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Changing Server Settings and Adding New Files Are Not Detected in Tomcat

I was trying to learn how to use servlet by following the tutorial in this page:
https://www.ntu.edu.sg/home/ehchua/programming/howto/Tomcat_HowTo.html
When I reached 2.6 STEP 5: Develop and Deploy a WebApp, I was told to restart tomcat so that it'll load the directory I just made. However, the changes I made was not loaded, the assigned port is still 8080 even though I assigned it to 9999 and the hello directory was not found. Here are the messages when I issued startup.bat:
Apr 26, 2019 5:32:04 PM org.apache.catalina.core.AprLifecycleListener init
INFO: Loaded APR based Apache Tomcat Native library 1.2.21 using APR version 1.6.5.
Apr 26, 2019 5:32:04 PM org.apache.catalina.core.AprLifecycleListener init
INFO: APR capabilities: IPv6 [true], sendfile [true], accept filters [false], random [true].
Apr 26, 2019 5:32:04 PM org.apache.catalina.core.AprLifecycleListener initializeSSL
INFO: OpenSSL successfully initialized (OpenSSL 1.1.1a 20 Nov 2018)
Apr 26, 2019 5:32:04 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-apr-8080"]
Apr 26, 2019 5:32:04 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["ajp-apr-8009"]
Apr 26, 2019 5:32:04 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 494 ms
Apr 26, 2019 5:32:04 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
Apr 26, 2019 5:32:04 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.47
Apr 26, 2019 5:32:04 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory G:\Tomcat 2\webapps\docs
Apr 26, 2019 5:32:05 PM org.apache.catalina.util.SessionIdGenerator createSecureRandom
INFO: Creation of SecureRandom instance for session ID generation using [SHA1PRNG] took [146] milliseconds.
Apr 26, 2019 5:32:05 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory G:\Tomcat 2\webapps\examples
Apr 26, 2019 5:32:05 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory G:\Tomcat 2\webapps\host-manager
Apr 26, 2019 5:32:05 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory G:\Tomcat 2\webapps\manager
Apr 26, 2019 5:32:05 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory G:\Tomcat 2\webapps\ROOT
Apr 26, 2019 5:32:05 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-apr-8080"]
Apr 26, 2019 5:32:05 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-apr-8009"]
Apr 26, 2019 5:32:05 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 1092 ms
As you can see, the hello directory was not deployed. So, what is exactly happening here?

I just realized that when I issued the startup & shutdown command that there was an information in the console which looked like this:
Using CLASSPATH: "G:\Learning\tomcat9\bin\bootstrap.jar;G:\Learning\tomcat9\bin\tomcat-juli.jar"
It seemed that my classpath was pointing to the wrong path. I deleted CATALINA_HOME in the environment variable settings, and now it is working fine.

java.lang.ClassNotFoundException in Dynamic Web app JSP

I am trying retrieve data from SQLLite DB in a Java Class.
This is the part of the web app that uses the Beans and Form processing" as per the tutorial here:
http://www.jsptut.com/forms.jsp
I am getting a persistent error of java.lang.ClassNotFoundException: org.sqlite.JDBC
I have added sqlite-jdbc-3.8.7.jar to the java classpath
This is my code:
public int startConnection() {
Connection c = null;
try {
Class.forName("org.sqlite.JDBC");
c = DriverManager.getConnection("jdbc:sqlite:test.db");
} catch ( Exception e ) {
System.err.println( e.getClass().getName() + ": " + e.getMessage() );
System.exit(0);
return CONNECTION_FAILURE;
}
System.out.println("Opened database successfully");
return CONNECTION_SUCCESSFUL;
}
This is the console output:
Jan 03, 2015 2:42:15 PM org.apache.tomcat.util.digester.SetPropertiesRule begin
WARNING: [SetPropertiesRule]{Server/Service/Engine/Host/Context} Setting property 'source' to 'org.eclipse.jst.jee.server:webapp01' did not find a matching property.
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Server version: Apache Tomcat/7.0.57
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Server built: Nov 3 2014 08:39:16 UTC
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Server number: 7.0.57.0
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: OS Name: Mac OS X
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: OS Version: 10.10
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Architecture: x86_64
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: JAVA_HOME: /Library/Java/JavaVirtualMachines/jdk1.8.0_25.jdk/Contents/Home/jre
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: JVM Version: 1.8.0_25-b17
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: JVM Vendor: Oracle Corporation
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: CATALINA_BASE: /Users/hadi/Documents/workspace/.metadata/.plugins/org.eclipse.wst.server.core/tmp0
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: CATALINA_HOME: /Users/hadi/Documents/apache-tomcat-7.0.57
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Command line argument: -Dcatalina.base=/Users/hadi/Documents/workspace/.metadata/.plugins/org.eclipse.wst.server.core/tmp0
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Command line argument: -Dcatalina.home=/Users/hadi/Documents/apache-tomcat-7.0.57
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Command line argument: -Dwtp.deploy=/Users/hadi/Documents/workspace/.metadata/.plugins/org.eclipse.wst.server.core/tmp0/wtpwebapps
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Command line argument: -Djava.endorsed.dirs=/Users/hadi/Documents/apache-tomcat-7.0.57/endorsed
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.VersionLoggerListener log
INFO: Command line argument: -Dfile.encoding=UTF-8
Jan 03, 2015 2:42:15 PM org.apache.catalina.core.AprLifecycleListener lifecycleEvent
INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: /Users/hadi/Library/Java/Extensions:/Library/Java/Extensions:/Network/Library/Java/Extensions:/System/Library/Java/Extensions:/usr/lib/java:.
Jan 03, 2015 2:42:15 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-bio-8080"]
Jan 03, 2015 2:42:15 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["ajp-bio-8009"]
Jan 03, 2015 2:42:15 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 1296 ms
Jan 03, 2015 2:42:15 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
Jan 03, 2015 2:42:15 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.57
Jan 03, 2015 2:42:16 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-8080"]
Jan 03, 2015 2:42:16 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-bio-8009"]
Jan 03, 2015 2:42:16 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 913 ms
java.lang.ClassNotFoundException: org.sqlite.JDBC
Jan 03, 2015 2:42:32 PM org.apache.coyote.AbstractProtocol pause
INFO: Pausing ProtocolHandler ["http-bio-8080"]
Please anyone solve this problem......Thanks....

Add the sqlite-jdbc-3.8.7.jar to the tomcat class-path by moving it to $CATALINA_HOME/lib.
See the Apache Tomcat 7 - Class Loader Howto for an in-depth look at how the Tomcat class loader works. It reads, in part,
System — This class loader is normally initialized from the contents of the CLASSPATH environment variable. All such classes are visible to both Tomcat internal classes, and to web applications. However, the standard Tomcat startup scripts ($CATALINA_HOME/bin/catalina.sh or %CATALINA_HOME%\bin\catalina.bat) totally ignore the contents of the CLASSPATH environment variable itself, and instead build the System class loader from ...

open shift war deployment error

getting below error when deploying war to openshift using git command..i was able to deploy correctly earlier but not sure what happened and now not able to deploy and getting this error..in local i am able to run the same wat correctly.
Sep 25, 2014 12:59:53 PM org.apache.catalina.startup.Catalina addClusterRuleSet
INFO: Cluster RuleSet not found due to [java.lang.ClassNotFoundException: org.apache.catalina.ha.ClusterRuleSet]. Cluster configuration disabled.
Sep 25, 2014 12:59:53 PM org.apache.catalina.startup.Catalina addClusterRuleSetINFO: Cluster RuleSet not found due to [java.lang.ClassNotFoundException: org.ap
ache.catalina.ha.ClusterRuleSet]. Cluster configuration disabled.
Sep 25, 2014 12:59:54 PM org.apache.catalina.core.AprLifecycleListener init
INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: /opt/rh/mysql55/root/usr/lib64:/usr/java/packages/lib/i386:/lib:/usr/lib
Sep 25, 2014 12:59:55 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-bio-127.3.114.129-8080"]
Sep 25, 2014 12:59:55 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 2841 ms
Sep 25, 2014 12:59:56 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
Sep 25, 2014 12:59:56 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.54
Sep 25, 2014 12:59:56 PM org.apache.catalina.startup.HostConfig deployWAR
INFO: Deploying web application archive /var/lib/openshift/53579b125004465e18000995/app-root/runtime/dependencies/jbossews/webapps/abc.war
Sep 25, 2014 1:00:56 PM org.apache.catalina.core.StandardContext startInternal
SEVERE: Error listenerStart
Sep 25, 2014 1:00:56 PM org.apache.catalina.core.StandardContext startInternal
SEVERE: Context [] startup failed due to previous errors
Sep 25, 2014 1:00:56 PM org.apache.catalina.startup.HostConfig deployWAR
INFO: Deployment of web application archive /var/lib/openshift/53579b125004465e18000995/app-root/runtime/dependencies/jbossews/webapps/ROOT.war has finished in
8,534 ms
Sep 25, 2014 1:00:56 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-127.3.114.129-8080"]
Sep 25, 2014 1:00:56 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 60436 ms

Looks like an exception is being thrown from your application. Is this the catalina.out log? How are you deploying the application (via IDE or?).

Eclipse is reading Apache Catalina output from standard error

Based on the color of my Eclipse console, it seems as though it's outputting standard console messages to the Standard Error buffer. Why does it do this? And, more importantly, is there a way to change this so that it works properly to make debugging simpler?
May 14, 2013 4:44:12 PM org.apache.catalina.core.AprLifecycleListener init
INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: C:\Program Files\Java\jre7\bin;C:\Windows\Sun\Java\bin;C:\Windows\system32;C:\Windows;C:\Program Files (x86)\NVIDIA Corporation\PhysX\Common;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;C:\Program Files\TortoiseSVN\bin;.
May 14, 2013 4:44:12 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-bio-8080"]
May 14, 2013 4:44:12 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["ajp-bio-8009"]
May 14, 2013 4:44:12 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 681 ms
May 14, 2013 4:44:12 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
May 14, 2013 4:44:12 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.30
May 14, 2013 4:44:13 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-8080"]
May 14, 2013 4:44:13 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-bio-8009"]
May 14, 2013 4:44:13 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 396 ms

cargo java api to start tomcat; the container is not coming up

I am trying to start tomcat using cargo api. Everything looks fine from the logs, but when i hit the url(http://localhost:8079/), the tomcat management page is not coming up.
Update: I tried starting tomcat from eclipse. The logs say the exact same thing but i am not able to see the management console. so its not an issue with cargo for sure. I get a 404 when i start the server from eclipse .
the code is this
LocalConfiguration configuration = (LocalConfiguration) new DefaultConfigurationFactory().createConfiguration(
"tomcat6x", ContainerType.INSTALLED, ConfigurationType.STANDALONE);
InstalledLocalContainer container =
(InstalledLocalContainer) new DefaultContainerFactory().createContainer(
"tomcat6x", ContainerType.INSTALLED, configuration);
//container.setHome(installer.getHome());
//container.setHome("C:\\Users\\Kriss\\AppData\\Local\\Temp\\cargo\\installs\\apache-tomcat-7.0.25\\apache-tomcat-7.0.25");
container.setHome("C:\\TOSCA\\apache-tomcat-7.0.25-windows-x86\\apache-tomcat-7.0.25\\");
container.setOutput("C:\\TOSCA\\output.log");
//getting cargo related logging
container.setLogger(fileLogger);
//changing the log settings of the container
// configuration.setProperty(GeneralPropertySet.LOGGING, LoggingLevel.HIGH.getLevel());
configuration.setProperty("cargo.servlet.port", "8079");
logger.info(container.getOutput());
container.setAppend(false);
logger.info("gethome value is" + container.getHome());
// (3) Statically deploy some WAR (optional)
// configuration.addDeployable(new WAR("cargo.war"));
// (4) Start the container
container.start();
logger.info("Container is started");
Thread.sleep(26000);
container.stop();
logger.info("Container is stopped");
The logs look fine(atleast to me :P)
Apr 10, 2012 4:27:54 PM org.apache.catalina.startup.ClassLoaderFactory validateFile
WARNING: Problem with directory [C:\Users\Kriss\AppData\Local\Temp\cargo\conf\common\classes], exists: [false], isDirectory: [false], canRead: [false]
Apr 10, 2012 4:27:54 PM org.apache.catalina.startup.ClassLoaderFactory validateFile
WARNING: Problem with directory [C:\Users\Kriss\AppData\Local\Temp\cargo\conf\common\lib], exists: [false], isDirectory: [false], canRead: [false]
Apr 10, 2012 4:27:54 PM org.apache.catalina.startup.ClassLoaderFactory validateFile
WARNING: Problem with directory [C:\Users\Kriss\AppData\Local\Temp\cargo\conf\shared\classes], exists: [false], isDirectory: [false], canRead: [false]
Apr 10, 2012 4:27:54 PM org.apache.catalina.startup.ClassLoaderFactory validateFile
WARNING: Problem with directory [C:\Users\Kriss\AppData\Local\Temp\cargo\conf\shared\lib], exists: [false], isDirectory: [false], canRead: [false]
Apr 10, 2012 4:27:55 PM org.apache.catalina.core.AprLifecycleListener init
INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: C:\Program Files\Java\jre6\bin;C:\Windows\Sun\Java\bin;C:\Windows\system32;C:\Windows;C:/Program Files/Java/jre7/bin/client;C:/Program Files/Java/jre7/bin;C:/Program Files/Java/jre7/lib/i386;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;C:\Program Files\Broadcom\Broadcom 802.11 Network Adapter\Driver;C:\Program Files\Java\jdk1.7.0_01\bin;C:\Program Files\QuickTime\QTSystem\;C:\Program Files\TortoiseSVN\bin;.
Apr 10, 2012 4:27:55 PM org.apache.catalina.startup.SetAllPropertiesRule begin
WARNING: [SetAllPropertiesRule]{Server/Service/Connector} Setting property 'emptySessionPath' to 'true' did not find a matching property.
Apr 10, 2012 4:27:55 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-bio-8079"]
Apr 10, 2012 4:27:55 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["ajp-bio-8009"]
Apr 10, 2012 4:27:55 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 674 ms
Apr 10, 2012 4:27:55 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
Apr 10, 2012 4:27:55 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.25
Apr 10, 2012 4:27:55 PM org.apache.catalina.startup.HostConfig deployDescriptor
INFO: Deploying configuration descriptor C:\Users\Kriss\AppData\Local\Temp\cargo\conf\conf\Catalina\localhost\manager.xml
Apr 10, 2012 4:27:56 PM org.apache.catalina.startup.HostConfig deployWAR
INFO: Deploying web application archive C:\Users\Kriss\AppData\Local\Temp\cargo\conf\webapps\cargocpc.war
Apr 10, 2012 4:27:56 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\Users\Kriss\AppData\Local\Temp\cargo\conf\webapps\host-manager
Apr 10, 2012 4:27:56 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-bio-8079"]
Apr 10, 2012 4:27:56 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-bio-8009"]
Apr 10, 2012 4:27:56 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 610 ms
Minor detail: when i tried to start, bootstrap was missing some classes which were part of tomcat-juli.jar. so i unjarred that and put the classes inside bootstrap.jar. I just thought i should mention that as a side comment though i dont think it is causing some problem..
Also here is the log when i start tomcat using command prompt:
Apr 09, 2012 1:55:36 PM org.apache.catalina.core.AprLifecycleListener init
INFO: Loaded APR based Apache Tomcat Native library 1.1.22.
Apr 09, 2012 1:55:36 PM org.apache.catalina.core.AprLifecycleListener init
INFO: APR capabilities: IPv6 [false], sendfile [true], accept filters [false], r
andom [true].
Apr 09, 2012 1:55:37 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["http-apr-8080"]
Apr 09, 2012 1:55:37 PM org.apache.coyote.AbstractProtocol init
INFO: Initializing ProtocolHandler ["ajp-apr-8009"]
Apr 09, 2012 1:55:37 PM org.apache.catalina.startup.Catalina load
INFO: Initialization processed in 1944 ms
Apr 09, 2012 1:55:37 PM org.apache.catalina.core.StandardService startInternal
INFO: Starting service Catalina
Apr 09, 2012 1:55:37 PM org.apache.catalina.core.StandardEngine startInternal
INFO: Starting Servlet Engine: Apache Tomcat/7.0.25
Apr 09, 2012 1:55:37 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\TOSCA\apache-tomcat-7.0.25-windows-
x86\apache-tomcat-7.0.25\webapps\docs
Apr 09, 2012 1:55:38 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\TOSCA\apache-tomcat-7.0.25-windows-
x86\apache-tomcat-7.0.25\webapps\examples
Apr 09, 2012 1:55:38 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\TOSCA\apache-tomcat-7.0.25-windows-
x86\apache-tomcat-7.0.25\webapps\host-manager
Apr 09, 2012 1:55:38 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\TOSCA\apache-tomcat-7.0.25-windows-
x86\apache-tomcat-7.0.25\webapps\manager
Apr 09, 2012 1:55:38 PM org.apache.catalina.startup.HostConfig deployDirectory
INFO: Deploying web application directory C:\TOSCA\apache-tomcat-7.0.25-windows-
x86\apache-tomcat-7.0.25\webapps\ROOT
Apr 09, 2012 1:55:38 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["http-apr-8080"]
Apr 09, 2012 1:55:38 PM org.apache.coyote.AbstractProtocol start
INFO: Starting ProtocolHandler ["ajp-apr-8009"]
Apr 09, 2012 1:55:38 PM org.apache.catalina.startup.Catalina start
INFO: Server startup in 927 ms