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WebApp. Java EE. Where I should initialize my business logic?

I recently started learning java EE (jsp, servlets and some patterns for working with database like a DAO) and I dont understand where I should initialize my bussines logic? I think that create instances of it in body of do*** servlet methods is a bad practice. P.S. my app use DataSource and ConnectionPool for connection with db.

You need to specify your requirement somehow, what initialization you are looking for. Is it a EJB solution? Pure Servlet/JSP solution? etc.
Normally when deploying your application, after an invocation the application will load the required logic.
Of course you can do initialize to speed up the load, to make required code run before users enter the application etc.
In EJB we are talking about #Singleton and #Startup annotations.
For servlet you can use the annotation #WebServlet(name="startup", loadOnStartup="0"). Or put it in your web.xml. Depends how you code.
A more recommended way is to create you own listener, and override the contextInitialized and contextDestoryed methods. E.g. create db connection etc in initialized method and deregister the driver in contextdestory method. Use annotation #WebServletContextListener or add the listener to your web.xml
Also Java web server specific solutions exists, you need to check your vendor.

Inject a bean from another application context?

Is it possible to inject a bean from a web application that deploy in another server!
I declare a scenario to myself, I have two web application that use spring framework and deploy separately in different application servers (one is TOMCAT and another one is WEBLOGIC),the first application has ServiceA and the second one has ServiceB, now I want to inject ServiceB in ServieA?
I try to do this with RMI once an another one with JMS, now I am wondering that:
Is it possible with another thing?
Is there any active project about this scenario exist?
How can share application context in spring framework, is it possible?
Thanks.

Bean is just an object in JVM. You certainly cannot use an object from one JVM in another JVM straightforward.
But you can do 2 things:
Use proxies - some objects that will have the same interface but invoke somehow to the proper server as implementation.
Use service-oriented architecture (SOA). Each server should have some limited set of beans that are responsible for their functionality. And all beans can interact with each other.
Maybe OSGI is suitable for this.

Web services, JAX-RS is the simplest. But JAX-WS provides you with the tools to automatically generate the client code.

Play framework 1.2.5 application slow startup

I am using Play framework 1.2.5 and Hibernate 3.25 for developing my web application. I am facing problems with the application startup, it is very slow :(
For any Java EE servlet-driven application, we use the ServletContextListener for initializing the session factories (which is really a time consuming job). Once the application is deployed, the session factories will be initialized and all this have to be completed before the application is ready to use for the end user. In this way, when the user triggers the first request, the response time for the first is faster.
But, for Play framework does not follow any servlet architecture. Hence not sure how to implement something similar to the ServletContextListener which will be create all the session factories before the application is ready to use to the end user.
Without this, for the first time the application is really very slow for the first request.
I am sure there might be something in Play Framework also which will do the same but I am not aware of it.
Please let me know about this.

You can use a Job to initialise you application.
For example you could have a bootstrap job annotated with #OnApplicationStart which would take care of loading your static data or initialising you cache or factories.
#OnApplicationStart
public class Bootstrap extends Job {
public void doJob() {
//Load static data
//Initialise cache
//Initialise factories
...
// ready to serve application
}
}

You're probably running the application in development mode, where everything is compiled and initialized lazily, on the first request. The production mode compiles everything before actually starting the server. See http://www.playframework.org/documentation/1.2.5/production

JB should be correct. In short you can start the server with --%prod option:
play run --%prod
or
play start --%prod

Execute code on JBoss after start

I need to execute some code after the start of the application server (JBoss).
I googled the annotations #startup and #create that might prove useful, but in this situation seems impossibile to operate with EntityManager or Hibernate current session (if using Hibernate).
Is there any chance to perform Hibernate operation immediately after JBoss is started?

Are you using a framework? If not, you could use a startup servlet. In your web.xml, simply mark the servlet to have a <load-on-startup> value and it will run when the webapp is started. If you want it to load after other servlets, just set the load order.
If you are using a framework, it will have its own methodologies, such as Spring's InitializingBean interface.

You could deploy a custom JBoss service or just use plain old portable ServletListener in a war.

Unmanaged Threads Spring Quartz Websphere Hibernate

It appears that our implementation of using Quartz - JDBCJobStore along with Spring, Hibernate and Websphere is throwing unmanaged threads.
I have done some reading and found a tech article from IBM stating that the usage of Quartz with Spring will cause that. They make the suggestion of using CommnonJ to address this issue.
I have done some further research and the only examples I have seen so far all deal with the plan old JobStore that is not in a database.
So, I was wondering if anyone has an example of the solution for this issue.
Thanks

We have a working solution for this (two actually).
1) Alter the quartz source code to use a WorkManager daemon thread for the main scheduler thread. It works, but requires changing quarts. We didn't use this though since we didn't want maintain a hacked version of quartz. (That reminds me, I was going to submit this to the project but completely forgot)
2) Create a WorkManagerThreadPool to be used as the quartz threadpool. Implement the interface for the quartz ThreadPool, so that each task that is triggered within quartz is wrapped in a commonj Work object that will then be scheduled in the WorkManager. The key is that the WorkManager in the WorkManagerThreadPool has to be initialized before the scheduler is started, from a Java EE thread (such as servlet initialization). The WorkManagerThreadPool must then create a daemon thread which will handle all the scheduled tasks by creating and scheduling the new Work objects. This way, the scheduler (on its own thread) is passing the tasks to a managed thread (the Work daemon).
Not simple, and unfortunately I do not have code readily available to include.

Adding another answer to the thread, since i found a solution for this, finally.
My environment: WAS 8.5.5, Quartz 1.8.5, no Spring.
The problem i had was the (above stated) unmanaged thread causing a NamingException from ctx.lookup(myJndiUrl), that was instead correctly working in other application servers (JBoss, Weblogic); actually, Webpshere was firing an "incident" with the following message:
javax.naming.ConfigurationException: A JNDI operation on a "java:" name cannot be completed because the server runtime is not able to associate the operation's thread with any J2EE application component. This condition can occur when the JNDI client using the "java:" name is not executed on the thread of a server application request. Make sure that a J2EE application does not execute JNDI operations on "java:" names within static code blocks or in threads created by that J2EE application. Such code does not necessarily run on the thread of a server application request and therefore is not supported by JNDI operations on "java:" names.
The following steps solved the problem:
1) upgraded to quartz 1.8.6 (no code changes), just maven pom
2) added the following dep to classpath (in my case, EAR's /lib folder), to make the new WorkManagerThreadExecutor available
<dependency>
<groupId>org.quartz-scheduler</groupId>
<artifactId>quartz-commonj</artifactId>
<version>1.8.6</version>
</dependency>
Note: in QTZ-113 or the official Quartz Documentation 1.x 2.x there's no mention on how to activate this fix.
3) added the following to quartz.properties ("wm/default" was the JNDI of the already configured DefaultWorkManager in my WAS 8.5.5, see Resources -> AsynchronousBeans -> WorkManagers in WAS console):
org.quartz.threadExecutor.class=org.quartz.custom.WorkManagerThreadExecutor
org.quartz.threadExecutor.workManagerName=wm/default
Note: right class is org.quartz.custom.WorkManagerThreadExecutor for quartz-scheduler-1.8.6 (tested), or org.quartz.commonj.WorkManagerThreadExecutor from 2.1.1 on (not tested, but verified within actual quartz-commonj's jars on maven's repos)
4) moved the JNDI lookup in the empty constructor of the quartz job (thanks to m_klovre's "Thread outside of the J2EE container"); that is, the constructor was being invoked by reflection (newInstance() method) from the very same J2EE context of my application, and had access to java:global namespace, while the execute(JobExecutionContext) method was still running in a poorer context, which was missing all of my application's EJBs
Hope this helps.
Ps. as a reference, you can find here an example of the quartz.properties file I was using above

Check this article:
http://www.ibm.com/developerworks/websphere/techjournal/0609_alcott/0609_alcott.html
basically, set the taskExecutor property on SchedulerFactoryBean to use a org.springframework.scheduling.commonj.WorkManager TaskExecutor which will use container managed threads.

Just a note: the above QUARTZ-708's link is not valid anymore.
This new issue (in a new Jira) seems to be addressing the problem: http://jira.terracotta.org/jira/browse/QTZ-113 (fixVersion = 1.8.6, 2.0.2)

I have recently encountered this problem. Practically you need:
Implement thread pool by delegating work to Websphere Work Manager. (Quartz provides only SimpleThreadPool that run jobs on unmanaged threads). Tell quartz to use this thread pool by org.quartz.threadPool.class property
Tell quartz to use WorkManagerThreadExecutor (or implement custom one) by org.quartz.threadExecutor.class property
A bit patience with cumbersome legacy web containers :)
Here is github demo of using Quartz with Websphere (and also Tomcat).
Hope it helps someone..

You can check the below JIRA link raised on quartz regarding this.
http://jira.opensymphony.com/browse/QUARTZ-708
This has the required WebSphereThreadPool implementation which can be used with the changes in quartz.properties as mentioned to meet your requirements. Hope this helps.
Regards,
Siva

You will have to use websphere's managed thread pools. You can do this via spring and commonj. CommonJ can has a task executor that will create managed threads. You can even use a reference to a jndi managed thread resource. You can then inject the commonj task executor into the Spring based Quartz SchedulerFactoryBean.
Please see http://open.bekk.no/boss/spring-scheduling-in-websphere/ and scroll to "Quartz with CommonJ" section for more details.

The proposal from PaoloC for WAS85 ans Quartz 1.8.6 also works on WAS80 (and Quartz 1.8.6) and does not need Spring. (In my setup Spring 2.5.5 is present, but not in use in that context.)
That way I was able to override SimpleJobFactory by my own variant, using an InjectionHelper to apply CDI on every newly created job. Injection works for both #EJB (with JNDI lookup of the annotated EJB remote business interface) and #Inject (with JNDI lookup of the CDI BeanManager using a new InitialContext first, and then using this newly fetched BM to lookup the CDI bean itself).
Thank you PaoloC for that answer! (I hope this text will appear as an "answer to PaoloC" and not as an answer to the main topic. Found no way to differentiate between these.)