Webapi install issue - problem building war file

JoeLee · April 11, 2019, 7:35pm

I’m using maven 3.6.0, postgresql 8.3-603 (due to latin-1 encoding), and Tomcat 9.0.17. I’m having trouble building the WebAPI.war file.

When I attempt to build the war file using maven, it doesn’t indicate Miredot: Completed and I don’t get the BUILD SUCCESS message. Instead I get this error:

I tried explicitly setting the restFramework in the pom.xml file under the miredot-plugin like this:

The result is that I get one error, I don’t see that miredot completed, but I do get a BUILD SUCCESS. Here’s what I get:

When I try to deploy this on Tomcat, it doesn’t run and I get the following 2 errors:

FAIL - Application at context path [/WebAPI] could not be started
FAIL - Encountered exception [org.apache.catalina.LifecycleException: Failed to start

I explicitly set the restframework to jax-rs, and got an build failure due to an error stating that I need to specify a lifecycle phase or goal.

C:\Users\jlee07\Documents\test atlas\WebAPI>mvn -X
Apache Maven 3.6.0 (97c98ec64a1fdfee7767ce5ffb20918da4f719f3; 2018-10-24T13:41:4
7-05:00)
Maven home: C:\Program Files\apache-maven-3.6.0\bin\..
Java version: 1.8.0_201, vendor: Oracle Corporation, runtime: C:\Program Files\J
ava\jdk1.8.0_201\jre
Default locale: en_US, platform encoding: Cp1252
OS name: "windows 7", version: "6.1", arch: "amd64", family: "windows"
[DEBUG] Created new class realm maven.api
[DEBUG] Importing foreign packages into class realm maven.api
[DEBUG]   Imported: javax.annotation.* < plexus.core
[DEBUG]   Imported: javax.annotation.security.* < plexus.core
[DEBUG]   Imported: javax.enterprise.inject.* < plexus.core
[DEBUG]   Imported: javax.enterprise.util.* < plexus.core
[DEBUG]   Imported: javax.inject.* < plexus.core
[DEBUG]   Imported: org.apache.maven.* < plexus.core
[DEBUG]   Imported: org.apache.maven.artifact < plexus.core
[DEBUG]   Imported: org.apache.maven.classrealm < plexus.core
[DEBUG]   Imported: org.apache.maven.cli < plexus.core
[DEBUG]   Imported: org.apache.maven.configuration < plexus.core
[DEBUG]   Imported: org.apache.maven.exception < plexus.core
[DEBUG]   Imported: org.apache.maven.execution < plexus.core
[DEBUG]   Imported: org.apache.maven.execution.scope < plexus.core
[DEBUG]   Imported: org.apache.maven.lifecycle < plexus.core
[DEBUG]   Imported: org.apache.maven.model < plexus.core
[DEBUG]   Imported: org.apache.maven.monitor < plexus.core
[DEBUG]   Imported: org.apache.maven.plugin < plexus.core
[DEBUG]   Imported: org.apache.maven.profiles < plexus.core
[DEBUG]   Imported: org.apache.maven.project < plexus.core
[DEBUG]   Imported: org.apache.maven.reporting < plexus.core
[DEBUG]   Imported: org.apache.maven.repository < plexus.core
[DEBUG]   Imported: org.apache.maven.rtinfo < plexus.core
[DEBUG]   Imported: org.apache.maven.settings < plexus.core
[DEBUG]   Imported: org.apache.maven.toolchain < plexus.core
[DEBUG]   Imported: org.apache.maven.usability < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.* < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.authentication < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.authorization < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.events < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.observers < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.proxy < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.repository < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.resource < plexus.core
[DEBUG]   Imported: org.codehaus.classworlds < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.* < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.classworlds < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.component < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.configuration < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.container < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.context < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.lifecycle < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.logging < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.personality < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.Xpp3Dom < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlPullParser < plexus.cor
e
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlPullParserException < p
lexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlSerializer < plexus.cor
e
[DEBUG]   Imported: org.eclipse.aether.* < plexus.core
[DEBUG]   Imported: org.eclipse.aether.artifact < plexus.core
[DEBUG]   Imported: org.eclipse.aether.collection < plexus.core
[DEBUG]   Imported: org.eclipse.aether.deployment < plexus.core
[DEBUG]   Imported: org.eclipse.aether.graph < plexus.core
[DEBUG]   Imported: org.eclipse.aether.impl < plexus.core
[DEBUG]   Imported: org.eclipse.aether.installation < plexus.core
[DEBUG]   Imported: org.eclipse.aether.internal.impl < plexus.core
[DEBUG]   Imported: org.eclipse.aether.metadata < plexus.core
[DEBUG]   Imported: org.eclipse.aether.repository < plexus.core
[DEBUG]   Imported: org.eclipse.aether.resolution < plexus.core
[DEBUG]   Imported: org.eclipse.aether.spi < plexus.core
[DEBUG]   Imported: org.eclipse.aether.transfer < plexus.core
[DEBUG]   Imported: org.eclipse.aether.version < plexus.core
[DEBUG]   Imported: org.fusesource.jansi.* < plexus.core
[DEBUG]   Imported: org.slf4j.* < plexus.core
[DEBUG]   Imported: org.slf4j.helpers.* < plexus.core
[DEBUG]   Imported: org.slf4j.spi.* < plexus.core
[DEBUG] Populating class realm maven.api
[INFO] Error stacktraces are turned on.
[DEBUG] Message scheme: color
[DEBUG] Message styles: debug info warning error success failure strong mojo pro
ject
[DEBUG] Reading global settings from C:\Program Files\apache-maven-3.6.0\bin\..\
conf\settings.xml
[DEBUG] Reading user settings from C:\Users\jlee07\.m2\settings.xml
[DEBUG] Reading global toolchains from C:\Program Files\apache-maven-3.6.0\bin\.
.\conf\toolchains.xml
[DEBUG] Reading user toolchains from C:\Users\jlee07\.m2\toolchains.xml
[DEBUG] Using local repository at C:\Users\jlee07\.m2\repository
[DEBUG] Using manager EnhancedLocalRepositoryManager with priority 10.0 for C:\U
sers\jlee07\.m2\repository
[INFO] Scanning for projects...
[DEBUG] Extension realms for project org.ohdsi:WebAPI:war:1.0.0-SNAPSHOT: (none)

[DEBUG] Looking up lifecycle mappings for packaging war from ClassRealm[plexus.c
ore, parent: null]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  0.587 s
[INFO] Finished at: 2019-04-18T12:01:37-05:00
[INFO] ------------------------------------------------------------------------
[ERROR] No goals have been specified for this build. You must specify a valid li
fecycle phase or a goal in the format <plugin-prefix>:<goal> or <plugin-group-id
>:<plugin-artifact-id>[:<plugin-version>]:<goal>. Available lifecycle phases are
: validate, initialize, generate-sources, process-sources, generate-resources, p
rocess-resources, compile, process-classes, generate-test-sources, process-test-
sources, generate-test-resources, process-test-resources, test-compile, process-
test-classes, test, prepare-package, package, pre-integration-test, integration-
test, post-integration-test, verify, install, deploy, pre-clean, clean, post-cle
an, pre-site, site, post-site, site-deploy. -> [Help 1]
org.apache.maven.lifecycle.NoGoalSpecifiedException: No goals have been specifie
d for this build. You must specify a valid lifecycle phase or a goal in the form
at <plugin-prefix>:<goal> or <plugin-group-id>:<plugin-artifact-id>[:<plugin-ver
sion>]:<goal>. Available lifecycle phases are: validate, initialize, generate-so
urces, process-sources, generate-resources, process-resources, compile, process-
classes, generate-test-sources, process-test-sources, generate-test-resources, p
rocess-test-resources, test-compile, process-test-classes, test, prepare-package
, package, pre-integration-test, integration-test, post-integration-test, verify
, install, deploy, pre-clean, clean, post-clean, pre-site, site, post-site, site
-deploy.
    at org.apache.maven.lifecycle.internal.LifecycleStarter.execute (LifecycleSt
arter.java:94)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:305)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:192)
    at org.apache.maven.DefaultMaven.execute (DefaultMaven.java:105)
    at org.apache.maven.cli.MavenCli.execute (MavenCli.java:956)
    at org.apache.maven.cli.MavenCli.doMain (MavenCli.java:288)
    at org.apache.maven.cli.MavenCli.main (MavenCli.java:192)
    at sun.reflect.NativeMethodAccessorImpl.invoke0 (Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke (NativeMethodAccessorImpl.jav
a:62)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke (DelegatingMethodAccessor
Impl.java:43)
    at java.lang.reflect.Method.invoke (Method.java:498)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced (Launche
r.java:289)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launch (Launcher.java:2
29)
    at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode (Launc
her.java:415)
    at org.codehaus.plexus.classworlds.launcher.Launcher.main (Launcher.java:356
)
[ERROR]
[ERROR]
[ERROR] For more information about the errors and possible solutions, please rea
d the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/NoGoalSpecifie
dException

Any suggestions to create the war file that I can successfully deploy? Thank you.

Chris_Knoll · April 18, 2019, 6:02pm

Not sure about the miredot error, but since it’s documentation, it can probalby be ignored. The first image you attached, btw, says ‘warning’ not ‘error’ so I’m not sure what error you are referring to, but the final image showing ‘Your project doesn’t contain any REST interfaces’, i’m not sure if that was a result of changing the POM.xml with the spring-mvc, but I’d leave everything default.

As far as the startup in tomcat, you will need to go to the tomcat logs to understand what the actual error is (failed to start is the result, not the actual error). Common errors: port 8080 is already in use, you do not have permissions to your WebAPI database, your JDBC url is wrong in the settings.xml.

JoeLee · April 18, 2019, 8:06pm

Thanks Chris. Sorry for the confusion on error vs warning.

I used the defaults in POM.xml. The war file build fails with the error: No goals have been specified for this build. You must specify a valid lifecycle phase or a goal…

Am I missing something?

C:\Users\jlee07\DataNow\Home\Data\GitHub\WebAPI>mvn -X
Apache Maven 3.6.0 (97c98ec64a1fdfee7767ce5ffb20918da4f719f3; 2018-10-24T13:41:4
7-05:00)
Maven home: C:\Program Files\apache-maven-3.6.0\bin\..
Java version: 1.8.0_201, vendor: Oracle Corporation, runtime: C:\Program Files\J
ava\jdk1.8.0_201\jre
Default locale: en_US, platform encoding: Cp1252
OS name: "windows 7", version: "6.1", arch: "amd64", family: "windows"
[DEBUG] Created new class realm maven.api
[DEBUG] Importing foreign packages into class realm maven.api
[DEBUG]   Imported: javax.annotation.* < plexus.core
[DEBUG]   Imported: javax.annotation.security.* < plexus.core
[DEBUG]   Imported: javax.enterprise.inject.* < plexus.core
[DEBUG]   Imported: javax.enterprise.util.* < plexus.core
[DEBUG]   Imported: javax.inject.* < plexus.core
[DEBUG]   Imported: org.apache.maven.* < plexus.core
[DEBUG]   Imported: org.apache.maven.artifact < plexus.core
[DEBUG]   Imported: org.apache.maven.classrealm < plexus.core
[DEBUG]   Imported: org.apache.maven.cli < plexus.core
[DEBUG]   Imported: org.apache.maven.configuration < plexus.core
[DEBUG]   Imported: org.apache.maven.exception < plexus.core
[DEBUG]   Imported: org.apache.maven.execution < plexus.core
[DEBUG]   Imported: org.apache.maven.execution.scope < plexus.core
[DEBUG]   Imported: org.apache.maven.lifecycle < plexus.core
[DEBUG]   Imported: org.apache.maven.model < plexus.core
[DEBUG]   Imported: org.apache.maven.monitor < plexus.core
[DEBUG]   Imported: org.apache.maven.plugin < plexus.core
[DEBUG]   Imported: org.apache.maven.profiles < plexus.core
[DEBUG]   Imported: org.apache.maven.project < plexus.core
[DEBUG]   Imported: org.apache.maven.reporting < plexus.core
[DEBUG]   Imported: org.apache.maven.repository < plexus.core
[DEBUG]   Imported: org.apache.maven.rtinfo < plexus.core
[DEBUG]   Imported: org.apache.maven.settings < plexus.core
[DEBUG]   Imported: org.apache.maven.toolchain < plexus.core
[DEBUG]   Imported: org.apache.maven.usability < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.* < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.authentication < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.authorization < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.events < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.observers < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.proxy < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.repository < plexus.core
[DEBUG]   Imported: org.apache.maven.wagon.resource < plexus.core
[DEBUG]   Imported: org.codehaus.classworlds < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.* < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.classworlds < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.component < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.configuration < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.container < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.context < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.lifecycle < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.logging < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.personality < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.Xpp3Dom < plexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlPullParser < plexus.cor
e
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlPullParserException < p
lexus.core
[DEBUG]   Imported: org.codehaus.plexus.util.xml.pull.XmlSerializer < plexus.cor
e
[DEBUG]   Imported: org.eclipse.aether.* < plexus.core
[DEBUG]   Imported: org.eclipse.aether.artifact < plexus.core
[DEBUG]   Imported: org.eclipse.aether.collection < plexus.core
[DEBUG]   Imported: org.eclipse.aether.deployment < plexus.core
[DEBUG]   Imported: org.eclipse.aether.graph < plexus.core
[DEBUG]   Imported: org.eclipse.aether.impl < plexus.core
[DEBUG]   Imported: org.eclipse.aether.installation < plexus.core
[DEBUG]   Imported: org.eclipse.aether.internal.impl < plexus.core
[DEBUG]   Imported: org.eclipse.aether.metadata < plexus.core
[DEBUG]   Imported: org.eclipse.aether.repository < plexus.core
[DEBUG]   Imported: org.eclipse.aether.resolution < plexus.core
[DEBUG]   Imported: org.eclipse.aether.spi < plexus.core
[DEBUG]   Imported: org.eclipse.aether.transfer < plexus.core
[DEBUG]   Imported: org.eclipse.aether.version < plexus.core
[DEBUG]   Imported: org.fusesource.jansi.* < plexus.core
[DEBUG]   Imported: org.slf4j.* < plexus.core
[DEBUG]   Imported: org.slf4j.helpers.* < plexus.core
[DEBUG]   Imported: org.slf4j.spi.* < plexus.core
[DEBUG] Populating class realm maven.api
[INFO] Error stacktraces are turned on.
[DEBUG] Message scheme: color
[DEBUG] Message styles: debug info warning error success failure strong mojo pro
ject
[DEBUG] Reading global settings from C:\Program Files\apache-maven-3.6.0\bin\..\
conf\settings.xml
[DEBUG] Reading user settings from C:\Users\jlee07\.m2\settings.xml
[DEBUG] Reading global toolchains from C:\Program Files\apache-maven-3.6.0\bin\.
.\conf\toolchains.xml
[DEBUG] Reading user toolchains from C:\Users\jlee07\.m2\toolchains.xml
[DEBUG] Using local repository at C:\Users\jlee07\.m2\repository
[DEBUG] Using manager EnhancedLocalRepositoryManager with priority 10.0 for C:\U
sers\jlee07\.m2\repository
[INFO] Scanning for projects...
[DEBUG] Extension realms for project org.ohdsi:WebAPI:war:1.0.0-SNAPSHOT: (none)

[DEBUG] Looking up lifecycle mappings for packaging war from ClassRealm[plexus.c
ore, parent: null]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  0.428 s
[INFO] Finished at: 2019-04-18T14:57:53-05:00
[INFO] ------------------------------------------------------------------------
[ERROR] No goals have been specified for this build. You must specify a valid li
fecycle phase or a goal in the format <plugin-prefix>:<goal> or <plugin-group-id
>:<plugin-artifact-id>[:<plugin-version>]:<goal>. Available lifecycle phases are
: validate, initialize, generate-sources, process-sources, generate-resources, p
rocess-resources, compile, process-classes, generate-test-sources, process-test-
sources, generate-test-resources, process-test-resources, test-compile, process-
test-classes, test, prepare-package, package, pre-integration-test, integration-
test, post-integration-test, verify, install, deploy, pre-clean, clean, post-cle
an, pre-site, site, post-site, site-deploy. -> [Help 1]
org.apache.maven.lifecycle.NoGoalSpecifiedException: No goals have been specifie
d for this build. You must specify a valid lifecycle phase or a goal in the form
at <plugin-prefix>:<goal> or <plugin-group-id>:<plugin-artifact-id>[:<plugin-ver
sion>]:<goal>. Available lifecycle phases are: validate, initialize, generate-so
urces, process-sources, generate-resources, process-resources, compile, process-
classes, generate-test-sources, process-test-sources, generate-test-resources, p
rocess-test-resources, test-compile, process-test-classes, test, prepare-package
, package, pre-integration-test, integration-test, post-integration-test, verify
, install, deploy, pre-clean, clean, post-clean, pre-site, site, post-site, site
-deploy.
    at org.apache.maven.lifecycle.internal.LifecycleStarter.execute (LifecycleSt
arter.java:94)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:305)
    at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:192)
    at org.apache.maven.DefaultMaven.execute (DefaultMaven.java:105)
    at org.apache.maven.cli.MavenCli.execute (MavenCli.java:956)
    at org.apache.maven.cli.MavenCli.doMain (MavenCli.java:288)
    at org.apache.maven.cli.MavenCli.main (MavenCli.java:192)
    at sun.reflect.NativeMethodAccessorImpl.invoke0 (Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke (NativeMethodAccessorImpl.jav
a:62)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke (DelegatingMethodAccessor
Impl.java:43)
    at java.lang.reflect.Method.invoke (Method.java:498)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced (Launche
r.java:289)
    at org.codehaus.plexus.classworlds.launcher.Launcher.launch (Launcher.java:2
29)
    at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode (Launc
her.java:415)
    at org.codehaus.plexus.classworlds.launcher.Launcher.main (Launcher.java:356
)
[ERROR]
[ERROR]
[ERROR] For more information about the errors and possible solutions, please rea
d the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/NoGoalSpecifie
dException

Chris_Knoll · April 18, 2019, 8:09pm

I’m not quite sure I follow but is the command you are exeucting mvn -X? Where did you read that this command would build the webAPI.war?

Are you using the instructions found here?

JoeLee · April 20, 2019, 1:45am

Thanks so much Chris! I successfully built the war file and deployed on Tomcat. I liked these instructions better than the ones on the ohdsi website.

My current setup is postgres 8 with latin1 encoding that I can’t figure a work around. It is good to know it works on postgres 10 with UTF-8. So, I’ll look to change the encoding on the database then get back to setting up the rest of the tools.

Chris_Knoll · April 20, 2019, 2:15am

@anthonysena did a fantastic job pulling all the documentation under the Wiki, so he deserves credit for that!

JoeLee · April 20, 2019, 2:29am

Thank you @anthonysena!

Ram · August 7, 2019, 12:48pm

Hi JoeLee…
i’m trying to install WebAPI and ATLAS for the first time.

i have tried to build the war file using maven and i did not get “BUILD SUCCESS” message. instead i got the warning same as yours…
[INFO] — miredot-plugin:2.1.2:restdoc (default) @ WebAPI —
[WARNING] Rest Framework not explicitly set, using JAX-RS by default.

i saw the message that you have successfully built the war file and deployed on Tomcat…

if possible could you please mention the changes that you have made to successfully build the war file and deploy it on Tomcat

would much appreciate your help! Thank you…