From 23fb18b3f14a1b396f0c61f2ea4559fec758cb1d Mon Sep 17 00:00:00 2001
From: pvtroshin <pvtroshin@e3abac25-378b-4346-85de-24260fe3988d>
Date: Tue, 11 Oct 2011 11:37:05 +0000
Subject: [PATCH] Google Analytics statistics is added

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4651 e3abac25-378b-4346-85de-24260fe3988d
---
 .classpath                                         |    1 +
 WEB-INF/lib/compbio-ga-1.0.jar                     |  Bin 0 -> 11684 bytes
 build.xml                                          |    1 +
 conf/GA.properties                                 |    8 +-
 .../compbio/engine/conf/PropertyHelperManager.java |    4 +-
 lib/src/compbio-ga-src-1.0.jar                     |  Bin 0 -> 10859 bytes
 webservices/compbio/ws/server/GAUtils.java         |   82 ++++++++++++++++++++
 webservices/compbio/ws/server/LocalURL.txt         |    3 -
 webservices/compbio/ws/server/MafftWS.java         |    6 +-
 webservices/compbio/ws/server/MuscleWS.java        |    6 +-
 webservices/compbio/ws/server/ProbconsWS.java      |    9 +--
 webservices/compbio/ws/server/TcoffeeWS.java       |    7 +-
 webservices/compbio/ws/server/WSUtil.java          |   14 +++-
 13 files changed, 117 insertions(+), 24 deletions(-)
 create mode 100644 WEB-INF/lib/compbio-ga-1.0.jar
 create mode 100644 lib/src/compbio-ga-src-1.0.jar
 create mode 100644 webservices/compbio/ws/server/GAUtils.java
 delete mode 100644 webservices/compbio/ws/server/LocalURL.txt

diff --git a/.classpath b/.classpath
index 9651a3f..c9f256a 100644
--- a/.classpath
+++ b/.classpath
@@ -13,5 +13,6 @@
 	<classpathentry kind="lib" path="WEB-INF/lib/compbio-annotations-1.0.jar"/>
 	<classpathentry kind="lib" path="WEB-INF/lib/compbio-util-1.4.jar"/>
 	<classpathentry kind="lib" path="WEB-INF/lib/derby.jar"/>
+	<classpathentry kind="lib" path="WEB-INF/lib/compbio-ga-1.0.jar"/>
 	<classpathentry kind="output" path="WEB-INF/classes"/>
 </classpath>
diff --git a/WEB-INF/lib/compbio-ga-1.0.jar b/WEB-INF/lib/compbio-ga-1.0.jar
new file mode 100644
index 0000000000000000000000000000000000000000..378a99a4bc67d1bc7fc960f5e261ccc0623942ef
GIT binary patch
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HcmV?d00001

diff --git a/build.xml b/build.xml
index 208fcbf..426e3ca 100644
--- a/build.xml
+++ b/build.xml
@@ -17,6 +17,7 @@
 	<!-- dependencies on other compbio projects  -->
 	<property name="compbio-annotation" value="compbio-annotations-1.0.jar"/>
 	<property name="compbio-util" value="compbio-util-1.4.jar"/>
+	<property name="compbio-ga" value="compbio-ga-1.0.jar"/>
 	
 	<!-- products -->
 	<property name="jaba_version" value="2.0"/>
diff --git a/conf/GA.properties b/conf/GA.properties
index 223b9a7..526a654 100644
--- a/conf/GA.properties
+++ b/conf/GA.properties
@@ -1,14 +1,14 @@
-# This file contains settings for Google Analytics Statistics Engine.
+# This file contains settings for Google Analytics (GA) Statistics Engine.
 # Feel free to remove/delete this file if you do not want us to see that you
 # use JABAWS. However, we would appreciate it greatly if you could leave it on.  
-# We depend on the JABAWS usage statistics for our future funding. We do not 
-# collect any personal data. That data that we submit is as follows
+# JABAWS usage statistics are collected for funding and reporting purposes, and 
+# no private information is collected. The data sent by JABAWS is as follows: 
 # 1) The IP address of the JABAWS server machine.
 # 2) The name of the web service that was called.   
 # 3) A few details of the system such as java version, user language, color depth, screen
 # resolution and character encoding.
 
-# All calls to statistics are completed asynchronously and create very little
+# All calls to GA are completed asynchronously and create very little
 # overhead. Thus they do not influence the server response time or performance.
 
 # Values yes or true = enable GA, any other value will disable it
diff --git a/engine/compbio/engine/conf/PropertyHelperManager.java b/engine/compbio/engine/conf/PropertyHelperManager.java
index fb35362..b3d2b66 100644
--- a/engine/compbio/engine/conf/PropertyHelperManager.java
+++ b/engine/compbio/engine/conf/PropertyHelperManager.java
@@ -61,8 +61,10 @@ public final class PropertyHelperManager {
 						+ "Engine.cluster.properties");
 				File execProp = getResourceFromClasspath(confDir
 						+ "Executable.properties");
+				File gaProp = getResourceFromClasspath(confDir
+						+ "GA.properties");
 				ph = new PropertyHelper(locEngineProp, clustEngineProp,
-						execProp);
+						execProp, gaProp);
 			} catch (IOException e) {
 				log.warn(
 						"Cannot read property files! Reason: "
diff --git a/lib/src/compbio-ga-src-1.0.jar b/lib/src/compbio-ga-src-1.0.jar
new file mode 100644
index 0000000000000000000000000000000000000000..fad0585e443e66afa6742774fa245e1911b37b26
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HcmV?d00001

diff --git a/webservices/compbio/ws/server/GAUtils.java b/webservices/compbio/ws/server/GAUtils.java
new file mode 100644
index 0000000..e4473d1
--- /dev/null
+++ b/webservices/compbio/ws/server/GAUtils.java
@@ -0,0 +1,82 @@
+package compbio.ws.server;
+
+import java.net.InetAddress;
+import java.net.UnknownHostException;
+
+import org.apache.log4j.Logger;
+
+import compbio.engine.conf.PropertyHelperManager;
+import compbio.stat.ga.AnalyticsConfigData;
+import compbio.stat.ga.GoogleAnalyticsTracker;
+import compbio.util.PropertyHelper;
+import compbio.util.Util;
+import compbio.ws.client.Services;
+
+public class GAUtils {
+
+	// MODIFY BEFORE RELEASE!
+	final static String VERSION_TYPE = "WAR";
+
+	private static final Logger log = Logger.getLogger(GAUtils.class);
+
+	static PropertyHelper PROP_HELPER = PropertyHelperManager
+			.getPropertyHelper();
+
+	private static AnalyticsConfigData config = new AnalyticsConfigData(
+			"UA-26161150-1");
+
+	private static GoogleAnalyticsTracker TRACKER = new GoogleAnalyticsTracker(
+			config);
+
+	public static final boolean IS_GA_ENABLED = isGoogleAnalyticsEnabled();
+
+	private static String SERVER_ADDRESS = getServerIP();
+
+	private static boolean isGoogleAnalyticsEnabled() {
+		String val = PROP_HELPER.getProperty("enable.ga");
+		if (Util.isEmpty(val)) {
+			return false;
+		}
+		val = val.trim();
+		if ("yes".equalsIgnoreCase(val) || "true".equalsIgnoreCase(val)) {
+			return true;
+		}
+		return false;
+	}
+
+	private static String getServerIP() {
+		String IP = "127.0.0.1";
+		if (!anonymizeIP()) {
+			try {
+				InetAddress localAddrIP = InetAddress.getLocalHost();
+				IP = localAddrIP.getCanonicalHostName();
+			} catch (UnknownHostException ignored) {
+			}
+		}
+		return IP;
+	}
+
+	private static boolean anonymizeIP() {
+		String val = PROP_HELPER.getProperty("anonymize.ip");
+		if (Util.isEmpty(val)) {
+			return false;
+		}
+		if ("yes".equalsIgnoreCase(val) || "true".equalsIgnoreCase(val)) {
+			return true;
+		}
+		return false;
+	}
+
+	static void reportUsage(Services service) {
+		String service_name = "UNKNOWN";
+		if (service == null) {
+			log.warn("GA: Services was NULL!");
+		} else {
+			service_name = service.toString();
+		}
+		TRACKER.trackPageViewFromReferrer("JABAWS/2.0/" + service_name,
+				service_name, "http://www.compbio.dundee.ac.uk",
+				SERVER_ADDRESS, VERSION_TYPE);
+		TRACKER.resetSession();
+	}
+}
diff --git a/webservices/compbio/ws/server/LocalURL.txt b/webservices/compbio/ws/server/LocalURL.txt
deleted file mode 100644
index aa70a6f..0000000
--- a/webservices/compbio/ws/server/LocalURL.txt
+++ /dev/null
@@ -1,3 +0,0 @@
-http://localhost:7979/Clustal
-http://localhost:8080/ws/Clustal
-http://localhost:7979/Muscle
diff --git a/webservices/compbio/ws/server/MafftWS.java b/webservices/compbio/ws/server/MafftWS.java
index 63de39b..f293ae7 100644
--- a/webservices/compbio/ws/server/MafftWS.java
+++ b/webservices/compbio/ws/server/MafftWS.java
@@ -66,7 +66,7 @@ public class MafftWS implements MsaWS<Mafft> {
 			throws JobSubmissionException {
 		WSUtil.validateFastaInput(sequences);
 		ConfiguredExecutable<Mafft> confMafft = init(sequences);
-		return WSUtil.align(sequences, confMafft, null, "align", getLimit(""));
+		return WSUtil.align(sequences, confMafft, log, "align", getLimit(""));
 	}
 
 	ConfiguredExecutable<Mafft> init(List<FastaSequence> dataSet)
@@ -88,7 +88,7 @@ public class MafftWS implements MsaWS<Mafft> {
 				Mafft.KEY_VALUE_SEPARATOR);
 		log.info("Setting parameters: " + params);
 		confMafft.addParameters(params);
-		return WSUtil.align(sequences, confMafft, null, "customAlign",
+		return WSUtil.align(sequences, confMafft, log, "customAlign",
 				getLimit(""));
 	}
 
@@ -106,7 +106,7 @@ public class MafftWS implements MsaWS<Mafft> {
 		// particular preset is not found
 		Limit<Mafft> limit = getLimit(preset.getName());
 
-		return WSUtil.align(sequences, confMafft, null, "presetAlign", limit);
+		return WSUtil.align(sequences, confMafft, log, "presetAlign", limit);
 	}
 
 	@SuppressWarnings("unchecked")
diff --git a/webservices/compbio/ws/server/MuscleWS.java b/webservices/compbio/ws/server/MuscleWS.java
index 95cef8b..a9d6c52 100644
--- a/webservices/compbio/ws/server/MuscleWS.java
+++ b/webservices/compbio/ws/server/MuscleWS.java
@@ -66,7 +66,7 @@ public class MuscleWS implements MsaWS<Muscle> {
 			throws JobSubmissionException {
 		WSUtil.validateFastaInput(sequences);
 		ConfiguredExecutable<Muscle> confMuscle = init(sequences);
-		return WSUtil.align(sequences, confMuscle, null, "align", getLimit(""));
+		return WSUtil.align(sequences, confMuscle, log, "align", getLimit(""));
 	}
 
 	ConfiguredExecutable<Muscle> init(List<FastaSequence> sequences)
@@ -90,7 +90,7 @@ public class MuscleWS implements MsaWS<Muscle> {
 		List<String> params = WSUtil.getCommands(options,
 				Muscle.KEY_VALUE_SEPARATOR);
 		confMuscle.addParameters(params);
-		return WSUtil.align(sequences, confMuscle, null, "customAlign",
+		return WSUtil.align(sequences, confMuscle, log, "customAlign",
 				getLimit(""));
 	}
 
@@ -105,7 +105,7 @@ public class MuscleWS implements MsaWS<Muscle> {
 		ConfiguredExecutable<Muscle> confMuscle = init(sequences);
 		confMuscle.addParameters(preset.getOptions());
 		Limit<Muscle> limit = getLimit(preset.getName());
-		return WSUtil.align(sequences, confMuscle, null, "presetAlign", limit);
+		return WSUtil.align(sequences, confMuscle, log, "presetAlign", limit);
 	}
 
 	@SuppressWarnings("unchecked")
diff --git a/webservices/compbio/ws/server/ProbconsWS.java b/webservices/compbio/ws/server/ProbconsWS.java
index 3d80cad..71f4730 100644
--- a/webservices/compbio/ws/server/ProbconsWS.java
+++ b/webservices/compbio/ws/server/ProbconsWS.java
@@ -63,8 +63,8 @@ public class ProbconsWS implements MsaWS<Probcons> {
 			throws JobSubmissionException {
 		WSUtil.validateFastaInput(sequences);
 		ConfiguredExecutable<Probcons> confProbcons = init(sequences);
-		return WSUtil.align(sequences, confProbcons, null, "align",
-				getLimit(""));
+		return WSUtil
+				.align(sequences, confProbcons, log, "align", getLimit(""));
 	}
 
 	ConfiguredExecutable<Probcons> init(List<FastaSequence> dataSet)
@@ -86,7 +86,7 @@ public class ProbconsWS implements MsaWS<Probcons> {
 				Probcons.KEY_VALUE_SEPARATOR);
 		log.info("Setting parameters:" + params);
 		confProbcons.addParameters(params);
-		return WSUtil.align(sequences, confProbcons, null, "customAlign",
+		return WSUtil.align(sequences, confProbcons, log, "customAlign",
 				getLimit(""));
 	}
 
@@ -101,8 +101,7 @@ public class ProbconsWS implements MsaWS<Probcons> {
 		ConfiguredExecutable<Probcons> confProbcons = init(sequences);
 		confProbcons.addParameters(preset.getOptions());
 		Limit<Probcons> limit = getLimit(preset.getName());
-		return WSUtil
-				.align(sequences, confProbcons, null, "presetAlign", limit);
+		return WSUtil.align(sequences, confProbcons, log, "presetAlign", limit);
 	}
 
 	@SuppressWarnings("unchecked")
diff --git a/webservices/compbio/ws/server/TcoffeeWS.java b/webservices/compbio/ws/server/TcoffeeWS.java
index e9bda4d..086d870 100644
--- a/webservices/compbio/ws/server/TcoffeeWS.java
+++ b/webservices/compbio/ws/server/TcoffeeWS.java
@@ -67,8 +67,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
 			throws JobSubmissionException {
 		WSUtil.validateFastaInput(sequences);
 		ConfiguredExecutable<Tcoffee> confTcoffee = init(sequences);
-		return WSUtil
-				.align(sequences, confTcoffee, null, "align", getLimit(""));
+		return WSUtil.align(sequences, confTcoffee, log, "align", getLimit(""));
 	}
 
 	ConfiguredExecutable<Tcoffee> init(List<FastaSequence> sequences)
@@ -101,7 +100,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
 				Tcoffee.KEY_VALUE_SEPARATOR);
 		log.info("Setting parameters:" + params);
 		confTcoffee.addParameters(params);
-		return WSUtil.align(sequences, confTcoffee, null, "customAlign",
+		return WSUtil.align(sequences, confTcoffee, log, "customAlign",
 				getLimit(""));
 	}
 
@@ -116,7 +115,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
 		ConfiguredExecutable<Tcoffee> confTcoffee = init(sequences);
 		confTcoffee.addParameters(preset.getOptions());
 		Limit<Tcoffee> limit = getLimit(preset.getName());
-		return WSUtil.align(sequences, confTcoffee, null, "presetAlign", limit);
+		return WSUtil.align(sequences, confTcoffee, log, "presetAlign", limit);
 	}
 
 	@SuppressWarnings("unchecked")
diff --git a/webservices/compbio/ws/server/WSUtil.java b/webservices/compbio/ws/server/WSUtil.java
index fb96de8..7341989 100644
--- a/webservices/compbio/ws/server/WSUtil.java
+++ b/webservices/compbio/ws/server/WSUtil.java
@@ -38,6 +38,8 @@ import compbio.metadata.Limit;
 import compbio.metadata.LimitExceededException;
 import compbio.metadata.Option;
 import compbio.metadata.ResultNotAvailableException;
+import compbio.ws.client.Services;
+import compbio.ws.client.ServicesUtil;
 
 public final class WSUtil {
 
@@ -106,9 +108,19 @@ public final class WSUtil {
 		compbio.runner.Util.writeInput(sequences, confExec);
 		AsyncExecutor engine = Configurator.getAsyncEngine(confExec);
 		String jobId = engine.submitJob(confExec);
+		reportUsage(confExec, logger);
 		return jobId;
 	}
 
+	static <T> void reportUsage(ConfiguredExecutable<T> confExec, Logger logger) {
+		if (GAUtils.IS_GA_ENABLED) {
+			Services service = ServicesUtil.getServiceByRunner(confExec
+					.getExecutable().getClass());
+			GAUtils.reportUsage(service);
+			logger.info("Reporting GA usage for " + service);
+		}
+	}
+
 	public static <T> String analize(List<FastaSequence> sequences,
 			ConfiguredExecutable<T> confExec, Logger log, String method,
 			Limit<T> limit) throws JobSubmissionException {
@@ -120,7 +132,7 @@ public final class WSUtil {
 		compbio.runner.Util.writeInput(sequences, confExec);
 		AsyncExecutor engine = Configurator.getAsyncEngine(confExec);
 		String jobId = engine.submitJob(confExec);
-
+		reportUsage(confExec, log);
 		return jobId;
 	}
 
-- 
1.7.10.2