Details
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Type:
Task
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:0.25
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Epic Link:
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Sprint:Spring 1, Spring 5
Description
When building main-JDK21 using a container built with the new "JDK21" Dockerfile (see this commit), I observed the following warning, shown in the following output from the command "mvn install".
Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s)
Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact.
Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository?
Investigate and correct the problem.
Info about the version of IGB I was trying to build:
docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache
Info about the container I was using to build it:
docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) IGBF-3160 Enable Karthik and Nowlan to log in ce91408 IGBF-3160 Add Ann's favorite aliases df458df IGBF-3160 Specify region in aws_vars.yml instead
Attachments
Issue Links
- relates to
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IGBF-3521 Investigate build problem: effective model for org.lorainelab.igb:affymetrix-common:bundle:10.0.0
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- Closed
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IGBF-3522 Investigate build problem: unknown parameter ignoreChecksumFailure
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- Closed
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IGBF-3525 Investigate build problem: SLF4J: Failed to load class "org.slf4j.impl.StaticLoggerBinder"
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- Closed
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IGBF-3508 Create Install4J v10 Docker image for JDK21
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- Closed
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IGBF-3524 Investigate build problem: Bundle org.lorainelab.igb:flatlaf:bundle:10.0.0 : Classes found in the wrong directory
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- Closed
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IGBF-3523 Investigate build problem: POM and checksum for com.jidesoft:jide-ultimate-jakarta:jar:3.5.15 is missing, no dependency information available
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link |
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| Assignee | Ann Loraine [ aloraine ] |
| Description |
When building main-JDK21, I observed the following error:
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. |
When building main-JDK21, I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. |
| Description |
When building main-JDK21, I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. |
When building main-JDK21 using a container built with this , I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. |
| Description |
When building main-JDK21 using a container built with this , I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. |
When building main-JDK21 using a container built with this , I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. Info about the version of IGB I was trying to build: {code} docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache {code} Info about the container I was using to build it: {code} docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) ce91408 df458df {code} |
| Description |
When building main-JDK21 using a container built with this , I observed the following error, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. Info about the version of IGB I was trying to build: {code} docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache {code} Info about the container I was using to build it: {code} docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) ce91408 df458df {code} |
When building main-JDK21 using a container built with this, I observed the following warning, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. Info about the version of IGB I was trying to build: {code} docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache {code} Info about the container I was using to build it: {code} docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) ce91408 df458df {code} |
| Summary | Investigate and correct jlfgr-1.0.jar error | Investigate jlfgr-1.0.jar warning |
| Summary | Investigate jlfgr-1.0.jar warning | Investigate: repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar main-JDK21 warning |
| Description |
When building main-JDK21 using a container built with this, I observed the following warning, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. Info about the version of IGB I was trying to build: {code} docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache {code} Info about the container I was using to build it: {code} docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) ce91408 df458df {code} |
When building main-JDK21 using a container built with the new "JDK21" Dockerfile (see this commit), I observed the following warning, shown in the following output from the command "mvn install".
{code} Downloading from repo1: https://maven.bioviz.org/repo1/com/affymetrix/genoviz/1.1.9/genoviz-1.1.9.jar [WARNING] Could not validate integrity of download from https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar org.eclipse.aether.transfer.ChecksumFailureException: Checksum validation failed, no checksums available at org.eclipse.aether.internal.impl.AbstractChecksumPolicy.onNoMoreChecksums (AbstractChecksumPolicy.java:63) at org.eclipse.aether.connector.basic.ChecksumValidator.validate (ChecksumValidator.java:112) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$GetTaskRunner.runTask (BasicRepositoryConnector.java:484) at org.eclipse.aether.connector.basic.BasicRepositoryConnector$TaskRunner.run (BasicRepositoryConnector.java:414) at org.eclipse.aether.util.concurrency.RunnableErrorForwarder.lambda$wrap$0 (RunnableErrorForwarder.java:66) at java.util.concurrent.ThreadPoolExecutor.runWorker (ThreadPoolExecutor.java:1144) at java.util.concurrent.ThreadPoolExecutor$Worker.run (ThreadPoolExecutor.java:642) at java.lang.Thread.run (Thread.java:1583) [WARNING] Checksum validation failed, no checksums available from repo1 for https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar Downloaded from repo1: https://maven.bioviz.org/repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar (115 kB at 1.4 MB/s) {code} Judging from the error message, probably we need to create and deploy a "checksum" file for this artifact. Also, since we are building main-JDK21, which I thought replaces javax artifacts with jakarta artifacts (due to a package name change), why is IGB needing to get this artifact from the maven repository? Investigate and correct the problem. Info about the version of IGB I was trying to build: {code} docker.bioviz.org ec2-user $ git status On branch main-JDK21 Your branch is up to date with 'origin/main-JDK21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (fetch) origin https://bitbucket.org/hillrunner2008/integrated-genome-browser (push) docker.bioviz.org ec2-user $ git ls a0860834e (HEAD -> main-JDK21, origin/main-JDK21) removing mac specific code for the right aligned tabs to ensure vertical override is applied 6fe7790d9 rolling back javafx dark mode changes ebf692063 rolling back javafx dark mode changes d15e06b05 fixing yml for new custom task d3c07fc14 fixing yml for new custom task 55080cf74 adding step with reference to maven cache {code} Info about the container I was using to build it: {code} docker.bioviz.org ec2-user $ pwd /home/ec2-user/integrated-genome-browser-docker docker.bioviz.org ec2-user $ git status On branch jdk21 Your branch is up to date with 'origin/jdk21'. nothing to commit, working tree clean docker.bioviz.org ec2-user $ git remote -v origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (fetch) origin https://aloraine@bitbucket.org/lorainelab/integrated-genome-browser-docker.git (push) docker.bioviz.org ec2-user $ git ls d26649c (HEAD -> jdk21, origin/jdk21) new dockerfile for jdk21 and install4jv10 b138cd9 updates to dockerfile for new jdk21 release 9e155fb (origin/master, origin/HEAD, master) ce91408 df458df {code} |
| Summary | Investigate: repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar main-JDK21 warning | Investigate build problem: repo1/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar main-JDK21 warning |
| Sprint | Fall 8 [ 184 ] | Spring 1 [ 185 ] |
| Sprint | Spring 1 [ 185 ] | Spring 1, Spring 2 [ 185, 186 ] |
| Rank | Ranked higher |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Assignee | Nowlan Freese [ nfreese ] |
| Assignee | Nowlan Freese [ nfreese ] |
| Status | In Progress [ 3 ] | To-Do [ 10305 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
| Story Points | 0.5 | 0.25 |
| Assignee | Karthik Raveendran [ karthik ] |
| Resolution | Done [ 10000 ] | |
| Status | Closed [ 6 ] | To-Do [ 10305 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Sprint | Spring 1, Spring 2 [ 185, 186 ] | Spring 1, Spring 3 [ 185, 187 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Attachment | jlfgr-1.0.md5 [ 18204 ] | |
| Attachment | jlfgr-1.0.sha1 [ 18205 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Assignee | Ann Loraine [ aloraine ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Sprint | Spring 1, Spring 3 [ 185, 187 ] | Spring 1, Spring 5 [ 185, 189 ] |
| Assignee | Ann Loraine [ aloraine ] | Karthik Raveendran [ karthik ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Assignee | Ann Loraine [ aloraine ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Assignee | Ann Loraine [ aloraine ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Status | Post-merge Testing In Progress [ 10003 ] | To-Do [ 10305 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Assignee | Karthik Raveendran [ karthik ] |
| Status | In Progress [ 3 ] | To-Do [ 10305 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |
| Assignee | Ann Loraine [ aloraine ] |