Anyone else installing XNAT 1.6.5 from xnat.org website having the same issue? I followed the same exact steps as in the installation guide here. This issue is happening in step 11. I have finished the prior steps successfully:
Additional log here: http://pastebin.com/vQ6n6DfL
When I browse to localhost:8080/xnat I get :
HTTP Status 404 - /xnat
type Status report
message /xnat
description The requested resource is not available.
Apache Tomcat/8.0.26 (Ubuntu)
I also have nothing copied into tomcat root after I ran these two commands which seemingly changed the .war file:
ls /usr/share/tomcat8-root/default_root/
index.html META-INF
jalal@klein:~/computer_vision/XNAT/xnat/deployments/xnat/target$ ls
classes src test-classes test-reports xnat-1.0-dev.jar
Here is the .war file I had before:
jalal@klein:~/computer_vision/XNAT/xnat/deployments/xnat/target$ ls
classes src test-classes test-reports
jalal@klein:~/computer_vision/XNAT/xnat$ ps -ax | grep httpd' and 'killall httpd
grep: httpd: No such file or directory
jalal@klein:~/computer_vision/XNAT/xnat$ sudo netstat -an | fgrep 8080
tcp6 0 0 :::8080 :::* LISTEN
unix 3 [ ] STREAM CONNECTED 38080
jalal@klein:~/computer_vision/XNAT/xnat$ sudo lsof -i :80
jalal@klein:~/computer_vision/XNAT/xnat$ sudo lsof -i :8080
COMMAND PID USER FD TYPE DEVICE SIZE/OFF NODE NAME
java 13228 tomcat8 46u IPv6 2673854 0t0 TCP *:http-alt (LISTEN)
xnat xnat.war
jalal@klein:~/computer_vision/XNAT/xnat$ bin/setup.sh -Ddeploy=true
Using XDAT Installation: /home/jalal/computer_vision/XNAT/xnat
Using JAVA_HOME: /usr/lib/jvm/java-8-openjdk-amd64/
Verify Java Version (with java -version)
openjdk version "1.8.0_91"
OpenJDK Runtime Environment (build 1.8.0_91-8u91-b14-3ubuntu1~15.10.1-b14)
OpenJDK 64-Bit Server VM (build 25.91-b14, mixed mode)
Executing /home/jalal/computer_vision/XNAT/xnat/plugin-resources/maven-1.0.2/bin/maven xdat:setup
__ __
| \/ |__ _Apache__ ___
| |\/| / _` \ V / -_) ' \ ~ intelligent projects ~
|_| |_\__,_|\_/\___|_||_| v. 1.0.2
build:start:
xdat:setup:
[echo] HOME: /home/jalal/computer_vision/XNAT/xnat
xdat:version:
[echo] Setting the project version
[echo] Setting project version to: 1.6.5
BUILD FAILED
File...... /home/jalal/computer_vision/XNAT/xnat/maven.xml
Element... fail
Line...... 40
Column.... 19
--------------------------------------------------------------------------
| Duplicate Setup Exception |
--------------------------------------------------------------------------
This application has already been setup. If you want to redo
the setup process, delete the /home/jalal/computer_vision/XNAT/xnat/deployments/xnat
directory and call setup again.
If you want to update your previously created deployment,
use the 'update' method rather then the 'setup' one.
--------------------------------------------------------------------------
Total time: 1 seconds
Finished at: Fri Sep 02 17:01:03 CDT 2016
jalal@klein:~/computer_vision/XNAT/xnat$ bin/update.sh -Ddeploy=true
Using XDAT Installation: /home/jalal/computer_vision/XNAT/xnat
Using JAVA_HOME: /usr/lib/jvm/java-8-openjdk-amd64/
Verify Java Version (with java -version)
openjdk version "1.8.0_91"
OpenJDK Runtime Environment (build 1.8.0_91-8u91-b14-3ubuntu1~15.10.1-b14)
OpenJDK 64-Bit Server VM (build 25.91-b14, mixed mode)
Executing /home/jalal/computer_vision/XNAT/xnat/plugin-resources/maven-1.0.2/bin/maven xdat:update
__ __
| \/ |__ _Apache__ ___
| |\/| / _` \ V / -_) ' \ ~ intelligent projects ~
|_| |_\__,_|\_/\___|_||_| v. 1.0.2
build:start:
xdat:update:
Port information:
jalal@klein:~/computer_vision/XNAT/xnat$ ps -ax | grep httpd' and 'killall httpd
grep: httpd: No such file or directory
jalal@klein:~/computer_vision/XNAT/xnat$ sudo netstat -an | fgrep 8080
tcp6 0 0 :::8080 :::* LISTEN
unix 3 [ ] STREAM CONNECTED 38080
jalal@klein:~/computer_vision/XNAT/xnat$ sudo lsof -i :80
jalal@klein:~/computer_vision/XNAT/xnat$ sudo lsof -i :8080
COMMAND PID USER FD TYPE DEVICE SIZE/OFF NODE NAME
java 13228 tomcat8 46u IPv6 2673854 0t0 TCP *:http-alt (LISTEN)
Do you know how this issue can be solved?
There are a few issues I see here.
XNAT is not validated or tested on Tomcat 8. That's mainly because we've never been able to get it running at all on Tomcat 8. I suspect that's the root cause of the 404: the resource really is not found or available because the application deploy failed during Tomcat start-up.
This is also the reason why you don't see anything running on port 8104, which is where you'd normally see the DICOM SCP receiver running. If XNAT doesn't start at all, the receiver won't be brought up either.
Overall, the output of your setup and update scripts looks fine, so I think there's nothing wrong with the build itself, just where it's being built to.
I'd suggest downloading Tomcat 7 and trying with that.
Also, when you're trying to analyze XNAT issues, you should look two places:
That's where you'll find the run-time output from Tomcat and XNAT. My guess is you'd see a lot of messages about xnat:ArcArchivespecification not being found or something like that, which I think is caused by a change in the servlet spec supported by Tomcat 8 that makes it difficult to read files within a web app. We just haven't really had a chance to look that deeply into, however, since Tomcat 8 support is a very low priority for us, given that it's not available on any of the standard install repos for the major distros.