Open mingf opened 7 months ago
I have the same issue, but only on a Windows machine. (The docker-compose runs fine on a Mac.)
Logs led me to the following errors/warnings related to Tomcat in local-openspecimen-web
that seem to be causing the problem:
Starting OpenSpecimen Application!
Wait for DB server to be ready
Tomcat started.
==> /var/lib/tomcat9/logs/catalina.out <==
==> /var/lib/tomcat9/logs/catalina.out <==
<6>Server version name: Apache Tomcat/9.0.31 (Ubuntu)
<6>Server built: Mar 16 2022 18:51:24 UTC
<6>Server version number: 9.0.31.0
<6>OS Name: Linux
<6>OS Version: 5.15.133.1-microsoft-standard-WSL2
<6>Architecture: amd64
<6>Java Home: /usr/lib/jvm/java-8-openjdk-amd64/jre
<6>JVM Version: 1.8.0_312-8u312-b07-0ubuntu1~20.04-b07
<6>JVM Vendor: Private Build
<6>CATALINA_BASE: /var/lib/tomcat9
<6>CATALINA_HOME: /usr/share/tomcat9
<6>Starting Servlet engine: [Apache Tomcat/9.0.31 (Ubuntu)]
<6>Deploying web application archive [/var/lib/tomcat9/webapps/openspecimen.war]
<4>Name = openspecimen Property maxActive is not used in DBCP2, use maxTotal instead. maxTotal default value is 8. You have set value of "100" for "maxActive" property, which is being ignored.
<4>Name = openspecimen Property maxWait is not used in DBCP2 , use maxWaitMillis instead. maxWaitMillis default value is -1. You have set value of "10000" for "maxWait" property, which is being ignored.
<6>At least one JAR was scanned for TLDs yet contained no TLDs. Enable debug logging for this logger for a complete list of JARs that were scanned but no TLDs were found in them. Skipping unneeded JARs during scanning can improve startup time and JSP compilation time.
<2>One or more listeners failed to start. Full details will be found in the appropriate container log file
<2>Context [/openspecimen] startup failed due to previous errors
<4>The web application [openspecimen] appears to have started a thread named [Log4j2-TF-3-Scheduled-1] but has failed to stop it. This is very likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1074)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1134)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
java.lang.Thread.run(Thread.java:748)
<6>Deployment of web application archive [/var/lib/tomcat9/webapps/openspecimen.war] has finished in [49,423] ms
<6>Deploying web application directory [/var/lib/tomcat9/webapps/ROOT]
<6>At least one JAR was scanned for TLDs yet contained no TLDs. Enable debug logging for this logger for a complete list of JARs that were scanned but no TLDs were found in them. Skipping unneeded JARs during scanning can improve startup time and JSP compilation time.
After more close inspection, the solution was to fix the permissions on the data
folder as described in README in branch v9.0.RC2:
set the permission for the data folder (inside the root folder of the project) like:
sudo chmod -R 777 data
Tested on Ubuntu, yet not sure how to accomplish the same when running in Docker on Windows.
Hi, I have tried two versions of V9 and V8 container version, both show ERR_TOO_MAN_REDIRECTS on http://localhost:9000 basically failed to deploy this software. anyone could shed some light please? Thanks in advance,