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Merge pull request #12 from overleaf/dependency-updates

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Dependency updates and general housekeeping
This commit is contained in:
John Lees-Miller 2016-06-03 09:35:43 +01:00
commit 4bd4ef47af
17 changed files with 249 additions and 224 deletions
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45
services/git-bridge/.gitignore vendored
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@ -1,2 +1,45 @@
target/ # Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio and Webstorm
# Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839
# User-specific stuff:
.idea/workspace.xml .idea/workspace.xml
.idea/tasks.xml
.idea/dictionaries
.idea/vcs.xml
.idea/jsLibraryMappings.xml
# Sensitive or high-churn files:
.idea/dataSources.ids
.idea/dataSources.xml
.idea/dataSources.local.xml
.idea/sqlDataSources.xml
.idea/dynamic.xml
.idea/uiDesigner.xml
# Gradle:
.idea/gradle.xml
.idea/libraries
# Mongo Explorer plugin:
.idea/mongoSettings.xml
## File-based project format:
*.iws
## Plugin-specific files:
# IntelliJ
/out/
target/
# mpeltonen/sbt-idea plugin
.idea_modules/
# JIRA plugin
atlassian-ide-plugin.xml
# Crashlytics plugin (for Android Studio and IntelliJ)
com_crashlytics_export_strings.xml
crashlytics.properties
crashlytics-build.properties
fabric.properties

32
services/git-bridge/.idea/compiler.xml Normal file
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@ -0,0 +1,32 @@
<?xml version="1.0" encoding="UTF-8"?>
<project version="4">
<component name="CompilerConfiguration">
<resourceExtensions />
<wildcardResourcePatterns>
<entry name="!?*.java" />
<entry name="!?*.form" />
<entry name="!?*.class" />
<entry name="!?*.groovy" />
<entry name="!?*.scala" />
<entry name="!?*.flex" />
<entry name="!?*.kt" />
<entry name="!?*.clj" />
<entry name="!?*.aj" />
</wildcardResourcePatterns>
<annotationProcessing>
<profile default="true" name="Default" enabled="false">
<processorPath useClasspath="true" />
</profile>
<profile default="false" name="Maven default annotation processors profile" enabled="true">
<sourceOutputDir name="target/generated-sources/annotations" />
<sourceTestOutputDir name="target/generated-test-sources/test-annotations" />
<outputRelativeToContentRoot value="true" />
<processorPath useClasspath="true" />
<module name="writelatex-git-bridge" />
</profile>
</annotationProcessing>
<bytecodeTargetLevel>
<module name="writelatex-git-bridge" target="1.7" />
</bytecodeTargetLevel>
</component>
</project>

3
services/git-bridge/.idea/copyright/profiles_settings.xml Normal file
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@ -0,0 +1,3 @@
<component name="CopyrightManager">
<settings default="" />
</component>

6
services/git-bridge/.idea/encodings.xml Normal file
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@ -0,0 +1,6 @@
<?xml version="1.0" encoding="UTF-8"?>
<project version="4">
<component name="Encoding">
<file url="file://$PROJECT_DIR$" charset="UTF-8" />
</component>
</project>

14
services/git-bridge/.idea/misc.xml Normal file
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@ -0,0 +1,14 @@
<?xml version="1.0" encoding="UTF-8"?>
<project version="4">
<component name="EntryPointsManager">
<entry_points version="2.0" />
</component>
<component name="MavenProjectsManager">
<option name="originalFiles">
<list>
<option value="$PROJECT_DIR$/pom.xml" />
</list>
</option>
</component>
<component name="ProjectRootManager" version="2" languageLevel="JDK_1_8" default="false" assert-keyword="true" jdk-15="true" project-jdk-name="1.8" project-jdk-type="JavaSDK" />
</project>

8
services/git-bridge/.idea/modules.xml Normal file
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@ -0,0 +1,8 @@
<?xml version="1.0" encoding="UTF-8"?>
<project version="4">
<component name="ProjectModuleManager">
<modules>
<module fileurl="file://$PROJECT_DIR$/writelatex-git-bridge.iml" filepath="$PROJECT_DIR$/writelatex-git-bridge.iml" />
</modules>
</component>
</project>

20
services/git-bridge/README.md
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@ -4,21 +4,23 @@ writelatex-git-bridge
Required Required
-------- --------
* `maven` (for building) * `maven` (for building)
* `jdk-7` (for compiling and running) * `jdk-8` (for compiling and running)
Installation Installation
------------ ------------
### Ubuntu ###
Run `./install` to get dependencies, build, test, package, and make it a service.
Use `sudo service wlgb start` and `sudo service wlgb stop` to start and stop the server. Install dependencies:
The configuration file will be at `/etc/wlgb/config.json`. ```
sudo apt-get update
sudo apt-get install -y maven
sudo apt-get install -y openjdk-8-jdk
sudo update-alternatives --set java /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java
sudo update-alternatives --set javac /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/javac
```
Run `./reinstall` to test, package and install the current version if `./install` has already been run. Create a config file according to the format below.
Run `./uninstall` to undo what `./install` did.
### Manually ###
Run `mvn package` to build, test, and package it into a jar at `target/writelatex-git-bridge-1.0-SNAPSHOT-jar-with-dependencies.jar`. Run `mvn package` to build, test, and package it into a jar at `target/writelatex-git-bridge-1.0-SNAPSHOT-jar-with-dependencies.jar`.
Use `java -jar <path_to_jar> <path_to_config_file>` to run the server. Use `java -jar <path_to_jar> <path_to_config_file>` to run the server.
@ -26,7 +28,7 @@ Use `java -jar <path_to_jar> <path_to_config_file>` to run the server.
Runtime Configuration Runtime Configuration
--------------------- ---------------------
The configuration file is in `.json` format. There is an example at `bin/config.json`. The configuration file is in `.json` format.
{ {
"port" (int): the port number, "port" (int): the port number,

14
services/git-bridge/bin/config.json
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@ -1,14 +0,0 @@
{
"port": 80,
"rootGitDirectory": "/var/wlgb/git",
"apiBaseUrl": "http://127.0.0.1:60000/api/v0",
"username": "REDACTED",
"password": "REDACTED",
"postbackBaseUrl": "http://127.0.0.1",
"serviceName": "Overleaf",
"oauth2": {
"oauth2ClientID": "clientID",
"oauth2ClientSecret": "oauth2 client secret",
"oauth2Server": "https://www.overleaf.com"
}
}

159
services/git-bridge/bin/wlgb
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@ -1,159 +0,0 @@
#! /bin/sh
### BEGIN INIT INFO
# Provides: wlgb
# Required-Start: $remote_fs $syslog
# Required-Stop: $remote_fs $syslog
# Default-Start: 2 3 4 5
# Default-Stop: 0 1 6
# Short-Description: writelatex-git-bridge
# Description: Init script for writelatex-git-bridge service
# placed in /etc/init.d.
### END INIT INFO
# Author: Winston Li <winston.li12@imperial.ac.uk>
#
# Please remove the "Author" lines above and replace them
# with your own name if you copy and modify this script.
# Do NOT "set -e"
# PATH should only include /usr/* if it runs after the mountnfs.sh script
PATH=/sbin:/usr/sbin:/bin:/usr/bin
DESC="Writelatex-Git Bridge startup and stop script"
NAME=wlgb
DAEMON=/usr/bin/java
DAEMON_ARGS="-jar /usr/local/sbin/writelatex-git-bridge.jar /etc/wlgb/config.json"
PIDFILE=/var/run/$NAME.pid
SCRIPTNAME=/etc/init.d/$NAME
# Exit if the package is not installed
[ -x "$DAEMON" ] || exit 0
# Read configuration variable file if it is present
[ -r /etc/default/$NAME ] && . /etc/default/$NAME
# Load the VERBOSE setting and other rcS variables
. /lib/init/vars.sh
# Define LSB log_* functions.
# Depend on lsb-base (>= 3.2-14) to ensure that this file is present
# and status_of_proc is working.
. /lib/lsb/init-functions
#
# Function that starts the daemon/service
#
do_start()
{
# Return
# 0 if daemon has been started
# 1 if daemon was already running
# 2 if daemon could not be started
if [ -f "$PIDFILE" ]; then
echo "WriteLatex-Git Bridge is already started: use service wlgb stop to stop."
return 1;
fi
echo "Starting WriteLatex-Git Bridge..."
start-stop-daemon --start --quiet --make-pidfile --pidfile $PIDFILE \
--exec /usr/bin/env LANG="C.UTF-8" $DAEMON -- \
$DAEMON_ARGS >> /var/log/wlgb/out.log 2>> /var/log/wlgb/err.log &
echo "WriteLatex-Git Bridge started."
echo "Config file at /etc/wlgb/config.json"
echo "Log file at /var/log/wlgb/out.log"
echo "Error file at /var/log/wlgb/err.log"
echo
return 0
# Add code here, if necessary, that waits for the process to be ready
# to handle requests from services started subsequently which depend
# on this one. As a last resort, sleep for some time.
}
#
# Function that stops the daemon/service
#
do_stop()
{
if [ -f "$PIDFILE" ]; then
echo "Stopping Writelatex-Git Bridge..."
start-stop-daemon --stop --quiet --retry=TERM/60/KILL/5 --pidfile $PIDFILE
# Many daemons don't delete their pidfiles when they exit.
rm -f $PIDFILE
echo "WriteLatex-Git Bridge stopped."
return 0
fi
echo "WriteLatex-Git Bridge is not started: use service wlgb start to start."
return 1
}
#
# Function that sends a SIGHUP to the daemon/service
#
do_reload() {
#
# If the daemon can reload its configuration without
# restarting (for example, when it is sent a SIGHUP),
# then implement that here.
#
start-stop-daemon --stop --signal 1 --quiet --pidfile $PIDFILE --name $NAME
return 0
}
case "$1" in
start)
[ "$VERBOSE" != no ] && log_daemon_msg "Starting $DESC" "$NAME"
do_start
case "$?" in
0|1) [ "$VERBOSE" != no ] && log_end_msg 0 ;;
2) [ "$VERBOSE" != no ] && log_end_msg 1 ;;
esac
;;
stop)
[ "$VERBOSE" != no ] && log_daemon_msg "Stopping $DESC" "$NAME"
do_stop
case "$?" in
0|1) [ "$VERBOSE" != no ] && log_end_msg 0 ;;
2) [ "$VERBOSE" != no ] && log_end_msg 1 ;;
esac
;;
status)
status_of_proc "$DAEMON" "$NAME" && exit 0 || exit $?
;;
#reload|force-reload)
#
# If do_reload() is not implemented then leave this commented out
# and leave 'force-reload' as an alias for 'restart'.
#
#log_daemon_msg "Reloading $DESC" "$NAME"
#do_reload
#log_end_msg $?
#;;
restart|force-reload)
#
# If the "reload" option is implemented then remove the
# 'force-reload' alias
#
log_daemon_msg "Restarting $DESC" "$NAME"
do_stop
case "$?" in
0|1)
do_start
case "$?" in
0) log_end_msg 0 ;;
1) log_end_msg 1 ;; # Old process is still running
*) log_end_msg 1 ;; # Failed to start
esac
;;
*)
# Failed to stop
log_end_msg 1
;;
esac
;;
*)
#echo "Usage: $SCRIPTNAME {start|stop|restart|reload|force-reload}" >&2
echo "Usage: $SCRIPTNAME {start|stop|status|restart|force-reload}" >&2
exit 3
;;
esac
:

19
services/git-bridge/install
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@ -1,19 +0,0 @@
installDeps() {
sudo apt-get update
sudo apt-get install -y maven
sudo apt-get install -y openjdk-7-jdk
sudo update-alternatives --set java /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/java
sudo update-alternatives --set javac /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/javac
return 1
}
command -v mvn >/dev/null 2>&1 && command -v /usr/lib/jvm/java-7-openjdk-amd64/bin/javac >/dev/null 2>&1 || installDeps
mvn package &&\
sudo cp ./target/writelatex-git-bridge-1.0-SNAPSHOT-jar-with-dependencies.jar /usr/local/sbin/writelatex-git-bridge.jar &&\
sudo cp ./bin/wlgb /etc/init.d/ &&\
sudo mkdir -p /var/log/wlgb &&\
sudo mkdir -p /etc/wlgb &&\
if [ ! -f /etc/wlgb/config.json ]; then
sudo cp ./bin/config.json /etc/wlgb/
fi &&\
sudo /usr/sbin/update-rc.d -f wlgb defaults

29
services/git-bridge/pom.xml
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@ -55,23 +55,28 @@
<dependency> <dependency>
<groupId>org.jmock</groupId> <groupId>org.jmock</groupId>
<artifactId>jmock-junit4</artifactId> <artifactId>jmock-junit4</artifactId>
<version>2.6.0</version> <version>2.8.2</version>
<scope>test</scope> <scope>test</scope>
</dependency> </dependency>
<dependency> <dependency>
<groupId>org.eclipse.jetty.aggregate</groupId> <groupId>org.eclipse.jetty</groupId>
<artifactId>jetty-all</artifactId> <artifactId>jetty-servlet</artifactId>
<version>9.2.6.v20141205</version> <version>9.3.9.v20160517</version>
</dependency>
<dependency>
<groupId>org.eclipse.jetty</groupId>
<artifactId>jetty-server</artifactId>
<version>9.3.9.v20160517</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>com.google.code.gson</groupId> <groupId>com.google.code.gson</groupId>
<artifactId>gson</artifactId> <artifactId>gson</artifactId>
<version>2.3.1</version> <version>2.6.2</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>com.ning</groupId> <groupId>com.ning</groupId>
<artifactId>async-http-client</artifactId> <artifactId>async-http-client</artifactId>
<version>1.9.3</version> <version>1.9.38</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>org.eclipse.jgit</groupId> <groupId>org.eclipse.jgit</groupId>
@ -86,27 +91,27 @@
<dependency> <dependency>
<groupId>org.xerial</groupId> <groupId>org.xerial</groupId>
<artifactId>sqlite-jdbc</artifactId> <artifactId>sqlite-jdbc</artifactId>
<version>3.8.7</version> <version>3.8.11.2</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>joda-time</groupId> <groupId>joda-time</groupId>
<artifactId>joda-time</artifactId> <artifactId>joda-time</artifactId>
<version>2.7</version> <version>2.9.4</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>com.google.oauth-client</groupId> <groupId>com.google.oauth-client</groupId>
<artifactId>google-oauth-client</artifactId> <artifactId>google-oauth-client</artifactId>
<version>1.20.0</version> <version>1.22.0</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>com.google.http-client</groupId> <groupId>com.google.http-client</groupId>
<artifactId>google-http-client</artifactId> <artifactId>google-http-client</artifactId>
<version>1.20.0</version> <version>1.22.0</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>com.google.http-client</groupId> <groupId>com.google.http-client</groupId>
<artifactId>google-http-client-gson</artifactId> <artifactId>google-http-client-gson</artifactId>
<version>1.20.0</version> <version>1.22.0</version>
</dependency> </dependency>
<dependency> <dependency>
<groupId>commons-lang</groupId> <groupId>commons-lang</groupId>
@ -132,7 +137,7 @@
<dependency> <dependency>
<groupId>org.mock-server</groupId> <groupId>org.mock-server</groupId>
<artifactId>mockserver-netty</artifactId> <artifactId>mockserver-netty</artifactId>
<version>3.10.1</version> <version>3.10.4</version>
<scope>test</scope> <scope>test</scope>
</dependency> </dependency>
</dependencies> </dependencies>

3
services/git-bridge/reinstall
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@ -1,3 +0,0 @@
command -v mvn >/dev/null 2>&1 || sudo apt-get install maven
mvn package &&\
sudo mv ./target/writelatex-git-bridge-1.0-SNAPSHOT-jar-with-dependencies.jar /usr/local/sbin/writelatex-git-bridge.jar

2
services/git-bridge/src/main/java/uk/ac/ic/wlgitbridge/server/FileServlet.java
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@ -28,7 +28,7 @@ public class FileServlet extends ResourceHandler {
public void handle(String target, Request baseRequest, HttpServletRequest request, HttpServletResponse response) throws IOException, ServletException { public void handle(String target, Request baseRequest, HttpServletRequest request, HttpServletResponse response) throws IOException, ServletException {
String method = baseRequest.getMethod(); String method = baseRequest.getMethod();
if (method.equals("GET")) { if (method.equals("GET")) {
HttpURI uri = baseRequest.getUri(); HttpURI uri = baseRequest.getHttpURI();
Log.info(method + " <- " + uri); Log.info(method + " <- " + uri);
MultiMap<String> multimap = new MultiMap<String>(); MultiMap<String> multimap = new MultiMap<String>();
uri.decodeQueryTo(multimap); uri.decodeQueryTo(multimap);

2
services/git-bridge/src/main/java/uk/ac/ic/wlgitbridge/server/PostbackHandler.java
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@ -38,7 +38,7 @@ public class PostbackHandler extends AbstractHandler {
} }
String projectName = parts[1]; String projectName = parts[1];
String postbackKey = parts[2]; String postbackKey = parts[2];
Log.info(baseRequest.getMethod() + " <- " + baseRequest.getUri()); Log.info(baseRequest.getMethod() + " <- " + baseRequest.getHttpURI());
PostbackContents postbackContents = new PostbackContents(bridgeAPI, projectName, postbackKey, contents); PostbackContents postbackContents = new PostbackContents(bridgeAPI, projectName, postbackKey, contents);
JsonObject body = new JsonObject(); JsonObject body = new JsonObject();

2
services/git-bridge/src/test/java/uk/ac/ic/wlgitbridge/data/model/ResourceFetcherTest.java
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@ -32,7 +32,7 @@ public class ResourceFetcherTest {
@Test @Test
public void fetchesFilesThatAreMissingFromUrlStoreCache() throws IOException, SnapshotPostException { public void fetchesFilesThatAreMissingFromUrlStoreCache() throws IOException, SnapshotPostException {
final String testProjectName = "123abc"; final String testProjectName = "123abc";
final String testUrl = "http://localhost:" + mockServerRule.getHttpPort() + "/123abc"; final String testUrl = "http://localhost:" + mockServerRule.getPort() + "/123abc";
final String oldTestPath = "testPath"; final String oldTestPath = "testPath";
final String newTestPath = "missingPath"; final String newTestPath = "missingPath";

4
services/git-bridge/uninstall
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@ -1,4 +0,0 @@
sudo rm -f /usr/local/sbin/writelatex-git-bridge.jar &&\
sudo rm -f /etc/init.d/wlgb &&\
sudo rm -rf /etc/wlgb
sudo /usr/sbin/update-rc.d -f wlgb remove

111
services/git-bridge/writelatex-git-bridge.iml Normal file
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@ -0,0 +1,111 @@
<?xml version="1.0" encoding="UTF-8"?>
<module org.jetbrains.idea.maven.project.MavenProjectsManager.isMavenModule="true" type="JAVA_MODULE" version="4">
<component name="NewModuleRootManager" LANGUAGE_LEVEL="JDK_1_7" inherit-compiler-output="false">
<output url="file://$MODULE_DIR$/target/classes" />
<output-test url="file://$MODULE_DIR$/target/test-classes" />
<content url="file://$MODULE_DIR$">
<sourceFolder url="file://$MODULE_DIR$/src/main/java" isTestSource="false" />
<sourceFolder url="file://$MODULE_DIR$/src/test/java" isTestSource="true" />
<sourceFolder url="file://$MODULE_DIR$/src/test/resources" type="java-test-resource" />
<excludeFolder url="file://$MODULE_DIR$/target" />
</content>
<orderEntry type="jdk" jdkName="1.8" jdkType="JavaSDK" />
<orderEntry type="sourceFolder" forTests="false" />
<orderEntry type="library" scope="TEST" name="Maven: junit:junit:4.12" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.hamcrest:hamcrest-core:1.3" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.jmock:jmock-junit4:2.8.2" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.jmock:jmock:2.8.2" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.jmock:jmock-testjar:2.8.2" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: cglib:cglib:3.2.0" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.apache.ant:ant:1.9.4" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.apache.ant:ant-launcher:1.9.4" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.ow2.asm:asm:5.0.4" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.beanshell:bsh:1.3.0" level="project" />
<orderEntry type="library" scope="TEST" name="Maven: org.hamcrest:hamcrest-library:1.3" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-servlet:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-security:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-server:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: javax.servlet:javax.servlet-api:3.1.0" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-http:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-util:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jetty:jetty-io:9.3.9.v20160517" level="project" />
<orderEntry type="library" name="Maven: com.google.code.gson:gson:2.6.2" level="project" />
<orderEntry type="library" name="Maven: com.ning:async-http-client:1.9.38" level="project" />
<orderEntry type="library" name="Maven: io.netty:netty:3.10.5.Final" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jgit:org.eclipse.jgit:3.6.0.201412230720-r" level="project" />
<orderEntry type="library" name="Maven: com.jcraft:jsch:0.1.50" level="project" />
<orderEntry type="library" name="Maven: com.googlecode.javaewah:JavaEWAH:0.7.9" level="project" />
<orderEntry type="library" name="Maven: org.apache.httpcomponents:httpclient:4.1.3" level="project" />
<orderEntry type="library" name="Maven: org.apache.httpcomponents:httpcore:4.1.4" level="project" />
<orderEntry type="library" name="Maven: commons-logging:commons-logging:1.1.1" level="project" />
<orderEntry type="library" name="Maven: commons-codec:commons-codec:1.4" level="project" />
<orderEntry type="library" name="Maven: org.eclipse.jgit:org.eclipse.jgit.http.server:3.6.0.201412230720-r" level="project" />
<orderEntry type="library" name="Maven: org.xerial:sqlite-jdbc:3.8.11.2" level="project" />
<orderEntry type="library" name="Maven: joda-time:joda-time:2.9.4" level="project" />
<orderEntry type="library" name="Maven: com.google.oauth-client:google-oauth-client:1.22.0" level="project" />
<orderEntry type="library" name="Maven: com.google.code.findbugs:jsr305:1.3.9" level="project" />
<orderEntry type="library" name="Maven: com.google.http-client:google-http-client:1.22.0" level="project" />
<orderEntry type="library" name="Maven: com.google.http-client:google-http-client-gson:1.22.0" level="project" />
<orderEntry type="library" name="Maven: commons-lang:commons-lang:2.6" level="project" />
<orderEntry type="library" name="Maven: org.slf4j:slf4j-api:1.7.13" level="project" />
<orderEntry type="library" name="Maven: org.slf4j:slf4j-simple:1.7.13" level="project" />
<orderEntry type="library" name="Maven: com.google.guava:guava:19.0" level="project" />
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