Human Echolocation WebApp

h1. Deployment runthrough

This is an example deployment, on a 64-bit Linux host. There are various different ways to do this and the details will vary from one platform to another. This is a deployment of a very early version of the code.

h2. 1. Obtain the current code from Mercurial repository

<pre>

$ hg clone https://code.soundsoftware.ac.uk/hg/human-echolocation-java-webapp

http authorization required for https://code.soundsoftware.ac.uk/hg/human-echolocation-java-webapp

realm: Mercurial repository for Human Echolocation WebApp

user: chrisca

password: 

destination directory: human-echolocation-java-webapp

requesting all changes

adding changesets

adding manifests

adding file changes

added 41 changesets with 93 changes to 40 files

updating to branch default

23 files updated, 0 files merged, 0 files removed, 0 files unresolved

$

</pre>

h2. 2. Install the MATLAB Compiler Runtime

Navigate to http://www.mathworks.co.uk/products/compiler/mcr/ and find the download URL, then use as follows.

<pre>

$ mkdir mcr

$ cd mcr

$ wget 'http://www.mathworks.co.uk/supportfiles/downloads/R2013b/deployment_files/R2013b/installers/glnxa64/MCR_R2013b_glnxa64_installer.zip'

--2014-02-24 10:00:10--  http://www.mathworks.co.uk/supportfiles/downloads/R2013b/deployment_files/R2013b/installers/glnxa64/MCR_R2013b_glnxa64_installer.zip

Resolving www.mathworks.co.uk (www.mathworks.co.uk)... 23.214.117.160

Connecting to www.mathworks.co.uk (www.mathworks.co.uk)|23.214.117.160|:80... connected.

HTTP request sent, awaiting response... 200 OK

Length: 488473010 (466M) [application/zip]

Saving to: ‘MCR_R2013b_glnxa64_installer.zip’

100%[======================================>] 488,473,010 7.81MB/s   in 60s    

2014-02-24 10:01:11 (7.71 MB/s) - ‘MCR_R2013b_glnxa64_installer.zip’ saved [488473010/488473010]

$ unzip MCR_R2013b_glnxa64_installer.zip 

Archive:  MCR_R2013b_glnxa64_installer.zip

  inflating: archives/mpc_resources_common_1348598029.enc  

  inflating: archives/cgir_mi_core_glnxa64_1375749553.xml  

[etc]

$ ./install

</pre>

The installer window then pops up (X server connection required for graphical interaction here).

The default installation folder is @/usr/local/MATLAB/MATLAB_Compiler_Runtime@. I'm going to accept that.

The installer runs, and then prints out the following:

<pre>

On the target computer, append the following to your LD_LIBRARY_PATH environment variable:

/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/runtime/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/bin/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/os/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64

Next, set the XAPPLRESDIR environment variable to the following value:

/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/X11/app-defaults  

</pre>

h2. 3. Bring dependent JAR files into the webapp folder

Make sure we're back in the webapp folder (the one we cloned from Mercurial earlier)

<pre>

$ cd ../human-echolocation-java-webapp

</pre>

Copy in the Servlet API library from our application server (in this case Tomcat):

<pre>

$ cp /usr/share/java/tomcat7/servlet-api.jar .

</pre>

(Note that sometimes that file appears to live at @/usr/share/java/servlet-api-3.0.jar@ or similar -- it should be the same file anyway)

And the MATLAB MCR JavaBuilder library:

<pre>

$ cp /usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/toolbox/javabuilder/jar/javabuilder.jar ./WebContent/WEB-INF/lib/

</pre>

h2. 4. Build the WAR file bundle

Simple enough:

<pre>

$ ant

Buildfile: /work/human-echolocation-java-webapp/build.xml

build:

    [javac] Compiling 2 source files to /work/human-echolocation-java-webapp/WebContent/WEB-INF/classes

build-war:

      [war] Building war: /work/human-echolocation-java-webapp/echoapp.war

BUILD SUCCESSFUL

Total time: 1 second

$

</pre>

h2. 5. Deploy the bundle and start the app server

<pre>

$ sudo cp echoapp.war /var/lib/tomcat7/webapps/

$ sudo /usr/share/tomcat7/bin/startup.sh

</pre>

_Note: on many Linux distros you can start Tomcat as a system service, e.g. using "systemctl start tomcat7". I tried this initially but later on found that logs weren't being written where I expected and config changes weren't taking effect, so I started running it directly from the script in the Tomcat directory instead_

Then navigate to the Tomcat manager URL http://localhost:8080/manager/html in a browser. (This URL may vary. The default admin username and password are admin/admin; of course these must be changed and the manager port firewalled in any real deployment.)

Because the WAR file was present when Tomcat was started, it should be listed as running in the manager interface. If it isn't, we can hit the Start button on the line listing echoapp (and if we have redeployed it since last time, we should hit Reload).

h2. 6. Test the app 

Now the app has been deployed, we can run it by going to the http://localhost:8080/echoapp URL linked in the Tomcat manager page. This should display the basic Human Echolocation Webapp page. If I enter a value into the Distance field and hit Generate... nothing happens.

I can debug this by trying to retrieve the result from the HumanEchoServlet directly, through the URL http://localhost:8080/echoapp/HumanEcho. This shows a stack trace, of which the pertinent lines are:

<pre>

java.lang.NoClassDefFoundError: Could not initialize class com.mathworks.toolbox.javabuilder.internal.MWMCR

	uk.ac.soton.isvr.IsvrMCRFactory.newInstance(IsvrMCRFactory.java:47)

	uk.ac.soton.isvr.IsvrMCRFactory.newInstance(IsvrMCRFactory.java:58)

	uk.ac.soton.isvr.HumanEcho.<init>(HumanEcho.java:62)

</pre>

OK, so this is where the library path from the MCR comes into play. We can set environment variables for Tomcat in a @setenv.sh@ script in the directory where the other Tomcat shell scripts are found. In my case that is @/usr/share/tomcat7/bin@, so I create a file in there called @setenv.sh@ with the following content

<pre>

export LD_LIBRARY_PATH=/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/runtime/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/bin/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/os/glnxa64:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/MATLAB_Compiler_Runtime/v82/sys/java/jre/glnxa64/jre/lib/amd64

</pre>

and run

<pre>

$ sudo chmod +x setenv.sh

$ sudo ./shutdown.sh

$ sudo ./startup.sh

</pre>

On reloading the app and re-requesting the servlet, the error message has disappeared and instead we see

<pre>

java.lang.NumberFormatException: null

	java.lang.Integer.parseInt(Integer.java:454)

	java.lang.Integer.parseInt(Integer.java:527)

	HumanEchoServlet.doGet(Unknown Source)

	javax.servlet.http.HttpServlet.service(HttpServlet.java:620)

</pre>

OK, this is just (!) a bug in our servlet -- it isn't handling the absent dist and azim parameters correctly. If I add some random values by retrieving http://localhost:8080/echoapp/HumanEcho?dist=8&azim=4 instead, then I get served a WAV file. Hurrah!