ groupName =>
-      admin.users.html.group(getAccountByUserName(groupName, true), getGroupMembers(groupName))
+      html.group(getAccountByUserName(groupName, true), getGroupMembers(groupName))
     }
   })
 
@@ -182,11 +183,6 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
     }
   })
 
-  // TODO Move to other generic controller?
-  post("/admin/users/_usercheck"){
-    getAccountByUserName(params("userName")).isDefined
-  }
-
   private def members: Constraint = new Constraint(){
     override def validate(name: String, value: String, messages: Messages): Option[String] = {
       if(value.split(",").exists {
@@ -195,4 +191,14 @@ trait UserManagementControllerBase extends AccountManagementControllerBase {
     }
   }
 
+  protected def disableByNotYourself(paramName: String): Constraint = new Constraint() {
+    override def validate(name: String, value: String, messages: Messages): Option[String] = {
+      params.get(paramName).flatMap { userName =>
+        if(userName == context.loginAccount.get.userName)
+          Some("You can't disable your account yourself")
+        else
+          None
+      }
+    }
+  }
 }

src/main/scala/gitbucket/core/controller/WikiController.scala

@@ -1,14 +1,14 @@
-package app
+package gitbucket.core.controller
 
-import service._
+import gitbucket.core.wiki.html
-import util._
+import gitbucket.core.service.{RepositoryService, WikiService, ActivityService, AccountService}
-import util.Directory._
+import gitbucket.core.util._
-import util.ControlUtil._
+import gitbucket.core.util.ControlUtil._
-import util.Implicits._
+import gitbucket.core.util.Implicits._
+import gitbucket.core.util.Directory._
 import jp.sf.amateras.scalatra.forms._
 import org.eclipse.jgit.api.Git
 import org.scalatra.i18n.Messages
-import java.util.ResourceBundle
 
 class WikiController extends WikiControllerBase 
   with WikiService with RepositoryService with AccountService with ActivityService with CollaboratorsAuthenticator with ReferrerAuthenticator
@@ -36,7 +36,7 @@ trait WikiControllerBase extends ControllerBase {
   
   get("/:owner/:repository/wiki")(referrersOnly { repository =>
     getWikiPage(repository.owner, repository.name, "Home").map { page =>
-      wiki.html.page("Home", page, getWikiPageList(repository.owner, repository.name),
+      html.page("Home", page, getWikiPageList(repository.owner, repository.name),
         repository, hasWritePermission(repository.owner, repository.name, context.loginAccount))
     } getOrElse redirect(s"/${repository.owner}/${repository.name}/wiki/Home/_edit")
   })
@@ -45,7 +45,7 @@ trait WikiControllerBase extends ControllerBase {
     val pageName = StringUtil.urlDecode(params("page"))
 
     getWikiPage(repository.owner, repository.name, pageName).map { page =>
-      wiki.html.page(pageName, page, getWikiPageList(repository.owner, repository.name),
+      html.page(pageName, page, getWikiPageList(repository.owner, repository.name),
         repository, hasWritePermission(repository.owner, repository.name, context.loginAccount))
     } getOrElse redirect(s"/${repository.owner}/${repository.name}/wiki/${StringUtil.urlEncode(pageName)}/_edit")
   })
@@ -55,7 +55,7 @@ trait WikiControllerBase extends ControllerBase {
 
     using(Git.open(getWikiRepositoryDir(repository.owner, repository.name))){ git =>
       JGitUtil.getCommitLog(git, "master", path = pageName + ".md") match {
-        case Right((logs, hasNext)) => wiki.html.history(Some(pageName), logs, repository)
+        case Right((logs, hasNext)) => html.history(Some(pageName), logs, repository)
         case Left(_) => NotFound
       }
     }
@@ -66,7 +66,7 @@ trait WikiControllerBase extends ControllerBase {
     val Array(from, to) = params("commitId").split("\\.\\.\\.")
 
     using(Git.open(getWikiRepositoryDir(repository.owner, repository.name))){ git =>
-      wiki.html.compare(Some(pageName), from, to, JGitUtil.getDiffs(git, from, to, true).filter(_.newPath == pageName + ".md"), repository,
+      html.compare(Some(pageName), from, to, JGitUtil.getDiffs(git, from, to, true).filter(_.newPath == pageName + ".md"), repository,
         hasWritePermission(repository.owner, repository.name, context.loginAccount), flash.get("info"))
     }
   })
@@ -75,7 +75,7 @@ trait WikiControllerBase extends ControllerBase {
     val Array(from, to) = params("commitId").split("\\.\\.\\.")
 
     using(Git.open(getWikiRepositoryDir(repository.owner, repository.name))){ git =>
-      wiki.html.compare(None, from, to, JGitUtil.getDiffs(git, from, to, true), repository,
+      html.compare(None, from, to, JGitUtil.getDiffs(git, from, to, true), repository,
         hasWritePermission(repository.owner, repository.name, context.loginAccount), flash.get("info"))
     }
   })
@@ -105,7 +105,7 @@ trait WikiControllerBase extends ControllerBase {
 
   get("/:owner/:repository/wiki/:page/_edit")(collaboratorsOnly { repository =>
     val pageName = StringUtil.urlDecode(params("page"))
-    wiki.html.edit(pageName, getWikiPage(repository.owner, repository.name, pageName), repository)
+    html.edit(pageName, getWikiPage(repository.owner, repository.name, pageName), repository)
   })
   
   post("/:owner/:repository/wiki/_edit", editForm)(collaboratorsOnly { (form, repository) =>
@@ -120,7 +120,7 @@ trait WikiControllerBase extends ControllerBase {
   })
   
   get("/:owner/:repository/wiki/_new")(collaboratorsOnly {
-    wiki.html.edit("", None, _)
+    html.edit("", None, _)
   })
   
   post("/:owner/:repository/wiki/_new", newForm)(collaboratorsOnly { (form, repository) =>
@@ -147,14 +147,14 @@ trait WikiControllerBase extends ControllerBase {
   })
   
   get("/:owner/:repository/wiki/_pages")(referrersOnly { repository =>
-    wiki.html.pages(getWikiPageList(repository.owner, repository.name), repository,
+    html.pages(getWikiPageList(repository.owner, repository.name), repository,
       hasWritePermission(repository.owner, repository.name, context.loginAccount))
   })
   
   get("/:owner/:repository/wiki/_history")(referrersOnly { repository =>
     using(Git.open(getWikiRepositoryDir(repository.owner, repository.name))){ git =>
       JGitUtil.getCommitLog(git, "master") match {
-        case Right((logs, hasNext)) => wiki.html.history(None, logs, repository)
+        case Right((logs, hasNext)) => html.history(None, logs, repository)
         case Left(_) => NotFound
       }
     }
@@ -164,8 +164,7 @@ trait WikiControllerBase extends ControllerBase {
     val path = multiParams("splat").head
 
     getFileContent(repository.owner, repository.name, path).map { bytes =>
-      contentType = FileUtil.getContentType(path, bytes)
+      RawData(FileUtil.getContentType(path, bytes), bytes)
-      bytes
     } getOrElse NotFound
   })
 

src/main/scala/gitbucket/core/model/Account.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait AccountComponent { self: Profile =>
   import profile.simple._
@@ -21,20 +21,19 @@ trait AccountComponent { self: Profile =>
     val removed = column[Boolean]("REMOVED")
     def * = (userName, fullName, mailAddress, password, isAdmin, url.?, registeredDate, updatedDate, lastLoginDate.?, image.?, groupAccount, removed) <> (Account.tupled, Account.unapply)
   }
-
-  case class Account(
-
-    userName: String,
-    fullName: String,
-    mailAddress: String,
-    password: String,
-    isAdmin: Boolean,
-    url: Option[String],
-    registeredDate: java.util.Date,
-    updatedDate: java.util.Date,
-    lastLoginDate: Option[java.util.Date],
-    image: Option[String],
-    isGroupAccount: Boolean,
-    isRemoved: Boolean
-  )
 }
+
+case class Account(
+  userName: String,
+  fullName: String,
+  mailAddress: String,
+  password: String,
+  isAdmin: Boolean,
+  url: Option[String],
+  registeredDate: java.util.Date,
+  updatedDate: java.util.Date,
+  lastLoginDate: Option[java.util.Date],
+  image: Option[String],
+  isGroupAccount: Boolean,
+  isRemoved: Boolean
+)

src/main/scala/gitbucket/core/model/Activity.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait ActivityComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -15,15 +15,15 @@ trait ActivityComponent extends TemplateComponent { self: Profile =>
     val activityDate = column[java.util.Date]("ACTIVITY_DATE")
     def * = (userName, repositoryName, activityUserName, activityType, message, additionalInfo.?, activityDate, activityId) <> (Activity.tupled, Activity.unapply)
   }
-
-  case class Activity(
-    userName: String,
-    repositoryName: String,
-    activityUserName: String,
-    activityType: String,
-    message: String,
-    additionalInfo: Option[String],
-    activityDate: java.util.Date,
-    activityId: Int = 0
-  )
 }
+
+case class Activity(
+  userName: String,
+  repositoryName: String,
+  activityUserName: String,
+  activityType: String,
+  message: String,
+  additionalInfo: Option[String],
+  activityDate: java.util.Date,
+  activityId: Int = 0
+)

src/main/scala/gitbucket/core/model/BasicTemplate.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 protected[model] trait TemplateComponent { self: Profile =>
   import profile.simple._
@@ -8,40 +8,47 @@ protected[model] trait TemplateComponent { self: Profile =>
     val repositoryName = column[String]("REPOSITORY_NAME")
 
     def byRepository(owner: String, repository: String) =
-      (userName is owner.bind) && (repositoryName is repository.bind)
+      (userName === owner.bind) && (repositoryName === repository.bind)
 
     def byRepository(userName: Column[String], repositoryName: Column[String]) =
-      (this.userName is userName) && (this.repositoryName is repositoryName)
+      (this.userName === userName) && (this.repositoryName === repositoryName)
   }
 
   trait IssueTemplate extends BasicTemplate { self: Table[_] =>
     val issueId = column[Int]("ISSUE_ID")
 
     def byIssue(owner: String, repository: String, issueId: Int) =
-      byRepository(owner, repository) && (this.issueId is issueId.bind)
+      byRepository(owner, repository) && (this.issueId === issueId.bind)
 
     def byIssue(userName: Column[String], repositoryName: Column[String], issueId: Column[Int]) =
-      byRepository(userName, repositoryName) && (this.issueId is issueId)
+      byRepository(userName, repositoryName) && (this.issueId === issueId)
   }
 
   trait LabelTemplate extends BasicTemplate { self: Table[_] =>
     val labelId = column[Int]("LABEL_ID")
 
     def byLabel(owner: String, repository: String, labelId: Int) =
-      byRepository(owner, repository) && (this.labelId is labelId.bind)
+      byRepository(owner, repository) && (this.labelId === labelId.bind)
 
     def byLabel(userName: Column[String], repositoryName: Column[String], labelId: Column[Int]) =
-      byRepository(userName, repositoryName) && (this.labelId is labelId)
+      byRepository(userName, repositoryName) && (this.labelId === labelId)
   }
 
   trait MilestoneTemplate extends BasicTemplate { self: Table[_] =>
     val milestoneId = column[Int]("MILESTONE_ID")
 
     def byMilestone(owner: String, repository: String, milestoneId: Int) =
-      byRepository(owner, repository) && (this.milestoneId is milestoneId.bind)
+      byRepository(owner, repository) && (this.milestoneId === milestoneId.bind)
 
     def byMilestone(userName: Column[String], repositoryName: Column[String], milestoneId: Column[Int]) =
-      byRepository(userName, repositoryName) && (this.milestoneId is milestoneId)
+      byRepository(userName, repositoryName) && (this.milestoneId === milestoneId)
+  }
+
+  trait CommitTemplate extends BasicTemplate { self: Table[_] =>
+    val commitId = column[String]("COMMIT_ID")
+
+    def byCommit(owner: String, repository: String, commitId: String) =
+      byRepository(owner, repository) && (this.commitId === commitId)
   }
 
 }

src/main/scala/gitbucket/core/model/Collaborator.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait CollaboratorComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -10,12 +10,12 @@ trait CollaboratorComponent extends TemplateComponent { self: Profile =>
     def * = (userName, repositoryName, collaboratorName) <> (Collaborator.tupled, Collaborator.unapply)
 
     def byPrimaryKey(owner: String, repository: String, collaborator: String) =
-      byRepository(owner, repository) && (collaboratorName is collaborator.bind)
+      byRepository(owner, repository) && (collaboratorName === collaborator.bind)
   }
-
-  case class Collaborator(
-    userName: String,
-    repositoryName: String,
-    collaboratorName: String
-  )
 }
+
+case class Collaborator(
+  userName: String,
+  repositoryName: String,
+  collaboratorName: String
+)

src/main/scala/gitbucket/core/model/Comment.scala

@@ -0,0 +1,78 @@
+package gitbucket.core.model
+
+trait Comment {
+  val commentedUserName: String
+  val registeredDate: java.util.Date
+}
+
+trait IssueCommentComponent extends TemplateComponent { self: Profile =>
+  import profile.simple._
+  import self._
+
+  lazy val IssueComments = new TableQuery(tag => new IssueComments(tag)){
+    def autoInc = this returning this.map(_.commentId)
+  }
+
+  class IssueComments(tag: Tag) extends Table[IssueComment](tag, "ISSUE_COMMENT") with IssueTemplate {
+    val commentId = column[Int]("COMMENT_ID", O AutoInc)
+    val action = column[String]("ACTION")
+    val commentedUserName = column[String]("COMMENTED_USER_NAME")
+    val content = column[String]("CONTENT")
+    val registeredDate = column[java.util.Date]("REGISTERED_DATE")
+    val updatedDate = column[java.util.Date]("UPDATED_DATE")
+    def * = (userName, repositoryName, issueId, commentId, action, commentedUserName, content, registeredDate, updatedDate) <> (IssueComment.tupled, IssueComment.unapply)
+
+    def byPrimaryKey(commentId: Int) = this.commentId === commentId.bind
+  }
+}
+
+case class IssueComment (
+  userName: String,
+  repositoryName: String,
+  issueId: Int,
+  commentId: Int = 0,
+  action: String,
+  commentedUserName: String,
+  content: String,
+  registeredDate: java.util.Date,
+  updatedDate: java.util.Date
+) extends Comment
+
+trait CommitCommentComponent extends TemplateComponent { self: Profile =>
+  import profile.simple._
+  import self._
+
+  lazy val CommitComments = new TableQuery(tag => new CommitComments(tag)){
+    def autoInc = this returning this.map(_.commentId)
+  }
+
+  class CommitComments(tag: Tag) extends Table[CommitComment](tag, "COMMIT_COMMENT") with CommitTemplate {
+    val commentId = column[Int]("COMMENT_ID", O AutoInc)
+    val commentedUserName = column[String]("COMMENTED_USER_NAME")
+    val content = column[String]("CONTENT")
+    val fileName = column[Option[String]]("FILE_NAME")
+    val oldLine = column[Option[Int]]("OLD_LINE_NUMBER")
+    val newLine = column[Option[Int]]("NEW_LINE_NUMBER")
+    val registeredDate = column[java.util.Date]("REGISTERED_DATE")
+    val updatedDate = column[java.util.Date]("UPDATED_DATE")
+    val pullRequest = column[Boolean]("PULL_REQUEST")
+    def * = (userName, repositoryName, commitId, commentId, commentedUserName, content, fileName, oldLine, newLine, registeredDate, updatedDate, pullRequest) <> (CommitComment.tupled, CommitComment.unapply)
+
+    def byPrimaryKey(commentId: Int) = this.commentId === commentId.bind
+  }
+}
+
+case class CommitComment(
+  userName: String,
+  repositoryName: String,
+  commitId: String,
+  commentId: Int = 0,
+  commentedUserName: String,
+  content: String,
+  fileName: Option[String],
+  oldLine: Option[Int],
+  newLine: Option[Int],
+  registeredDate: java.util.Date,
+  updatedDate: java.util.Date,
+  pullRequest: Boolean
+ ) extends Comment

src/main/scala/gitbucket/core/model/GroupMembers.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait GroupMemberComponent { self: Profile =>
   import profile.simple._
@@ -11,10 +11,10 @@ trait GroupMemberComponent { self: Profile =>
     val isManager = column[Boolean]("MANAGER")
     def * = (groupName, userName, isManager) <> (GroupMember.tupled, GroupMember.unapply)
   }
-
-  case class GroupMember(
-    groupName: String,
-    userName: String,
-    isManager: Boolean
-  )
 }
+
+case class GroupMember(
+  groupName: String,
+  userName: String,
+  isManager: Boolean
+)

src/main/scala/gitbucket/core/model/Issue.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait IssueComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -31,18 +31,19 @@ trait IssueComponent extends TemplateComponent { self: Profile =>
 
     def byPrimaryKey(owner: String, repository: String, issueId: Int) = byIssue(owner, repository, issueId)
   }
-
-  case class Issue(
-    userName: String,
-    repositoryName: String,
-    issueId: Int,
-    openedUserName: String,
-    milestoneId: Option[Int],
-    assignedUserName: Option[String],
-    title: String,
-    content: Option[String],
-    closed: Boolean,
-    registeredDate: java.util.Date,
-    updatedDate: java.util.Date,
-    isPullRequest: Boolean)
 }
+
+case class Issue(
+  userName: String,
+  repositoryName: String,
+  issueId: Int,
+  openedUserName: String,
+  milestoneId: Option[Int],
+  assignedUserName: Option[String],
+  title: String,
+  content: Option[String],
+  closed: Boolean,
+  registeredDate: java.util.Date,
+  updatedDate: java.util.Date,
+  isPullRequest: Boolean
+)

src/main/scala/gitbucket/core/model/IssueLabels.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait IssueLabelComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -8,12 +8,13 @@ trait IssueLabelComponent extends TemplateComponent { self: Profile =>
   class IssueLabels(tag: Tag) extends Table[IssueLabel](tag, "ISSUE_LABEL") with IssueTemplate with LabelTemplate {
     def * = (userName, repositoryName, issueId, labelId) <> (IssueLabel.tupled, IssueLabel.unapply)
     def byPrimaryKey(owner: String, repository: String, issueId: Int, labelId: Int) =
-      byIssue(owner, repository, issueId) && (this.labelId is labelId.bind)
+      byIssue(owner, repository, issueId) && (this.labelId === labelId.bind)
   }
-
-  case class IssueLabel(
-    userName: String,
-    repositoryName: String,
-    issueId: Int,
-    labelId: Int)
 }
+
+case class IssueLabel(
+  userName: String,
+  repositoryName: String,
+  issueId: Int,
+  labelId: Int
+)

src/main/scala/gitbucket/core/model/Labels.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait LabelComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -14,24 +14,24 @@ trait LabelComponent extends TemplateComponent { self: Profile =>
     def byPrimaryKey(owner: String, repository: String, labelId: Int) = byLabel(owner, repository, labelId)
     def byPrimaryKey(userName: Column[String], repositoryName: Column[String], labelId: Column[Int]) = byLabel(userName, repositoryName, labelId)
   }
+}
 
-  case class Label(
+case class Label(
-    userName: String,
+  userName: String,
-    repositoryName: String,
+  repositoryName: String,
-    labelId: Int = 0,
+  labelId: Int = 0,
-    labelName: String,
+  labelName: String,
-    color: String){
+  color: String){
 
-    val fontColor = {
+  val fontColor = {
-      val r = color.substring(0, 2)
+    val r = color.substring(0, 2)
-      val g = color.substring(2, 4)
+    val g = color.substring(2, 4)
-      val b = color.substring(4, 6)
+    val b = color.substring(4, 6)
 
-      if(Integer.parseInt(r, 16) + Integer.parseInt(g, 16) + Integer.parseInt(b, 16) > 408){
+    if(Integer.parseInt(r, 16) + Integer.parseInt(g, 16) + Integer.parseInt(b, 16) > 408){
-        "000000"
+      "000000"
-      } else {
+    } else {
-        "FFFFFF"
+      "ffffff"
-      }
     }
   }
 }

src/main/scala/gitbucket/core/model/Milestone.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait MilestoneComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -17,13 +17,14 @@ trait MilestoneComponent extends TemplateComponent { self: Profile =>
     def byPrimaryKey(owner: String, repository: String, milestoneId: Int) = byMilestone(owner, repository, milestoneId)
     def byPrimaryKey(userName: Column[String], repositoryName: Column[String], milestoneId: Column[Int]) = byMilestone(userName, repositoryName, milestoneId)
   }
-
-  case class Milestone(
-    userName: String,
-    repositoryName: String,
-    milestoneId: Int = 0,
-    title: String,
-    description: Option[String],
-    dueDate: Option[java.util.Date],
-    closedDate: Option[java.util.Date])
 }
+
+case class Milestone(
+  userName: String,
+  repositoryName: String,
+  milestoneId: Int = 0,
+  title: String,
+  description: Option[String],
+  dueDate: Option[java.util.Date],
+  closedDate: Option[java.util.Date]
+)

src/main/scala/gitbucket/core/model/Plugin.scala

@@ -0,0 +1,19 @@
+package gitbucket.core.model
+
+trait PluginComponent extends TemplateComponent { self: Profile =>
+  import profile.simple._
+  import self._
+
+  lazy val Plugins = TableQuery[Plugins]
+
+  class Plugins(tag: Tag) extends Table[Plugin](tag, "PLUGIN"){
+    val pluginId = column[String]("PLUGIN_ID", O PrimaryKey)
+    val version = column[String]("VERSION")
+    def * = (pluginId, version) <> (Plugin.tupled, Plugin.unapply)
+  }
+}
+
+case class Plugin(
+  pluginId: String,
+  version: String
+)

src/main/scala/gitbucket/core/model/Profile.scala

@@ -0,0 +1,50 @@
+package gitbucket.core.model
+
+trait Profile {
+  val profile: slick.driver.JdbcProfile
+  import profile.simple._
+
+  /**
+   * java.util.Date Mapped Column Types
+   */
+  implicit val dateColumnType = MappedColumnType.base[java.util.Date, java.sql.Timestamp](
+    d => new java.sql.Timestamp(d.getTime),
+    t => new java.util.Date(t.getTime)
+  )
+
+  /**
+   * Extends Column to add conditional condition
+   */
+  implicit class RichColumn(c1: Column[Boolean]){
+    def &&(c2: => Column[Boolean], guard: => Boolean): Column[Boolean] = if(guard) c1 && c2 else c1
+  }
+
+  /**
+   * Returns system date.
+   */
+  def currentDate = new java.util.Date()
+
+}
+
+trait ProfileProvider { self: Profile =>
+  val profile = slick.driver.H2Driver
+}
+
+trait CoreProfile extends ProfileProvider with Profile
+  with AccountComponent
+  with ActivityComponent
+  with CollaboratorComponent
+  with CommitCommentComponent
+  with GroupMemberComponent
+  with IssueComponent
+  with IssueCommentComponent
+  with IssueLabelComponent
+  with LabelComponent
+  with MilestoneComponent
+  with PullRequestComponent
+  with RepositoryComponent
+  with SshKeyComponent
+  with WebHookComponent
+  with PluginComponent
+
+object Profile extends CoreProfile

src/main/scala/gitbucket/core/model/PullRequest.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait PullRequestComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -17,16 +17,16 @@ trait PullRequestComponent extends TemplateComponent { self: Profile =>
     def byPrimaryKey(userName: String, repositoryName: String, issueId: Int) = byIssue(userName, repositoryName, issueId)
     def byPrimaryKey(userName: Column[String], repositoryName: Column[String], issueId: Column[Int]) = byIssue(userName, repositoryName, issueId)
   }
-
-  case class PullRequest(
-    userName: String,
-    repositoryName: String,
-    issueId: Int,
-    branch: String,
-    requestUserName: String,
-    requestRepositoryName: String,
-    requestBranch: String,
-    commitIdFrom: String,
-    commitIdTo: String
-  )
 }
+
+case class PullRequest(
+  userName: String,
+  repositoryName: String,
+  issueId: Int,
+  branch: String,
+  requestUserName: String,
+  requestRepositoryName: String,
+  requestBranch: String,
+  commitIdFrom: String,
+  commitIdTo: String
+)

src/main/scala/gitbucket/core/model/Repository.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait RepositoryComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -21,19 +21,19 @@ trait RepositoryComponent extends TemplateComponent { self: Profile =>
 
     def byPrimaryKey(owner: String, repository: String) = byRepository(owner, repository)
   }
-
-  case class Repository(
-    userName: String,
-    repositoryName: String,
-    isPrivate: Boolean,
-    description: Option[String],
-    defaultBranch: String,
-    registeredDate: java.util.Date,
-    updatedDate: java.util.Date,
-    lastActivityDate: java.util.Date,
-    originUserName: Option[String],
-    originRepositoryName: Option[String],
-    parentUserName: Option[String],
-    parentRepositoryName: Option[String]
-  )
 }
+
+case class Repository(
+  userName: String,
+  repositoryName: String,
+  isPrivate: Boolean,
+  description: Option[String],
+  defaultBranch: String,
+  registeredDate: java.util.Date,
+  updatedDate: java.util.Date,
+  lastActivityDate: java.util.Date,
+  originUserName: Option[String],
+  originRepositoryName: Option[String],
+  parentUserName: Option[String],
+  parentRepositoryName: Option[String]
+)

src/main/scala/gitbucket/core/model/SshKey.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait SshKeyComponent { self: Profile =>
   import profile.simple._
@@ -12,13 +12,13 @@ trait SshKeyComponent { self: Profile =>
     val publicKey = column[String]("PUBLIC_KEY")
     def * = (userName, sshKeyId, title, publicKey) <> (SshKey.tupled, SshKey.unapply)
 
-    def byPrimaryKey(userName: String, sshKeyId: Int) = (this.userName is userName.bind) && (this.sshKeyId is sshKeyId.bind)
+    def byPrimaryKey(userName: String, sshKeyId: Int) = (this.userName === userName.bind) && (this.sshKeyId === sshKeyId.bind)
   }
-
-  case class SshKey(
-    userName: String,
-    sshKeyId: Int = 0,
-    title: String,
-    publicKey: String
-  )
 }
+
+case class SshKey(
+  userName: String,
+  sshKeyId: Int = 0,
+  title: String,
+  publicKey: String
+)

src/main/scala/gitbucket/core/model/WebHook.scala

@@ -1,4 +1,4 @@
-package model
+package gitbucket.core.model
 
 trait WebHookComponent extends TemplateComponent { self: Profile =>
   import profile.simple._
@@ -9,12 +9,12 @@ trait WebHookComponent extends TemplateComponent { self: Profile =>
     val url = column[String]("URL")
     def * = (userName, repositoryName, url) <> (WebHook.tupled, WebHook.unapply)
 
-    def byPrimaryKey(owner: String, repository: String, url: String) = byRepository(owner, repository) && (this.url is url.bind)
+    def byPrimaryKey(owner: String, repository: String, url: String) = byRepository(owner, repository) && (this.url === url.bind)
   }
-
-  case class WebHook(
-    userName: String,
-    repositoryName: String,
-    url: String
-  )
 }
+
+case class WebHook(
+  userName: String,
+  repositoryName: String,
+  url: String
+)

src/main/scala/gitbucket/core/model/package.scala

@@ -0,0 +1,5 @@
+package gitbucket.core
+
+package object model {
+  type Session = slick.jdbc.JdbcBackend#Session
+}

src/main/scala/gitbucket/core/plugin/Images.scala

@@ -0,0 +1,10 @@
+package gitbucket.core.plugin
+
+/**
+ * Provides a helper method to generate data URI of images registered by plug-in.
+ */
+object Images {
+
+  def dataURI(id: String) = s"data:image/png;base64,${PluginRegistry().getImage(id)}"
+
+}

src/main/scala/gitbucket/core/plugin/Plugin.scala

@@ -0,0 +1,28 @@
+package gitbucket.core.plugin
+
+import gitbucket.core.util.Version
+
+/**
+ * Trait for define plugin interface.
+ * To provide plugin, put Plugin class which mixed in this trait into the package root.
+ */
+trait Plugin {
+
+  val pluginId: String
+  val pluginName: String
+  val description: String
+  val versions: Seq[Version]
+
+  /**
+   * This method is invoked in initialization of plugin system.
+   * Register plugin functionality to PluginRegistry.
+   */
+  def initialize(registry: PluginRegistry): Unit
+
+  /**
+   * This method is invoked in shutdown of plugin system.
+   * If the plugin has any resources, release them in this method.
+   */
+  def shutdown(registry: PluginRegistry): Unit
+
+}

src/main/scala/gitbucket/core/plugin/PluginRegistory.scala

@@ -0,0 +1,161 @@
+package gitbucket.core.plugin
+
+import java.io.{File, FilenameFilter, InputStream}
+import java.net.URLClassLoader
+import javax.servlet.ServletContext
+import javax.servlet.http.{HttpServletRequest, HttpServletResponse}
+
+import gitbucket.core.controller.{Context, ControllerBase}
+import gitbucket.core.service.RepositoryService.RepositoryInfo
+import gitbucket.core.util.ControlUtil._
+import gitbucket.core.util.Directory._
+import gitbucket.core.util.JDBCUtil._
+import gitbucket.core.util.{Version, Versions}
+import org.apache.commons.codec.binary.{Base64, StringUtils}
+import org.slf4j.LoggerFactory
+
+import scala.collection.mutable
+import scala.collection.mutable.ListBuffer
+
+class PluginRegistry {
+
+  private val plugins = new ListBuffer[PluginInfo]
+  private val javaScripts = new ListBuffer[(String, String)]
+  private val controllers = new ListBuffer[(ControllerBase, String)]
+  private val images = mutable.Map[String, String]()
+
+  def addPlugin(pluginInfo: PluginInfo): Unit = {
+    plugins += pluginInfo
+  }
+
+  def getPlugins(): List[PluginInfo] = plugins.toList
+
+  def addImage(id: String, in: InputStream): Unit = {
+    val bytes = using(in){ in =>
+      val bytes = new Array[Byte](in.available)
+      in.read(bytes)
+      bytes
+    }
+    val encoded = StringUtils.newStringUtf8(Base64.encodeBase64(bytes, false))
+    images += ((id, encoded))
+  }
+
+  def getImage(id: String): String = images(id)
+
+  def addController(controller: ControllerBase, path: String): Unit = {
+    controllers += ((controller, path))
+  }
+
+  def getControllers(): List[(ControllerBase, String)] = controllers.toList
+
+  def addJavaScript(path: String, script: String): Unit = {
+    javaScripts += Tuple2(path, script)
+  }
+
+  //def getJavaScripts(): List[(String, String)] = javaScripts.toList
+
+  def getJavaScript(currentPath: String): Option[String] = {
+    javaScripts.find(x => currentPath.matches(x._1)).map(_._2)
+  }
+
+  private case class GlobalAction(
+    method: String,
+    path: String,
+    function: (HttpServletRequest, HttpServletResponse, Context) => Any
+  )
+
+  private case class RepositoryAction(
+    method: String,
+    path: String,
+    function: (HttpServletRequest, HttpServletResponse, Context, RepositoryInfo) => Any
+  )
+
+}
+
+/**
+ * Provides entry point to PluginRegistry.
+ */
+object PluginRegistry {
+
+  private val logger = LoggerFactory.getLogger(classOf[PluginRegistry])
+
+  private val instance = new PluginRegistry()
+
+  /**
+   * Returns the PluginRegistry singleton instance.
+   */
+  def apply(): PluginRegistry = instance
+
+  /**
+   * Initializes all installed plugins.
+   */
+  def initialize(context: ServletContext, conn: java.sql.Connection): Unit = {
+    val pluginDir = new File(PluginHome)
+    if(pluginDir.exists && pluginDir.isDirectory){
+      pluginDir.listFiles(new FilenameFilter {
+        override def accept(dir: File, name: String): Boolean = name.endsWith(".jar")
+      }).foreach { pluginJar =>
+        val classLoader = new URLClassLoader(Array(pluginJar.toURI.toURL), Thread.currentThread.getContextClassLoader)
+        try {
+          val plugin = classLoader.loadClass("Plugin").newInstance().asInstanceOf[Plugin]
+
+          // Migration
+          val headVersion = plugin.versions.head
+          val currentVersion = conn.find("SELECT * FROM PLUGIN WHERE PLUGIN_ID = ?", plugin.pluginId)(_.getString("VERSION")) match {
+            case Some(x) => {
+              val dim = x.split("\\.")
+              Version(dim(0).toInt, dim(1).toInt)
+            }
+            case None => Version(0, 0)
+          }
+
+          Versions.update(conn, headVersion, currentVersion, plugin.versions, new URLClassLoader(Array(pluginJar.toURI.toURL))){ conn =>
+            currentVersion.versionString match {
+              case "0.0" =>
+                conn.update("INSERT INTO PLUGIN (PLUGIN_ID, VERSION) VALUES (?, ?)", plugin.pluginId, headVersion.versionString)
+              case _ =>
+                conn.update("UPDATE PLUGIN SET VERSION = ? WHERE PLUGIN_ID = ?", headVersion.versionString, plugin.pluginId)
+            }
+          }
+
+          // Initialize
+          plugin.initialize(instance)
+          instance.addPlugin(PluginInfo(
+            pluginId    = plugin.pluginId,
+            pluginName  = plugin.pluginName,
+            version     = plugin.versions.head.versionString,
+            description = plugin.description,
+            pluginClass = plugin
+          ))
+
+        } catch {
+          case e: Exception => {
+            logger.error(s"Error during plugin initialization", e)
+          }
+        }
+      }
+    }
+  }
+
+  def shutdown(context: ServletContext): Unit = {
+    instance.getPlugins().foreach { pluginInfo =>
+      try {
+        pluginInfo.pluginClass.shutdown(instance)
+      } catch {
+        case e: Exception => {
+          logger.error(s"Error during plugin shutdown", e)
+        }
+      }
+    }
+  }
+
+
+}
+
+case class PluginInfo(
+  pluginId: String,
+  pluginName: String,
+  version: String,
+  description: String,
+  pluginClass: Plugin
+)

src/main/scala/gitbucket/core/plugin/Results.scala

@@ -0,0 +1,11 @@
+package gitbucket.core.plugin
+
+import play.twirl.api.Html
+
+/**
+ * Defines result case classes returned by plugin controller.
+ */
+object Results {
+  case class Redirect(path: String)
+  case class Fragment(html: Html)
+}

src/main/scala/gitbucket/core/plugin/Sessions.scala

@@ -0,0 +1,11 @@
+package gitbucket.core.plugin
+
+import scala.slick.jdbc.JdbcBackend.Session
+
+/**
+ * Provides Slick Session to Plug-ins.
+ */
+object Sessions {
+  val sessions = new ThreadLocal[Session]
+  implicit def session: Session = sessions.get()
+}

src/main/scala/gitbucket/core/service/AccountService.scala

@@ -1,13 +1,14 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.{GroupMember, Account}
-import simple._
+import gitbucket.core.model.Profile._
-// TODO [Slick 2.0]NOT import directly?
+import gitbucket.core.util.{StringUtil, LDAPUtil}
-import model.dateColumnType
+import gitbucket.core.service.SystemSettingsService.SystemSettings
-import service.SystemSettingsService.SystemSettings
+import profile.simple._
-import util.StringUtil._
+import StringUtil._
-import util.LDAPUtil
 import org.slf4j.LoggerFactory
+// TODO Why is direct import required?
+import gitbucket.core.model.Profile.dateColumnType
 
 trait AccountService {
 
@@ -39,7 +40,11 @@ trait AccountService {
         // Create or update account by LDAP information
         getAccountByUserName(ldapUserInfo.userName, true) match {
           case Some(x) if(!x.isRemoved) => {
-            updateAccount(x.copy(mailAddress = ldapUserInfo.mailAddress, fullName = ldapUserInfo.fullName))
+            if(settings.ldap.get.mailAttribute.getOrElse("").isEmpty) {
+              updateAccount(x.copy(fullName = ldapUserInfo.fullName))
+            } else {
+              updateAccount(x.copy(mailAddress = ldapUserInfo.mailAddress, fullName = ldapUserInfo.fullName))
+            }
             getAccountByUserName(ldapUserInfo.userName)
           }
           case Some(x) if(x.isRemoved)  => {
@@ -70,16 +75,16 @@ trait AccountService {
   }
 
   def getAccountByUserName(userName: String, includeRemoved: Boolean = false)(implicit s: Session): Option[Account] =
-    Accounts filter(t => (t.userName is userName.bind) && (t.removed is false.bind, !includeRemoved)) firstOption
+    Accounts filter(t => (t.userName === userName.bind) && (t.removed === false.bind, !includeRemoved)) firstOption
 
   def getAccountByMailAddress(mailAddress: String, includeRemoved: Boolean = false)(implicit s: Session): Option[Account] =
-    Accounts filter(t => (t.mailAddress.toLowerCase is mailAddress.toLowerCase.bind) && (t.removed is false.bind, !includeRemoved)) firstOption
+    Accounts filter(t => (t.mailAddress.toLowerCase === mailAddress.toLowerCase.bind) && (t.removed === false.bind, !includeRemoved)) firstOption
 
   def getAllUsers(includeRemoved: Boolean = true)(implicit s: Session): List[Account] =
     if(includeRemoved){
       Accounts sortBy(_.userName) list
     } else {
-      Accounts filter (_.removed is false.bind) sortBy(_.userName) list
+      Accounts filter (_.removed === false.bind) sortBy(_.userName) list
     }
 
   def createAccount(userName: String, password: String, fullName: String, mailAddress: String, isAdmin: Boolean, url: Option[String])
@@ -100,7 +105,7 @@ trait AccountService {
 
   def updateAccount(account: Account)(implicit s: Session): Unit =
     Accounts
-      .filter { a =>  a.userName is account.userName.bind }
+      .filter { a =>  a.userName === account.userName.bind }
       .map    { a => (a.password, a.fullName, a.mailAddress, a.isAdmin, a.url.?, a.registeredDate, a.updatedDate, a.lastLoginDate.?, a.removed) }
       .update (
         account.password,
@@ -114,10 +119,10 @@ trait AccountService {
         account.isRemoved)
 
   def updateAvatarImage(userName: String, image: Option[String])(implicit s: Session): Unit =
-    Accounts.filter(_.userName is userName.bind).map(_.image.?).update(image)
+    Accounts.filter(_.userName === userName.bind).map(_.image.?).update(image)
 
   def updateLastLoginDate(userName: String)(implicit s: Session): Unit =
-    Accounts.filter(_.userName is userName.bind).map(_.lastLoginDate).update(currentDate)
+    Accounts.filter(_.userName === userName.bind).map(_.lastLoginDate).update(currentDate)
 
   def createGroup(groupName: String, url: Option[String])(implicit s: Session): Unit =
     Accounts insert Account(
@@ -135,10 +140,10 @@ trait AccountService {
       isRemoved      = false)
 
   def updateGroup(groupName: String, url: Option[String], removed: Boolean)(implicit s: Session): Unit =
-    Accounts.filter(_.userName is groupName.bind).map(t => t.url.? -> t.removed).update(url, removed)
+    Accounts.filter(_.userName === groupName.bind).map(t => t.url.? -> t.removed).update(url, removed)
 
   def updateGroupMembers(groupName: String, members: List[(String, Boolean)])(implicit s: Session): Unit = {
-    GroupMembers.filter(_.groupName is groupName.bind).delete
+    GroupMembers.filter(_.groupName === groupName.bind).delete
     members.foreach { case (userName, isManager) =>
       GroupMembers insert GroupMember (groupName, userName, isManager)
     }
@@ -146,21 +151,26 @@ trait AccountService {
 
   def getGroupMembers(groupName: String)(implicit s: Session): List[GroupMember] =
     GroupMembers
-      .filter(_.groupName is groupName.bind)
+      .filter(_.groupName === groupName.bind)
       .sortBy(_.userName)
       .list
 
   def getGroupsByUserName(userName: String)(implicit s: Session): List[String] =
     GroupMembers
-      .filter(_.userName is userName.bind)
+      .filter(_.userName === userName.bind)
       .sortBy(_.groupName)
       .map(_.groupName)
       .list
 
   def removeUserRelatedData(userName: String)(implicit s: Session): Unit = {
-    GroupMembers.filter(_.userName is userName.bind).delete
+    GroupMembers.filter(_.userName === userName.bind).delete
-    Collaborators.filter(_.collaboratorName is userName.bind).delete
+    Collaborators.filter(_.collaboratorName === userName.bind).delete
-    Repositories.filter(_.userName is userName.bind).delete
+    Repositories.filter(_.userName === userName.bind).delete
+  }
+
+  def getGroupNames(userName: String)(implicit s: Session): List[String] = {
+    List(userName) ++
+      Collaborators.filter(_.collaboratorName === userName.bind).sortBy(_.userName).map(_.userName).list
   }
 
 }

src/main/scala/gitbucket/core/service/ActivityService.scala

@@ -1,7 +1,9 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.Activity
-import simple._
+import gitbucket.core.model.Profile._
+import gitbucket.core.util.JGitUtil
+import profile.simple._
 
 trait ActivityService {
 
@@ -10,9 +12,9 @@ trait ActivityService {
       .innerJoin(Repositories).on((t1, t2) => t1.byRepository(t2.userName, t2.repositoryName))
       .filter { case (t1, t2) =>
         if(isPublic){
-          (t1.activityUserName is activityUserName.bind) && (t2.isPrivate is false.bind)
+          (t1.activityUserName === activityUserName.bind) && (t2.isPrivate === false.bind)
         } else {
-          (t1.activityUserName is activityUserName.bind)
+          (t1.activityUserName === activityUserName.bind)
         }
       }
       .sortBy { case (t1, t2) => t1.activityId desc }
@@ -23,7 +25,16 @@ trait ActivityService {
   def getRecentActivities()(implicit s: Session): List[Activity] =
     Activities
       .innerJoin(Repositories).on((t1, t2) => t1.byRepository(t2.userName, t2.repositoryName))
-      .filter { case (t1, t2) => t2.isPrivate is false.bind }
+      .filter { case (t1, t2) =>  t2.isPrivate === false.bind }
+      .sortBy { case (t1, t2) => t1.activityId desc }
+      .map    { case (t1, t2) => t1 }
+      .take(30)
+      .list
+
+  def getRecentActivitiesByOwners(owners : Set[String])(implicit s: Session): List[Activity] =
+    Activities
+      .innerJoin(Repositories).on((t1, t2) => t1.byRepository(t2.userName, t2.repositoryName))
+      .filter { case (t1, t2) => (t2.isPrivate === false.bind) || (t2.userName inSetBind owners) }
       .sortBy { case (t1, t2) => t1.activityId desc }
       .map    { case (t1, t2) => t1 }
       .take(30)
@@ -85,6 +96,15 @@ trait ActivityService {
       Some(cut(comment, 200)),
       currentDate)
 
+  def recordCommentCommitActivity(userName: String, repositoryName: String, activityUserName: String, commitId: String, comment: String)
+                                 (implicit s: Session): Unit =
+    Activities insert Activity(userName, repositoryName, activityUserName,
+      "comment_commit",
+      s"[user:${activityUserName}] commented on commit [commit:${userName}/${repositoryName}@${commitId}]",
+      Some(cut(comment, 200)),
+      currentDate
+    )
+
   def recordCreateWikiPageActivity(userName: String, repositoryName: String, activityUserName: String, pageName: String)
                                   (implicit s: Session): Unit =
     Activities insert Activity(userName, repositoryName, activityUserName,
@@ -102,7 +122,7 @@ trait ActivityService {
       currentDate)
 
   def recordPushActivity(userName: String, repositoryName: String, activityUserName: String,
-      branchName: String, commits: List[util.JGitUtil.CommitInfo])(implicit s: Session): Unit =
+      branchName: String, commits: List[JGitUtil.CommitInfo])(implicit s: Session): Unit =
     Activities insert Activity(userName, repositoryName, activityUserName,
       "push",
       s"[user:${activityUserName}] pushed to [branch:${userName}/${repositoryName}#${branchName}] at [repo:${userName}/${repositoryName}]",
@@ -110,7 +130,7 @@ trait ActivityService {
       currentDate)
 
   def recordCreateTagActivity(userName: String, repositoryName: String, activityUserName: String, 
-      tagName: String, commits: List[util.JGitUtil.CommitInfo])(implicit s: Session): Unit =
+      tagName: String, commits: List[JGitUtil.CommitInfo])(implicit s: Session): Unit =
     Activities insert Activity(userName, repositoryName, activityUserName,
       "create_tag",
       s"[user:${activityUserName}] created tag [tag:${userName}/${repositoryName}#${tagName}] at [repo:${userName}/${repositoryName}]",
@@ -118,7 +138,7 @@ trait ActivityService {
       currentDate)
 
   def recordDeleteTagActivity(userName: String, repositoryName: String, activityUserName: String,
-                              tagName: String, commits: List[util.JGitUtil.CommitInfo])(implicit s: Session): Unit =
+                              tagName: String, commits: List[JGitUtil.CommitInfo])(implicit s: Session): Unit =
     Activities insert Activity(userName, repositoryName, activityUserName,
       "delete_tag",
       s"[user:${activityUserName}] deleted tag ${tagName} at [repo:${userName}/${repositoryName}]",
@@ -141,10 +161,10 @@ trait ActivityService {
       None,
       currentDate)
 
-  def recordForkActivity(userName: String, repositoryName: String, activityUserName: String)(implicit s: Session): Unit =
+  def recordForkActivity(userName: String, repositoryName: String, activityUserName: String, forkedUserName: String)(implicit s: Session): Unit = 
     Activities insert Activity(userName, repositoryName, activityUserName,
       "fork",
-      s"[user:${activityUserName}] forked [repo:${userName}/${repositoryName}] to [repo:${activityUserName}/${repositoryName}]",
+      s"[user:${activityUserName}] forked [repo:${userName}/${repositoryName}] to [repo:${forkedUserName}/${repositoryName}]",
       None,
       currentDate)
 

src/main/scala/gitbucket/core/service/CommitsService.scala

@@ -0,0 +1,53 @@
+package gitbucket.core.service
+
+import gitbucket.core.model.CommitComment
+import gitbucket.core.util.{StringUtil, Implicits}
+
+import scala.slick.jdbc.{StaticQuery => Q}
+import Q.interpolation
+import gitbucket.core.model.Profile._
+import profile.simple._
+import Implicits._
+import StringUtil._
+
+
+trait CommitsService {
+
+  def getCommitComments(owner: String, repository: String, commitId: String, pullRequest: Boolean)(implicit s: Session) =
+    CommitComments filter {
+      t => t.byCommit(owner, repository, commitId) && (t.pullRequest === pullRequest || pullRequest)
+    } list
+
+  def getCommitComment(owner: String, repository: String, commentId: String)(implicit s: Session) =
+    if (commentId forall (_.isDigit))
+      CommitComments filter { t =>
+        t.byPrimaryKey(commentId.toInt) && t.byRepository(owner, repository)
+      } firstOption
+    else
+      None
+
+  def createCommitComment(owner: String, repository: String, commitId: String, loginUser: String,
+    content: String, fileName: Option[String], oldLine: Option[Int], newLine: Option[Int], pullRequest: Boolean)(implicit s: Session): Int =
+    CommitComments.autoInc insert CommitComment(
+      userName          = owner,
+      repositoryName    = repository,
+      commitId          = commitId,
+      commentedUserName = loginUser,
+      content           = content,
+      fileName          = fileName,
+      oldLine           = oldLine,
+      newLine           = newLine,
+      registeredDate    = currentDate,
+      updatedDate       = currentDate,
+      pullRequest       = pullRequest)
+
+  def updateCommitComment(commentId: Int, content: String)(implicit s: Session) =
+    CommitComments
+      .filter (_.byPrimaryKey(commentId))
+      .map { t =>
+      t.content -> t.updatedDate
+    }.update (content, currentDate)
+
+  def deleteCommitComment(commentId: Int)(implicit s: Session) =
+    CommitComments filter (_.byPrimaryKey(commentId)) delete
+}

src/main/scala/gitbucket/core/service/IssuesService.scala

@@ -1,12 +1,13 @@
-package service
+package gitbucket.core.service
 
+import gitbucket.core.model._
+import gitbucket.core.util.StringUtil._
+import gitbucket.core.util.Implicits._
 import scala.slick.jdbc.{StaticQuery => Q}
 import Q.interpolation
 
-import model._
+import gitbucket.core.model.Profile._
-import simple._
+import profile.simple._
-import util.Implicits._
-import util.StringUtil._
 
 trait IssuesService {
   import IssuesService._
@@ -42,15 +43,13 @@ trait IssuesService {
    * Returns the count of the search result against  issues.
    *
    * @param condition the search condition
-   * @param filterUser the filter user name (key is "all", "assigned" or "created_by", value is the user name)
    * @param onlyPullRequest if true then counts only pull request, false then counts both of issue and pull request.
    * @param repos Tuple of the repository owner and the repository name
    * @return the count of the search result
    */
-  def countIssue(condition: IssueSearchCondition, filterUser: Map[String, String], onlyPullRequest: Boolean,
+  def countIssue(condition: IssueSearchCondition, onlyPullRequest: Boolean,
                  repos: (String, String)*)(implicit s: Session): Int =
-    // TODO check SQL
+    Query(searchIssueQuery(repos, condition, onlyPullRequest).length).first
-    Query(searchIssueQuery(repos, condition, filterUser, onlyPullRequest).length).first
 
   /**
    * Returns the Map which contains issue count for each labels.
@@ -58,13 +57,12 @@ trait IssuesService {
    * @param owner the repository owner
    * @param repository the repository name
    * @param condition the search condition
-   * @param filterUser the filter user name (key is "all", "assigned" or "created_by", value is the user name)
    * @return the Map which contains issue count for each labels (key is label name, value is issue count)
    */
   def countIssueGroupByLabels(owner: String, repository: String, condition: IssueSearchCondition,
                               filterUser: Map[String, String])(implicit s: Session): Map[String, Int] = {
 
-    searchIssueQuery(Seq(owner -> repository), condition.copy(labels = Set.empty), filterUser, false)
+    searchIssueQuery(Seq(owner -> repository), condition.copy(labels = Set.empty), false)
       .innerJoin(IssueLabels).on { (t1, t2) =>
         t1.byIssue(t2.userName, t2.repositoryName, t2.issueId)
       }
@@ -79,47 +77,22 @@ trait IssuesService {
       }
       .toMap
   }
-  /**
-   * Returns list which contains issue count for each repository.
-   * If the issue does not exist, its repository is not included in the result.
-   *
-   * @param condition the search condition
-   * @param filterUser the filter user name (key is "all", "assigned" or "created_by", value is the user name)
-   * @param onlyPullRequest if true then returns only pull request, false then returns both of issue and pull request.
-   * @param repos Tuple of the repository owner and the repository name
-   * @return list which contains issue count for each repository
-   */
-  def countIssueGroupByRepository(
-      condition: IssueSearchCondition, filterUser: Map[String, String], onlyPullRequest: Boolean,
-      repos: (String, String)*)(implicit s: Session): List[(String, String, Int)] = {
-    searchIssueQuery(repos, condition.copy(repo = None), filterUser, onlyPullRequest)
-      .groupBy { t =>
-        t.userName -> t.repositoryName
-      }
-      .map { case (repo, t) =>
-        (repo._1, repo._2, t.length)
-      }
-      .sortBy(_._3 desc)
-      .list
-  }
 
   /**
    * Returns the search result against  issues.
    *
    * @param condition the search condition
-   * @param filterUser the filter user name (key is "all", "assigned", "created_by" or "not_created_by", value is the user name)
+   * @param pullRequest if true then returns only pull requests, false then returns only issues.
-   * @param onlyPullRequest if true then returns only pull request, false then returns both of issue and pull request.
    * @param offset the offset for pagination
    * @param limit the limit for pagination
    * @param repos Tuple of the repository owner and the repository name
    * @return the search result (list of tuples which contain issue, labels and comment count)
    */
-  def searchIssue(condition: IssueSearchCondition, filterUser: Map[String, String], onlyPullRequest: Boolean,
+  def searchIssue(condition: IssueSearchCondition, pullRequest: Boolean, offset: Int, limit: Int, repos: (String, String)*)
-                  offset: Int, limit: Int, repos: (String, String)*)
+                 (implicit s: Session): List[IssueInfo] = {
-                 (implicit s: Session): List[(Issue, List[Label], Int)] = {
 
     // get issues and comment count and labels
-    searchIssueQuery(repos, condition, filterUser, onlyPullRequest)
+    searchIssueQuery(repos, condition, pullRequest)
         .innerJoin(IssueOutline).on { (t1, t2) => t1.byIssue(t2.userName, t2.repositoryName, t2.issueId) }
         .sortBy { case (t1, t2) =>
           (condition.sort match {
@@ -136,21 +109,23 @@ trait IssuesService {
         .drop(offset).take(limit)
         .leftJoin (IssueLabels) .on { case ((t1, t2), t3) => t1.byIssue(t3.userName, t3.repositoryName, t3.issueId) }
         .leftJoin (Labels)      .on { case (((t1, t2), t3), t4) => t3.byLabel(t4.userName, t4.repositoryName, t4.labelId) }
-        .map { case (((t1, t2), t3), t4) =>
+        .leftJoin (Milestones)  .on { case ((((t1, t2), t3), t4), t5) => t1.byMilestone(t5.userName, t5.repositoryName, t5.milestoneId) }
-          (t1, t2.commentCount, t4.labelId.?, t4.labelName.?, t4.color.?)
+        .map { case ((((t1, t2), t3), t4), t5) =>
+          (t1, t2.commentCount, t4.labelId.?, t4.labelName.?, t4.color.?, t5.title.?)
         }
         .list
         .splitWith { (c1, c2) =>
-          c1._1.userName == c2._1.userName &&
+          c1._1.userName       == c2._1.userName &&
           c1._1.repositoryName == c2._1.repositoryName &&
-          c1._1.issueId == c2._1.issueId
+          c1._1.issueId        == c2._1.issueId
         }
         .map { issues => issues.head match {
-          case (issue, commentCount, _,_,_) =>
+          case (issue, commentCount, _, _, _, milestone) =>
-            (issue,
+            IssueInfo(issue,
              issues.flatMap { t => t._3.map (
                  Label(issue.userName, issue.repositoryName, _, t._4.get, t._5.get)
              )} toList,
+             milestone,
              commentCount)
         }} toList
   }
@@ -158,21 +133,23 @@ trait IssuesService {
   /**
    * Assembles query for conditional issue searching.
    */
-  private def searchIssueQuery(repos: Seq[(String, String)], condition: IssueSearchCondition,
+  private def searchIssueQuery(repos: Seq[(String, String)], condition: IssueSearchCondition, pullRequest: Boolean)(implicit s: Session) =
-                               filterUser: Map[String, String], onlyPullRequest: Boolean)(implicit s: Session) =
     Issues filter { t1 =>
-      condition.repo
+      repos
-          .map { _.split('/') match { case array => Seq(array(0) -> array(1)) } }
+        .map { case (owner, repository) => t1.byRepository(owner, repository) }
-          .getOrElse (repos)
+        .foldLeft[Column[Boolean]](false) ( _ || _ ) &&
-          .map { case (owner, repository) => t1.byRepository(owner, repository) }
+      (t1.closed           === (condition.state == "closed").bind) &&
-          .foldLeft[Column[Boolean]](false) ( _ || _ ) &&
+      //(t1.milestoneId      === condition.milestoneId.get.get.bind, condition.milestoneId.flatten.isDefined) &&
-      (t1.closed           is (condition.state == "closed").bind) &&
+      (t1.milestoneId.?    isEmpty, condition.milestone == Some(None)) &&
-      (t1.milestoneId      is condition.milestoneId.get.get.bind, condition.milestoneId.flatten.isDefined) &&
+      (t1.assignedUserName === condition.assigned.get.bind, condition.assigned.isDefined) &&
-      (t1.milestoneId      isNull, condition.milestoneId == Some(None)) &&
+      (t1.openedUserName   === condition.author.get.bind, condition.author.isDefined) &&
-      (t1.assignedUserName is filterUser("assigned").bind, filterUser.get("assigned").isDefined) &&
+      (t1.pullRequest      === pullRequest.bind) &&
-      (t1.openedUserName   is filterUser("created_by").bind, filterUser.get("created_by").isDefined) &&
+      // Milestone filter
-      (t1.openedUserName   isNot filterUser("not_created_by").bind, filterUser.get("not_created_by").isDefined) &&
+      (Milestones filter { t2 =>
-      (t1.pullRequest      is true.bind, onlyPullRequest) &&
+        (t2.byPrimaryKey(t1.userName, t1.repositoryName, t1.milestoneId)) &&
+        (t2.title === condition.milestone.get.get.bind)
+      } exists, condition.milestone.flatten.isDefined) &&
+      // Label filter
       (IssueLabels filter { t2 =>
         (t2.byIssue(t1.userName, t1.repositoryName, t1.issueId)) &&
         (t2.labelId in
@@ -180,7 +157,19 @@ trait IssuesService {
             (t3.byRepository(t1.userName, t1.repositoryName)) &&
             (t3.labelName inSetBind condition.labels)
           } map(_.labelId)))
-      } exists, condition.labels.nonEmpty)
+      } exists, condition.labels.nonEmpty) &&
+      // Visibility filter
+      (Repositories filter { t2 =>
+        (t2.byRepository(t1.userName, t1.repositoryName)) &&
+        (t2.isPrivate === (condition.visibility == Some("private")).bind)
+      } exists, condition.visibility.nonEmpty) &&
+      // Organization (group) filter
+      (t1.userName inSetBind condition.groups, condition.groups.nonEmpty) &&
+      // Mentioned filter
+      ((t1.openedUserName === condition.mentioned.get.bind) || t1.assignedUserName === condition.mentioned.get.bind ||
+        (IssueComments filter { t2 =>
+          (t2.byIssue(t1.userName, t1.repositoryName, t1.issueId)) && (t2.commentedUserName === condition.mentioned.get.bind)
+        } exists), condition.mentioned.isDefined)
     }
 
   def createIssue(owner: String, repository: String, loginUser: String, title: String, content: Option[String],
@@ -279,6 +268,7 @@ trait IssuesService {
 
     // Search Issue
     val issues = Issues
+      .filter(_.byRepository(owner, repository))
       .innerJoin(IssueOutline).on { case (t1, t2) =>
         t1.byIssue(t2.userName, t2.repositoryName, t2.issueId)
       }
@@ -294,6 +284,7 @@ trait IssuesService {
 
     // Search IssueComment
     val comments = IssueComments
+      .filter(_.byRepository(owner, repository))
       .innerJoin(Issues).on { case (t1, t2) =>
         t1.byIssue(t2.userName, t2.repositoryName, t2.issueId)
       }
@@ -336,23 +327,65 @@ object IssuesService {
 
   case class IssueSearchCondition(
       labels: Set[String] = Set.empty,
-      milestoneId: Option[Option[Int]] = None,
+      milestone: Option[Option[String]] = None,
-      repo: Option[String] = None,
+      author: Option[String] = None,
+      assigned: Option[String] = None,
+      mentioned: Option[String] = None,
       state: String = "open",
       sort: String = "created",
-      direction: String = "desc"){
+      direction: String = "desc",
+      visibility: Option[String] = None,
+      groups: Set[String] = Set.empty){
+
+    def isEmpty: Boolean = {
+      labels.isEmpty && milestone.isEmpty && author.isEmpty && assigned.isEmpty &&
+        state == "open" && sort == "created" && direction == "desc" && visibility.isEmpty
+    }
+
+    def nonEmpty: Boolean = !isEmpty
+
+    def toFilterString: String = (
+      List(
+        Some(s"is:${state}"),
+        author.map(author => s"author:${author}"),
+        assigned.map(assignee => s"assignee:${assignee}"),
+        mentioned.map(mentioned => s"mentions:${mentioned}")
+      ).flatten ++
+      labels.map(label => s"label:${label}") ++
+      List(
+        milestone.map { _ match {
+          case Some(x) => s"milestone:${x}"
+          case None    => "no:milestone"
+        }},
+        (sort, direction) match {
+          case ("created" , "desc") => None
+          case ("created" , "asc" ) => Some("sort:created-asc")
+          case ("comments", "desc") => Some("sort:comments-desc")
+          case ("comments", "asc" ) => Some("sort:comments-asc")
+          case ("updated" , "desc") => Some("sort:updated-desc")
+          case ("updated" , "asc" ) => Some("sort:updated-asc")
+        },
+        visibility.map(visibility => s"visibility:${visibility}")
+      ).flatten ++
+      groups.map(group => s"group:${group}")
+    ).mkString(" ")
 
     def toURL: String =
       "?" + List(
         if(labels.isEmpty) None else Some("labels=" + urlEncode(labels.mkString(","))),
-        milestoneId.map { id => "milestone=" + (id match {
+        milestone.map { _ match {
-          case Some(x) => x.toString
+          case Some(x) => "milestone=" + urlEncode(x)
-          case None    => "none"
+          case None    => "milestone=none"
-        })},
+        }},
-        repo.map("for="   + urlEncode(_)),
+        author   .map(x => "author="    + urlEncode(x)),
+        assigned .map(x => "assigned="  + urlEncode(x)),
+        mentioned.map(x => "mentioned=" + urlEncode(x)),
         Some("state="     + urlEncode(state)),
         Some("sort="      + urlEncode(sort)),
-        Some("direction=" + urlEncode(direction))).flatten.mkString("&")
+        Some("direction=" + urlEncode(direction)),
+        visibility.map(x => "visibility=" + urlEncode(x)),
+        if(groups.isEmpty) None else Some("groups=" + urlEncode(groups.mkString(",")))
+      ).flatten.mkString("&")
 
   }
 
@@ -363,17 +396,63 @@ object IssuesService {
       if(value == null || value.isEmpty || (allow.nonEmpty && !allow.contains(value))) None else Some(value)
     }
 
+    /**
+     * Restores IssueSearchCondition instance from filter query.
+     */
+    def apply(filter: String, milestones: Map[String, Int]): IssueSearchCondition = {
+      val conditions = filter.split("[ 　\t]+").map { x =>
+        val dim = x.split(":")
+        dim(0) -> dim(1)
+      }.groupBy(_._1).map { case (key, values) =>
+        key -> values.map(_._2).toSeq
+      }
+
+      val (sort, direction) = conditions.get("sort").flatMap(_.headOption).getOrElse("created-desc") match {
+        case "created-asc"   => ("created" , "asc" )
+        case "comments-desc" => ("comments", "desc")
+        case "comments-asc"  => ("comments", "asc" )
+        case "updated-desc"  => ("comments", "desc")
+        case "updated-asc"   => ("comments", "asc" )
+        case _               => ("created" , "desc")
+      }
+
+      IssueSearchCondition(
+        conditions.get("label").map(_.toSet).getOrElse(Set.empty),
+        conditions.get("milestone").flatMap(_.headOption) match {
+          case None         => None
+          case Some("none") => Some(None)
+          case Some(x)      => Some(Some(x)) //milestones.get(x).map(x => Some(x))
+        },
+        conditions.get("author").flatMap(_.headOption),
+        conditions.get("assignee").flatMap(_.headOption),
+        conditions.get("mentions").flatMap(_.headOption),
+        conditions.get("is").getOrElse(Seq.empty).find(x => x == "open" || x == "closed").getOrElse("open"),
+        sort,
+        direction,
+        conditions.get("visibility").flatMap(_.headOption),
+        conditions.get("group").map(_.toSet).getOrElse(Set.empty)
+      )
+    }
+
+    /**
+     * Restores IssueSearchCondition instance from request parameters.
+     */
     def apply(request: HttpServletRequest): IssueSearchCondition =
       IssueSearchCondition(
         param(request, "labels").map(_.split(",").toSet).getOrElse(Set.empty),
-        param(request, "milestone").map{
+        param(request, "milestone").map {
           case "none" => None
-          case x      => x.toIntOpt
+          case x      => Some(x)
         },
-        param(request, "for"),
+        param(request, "author"),
+        param(request, "assigned"),
+        param(request, "mentioned"),
         param(request, "state",     Seq("open", "closed")).getOrElse("open"),
         param(request, "sort",      Seq("created", "comments", "updated")).getOrElse("created"),
-        param(request, "direction", Seq("asc", "desc")).getOrElse("desc"))
+        param(request, "direction", Seq("asc", "desc")).getOrElse("desc"),
+        param(request, "visibility"),
+        param(request, "groups").map(_.split(",").toSet).getOrElse(Set.empty)
+      )
 
     def page(request: HttpServletRequest) = try {
       val i = param(request, "page").getOrElse("1").toInt
@@ -383,4 +462,6 @@ object IssuesService {
     }
   }
 
+  case class IssueInfo(issue: Issue, labels: List[Label], milestone: Option[String], commentCount: Int)
+
 }

src/main/scala/gitbucket/core/service/LabelsService.scala

@@ -1,7 +1,8 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.Label
-import simple._
+import gitbucket.core.model.Profile._
+import profile.simple._
 
 trait LabelsService {
 
@@ -11,8 +12,8 @@ trait LabelsService {
   def getLabel(owner: String, repository: String, labelId: Int)(implicit s: Session): Option[Label] =
     Labels.filter(_.byPrimaryKey(owner, repository, labelId)).firstOption
 
-  def createLabel(owner: String, repository: String, labelName: String, color: String)(implicit s: Session): Unit =
+  def createLabel(owner: String, repository: String, labelName: String, color: String)(implicit s: Session): Int =
-    Labels insert Label(
+    Labels returning Labels.map(_.labelId) += Label(
       userName       = owner,
       repositoryName = repository,
       labelName      = labelName,

src/main/scala/gitbucket/core/service/MilestonesService.scala

@@ -1,9 +1,10 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.Milestone
-import simple._
+import gitbucket.core.model.Profile._
-// TODO [Slick 2.0]NOT import directly?
+import profile.simple._
-import model.dateColumnType
+// TODO Why is direct import required?
+import gitbucket.core.model.Profile.dateColumnType
 
 trait MilestonesService {
 
@@ -40,7 +41,7 @@ trait MilestonesService {
 
   def getMilestonesWithIssueCount(owner: String, repository: String)(implicit s: Session): List[(Milestone, Int, Int)] = {
     val counts = Issues
-      .filter  { t => (t.byRepository(owner, repository)) && (t.milestoneId isNotNull) }
+      .filter  { t => (t.byRepository(owner, repository)) && (t.milestoneId.? isDefined) }
       .groupBy { t => t.milestoneId -> t.closed }
       .map     { case (t1, t2) => t1._1 -> t1._2 -> t2.length }
       .toMap

src/main/scala/gitbucket/core/service/PluginService.scala

@@ -0,0 +1,24 @@
+package gitbucket.core.service
+
+import gitbucket.core.model.Plugin
+import gitbucket.core.model.Profile._
+import profile.simple._
+
+trait PluginService {
+
+  def getPlugins()(implicit s: Session): List[Plugin] =
+    Plugins.sortBy(_.pluginId).list
+
+  def registerPlugin(plugin: Plugin)(implicit s: Session): Unit =
+    Plugins.insert(plugin)
+
+  def updatePlugin(plugin: Plugin)(implicit s: Session): Unit =
+    Plugins.filter(_.pluginId === plugin.pluginId.bind).map(_.version).update(plugin.version)
+
+  def deletePlugin(pluginId: String)(implicit s: Session): Unit =
+    Plugins.filter(_.pluginId === pluginId.bind).delete
+
+  def getPlugin(pluginId: String)(implicit s: Session): Option[Plugin] =
+    Plugins.filter(_.pluginId === pluginId.bind).firstOption
+
+}

src/main/scala/gitbucket/core/service/PullRequestService.scala

@@ -0,0 +1,125 @@
+package gitbucket.core.service
+
+import gitbucket.core.model.{Issue, PullRequest}
+import gitbucket.core.model.Profile._
+import gitbucket.core.util.JGitUtil
+import profile.simple._
+
+trait PullRequestService { self: IssuesService =>
+  import PullRequestService._
+
+  def getPullRequest(owner: String, repository: String, issueId: Int)
+                    (implicit s: Session): Option[(Issue, PullRequest)] =
+    getIssue(owner, repository, issueId.toString).flatMap{ issue =>
+      PullRequests.filter(_.byPrimaryKey(owner, repository, issueId)).firstOption.map{
+        pullreq => (issue, pullreq)
+      }
+    }
+
+  def updateCommitId(owner: String, repository: String, issueId: Int, commitIdTo: String, commitIdFrom: String)
+                    (implicit s: Session): Unit =
+    PullRequests.filter(_.byPrimaryKey(owner, repository, issueId))
+                .map(pr => pr.commitIdTo -> pr.commitIdFrom)
+                .update((commitIdTo, commitIdFrom))
+
+  def getPullRequestCountGroupByUser(closed: Boolean, owner: Option[String], repository: Option[String])
+                                    (implicit s: Session): List[PullRequestCount] =
+    PullRequests
+      .innerJoin(Issues).on { (t1, t2) => t1.byPrimaryKey(t2.userName, t2.repositoryName, t2.issueId) }
+      .filter { case (t1, t2) =>
+        (t2.closed         === closed.bind) &&
+        (t1.userName       === owner.get.bind, owner.isDefined) &&
+        (t1.repositoryName === repository.get.bind, repository.isDefined)
+      }
+      .groupBy { case (t1, t2) => t2.openedUserName }
+      .map { case (userName, t) => userName -> t.length }
+      .sortBy(_._2 desc)
+      .list
+      .map { x => PullRequestCount(x._1, x._2) }
+
+//  def getAllPullRequestCountGroupByUser(closed: Boolean, userName: String)(implicit s: Session): List[PullRequestCount] =
+//    PullRequests
+//      .innerJoin(Issues).on { (t1, t2) => t1.byPrimaryKey(t2.userName, t2.repositoryName, t2.issueId) }
+//      .innerJoin(Repositories).on { case ((t1, t2), t3) => t2.byRepository(t3.userName, t3.repositoryName) }
+//      .filter { case ((t1, t2), t3) =>
+//        (t2.closed === closed.bind) &&
+//          (
+//            (t3.isPrivate === false.bind) ||
+//            (t3.userName  === userName.bind) ||
+//            (Collaborators.filter { t4 => t4.byRepository(t3.userName, t3.repositoryName) && (t4.collaboratorName === userName.bind)} exists)
+//          )
+//      }
+//      .groupBy { case ((t1, t2), t3) => t2.openedUserName }
+//      .map { case (userName, t) => userName -> t.length }
+//      .sortBy(_._2 desc)
+//      .list
+//      .map { x => PullRequestCount(x._1, x._2) }
+
+  def createPullRequest(originUserName: String, originRepositoryName: String, issueId: Int,
+        originBranch: String, requestUserName: String, requestRepositoryName: String, requestBranch: String,
+        commitIdFrom: String, commitIdTo: String)(implicit s: Session): Unit =
+    PullRequests insert PullRequest(
+      originUserName,
+      originRepositoryName,
+      issueId,
+      originBranch,
+      requestUserName,
+      requestRepositoryName,
+      requestBranch,
+      commitIdFrom,
+      commitIdTo)
+
+  def getPullRequestsByRequest(userName: String, repositoryName: String, branch: String, closed: Boolean)
+                              (implicit s: Session): List[PullRequest] =
+    PullRequests
+      .innerJoin(Issues).on { (t1, t2) => t1.byPrimaryKey(t2.userName, t2.repositoryName, t2.issueId) }
+      .filter { case (t1, t2) =>
+        (t1.requestUserName       === userName.bind) &&
+        (t1.requestRepositoryName === repositoryName.bind) &&
+        (t1.requestBranch         === branch.bind) &&
+        (t2.closed                === closed.bind)
+      }
+      .map { case (t1, t2) => t1 }
+      .list
+
+  /**
+   * Fetch pull request contents into refs/pull/${issueId}/head and update pull request table.
+   */
+  def updatePullRequests(owner: String, repository: String, branch: String)(implicit s: Session): Unit =
+    getPullRequestsByRequest(owner, repository, branch, false).foreach { pullreq =>
+      if(Repositories.filter(_.byRepository(pullreq.userName, pullreq.repositoryName)).exists.run){
+        val (commitIdTo, commitIdFrom) = JGitUtil.updatePullRequest(
+          pullreq.userName, pullreq.repositoryName, pullreq.branch, pullreq.issueId,
+          pullreq.requestUserName, pullreq.requestRepositoryName, pullreq.requestBranch)
+        updateCommitId(pullreq.userName, pullreq.repositoryName, pullreq.issueId, commitIdTo, commitIdFrom)
+      }
+    }
+
+  def getPullRequestByRequestCommit(userName: String, repositoryName: String, toBranch:String, fromBranch: String, commitId: String)
+                              (implicit s: Session): Option[(PullRequest, Issue)] = {
+    if(toBranch == fromBranch){
+      None
+    } else {
+      PullRequests
+        .innerJoin(Issues).on { (t1, t2) => t1.byPrimaryKey(t2.userName, t2.repositoryName, t2.issueId) }
+        .filter { case (t1, t2) =>
+          (t1.userName              === userName.bind) &&
+          (t1.repositoryName        === repositoryName.bind) &&
+          (t1.branch                === toBranch.bind) &&
+          (t1.requestUserName       === userName.bind) &&
+          (t1.requestRepositoryName === repositoryName.bind) &&
+          (t1.requestBranch         === fromBranch.bind) &&
+          (t1.commitIdTo            === commitId.bind)
+        }
+        .firstOption
+    }
+  }
+}
+
+object PullRequestService {
+
+  val PullRequestLimit = 25
+
+  case class PullRequestCount(userName: String, count: Int)
+
+}

src/main/scala/gitbucket/core/service/RepositorySearchService.scala

@@ -1,14 +1,16 @@
-package service
+package gitbucket.core.service
 
-import util.{FileUtil, StringUtil, JGitUtil}
+import gitbucket.core.model.Issue
-import util.Directory._
+import gitbucket.core.util._
-import util.ControlUtil._
+import gitbucket.core.util.StringUtil
+import Directory._
+import ControlUtil._
 import org.eclipse.jgit.revwalk.RevWalk
 import org.eclipse.jgit.treewalk.TreeWalk
 import org.eclipse.jgit.lib.FileMode
 import org.eclipse.jgit.api.Git
-import model._
+import gitbucket.core.model.Profile._
-import simple._
+import profile.simple._
 
 trait RepositorySearchService { self: IssuesService =>
   import RepositorySearchService._
@@ -20,6 +22,7 @@ trait RepositorySearchService { self: IssuesService =>
     searchIssuesByKeyword(owner, repository, query).map { case (issue, commentCount, content) =>
       IssueSearchResult(
         issue.issueId,
+        issue.isPullRequest,
         issue.title,
         issue.openedUserName,
         issue.registeredDate,
@@ -111,6 +114,7 @@ object RepositorySearchService {
 
   case class IssueSearchResult(
     issueId: Int,
+    isPullRequest: Boolean,
     title: String,
     openedUserName: String,
     registeredDate: java.util.Date,

src/main/scala/gitbucket/core/service/RepositoryService.scala

@@ -1,8 +1,9 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.{Collaborator, Repository, Account}
-import simple._
+import gitbucket.core.model.Profile._
-import util.JGitUtil
+import gitbucket.core.util.JGitUtil
+import profile.simple._
 
 trait RepositoryService { self: AccountService =>
   import RepositoryService._
@@ -45,40 +46,65 @@ trait RepositoryService { self: AccountService =>
       (Repositories filter { t => t.byRepository(oldUserName, oldRepositoryName) } firstOption).map { repository =>
         Repositories insert repository.copy(userName = newUserName, repositoryName = newRepositoryName)
 
-        val webHooks      = WebHooks     .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val webHooks       = WebHooks      .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val milestones    = Milestones   .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val milestones     = Milestones    .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val issueId       = IssueId      .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val issueId        = IssueId       .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val issues        = Issues       .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val issues         = Issues        .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val pullRequests  = PullRequests .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val pullRequests   = PullRequests  .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val labels        = Labels       .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val labels         = Labels        .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val issueComments = IssueComments.filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val issueComments  = IssueComments .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val issueLabels   = IssueLabels  .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val issueLabels    = IssueLabels   .filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val activities    = Activities   .filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val commitComments = CommitComments.filter(_.byRepository(oldUserName, oldRepositoryName)).list
-        val collaborators = Collaborators.filter(_.byRepository(oldUserName, oldRepositoryName)).list
+        val collaborators  = Collaborators .filter(_.byRepository(oldUserName, oldRepositoryName)).list
 
         Repositories.filter { t =>
-          (t.originUserName is oldUserName.bind) && (t.originRepositoryName is oldRepositoryName.bind)
+          (t.originUserName === oldUserName.bind) && (t.originRepositoryName === oldRepositoryName.bind)
         }.map { t => t.originUserName -> t.originRepositoryName }.update(newUserName, newRepositoryName)
 
         Repositories.filter { t =>
-          (t.parentUserName is oldUserName.bind) && (t.parentRepositoryName is oldRepositoryName.bind)
+          (t.parentUserName === oldUserName.bind) && (t.parentRepositoryName === oldRepositoryName.bind)
         }.map { t => t.originUserName -> t.originRepositoryName }.update(newUserName, newRepositoryName)
 
         PullRequests.filter { t =>
-          t.requestRepositoryName is oldRepositoryName.bind
+          t.requestRepositoryName === oldRepositoryName.bind
         }.map { t => t.requestUserName -> t.requestRepositoryName }.update(newUserName, newRepositoryName)
 
+        // Updates activity fk before deleting repository because activity is sorted by activityId
+        // and it can't be changed by deleting-and-inserting record.
+        Activities.filter(_.byRepository(oldUserName, oldRepositoryName)).list.foreach { activity =>
+          Activities.filter(_.activityId === activity.activityId.bind)
+            .map(x => (x.userName, x.repositoryName)).update(newUserName, newRepositoryName)
+        }
+
         deleteRepository(oldUserName, oldRepositoryName)
 
-        WebHooks      .insertAll(webHooks      .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
+        WebHooks  .insertAll(webHooks      .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
-        Milestones    .insertAll(milestones    .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
+        Milestones.insertAll(milestones    .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
-        IssueId       .insertAll(issueId       .map(_.copy(_1       = newUserName, _2             = newRepositoryName)) :_*)
+        IssueId   .insertAll(issueId       .map(_.copy(_1       = newUserName, _2             = newRepositoryName)) :_*)
-        Issues        .insertAll(issues        .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
+
+        val newMilestones = Milestones.filter(_.byRepository(newUserName, newRepositoryName)).list
+        Issues.insertAll(issues.map { x => x.copy(
+          userName       = newUserName,
+          repositoryName = newRepositoryName,
+          milestoneId    = x.milestoneId.map { id =>
+            newMilestones.find(_.title == milestones.find(_.milestoneId == id).get.title).get.milestoneId
+          }
+        )} :_*)
+
         PullRequests  .insertAll(pullRequests  .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
         IssueComments .insertAll(issueComments .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
         Labels        .insertAll(labels        .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
-        IssueLabels   .insertAll(issueLabels   .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
+        CommitComments.insertAll(commitComments.map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
-        Activities    .insertAll(activities    .map(_.copy(userName = newUserName, repositoryName = newRepositoryName)) :_*)
+
+        // Convert labelId
+        val oldLabelMap = labels.map(x => (x.labelId, x.labelName)).toMap
+        val newLabelMap = Labels.filter(_.byRepository(newUserName, newRepositoryName)).map(x => (x.labelName, x.labelId)).list.toMap
+        IssueLabels.insertAll(issueLabels.map(x => x.copy(
+          labelId        = newLabelMap(oldLabelMap(x.labelId)),
+          userName       = newUserName,
+          repositoryName = newRepositoryName
+        )) :_*)
+
         if(account.isGroupAccount){
           Collaborators.insertAll(getGroupMembers(newUserName).map(m => Collaborator(newUserName, newRepositoryName, m.userName)) :_*)
         } else {
@@ -86,19 +112,19 @@ trait RepositoryService { self: AccountService =>
         }
 
         // Update activity messages
-        val updateActivities = Activities.filter { t =>
+        Activities.filter { t =>
           (t.message like s"%:${oldUserName}/${oldRepositoryName}]%") ||
-          (t.message like s"%:${oldUserName}/${oldRepositoryName}#%")
+          (t.message like s"%:${oldUserName}/${oldRepositoryName}#%") ||
-        }.map { t => t.activityId -> t.message }.list
+          (t.message like s"%:${oldUserName}/${oldRepositoryName}@%")
-
+        }.map { t => t.activityId -> t.message }.list.foreach { case (activityId, message) =>
-        updateActivities.foreach { case (activityId, message) =>
+          Activities.filter(_.activityId === activityId.bind).map(_.message).update(
-          Activities.filter(_.activityId is activityId.bind).map(_.message).update(
             message
               .replace(s"[repo:${oldUserName}/${oldRepositoryName}]"   ,s"[repo:${newUserName}/${newRepositoryName}]")
               .replace(s"[branch:${oldUserName}/${oldRepositoryName}#" ,s"[branch:${newUserName}/${newRepositoryName}#")
               .replace(s"[tag:${oldUserName}/${oldRepositoryName}#"    ,s"[tag:${newUserName}/${newRepositoryName}#")
               .replace(s"[pullreq:${oldUserName}/${oldRepositoryName}#",s"[pullreq:${newUserName}/${newRepositoryName}#")
               .replace(s"[issue:${oldUserName}/${oldRepositoryName}#"  ,s"[issue:${newUserName}/${newRepositoryName}#")
+              .replace(s"[commit:${oldUserName}/${oldRepositoryName}@" ,s"[commit:${newUserName}/${newRepositoryName}@")
           )
         }
       }
@@ -108,6 +134,7 @@ trait RepositoryService { self: AccountService =>
   def deleteRepository(userName: String, repositoryName: String)(implicit s: Session): Unit = {
     Activities    .filter(_.byRepository(userName, repositoryName)).delete
     Collaborators .filter(_.byRepository(userName, repositoryName)).delete
+    CommitComments.filter(_.byRepository(userName, repositoryName)).delete
     IssueLabels   .filter(_.byRepository(userName, repositoryName)).delete
     Labels        .filter(_.byRepository(userName, repositoryName)).delete
     IssueComments .filter(_.byRepository(userName, repositoryName)).delete
@@ -117,6 +144,30 @@ trait RepositoryService { self: AccountService =>
     Milestones    .filter(_.byRepository(userName, repositoryName)).delete
     WebHooks      .filter(_.byRepository(userName, repositoryName)).delete
     Repositories  .filter(_.byRepository(userName, repositoryName)).delete
+
+    // Update ORIGIN_USER_NAME and ORIGIN_REPOSITORY_NAME
+    Repositories
+      .filter { x => (x.originUserName === userName.bind) && (x.originRepositoryName === repositoryName.bind) }
+      .map    { x => (x.userName, x.repositoryName) }
+      .list
+      .foreach { case (userName, repositoryName) =>
+        Repositories
+          .filter(_.byRepository(userName, repositoryName))
+          .map(x => (x.originUserName?, x.originRepositoryName?))
+          .update(None, None)
+      }
+
+    // Update PARENT_USER_NAME and PARENT_REPOSITORY_NAME
+    Repositories
+      .filter { x => (x.parentUserName === userName.bind) && (x.parentRepositoryName === repositoryName.bind) }
+      .map    { x => (x.userName, x.repositoryName) }
+      .list
+      .foreach { case (userName, repositoryName) =>
+        Repositories
+          .filter(_.byRepository(userName, repositoryName))
+          .map(x => (x.parentUserName?, x.parentRepositoryName?))
+          .update(None, None)
+      }
   }
 
   /**
@@ -126,7 +177,7 @@ trait RepositoryService { self: AccountService =>
    * @return the list of repository names
    */
   def getRepositoryNamesOfUser(userName: String)(implicit s: Session): List[String] =
-    Repositories filter(_.userName is userName.bind) map (_.repositoryName) list
+    Repositories filter(_.userName === userName.bind) map (_.repositoryName) list
 
   /**
    * Returns the specified repository information.
@@ -140,14 +191,14 @@ trait RepositoryService { self: AccountService =>
     (Repositories filter { t => t.byRepository(userName, repositoryName) } firstOption) map { repository =>
       // for getting issue count and pull request count
       val issues = Issues.filter { t =>
-        t.byRepository(repository.userName, repository.repositoryName) && (t.closed is false.bind)
+        t.byRepository(repository.userName, repository.repositoryName) && (t.closed === false.bind)
       }.map(_.pullRequest).list
 
       new RepositoryInfo(
         JGitUtil.getRepositoryInfo(repository.userName, repository.repositoryName, baseUrl),
         repository,
-        issues.size,
+        issues.count(_ == false),
-        issues.filter(_ == true).size,
+        issues.count(_ == true),
         getForkedCount(
           repository.originUserName.getOrElse(repository.userName),
           repository.originRepositoryName.getOrElse(repository.repositoryName)
@@ -156,11 +207,28 @@ trait RepositoryService { self: AccountService =>
     }
   }
 
+  /**
+   * Returns the repositories without private repository that user does not have access right.
+   * Include public repository, private own repository and private but collaborator repository.
+   *
+   * @param userName the user name of collaborator
+   * @return the repository infomation list
+   */
+  def getAllRepositories(userName: String)(implicit s: Session): List[(String, String)] = {
+    Repositories.filter { t1 =>
+      (t1.isPrivate === false.bind) ||
+      (t1.userName  === userName.bind) ||
+      (Collaborators.filter { t2 => t2.byRepository(t1.userName, t1.repositoryName) && (t2.collaboratorName === userName.bind)} exists)
+    }.sortBy(_.lastActivityDate desc).map{ t =>
+      (t.userName, t.repositoryName)
+    }.list
+  }
+
   def getUserRepositories(userName: String, baseUrl: String, withoutPhysicalInfo: Boolean = false)
                          (implicit s: Session): List[RepositoryInfo] = {
     Repositories.filter { t1 =>
-      (t1.userName is userName.bind) ||
+      (t1.userName === userName.bind) ||
-        (Collaborators.filter { t2 => t2.byRepository(t1.userName, t1.repositoryName) && (t2.collaboratorName is userName.bind)} exists)
+        (Collaborators.filter { t2 => t2.byRepository(t1.userName, t1.repositoryName) && (t2.collaboratorName === userName.bind)} exists)
     }.sortBy(_.lastActivityDate desc).list.map{ repository =>
       new RepositoryInfo(
         if(withoutPhysicalInfo){
@@ -196,13 +264,13 @@ trait RepositoryService { self: AccountService =>
       case Some(x) if(x.isAdmin) => Repositories
       // for Normal Users
       case Some(x) if(!x.isAdmin) =>
-        Repositories filter { t => (t.isPrivate is false.bind) || (t.userName is x.userName) ||
+        Repositories filter { t => (t.isPrivate === false.bind) || (t.userName === x.userName) ||
-          (Collaborators.filter { t2 => t2.byRepository(t.userName, t.repositoryName) && (t2.collaboratorName is x.userName.bind)} exists)
+          (Collaborators.filter { t2 => t2.byRepository(t.userName, t.repositoryName) && (t2.collaboratorName === x.userName.bind)} exists)
         }
       // for Guests
-      case None => Repositories filter(_.isPrivate is false.bind)
+      case None => Repositories filter(_.isPrivate === false.bind)
     }).filter { t =>
-      repositoryUserName.map { userName => t.userName is userName.bind } getOrElse LiteralColumn(true)
+      repositoryUserName.map { userName => t.userName === userName.bind } getOrElse LiteralColumn(true)
     }.sortBy(_.lastActivityDate desc).list.map{ repository =>
       new RepositoryInfo(
         if(withoutPhysicalInfo){
@@ -290,15 +358,14 @@ trait RepositoryService { self: AccountService =>
   }
 
   private def getForkedCount(userName: String, repositoryName: String)(implicit s: Session): Int =
-    // TODO check SQL
     Query(Repositories.filter { t =>
-      (t.originUserName is userName.bind) && (t.originRepositoryName is repositoryName.bind)
+      (t.originUserName === userName.bind) && (t.originRepositoryName === repositoryName.bind)
     }.length).first
 
 
   def getForkedRepositories(userName: String, repositoryName: String)(implicit s: Session): List[(String, String)] =
     Repositories.filter { t =>
-      (t.originUserName is userName.bind) && (t.originRepositoryName is repositoryName.bind)
+      (t.originUserName === userName.bind) && (t.originRepositoryName === repositoryName.bind)
     }
     .sortBy(_.userName asc).map(t => t.userName -> t.repositoryName).list
 
@@ -308,7 +375,7 @@ object RepositoryService {
 
   case class RepositoryInfo(owner: String, name: String, httpUrl: String, repository: Repository,
     issueCount: Int, pullCount: Int, commitCount: Int, forkedCount: Int,
-    branchList: Seq[String], tags: Seq[util.JGitUtil.TagInfo], managers: Seq[String]){
+    branchList: Seq[String], tags: Seq[JGitUtil.TagInfo], managers: Seq[String]){
 
     lazy val host = """^https?://(.+?)(:\d+)?/""".r.findFirstMatchIn(httpUrl).get.group(1)
 
@@ -329,4 +396,4 @@ object RepositoryService {
 
   case class RepositoryTreeNode(owner: String, name: String, children: List[RepositoryTreeNode])
 
-}
+}

src/main/scala/gitbucket/core/service/RequestCache.scala

@@ -1,8 +1,9 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.{Session, Issue, Account}
-import slick.jdbc.JdbcBackend
+import gitbucket.core.util.Implicits
-import util.Implicits.request2Session
+import gitbucket.core.controller.Context
+import Implicits.request2Session
 
 /**
  * This service is used for a view helper mainly.
@@ -12,25 +13,22 @@ import util.Implicits.request2Session
  */
 trait RequestCache extends SystemSettingsService with AccountService with IssuesService {
 
-  private implicit def context2Session(implicit context: app.Context): JdbcBackend#Session =
+  private implicit def context2Session(implicit context: Context): Session =
     request2Session(context.request)
 
-  def getIssue(userName: String, repositoryName: String, issueId: String)
+  def getIssue(userName: String, repositoryName: String, issueId: String)(implicit context: Context): Option[Issue] = {
-              (implicit context: app.Context): Option[Issue] = {
     context.cache(s"issue.${userName}/${repositoryName}#${issueId}"){
       super.getIssue(userName, repositoryName, issueId)
     }
   }
 
-  def getAccountByUserName(userName: String)
+  def getAccountByUserName(userName: String)(implicit context: Context): Option[Account] = {
-                          (implicit context: app.Context): Option[Account] = {
     context.cache(s"account.${userName}"){
       super.getAccountByUserName(userName)
     }
   }
 
-  def getAccountByMailAddress(mailAddress: String)
+  def getAccountByMailAddress(mailAddress: String)(implicit context: Context): Option[Account] = {
-                             (implicit context: app.Context): Option[Account] = {
     context.cache(s"account.${mailAddress}"){
       super.getAccountByMailAddress(mailAddress)
     }

src/main/scala/gitbucket/core/service/SshKeyService.scala

@@ -1,7 +1,8 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.SshKey
-import simple._
+import gitbucket.core.model.Profile._
+import profile.simple._
 
 trait SshKeyService {
 
@@ -9,7 +10,7 @@ trait SshKeyService {
     SshKeys insert SshKey(userName = userName, title = title, publicKey = publicKey)
 
   def getPublicKeys(userName: String)(implicit s: Session): List[SshKey] =
-    SshKeys.filter(_.userName is userName.bind).sortBy(_.sshKeyId).list
+    SshKeys.filter(_.userName === userName.bind).sortBy(_.sshKeyId).list
 
   def deletePublicKey(userName: String, sshKeyId: Int)(implicit s: Session): Unit =
     SshKeys filter (_.byPrimaryKey(userName, sshKeyId)) delete

src/main/scala/gitbucket/core/service/SystemSettingsService.scala

@@ -1,7 +1,8 @@
-package service
+package gitbucket.core.service
 
-import util.Directory._
+import gitbucket.core.util.{Directory, ControlUtil}
-import util.ControlUtil._
+import Directory._
+import ControlUtil._
 import SystemSettingsService._
 import javax.servlet.http.HttpServletRequest
 
@@ -12,7 +13,10 @@ trait SystemSettingsService {
   def saveSystemSettings(settings: SystemSettings): Unit = {
     defining(new java.util.Properties()){ props =>
       settings.baseUrl.foreach(x => props.setProperty(BaseURL, x.replaceFirst("/\\Z", "")))
+      settings.information.foreach(x => props.setProperty(Information, x))
       props.setProperty(AllowAccountRegistration, settings.allowAccountRegistration.toString)
+      props.setProperty(AllowAnonymousAccess, settings.allowAnonymousAccess.toString)
+      props.setProperty(IsCreateRepoOptionPublic, settings.isCreateRepoOptionPublic.toString)
       props.setProperty(Gravatar, settings.gravatar.toString)
       props.setProperty(Notification, settings.notification.toString)
       props.setProperty(Ssh, settings.ssh.toString)
@@ -37,9 +41,11 @@ trait SystemSettingsService {
           ldap.bindPassword.foreach(x => props.setProperty(LdapBindPassword, x))
           props.setProperty(LdapBaseDN, ldap.baseDN)
           props.setProperty(LdapUserNameAttribute, ldap.userNameAttribute)
+          ldap.additionalFilterCondition.foreach(x => props.setProperty(LdapAdditionalFilterCondition, x))
           ldap.fullNameAttribute.foreach(x => props.setProperty(LdapFullNameAttribute, x))
-          props.setProperty(LdapMailAddressAttribute, ldap.mailAttribute)
+          ldap.mailAttribute.foreach(x => props.setProperty(LdapMailAddressAttribute, x))
           ldap.tls.foreach(x => props.setProperty(LdapTls, x.toString))
+          ldap.ssl.foreach(x => props.setProperty(LdapSsl, x.toString))
           ldap.keystore.foreach(x => props.setProperty(LdapKeystore, x))
         }
       }
@@ -59,7 +65,10 @@ trait SystemSettingsService {
       }
       SystemSettings(
         getOptionValue[String](props, BaseURL, None).map(x => x.replaceFirst("/\\Z", "")),
+        getOptionValue[String](props, Information, None),
         getValue(props, AllowAccountRegistration, false),
+        getValue(props, AllowAnonymousAccess, true),
+        getValue(props, IsCreateRepoOptionPublic, true),
         getValue(props, Gravatar, true),
         getValue(props, Notification, false),
         getValue(props, Ssh, false),
@@ -85,9 +94,11 @@ trait SystemSettingsService {
             getOptionValue(props, LdapBindPassword, None),
             getValue(props, LdapBaseDN, ""),
             getValue(props, LdapUserNameAttribute, ""),
+            getOptionValue(props, LdapAdditionalFilterCondition, None),
             getOptionValue(props, LdapFullNameAttribute, None),
-            getValue(props, LdapMailAddressAttribute, ""),
+            getOptionValue(props, LdapMailAddressAttribute, None),
             getOptionValue[Boolean](props, LdapTls, None),
+            getOptionValue[Boolean](props, LdapSsl, None),
             getOptionValue(props, LdapKeystore, None)))
         } else {
           None
@@ -103,7 +114,10 @@ object SystemSettingsService {
 
   case class SystemSettings(
     baseUrl: Option[String],
+    information: Option[String],
     allowAccountRegistration: Boolean,
+    allowAnonymousAccess: Boolean,
+    isCreateRepoOptionPublic: Boolean,
     gravatar: Boolean,
     notification: Boolean,
     ssh: Boolean,
@@ -125,9 +139,11 @@ object SystemSettingsService {
     bindPassword: Option[String],
     baseDN: String,
     userNameAttribute: String,
+    additionalFilterCondition: Option[String],
     fullNameAttribute: Option[String],
-    mailAttribute: String,
+    mailAttribute: Option[String],
     tls: Option[Boolean],
+    ssl: Option[Boolean],
     keystore: Option[String])
 
   case class Smtp(
@@ -144,7 +160,10 @@ object SystemSettingsService {
   val DefaultLdapPort = 389
 
   private val BaseURL = "base_url"
+  private val Information = "information"
   private val AllowAccountRegistration = "allow_account_registration"
+  private val AllowAnonymousAccess = "allow_anonymous_access"
+  private val IsCreateRepoOptionPublic = "is_create_repository_option_public"
   private val Gravatar = "gravatar"
   private val Notification = "notification"
   private val Ssh = "ssh"
@@ -163,9 +182,11 @@ object SystemSettingsService {
   private val LdapBindPassword = "ldap.bind_password"
   private val LdapBaseDN = "ldap.baseDN"
   private val LdapUserNameAttribute = "ldap.username_attribute"
+  private val LdapAdditionalFilterCondition = "ldap.additional_filter_condition"
   private val LdapFullNameAttribute = "ldap.fullname_attribute"
   private val LdapMailAddressAttribute = "ldap.mail_attribute"
   private val LdapTls = "ldap.tls"
+  private val LdapSsl = "ldap.ssl"
   private val LdapKeystore = "ldap.keystore"
 
   private def getValue[A: ClassTag](props: java.util.Properties, key: String, default: A): A =
@@ -187,4 +208,7 @@ object SystemSettingsService {
       else value
     }
 
+//  // TODO temporary flag
+//  val enablePluginSystem = Option(System.getProperty("enable.plugin")).getOrElse("false").toBoolean
+
 }

src/main/scala/gitbucket/core/service/WebHookService.scala

@@ -1,12 +1,14 @@
-package service
+package gitbucket.core.service
 
-import model._
+import gitbucket.core.model.{WebHook, Account}
-import simple._
+import gitbucket.core.model.Profile._
+import gitbucket.core.service.RepositoryService.RepositoryInfo
+import gitbucket.core.util.JGitUtil
+import profile.simple._
 import org.slf4j.LoggerFactory
-import service.RepositoryService.RepositoryInfo
+import RepositoryService.RepositoryInfo
-import util.JGitUtil
 import org.eclipse.jgit.diff.DiffEntry
-import util.JGitUtil.CommitInfo
+import JGitUtil.CommitInfo
 import org.eclipse.jgit.api.Git
 import org.apache.http.message.BasicNameValuePair
 import org.apache.http.client.entity.UrlEncodedFormEntity
@@ -43,7 +45,7 @@ trait WebHookService {
       val httpClient = HttpClientBuilder.create.build
 
       webHookURLs.foreach { webHookUrl =>
-        val f = future {
+        val f = Future {
           logger.debug(s"start web hook invocation for ${webHookUrl}")
           val httpPost = new HttpPost(webHookUrl.url)
 
@@ -89,15 +91,15 @@ object WebHookService {
           WebHookCommit(
             id        = commit.id,
             message   = commit.fullMessage,
-            timestamp = commit.time.toString,
+            timestamp = commit.commitTime.toString,
             url       = commitUrl,
             added     = diffs._1.collect { case x if(x.changeType == DiffEntry.ChangeType.ADD)    => x.newPath },
             removed   = diffs._1.collect { case x if(x.changeType == DiffEntry.ChangeType.DELETE) => x.oldPath },
             modified  = diffs._1.collect { case x if(x.changeType != DiffEntry.ChangeType.ADD &&
               x.changeType != DiffEntry.ChangeType.DELETE) => x.newPath },
             author    = WebHookUser(
-              name  = commit.committer,
+              name  = commit.committerName,
-              email = commit.mailAddress
+              email = commit.committerEmailAddress
             )
           )
         },

src/main/scala/gitbucket/core/service/WikiService.scala

@@ -1,9 +1,10 @@
-package service
+package gitbucket.core.service
 
 import java.util.Date
+import gitbucket.core.model.Account
+import gitbucket.core.util._
+import gitbucket.core.util.ControlUtil._
 import org.eclipse.jgit.api.Git
-import util._
-import _root_.util.ControlUtil._
 import org.eclipse.jgit.treewalk.CanonicalTreeParser
 import org.eclipse.jgit.lib._
 import org.eclipse.jgit.dircache.DirCache
@@ -12,7 +13,7 @@ import java.io.ByteArrayInputStream
 import org.eclipse.jgit.patch._
 import org.eclipse.jgit.api.errors.PatchFormatException
 import scala.collection.JavaConverters._
-import service.RepositoryService.RepositoryInfo
+import RepositoryService.RepositoryInfo
 
 object WikiService {
   
@@ -46,7 +47,7 @@ object WikiService {
 trait WikiService {
   import WikiService._
 
-  def createWikiRepository(loginAccount: model.Account, owner: String, repository: String): Unit =
+  def createWikiRepository(loginAccount: Account, owner: String, repository: String): Unit =
     LockUtil.lock(s"${owner}/${repository}/wiki"){
       defining(Directory.getWikiRepositoryDir(owner, repository)){ dir =>
         if(!dir.exists){
@@ -64,7 +65,7 @@ trait WikiService {
       if(!JGitUtil.isEmpty(git)){
         JGitUtil.getFileList(git, "master", ".").find(_.name == pageName + ".md").map { file =>
           WikiPageInfo(file.name, StringUtil.convertFromByteArray(git.getRepository.open(file.id).getBytes),
-                       file.committer, file.time, file.commitId)
+                       file.author, file.time, file.commitId)
         }
       } else None
     }
@@ -102,7 +103,7 @@ trait WikiService {
    * Reverts specified changes.
    */
   def revertWikiPage(owner: String, repository: String, from: String, to: String,
-                     committer: model.Account, pageName: Option[String]): Boolean = {
+                     committer: Account, pageName: Option[String]): Boolean = {
 
     case class RevertInfo(operation: String, filePath: String, source: String)
 
@@ -182,7 +183,8 @@ trait WikiService {
             }
             builder.finish()
 
-            JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter), committer.fullName, committer.mailAddress,
+            JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter),
+              Constants.HEAD, committer.fullName, committer.mailAddress,
               pageName match {
                 case Some(x) => s"Revert ${from} ... ${to} on ${x}"
                 case None    => s"Revert ${from} ... ${to}"
@@ -203,7 +205,7 @@ trait WikiService {
    * Save the wiki page.
    */
   def saveWikiPage(owner: String, repository: String, currentPageName: String, newPageName: String,
-      content: String, committer: model.Account, message: String, currentId: Option[String]): Option[String] = {
+      content: String, committer: Account, message: String, currentId: Option[String]): Option[String] = {
     LockUtil.lock(s"${owner}/${repository}/wiki"){
       using(Git.open(Directory.getWikiRepositoryDir(owner, repository))){ git =>
         val builder  = DirCache.newInCore.builder()
@@ -229,7 +231,8 @@ trait WikiService {
         if(created || updated || removed){
           builder.add(JGitUtil.createDirCacheEntry(newPageName + ".md", FileMode.REGULAR_FILE, inserter.insert(Constants.OBJ_BLOB, content.getBytes("UTF-8"))))
           builder.finish()
-          val newHeadId = JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter), committer.fullName, committer.mailAddress,
+          val newHeadId = JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter),
+            Constants.HEAD, committer.fullName, committer.mailAddress,
             if(message.trim.length == 0) {
               if(removed){
                 s"Rename ${currentPageName} to ${newPageName}"
@@ -269,7 +272,8 @@ trait WikiService {
         }
         if(removed){
           builder.finish()
-          JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter), committer, mailAddress, message)
+          JGitUtil.createNewCommit(git, inserter, headId, builder.getDirCache.writeTree(inserter),
+            Constants.HEAD, committer, mailAddress, message)
         }
       }
     }

src/main/scala/gitbucket/core/servlet/BasicAuthenticationFilter.scala

@@ -0,0 +1,91 @@
+package gitbucket.core.servlet
+
+import javax.servlet._
+import javax.servlet.http._
+import gitbucket.core.service.{RepositoryService, AccountService, SystemSettingsService}
+import gitbucket.core.util.{ControlUtil, Keys, Implicits}
+import org.slf4j.LoggerFactory
+import Implicits._
+import ControlUtil._
+
+/**
+ * Provides BASIC Authentication for [[GitRepositoryServlet]].
+ */
+class BasicAuthenticationFilter extends Filter with RepositoryService with AccountService with SystemSettingsService {
+
+  private val logger = LoggerFactory.getLogger(classOf[BasicAuthenticationFilter])
+
+  def init(config: FilterConfig) = {}
+  
+  def destroy(): Unit = {}
+  
+  def doFilter(req: ServletRequest, res: ServletResponse, chain: FilterChain): Unit = {
+    implicit val request  = req.asInstanceOf[HttpServletRequest]
+    val response = res.asInstanceOf[HttpServletResponse]
+
+    val wrappedResponse = new HttpServletResponseWrapper(response){
+      override def setCharacterEncoding(encoding: String) = {}
+    }
+
+    val isUpdating = request.getRequestURI.endsWith("/git-receive-pack") || "service=git-receive-pack".equals(request.getQueryString)
+
+    val settings = loadSystemSettings()
+
+    try {
+      defining(request.paths){
+        case Array(_, repositoryOwner, repositoryName, _*) =>
+          getRepository(repositoryOwner, repositoryName.replaceFirst("\\.wiki\\.git$|\\.git$", ""), "") match {
+            case Some(repository) => {
+              if(!isUpdating && !repository.repository.isPrivate && settings.allowAnonymousAccess){
+                chain.doFilter(req, wrappedResponse)
+              } else {
+                request.getHeader("Authorization") match {
+                  case null => requireAuth(response)
+                  case auth => decodeAuthHeader(auth).split(":") match {
+                    case Array(username, password) => {
+                      authenticate(settings, username, password) match {
+                        case Some(account) => {
+                          if(isUpdating && hasWritePermission(repository.owner, repository.name, Some(account))){
+                            request.setAttribute(Keys.Request.UserName, account.userName)
+                          }
+                          chain.doFilter(req, wrappedResponse)
+                        }
+                        case None => requireAuth(response)
+                      }
+                    }
+                    case _ => requireAuth(response)
+                  }
+                }
+              }
+            }
+            case None => {
+              logger.debug(s"Repository ${repositoryOwner}/${repositoryName} is not found.")
+              response.sendError(HttpServletResponse.SC_NOT_FOUND)
+            }
+          }
+        case _ => {
+          logger.debug(s"Not enough path arguments: ${request.paths}")
+          response.sendError(HttpServletResponse.SC_NOT_FOUND)
+        }
+      }
+    } catch {
+      case ex: Exception => {
+        logger.error("error", ex)
+        requireAuth(response)
+      }
+    }
+  }
+
+  private def requireAuth(response: HttpServletResponse): Unit = {
+    response.setHeader("WWW-Authenticate", "BASIC realm=\"GitBucket\"")
+    response.sendError(HttpServletResponse.SC_UNAUTHORIZED)
+  }
+  
+  private def decodeAuthHeader(header: String): String = {
+    try {
+      new String(new sun.misc.BASE64Decoder().decodeBuffer(header.substring(6)))
+    } catch {
+      case _: Throwable => ""
+    }
+  }
+}

src/main/scala/gitbucket/core/servlet/GitRepositoryServlet.scala

@@ -1,5 +1,8 @@
-package servlet
+package gitbucket.core.servlet
 
+import gitbucket.core.model.Session
+import gitbucket.core.service._
+import gitbucket.core.util._
 import org.eclipse.jgit.http.server.GitServlet
 import org.eclipse.jgit.lib._
 import org.eclipse.jgit.transport._
@@ -9,21 +12,19 @@ import org.slf4j.LoggerFactory
 import javax.servlet.ServletConfig
 import javax.servlet.ServletContext
 import javax.servlet.http.{HttpServletResponse, HttpServletRequest}
-import util.{StringUtil, Keys, JGitUtil, Directory}
+import gitbucket.core.util.StringUtil
-import util.ControlUtil._
+import gitbucket.core.util.ControlUtil._
-import util.Implicits._
+import gitbucket.core.util.Implicits._
-import service._
 import WebHookService._
 import org.eclipse.jgit.api.Git
-import util.JGitUtil.CommitInfo
+import JGitUtil.CommitInfo
-import service.IssuesService.IssueSearchCondition
+import IssuesService.IssueSearchCondition
-import slick.jdbc.JdbcBackend
 
 /**
  * Provides Git repository via HTTP.
  * 
  * This servlet provides only Git repository functionality.
- * Authentication is provided by [[servlet.BasicAuthenticationFilter]].
+ * Authentication is provided by [[BasicAuthenticationFilter]].
  */
 class GitRepositoryServlet extends GitServlet with SystemSettingsService {
 
@@ -95,7 +96,7 @@ class GitBucketReceivePackFactory extends ReceivePackFactory[HttpServletRequest]
 
 import scala.collection.JavaConverters._
 
-class CommitLogHook(owner: String, repository: String, pusher: String, baseUrl: String)(implicit session: JdbcBackend#Session)
+class CommitLogHook(owner: String, repository: String, pusher: String, baseUrl: String)(implicit session: Session)
   extends PostReceiveHook with PreReceiveHook
   with RepositoryService with AccountService with IssuesService with ActivityService with PullRequestService with WebHookService {
   
@@ -134,8 +135,8 @@ class CommitLogHook(owner: String, repository: String, pusher: String, baseUrl:
 
           // Retrieve all issue count in the repository
           val issueCount =
-            countIssue(IssueSearchCondition(state = "open"), Map.empty, false, owner -> repository) +
+            countIssue(IssueSearchCondition(state = "open"), false, owner -> repository) +
-            countIssue(IssueSearchCondition(state = "closed"), Map.empty, false, owner -> repository)
+            countIssue(IssueSearchCondition(state = "closed"), false, owner -> repository)
 
           // Extract new commit and apply issue comment
           val defaultBranch = getRepository(owner, repository, baseUrl).get.repository.defaultBranch
@@ -174,7 +175,7 @@ class CommitLogHook(owner: String, repository: String, pusher: String, baseUrl:
               case ReceiveCommand.Type.CREATE |
                    ReceiveCommand.Type.UPDATE |
                    ReceiveCommand.Type.UPDATE_NONFASTFORWARD =>
-                updatePullRequests(branchName)
+                updatePullRequests(owner, repository, branchName)
               case _ =>
             }
           }
@@ -205,32 +206,10 @@ class CommitLogHook(owner: String, repository: String, pusher: String, baseUrl:
   private def createIssueComment(commit: CommitInfo) = {
     StringUtil.extractIssueId(commit.fullMessage).foreach { issueId =>
       if(getIssue(owner, repository, issueId).isDefined){
-        getAccountByMailAddress(commit.mailAddress).foreach { account =>
+        getAccountByMailAddress(commit.committerEmailAddress).foreach { account =>
           createComment(owner, repository, account.userName, issueId.toInt, commit.fullMessage + " " + commit.id, "commit")
         }
       }
     }
   }
-
-  /**
-   * Fetch pull request contents into refs/pull/${issueId}/head and update pull request table.
-   */
-  private def updatePullRequests(branch: String) =
-    getPullRequestsByRequest(owner, repository, branch, false).foreach { pullreq =>
-      if(getRepository(pullreq.userName, pullreq.repositoryName, baseUrl).isDefined){
-        using(Git.open(Directory.getRepositoryDir(pullreq.userName, pullreq.repositoryName)),
-              Git.open(Directory.getRepositoryDir(pullreq.requestUserName, pullreq.requestRepositoryName))){ (oldGit, newGit) =>
-          oldGit.fetch
-            .setRemote(Directory.getRepositoryDir(owner, repository).toURI.toString)
-            .setRefSpecs(new RefSpec(s"refs/heads/${branch}:refs/pull/${pullreq.issueId}/head").setForceUpdate(true))
-            .call
-
-          val commitIdTo = oldGit.getRepository.resolve(s"refs/pull/${pullreq.issueId}/head").getName
-          val commitIdFrom = JGitUtil.getForkedCommitId(oldGit, newGit,
-            pullreq.userName, pullreq.repositoryName, pullreq.branch,
-            pullreq.requestUserName, pullreq.requestRepositoryName, pullreq.requestBranch)
-          updateCommitId(pullreq.userName, pullreq.repositoryName, pullreq.issueId, commitIdTo, commitIdFrom)
-        }
-      }
-    }
 }

src/main/scala/gitbucket/core/servlet/InitializeListener.scala

@@ -0,0 +1,207 @@
+package gitbucket.core.servlet
+
+import java.io.File
+import java.sql.{DriverManager, Connection}
+import gitbucket.core.plugin.PluginRegistry
+import gitbucket.core.util._
+import org.apache.commons.io.FileUtils
+import javax.servlet.{ServletContextListener, ServletContextEvent}
+import org.slf4j.LoggerFactory
+import Directory._
+import ControlUtil._
+import JDBCUtil._
+import org.eclipse.jgit.api.Git
+import gitbucket.core.util.Versions
+import gitbucket.core.util.Directory
+import gitbucket.core.plugin._
+
+object AutoUpdate {
+
+  /**
+   * The history of versions. A head of this sequence is the current BitBucket version.
+   */
+  val versions = Seq(
+    new Version(3, 0),
+    new Version(2, 8),
+    new Version(2, 7) {
+      override def update(conn: Connection, cl: ClassLoader): Unit = {
+        super.update(conn, cl)
+        conn.select("SELECT * FROM REPOSITORY"){ rs =>
+          // Rename attached files directory from /issues to /comments
+          val userName = rs.getString("USER_NAME")
+          val repoName = rs.getString("REPOSITORY_NAME")
+          defining(Directory.getAttachedDir(userName, repoName)){ newDir =>
+            val oldDir = new File(newDir.getParentFile, "issues")
+            if(oldDir.exists && oldDir.isDirectory){
+              oldDir.renameTo(newDir)
+            }
+          }
+          // Update ORIGIN_USER_NAME and ORIGIN_REPOSITORY_NAME if it does not exist
+          val originalUserName = rs.getString("ORIGIN_USER_NAME")
+          val originalRepoName = rs.getString("ORIGIN_REPOSITORY_NAME")
+          if(originalUserName != null && originalRepoName != null){
+            if(conn.selectInt("SELECT COUNT(*) FROM REPOSITORY WHERE USER_NAME = ? AND REPOSITORY_NAME = ?",
+                originalUserName, originalRepoName) == 0){
+              conn.update("UPDATE REPOSITORY SET ORIGIN_USER_NAME = NULL, ORIGIN_REPOSITORY_NAME = NULL " +
+                  "WHERE USER_NAME = ? AND REPOSITORY_NAME = ?", userName, repoName)
+            }
+          }
+          // Update PARENT_USER_NAME and PARENT_REPOSITORY_NAME if it does not exist
+          val parentUserName = rs.getString("PARENT_USER_NAME")
+          val parentRepoName = rs.getString("PARENT_REPOSITORY_NAME")
+          if(parentUserName != null && parentRepoName != null){
+            if(conn.selectInt("SELECT COUNT(*) FROM REPOSITORY WHERE USER_NAME = ? AND REPOSITORY_NAME = ?",
+                parentUserName, parentRepoName) == 0){
+              conn.update("UPDATE REPOSITORY SET PARENT_USER_NAME = NULL, PARENT_REPOSITORY_NAME = NULL " +
+                  "WHERE USER_NAME = ? AND REPOSITORY_NAME = ?", userName, repoName)
+            }
+          }
+        }
+      }
+    },
+    new Version(2, 6),
+    new Version(2, 5),
+    new Version(2, 4),
+    new Version(2, 3) {
+      override def update(conn: Connection, cl: ClassLoader): Unit = {
+        super.update(conn, cl)
+        conn.select("SELECT ACTIVITY_ID, ADDITIONAL_INFO FROM ACTIVITY WHERE ACTIVITY_TYPE='push'"){ rs =>
+          val curInfo = rs.getString("ADDITIONAL_INFO")
+          val newInfo = curInfo.split("\n").filter(_ matches "^[0-9a-z]{40}:.*").mkString("\n")
+          if (curInfo != newInfo) {
+            conn.update("UPDATE ACTIVITY SET ADDITIONAL_INFO = ? WHERE ACTIVITY_ID = ?", newInfo, rs.getInt("ACTIVITY_ID"))
+          }
+        }
+        ignore {
+          FileUtils.deleteDirectory(Directory.getPluginCacheDir())
+          //FileUtils.deleteDirectory(new File(Directory.PluginHome))
+        }
+      }
+    },
+    new Version(2, 2),
+    new Version(2, 1),
+    new Version(2, 0){
+      override def update(conn: Connection, cl: ClassLoader): Unit = {
+        import eu.medsea.mimeutil.{MimeUtil2, MimeType}
+
+        val mimeUtil = new MimeUtil2()
+        mimeUtil.registerMimeDetector("eu.medsea.mimeutil.detector.MagicMimeMimeDetector")
+
+        super.update(conn, cl)
+        conn.select("SELECT USER_NAME, REPOSITORY_NAME FROM REPOSITORY"){ rs =>
+          defining(Directory.getAttachedDir(rs.getString("USER_NAME"), rs.getString("REPOSITORY_NAME"))){ dir =>
+            if(dir.exists && dir.isDirectory){
+              dir.listFiles.foreach { file =>
+                if(file.getName.indexOf('.') < 0){
+                  val mimeType = MimeUtil2.getMostSpecificMimeType(mimeUtil.getMimeTypes(file, new MimeType("application/octet-stream"))).toString
+                  if(mimeType.startsWith("image/")){
+                    file.renameTo(new File(file.getParent, file.getName + "." + mimeType.split("/")(1)))
+                  }
+                }
+              }
+            }
+          }
+        }
+      }
+    },
+    Version(1, 13),
+    Version(1, 12),
+    Version(1, 11),
+    Version(1, 10),
+    Version(1, 9),
+    Version(1, 8),
+    Version(1, 7),
+    Version(1, 6),
+    Version(1, 5),
+    Version(1, 4),
+    new Version(1, 3){
+      override def update(conn: Connection, cl: ClassLoader): Unit = {
+        super.update(conn, cl)
+        // Fix wiki repository configuration
+        conn.select("SELECT USER_NAME, REPOSITORY_NAME FROM REPOSITORY"){ rs =>
+          using(Git.open(getWikiRepositoryDir(rs.getString("USER_NAME"), rs.getString("REPOSITORY_NAME")))){ git =>
+            defining(git.getRepository.getConfig){ config =>
+              if(!config.getBoolean("http", "receivepack", false)){
+                config.setBoolean("http", null, "receivepack", true)
+                config.save
+              }
+            }
+          }
+        }
+      }
+    },
+    Version(1, 2),
+    Version(1, 1),
+    Version(1, 0),
+    Version(0, 0)
+  )
+  
+  /**
+   * The head version of BitBucket.
+   */
+  val headVersion = versions.head
+  
+  /**
+   * The version file (GITBUCKET_HOME/version).
+   */
+  lazy val versionFile = new File(GitBucketHome, "version")
+  
+  /**
+   * Returns the current version from the version file.
+   */
+  def getCurrentVersion(): Version = {
+    if(versionFile.exists){
+      FileUtils.readFileToString(versionFile, "UTF-8").trim.split("\\.") match {
+        case Array(majorVersion, minorVersion) => {
+          versions.find { v => 
+            v.majorVersion == majorVersion.toInt && v.minorVersion == minorVersion.toInt
+          }.getOrElse(Version(0, 0))
+        }
+        case _ => Version(0, 0)
+      }
+    } else Version(0, 0)
+  }
+  
+}
+
+/**
+ * Initialize GitBucket system.
+ * Update database schema and load plug-ins automatically in the context initializing.
+ */
+class InitializeListener extends ServletContextListener {
+  import AutoUpdate._
+
+  private val logger = LoggerFactory.getLogger(classOf[InitializeListener])
+
+  override def contextInitialized(event: ServletContextEvent): Unit = {
+    val dataDir = event.getServletContext.getInitParameter("gitbucket.home")
+    if(dataDir != null){
+      System.setProperty("gitbucket.home", dataDir)
+    }
+    org.h2.Driver.load()
+
+    defining(getConnection()){ conn =>
+      // Migration
+      logger.debug("Start schema update")
+      Versions.update(conn, headVersion, getCurrentVersion(), versions, Thread.currentThread.getContextClassLoader){ conn =>
+        FileUtils.writeStringToFile(versionFile, headVersion.versionString, "UTF-8")
+      }
+      // Load plugins
+      logger.debug("Initialize plugins")
+      PluginRegistry.initialize(event.getServletContext, conn)
+    }
+
+  }
+
+  def contextDestroyed(event: ServletContextEvent): Unit = {
+    // Shutdown plugins
+    PluginRegistry.shutdown(event.getServletContext)
+  }
+
+  private def getConnection(): Connection =
+    DriverManager.getConnection(
+      DatabaseConfig.url,
+      DatabaseConfig.user,
+      DatabaseConfig.password)
+
+}

src/main/scala/gitbucket/core/servlet/SessionCleanupListener.scala

@@ -1,8 +1,9 @@
-package servlet
+package gitbucket.core.servlet
 
 import javax.servlet.http.{HttpSessionEvent, HttpSessionListener}
+import gitbucket.core.util.Directory
 import org.apache.commons.io.FileUtils
-import util.Directory._
+import Directory._
 
 /**
  * Removes session associated temporary files when session is destroyed.

src/main/scala/gitbucket/core/servlet/TransactionFilter.scala

@@ -0,0 +1,60 @@
+package gitbucket.core.servlet
+
+import javax.servlet._
+import javax.servlet.http.HttpServletRequest
+import com.mchange.v2.c3p0.ComboPooledDataSource
+import gitbucket.core.util.DatabaseConfig
+import org.slf4j.LoggerFactory
+import slick.jdbc.JdbcBackend.{Database => SlickDatabase, Session}
+import gitbucket.core.util.Keys
+
+/**
+ * Controls the transaction with the open session in view pattern.
+ */
+class TransactionFilter extends Filter {
+
+  private val logger = LoggerFactory.getLogger(classOf[TransactionFilter])
+
+  def init(config: FilterConfig) = {}
+
+  def destroy(): Unit = {}
+
+  def doFilter(req: ServletRequest, res: ServletResponse, chain: FilterChain): Unit = {
+    if(req.asInstanceOf[HttpServletRequest].getRequestURI().startsWith("/assets/")){
+      // assets don't need transaction
+      chain.doFilter(req, res)
+    } else {
+      Database() withTransaction { session =>
+        logger.debug("begin transaction")
+        req.setAttribute(Keys.Request.DBSession, session)
+        chain.doFilter(req, res)
+        logger.debug("end transaction")
+      }
+    }
+  }
+
+}
+
+object Database {
+
+  private val logger = LoggerFactory.getLogger(Database.getClass)
+
+  private val db: SlickDatabase = {
+    val datasource = new ComboPooledDataSource
+
+    datasource.setDriverClass(DatabaseConfig.driver)
+    datasource.setJdbcUrl(DatabaseConfig.url)
+    datasource.setUser(DatabaseConfig.user)
+    datasource.setPassword(DatabaseConfig.password)
+
+    logger.debug("load database connection pool")
+
+    SlickDatabase.forDataSource(datasource)
+  }
+
+  def apply(): SlickDatabase = db
+
+  def getSession(req: ServletRequest): Session =
+    req.getAttribute(Keys.Request.DBSession).asInstanceOf[Session]
+
+}

src/main/scala/gitbucket/core/ssh/GitCommand.scala

@@ -1,24 +1,24 @@
-package ssh
+package gitbucket.core.ssh
 
+import gitbucket.core.model.Session
+import gitbucket.core.service.{RepositoryService, AccountService, SystemSettingsService}
+import gitbucket.core.servlet.{Database, CommitLogHook}
+import gitbucket.core.util.{Directory, ControlUtil}
 import org.apache.sshd.server.{CommandFactory, Environment, ExitCallback, Command}
 import org.slf4j.LoggerFactory
 import java.io.{InputStream, OutputStream}
-import util.ControlUtil._
+import ControlUtil._
 import org.eclipse.jgit.api.Git
-import util.Directory._
+import Directory._
 import org.eclipse.jgit.transport.{ReceivePack, UploadPack}
 import org.apache.sshd.server.command.UnknownCommand
-import servlet.{Database, CommitLogHook}
-import service.{AccountService, RepositoryService, SystemSettingsService}
 import org.eclipse.jgit.errors.RepositoryNotFoundException
-import javax.servlet.ServletContext
-import model.profile.simple.Session
 
 object GitCommand {
   val CommandRegex = """\Agit-(upload|receive)-pack '/([a-zA-Z0-9\-_.]+)/([a-zA-Z0-9\-_.]+).git'\Z""".r
 }
 
-abstract class GitCommand(val context: ServletContext, val owner: String, val repoName: String) extends Command {
+abstract class GitCommand(val owner: String, val repoName: String) extends Command {
   self: RepositoryService with AccountService =>
 
   private val logger = LoggerFactory.getLogger(classOf[GitCommand])
@@ -31,7 +31,7 @@ abstract class GitCommand(val context: ServletContext, val owner: String, val re
 
   private def newTask(user: String): Runnable = new Runnable {
     override def run(): Unit = {
-      Database(context) withTransaction { implicit session =>
+      Database() withSession { implicit session =>
         try {
           runTask(user)
           callback.onExit(0)
@@ -80,7 +80,7 @@ abstract class GitCommand(val context: ServletContext, val owner: String, val re
 
 }
 
-class GitUploadPack(context: ServletContext, owner: String, repoName: String, baseUrl: String) extends GitCommand(context, owner, repoName)
+class GitUploadPack(owner: String, repoName: String, baseUrl: String) extends GitCommand(owner, repoName)
     with RepositoryService with AccountService {
 
   override protected def runTask(user: String)(implicit session: Session): Unit = {
@@ -97,7 +97,7 @@ class GitUploadPack(context: ServletContext, owner: String, repoName: String, ba
 
 }
 
-class GitReceivePack(context: ServletContext, owner: String, repoName: String, baseUrl: String) extends GitCommand(context, owner, repoName)
+class GitReceivePack(owner: String, repoName: String, baseUrl: String) extends GitCommand(owner, repoName)
     with SystemSettingsService with RepositoryService with AccountService {
 
   override protected def runTask(user: String)(implicit session: Session): Unit = {
@@ -119,15 +119,15 @@ class GitReceivePack(context: ServletContext, owner: String, repoName: String, b
 
 }
 
-class GitCommandFactory(context: ServletContext, baseUrl: String) extends CommandFactory {
+class GitCommandFactory(baseUrl: String) extends CommandFactory {
   private val logger = LoggerFactory.getLogger(classOf[GitCommandFactory])
 
   override def createCommand(command: String): Command = {
     logger.debug(s"command: $command")
     command match {
-      case GitCommand.CommandRegex("upload", owner, repoName) => new GitUploadPack(context, owner, repoName, baseUrl)
+      case GitCommand.CommandRegex("upload", owner, repoName) => new GitUploadPack(owner, repoName, baseUrl)
-      case GitCommand.CommandRegex("receive", owner, repoName) => new GitReceivePack(context, owner, repoName, baseUrl)
+      case GitCommand.CommandRegex("receive", owner, repoName) => new GitReceivePack(owner, repoName, baseUrl)
       case _ => new UnknownCommand(command)
     }
   }
-}
+}

src/main/scala/gitbucket/core/ssh/NoShell.scala

@@ -1,10 +1,10 @@
-package ssh
+package gitbucket.core.ssh
 
+import gitbucket.core.service.SystemSettingsService
 import org.apache.sshd.common.Factory
 import org.apache.sshd.server.{Environment, ExitCallback, Command}
 import java.io.{OutputStream, InputStream}
 import org.eclipse.jgit.lib.Constants
-import service.SystemSettingsService
 
 class NoShell extends Factory[Command] with SystemSettingsService {
   override def create(): Command = new Command() {

src/main/scala/gitbucket/core/ssh/PublicKeyAuthenticator.scala

@@ -1,16 +1,15 @@
-package ssh
+package gitbucket.core.ssh
 
+import gitbucket.core.service.SshKeyService
+import gitbucket.core.servlet.Database
 import org.apache.sshd.server.PublickeyAuthenticator
 import org.apache.sshd.server.session.ServerSession
 import java.security.PublicKey
-import service.SshKeyService
-import servlet.Database
-import javax.servlet.ServletContext
 
-class PublicKeyAuthenticator(context: ServletContext) extends PublickeyAuthenticator with SshKeyService {
+class PublicKeyAuthenticator extends PublickeyAuthenticator with SshKeyService {
 
   override def authenticate(username: String, key: PublicKey, session: ServerSession): Boolean = {
-    Database(context) withTransaction { implicit session =>
+    Database() withSession { implicit session =>
       getPublicKeys(username).exists { sshKey =>
         SshUtil.str2PublicKey(sshKey.publicKey) match {
           case Some(publicKey) => key.equals(publicKey)

src/main/scala/gitbucket/core/ssh/SshServerListener.scala

@@ -1,10 +1,10 @@
-package ssh
+package gitbucket.core.ssh
 
-import javax.servlet.{ServletContext, ServletContextEvent, ServletContextListener}
+import javax.servlet.{ServletContextEvent, ServletContextListener}
+import gitbucket.core.service.SystemSettingsService
+import gitbucket.core.util.Directory
 import org.apache.sshd.server.keyprovider.SimpleGeneratorHostKeyProvider
 import org.slf4j.LoggerFactory
-import util.Directory
-import service.SystemSettingsService
 import java.util.concurrent.atomic.AtomicBoolean
 
 object SshServer {
@@ -12,17 +12,17 @@ object SshServer {
   private val server = org.apache.sshd.SshServer.setUpDefaultServer()
   private val active = new AtomicBoolean(false)
 
-  private def configure(context: ServletContext, port: Int, baseUrl: String) = {
+  private def configure(port: Int, baseUrl: String) = {
     server.setPort(port)
     server.setKeyPairProvider(new SimpleGeneratorHostKeyProvider(s"${Directory.GitBucketHome}/gitbucket.ser"))
-    server.setPublickeyAuthenticator(new PublicKeyAuthenticator(context))
+    server.setPublickeyAuthenticator(new PublicKeyAuthenticator)
-    server.setCommandFactory(new GitCommandFactory(context, baseUrl))
+    server.setCommandFactory(new GitCommandFactory(baseUrl))
     server.setShellFactory(new NoShell)
   }
 
-  def start(context: ServletContext, port: Int, baseUrl: String) = {
+  def start(port: Int, baseUrl: String) = {
     if(active.compareAndSet(false, true)){
-      configure(context, port, baseUrl)
+      configure(port, baseUrl)
       server.start()
       logger.info(s"Start SSH Server Listen on ${server.getPort}")
     }
@@ -55,8 +55,7 @@ class SshServerListener extends ServletContextListener with SystemSettingsServic
         case None =>
           logger.error("Could not start SshServer because the baseUrl is not configured.")
         case Some(baseUrl) =>
-          SshServer.start(sce.getServletContext,
+          SshServer.start(settings.sshPort.getOrElse(SystemSettingsService.DefaultSshPort), baseUrl)
-            settings.sshPort.getOrElse(SystemSettingsService.DefaultSshPort), baseUrl)
       }
     }
   }

src/main/scala/gitbucket/core/ssh/SshUtil.scala

@@ -1,4 +1,4 @@
-package ssh
+package gitbucket.core.ssh
 
 import java.security.PublicKey
 import org.slf4j.LoggerFactory

src/main/scala/gitbucket/core/util/Authenticator.scala

@@ -1,10 +1,10 @@
-package util
+package gitbucket.core.util
 
-import app.ControllerBase
+import gitbucket.core.controller.ControllerBase
-import service._
+import gitbucket.core.service.{RepositoryService, AccountService}
 import RepositoryService.RepositoryInfo
-import util.Implicits._
+import Implicits._
-import util.ControlUtil._
+import ControlUtil._
 
 /**
  * Allows only oneself and administrators.

src/main/scala/gitbucket/core/util/ControlUtil.scala

@@ -1,4 +1,4 @@
-package util
+package gitbucket.core.util
 
 import org.eclipse.jgit.api.Git
 import org.eclipse.jgit.revwalk.RevWalk
@@ -37,4 +37,10 @@ object ControlUtil {
   def using[T](treeWalk: TreeWalk)(f: TreeWalk => T): T =
     try f(treeWalk) finally treeWalk.release()
 
+  def ignore[T](f: => Unit): Unit = try {
+    f
+  } catch {
+    case e: Exception => ()
+  }
+
 }

src/main/scala/gitbucket/core/util/DatabaseConfig.scala

@@ -0,0 +1,19 @@
+package gitbucket.core.util
+
+import com.typesafe.config.ConfigFactory
+import Directory.DatabaseHome
+
+object DatabaseConfig {
+
+  private val config = ConfigFactory.load("database")
+  private val dbUrl = config.getString("db.url")
+
+  def url(directory: Option[String]): String =
+    dbUrl.replace("${DatabaseHome}", directory.getOrElse(DatabaseHome))
+
+  val url: String = url(None)
+  val user: String = config.getString("db.user")
+  val password: String = config.getString("db.password")
+  val driver: String = config.getString("db.driver")
+
+}

src/main/scala/gitbucket/core/util/Directory.scala

@@ -1,7 +1,7 @@
-package util
+package gitbucket.core.util
 
 import java.io.File
-import util.ControlUtil._
+import ControlUtil._
 import org.apache.commons.io.FileUtils
 
 /**
@@ -48,7 +48,7 @@ object Directory {
    * Directory for files which are attached to issue.
    */
   def getAttachedDir(owner: String, repository: String): File =
-    new File(s"${RepositoryHome}/${owner}/${repository}/issues")
+    new File(s"${RepositoryHome}/${owner}/${repository}/comments")
 
   /**
    * Directory for uploaded files by the specified user.

src/main/scala/gitbucket/core/util/FileUtil.scala

@@ -1,9 +1,9 @@
-package util
+package gitbucket.core.util
 
 import org.apache.commons.io.FileUtils
 import java.net.URLConnection
 import java.io.File
-import util.ControlUtil._
+import ControlUtil._
 import scala.util.Random
 
 object FileUtil {

src/main/scala/gitbucket/core/util/Implicits.scala

@@ -1,9 +1,10 @@
-package util
+package gitbucket.core.util
+
+import gitbucket.core.servlet.Database
 
 import scala.util.matching.Regex
 import scala.util.control.Exception._
 import slick.jdbc.JdbcBackend
-import servlet.Database
 import javax.servlet.http.{HttpSession, HttpServletRequest}
 
 /**