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Started by user Peter Roels
Checking out git https://github.com/larson-group/e3sm.git into /home/jenkins/workspace/e3sm_clubb_copy_test@script to read jenkins_tests/e3sm_clubb_code_copy/Jenkinsfile
The recommended git tool is: git
Wiping out workspace first.
Cloning the remote Git repository
Cloning repository https://github.com/larson-group/e3sm.git
 > git init /home/jenkins/workspace/e3sm_clubb_copy_test@script # timeout=10
Fetching upstream changes from https://github.com/larson-group/e3sm.git
 > git --version # timeout=10
 > git --version # 'git version 1.8.3.1'
using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021
 > git fetch --tags --progress https://github.com/larson-group/e3sm.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/larson-group/e3sm.git # timeout=10
 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
 > git rev-parse refs/remotes/origin/clubb_silhs_devel^{commit} # timeout=10
Checking out Revision 99e9d7b4f994d997fbc9a35154553de50811053b (refs/remotes/origin/clubb_silhs_devel)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 99e9d7b4f994d997fbc9a35154553de50811053b # timeout=10
Commit message: "Renaming directory to be consistant with other repos."
First time build. Skipping changelog.
Running in Durability level: MAX_SURVIVABILITY
[Pipeline] Start of Pipeline
[Pipeline] node
Running on Jenkins in /home/jenkins/workspace/e3sm_clubb_copy_test
[Pipeline] {
[Pipeline] stage
[Pipeline] { (Clone Repo)
[Pipeline] checkout
The recommended git tool is: git
Wiping out workspace first.
Cloning the remote Git repository
Cloning repository https://github.com/larson-group/e3sm.git
 > git init /home/jenkins/workspace/e3sm_clubb_copy_test # timeout=10
Fetching upstream changes from https://github.com/larson-group/e3sm.git
 > git --version # timeout=10
 > git --version # 'git version 1.8.3.1'
using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021
 > git fetch --tags --progress https://github.com/larson-group/e3sm.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/larson-group/e3sm.git # timeout=10
 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
 > git rev-parse refs/remotes/origin/clubb_silhs_devel^{commit} # timeout=10
Checking out Revision 99e9d7b4f994d997fbc9a35154553de50811053b (refs/remotes/origin/clubb_silhs_devel)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 99e9d7b4f994d997fbc9a35154553de50811053b # timeout=10
Commit message: "Renaming directory to be consistant with other repos."
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Copy CLUBB Code)
[Pipeline] sh
+ ./jenkins_tests/e3sm_clubb_code_copy/e3sm_clubb_code_copy.bash master /home/jenkins/workspace/e3sm_clubb_copy_test
Running locally with the CLUBB branch: master and the E3SM directory: /home/jenkins/workspace/e3sm_clubb_copy_test.
Cloning into 'clubb_copy_code'...
Already on 'master'
cp: target ‘/home/jenkins/workspace/e3sm_clubb_copy_test/eam/src/physics/clubb’ is not a directory
cp: target ‘/home/jenkins/workspace/e3sm_clubb_copy_test/eam/src/physics/silhs’ is not a directory
CLUBB files successfully updated!
[Pipeline] }
[Pipeline] // stage
[Pipeline] stage
[Pipeline] { (Load Jenkinsfile)
[Pipeline] load
[Pipeline] // load
[Pipeline] }
[Pipeline] // stage
[Pipeline] }
[Pipeline] // node
[Pipeline] End of Pipeline
java.nio.file.NoSuchFileException: /home/jenkins/workspace/e3sm_clubb_copy_test/jenkins_tests/e3sm__run_gfortran_test/Jenkinsfile
	at sun.nio.fs.UnixException.translateToIOException(UnixException.java:86)
	at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:102)
	at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:107)
	at sun.nio.fs.UnixFileSystemProvider.newByteChannel(UnixFileSystemProvider.java:214)
	at java.nio.file.Files.newByteChannel(Files.java:361)
	at java.nio.file.Files.newByteChannel(Files.java:407)
	at java.nio.file.Files.readAllBytes(Files.java:3152)
	at hudson.FilePath$ReadToString.invoke(FilePath.java:2286)
	at hudson.FilePath$ReadToString.invoke(FilePath.java:2282)
	at hudson.FilePath.act(FilePath.java:1165)
	at hudson.FilePath.act(FilePath.java:1148)
	at hudson.FilePath.readToString(FilePath.java:2280)
	at org.jenkinsci.plugins.workflow.cps.steps.LoadStepExecution.start(LoadStepExecution.java:39)
	at org.jenkinsci.plugins.workflow.cps.DSL.invokeStep(DSL.java:319)
	at org.jenkinsci.plugins.workflow.cps.DSL.invokeMethod(DSL.java:193)
	at org.jenkinsci.plugins.workflow.cps.CpsScript.invokeMethod(CpsScript.java:122)
	at sun.reflect.GeneratedMethodAccessor459.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:93)
	at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:325)
	at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1213)
	at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1022)
	at org.codehaus.groovy.runtime.callsite.PogoMetaClassSite.call(PogoMetaClassSite.java:42)
	at org.codehaus.groovy.runtime.callsite.CallSiteArray.defaultCall(CallSiteArray.java:48)
	at org.codehaus.groovy.runtime.callsite.AbstractCallSite.call(AbstractCallSite.java:113)
	at org.kohsuke.groovy.sandbox.impl.Checker$1.call(Checker.java:163)
	at org.kohsuke.groovy.sandbox.GroovyInterceptor.onMethodCall(GroovyInterceptor.java:23)
	at org.jenkinsci.plugins.scriptsecurity.sandbox.groovy.SandboxInterceptor.onMethodCall(SandboxInterceptor.java:158)
	at org.kohsuke.groovy.sandbox.impl.Checker$1.call(Checker.java:161)
	at org.kohsuke.groovy.sandbox.impl.Checker.checkedCall(Checker.java:165)
	at org.kohsuke.groovy.sandbox.impl.Checker.checkedCall(Checker.java:135)
	at org.kohsuke.groovy.sandbox.impl.Checker.checkedCall(Checker.java:135)
	at com.cloudbees.groovy.cps.sandbox.SandboxInvoker.methodCall(SandboxInvoker.java:17)
	at WorkflowScript.run(WorkflowScript:18)
	at ___cps.transform___(Native Method)
	at com.cloudbees.groovy.cps.impl.ContinuationGroup.methodCall(ContinuationGroup.java:86)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.dispatchOrArg(FunctionCallBlock.java:113)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.fixArg(FunctionCallBlock.java:83)
	at sun.reflect.GeneratedMethodAccessor163.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at com.cloudbees.groovy.cps.impl.ContinuationPtr$ContinuationImpl.receive(ContinuationPtr.java:72)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.dispatchOrArg(FunctionCallBlock.java:107)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.fixArg(FunctionCallBlock.java:83)
	at sun.reflect.GeneratedMethodAccessor163.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at com.cloudbees.groovy.cps.impl.ContinuationPtr$ContinuationImpl.receive(ContinuationPtr.java:72)
	at com.cloudbees.groovy.cps.impl.ContinuationGroup.methodCall(ContinuationGroup.java:89)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.dispatchOrArg(FunctionCallBlock.java:113)
	at com.cloudbees.groovy.cps.impl.FunctionCallBlock$ContinuationImpl.fixArg(FunctionCallBlock.java:83)
	at sun.reflect.GeneratedMethodAccessor163.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.lang.reflect.Method.invoke(Method.java:498)
	at com.cloudbees.groovy.cps.impl.ContinuationPtr$ContinuationImpl.receive(ContinuationPtr.java:72)
	at com.cloudbees.groovy.cps.impl.ConstantBlock.eval(ConstantBlock.java:21)
	at com.cloudbees.groovy.cps.Next.step(Next.java:83)
	at com.cloudbees.groovy.cps.Continuable$1.call(Continuable.java:174)
	at com.cloudbees.groovy.cps.Continuable$1.call(Continuable.java:163)
	at org.codehaus.groovy.runtime.GroovyCategorySupport$ThreadCategoryInfo.use(GroovyCategorySupport.java:129)
	at org.codehaus.groovy.runtime.GroovyCategorySupport.use(GroovyCategorySupport.java:268)
	at com.cloudbees.groovy.cps.Continuable.run0(Continuable.java:163)
	at org.jenkinsci.plugins.workflow.cps.SandboxContinuable.access$001(SandboxContinuable.java:18)
	at org.jenkinsci.plugins.workflow.cps.SandboxContinuable.run0(SandboxContinuable.java:51)
	at org.jenkinsci.plugins.workflow.cps.CpsThread.runNextChunk(CpsThread.java:185)
	at org.jenkinsci.plugins.workflow.cps.CpsThreadGroup.run(CpsThreadGroup.java:400)
	at org.jenkinsci.plugins.workflow.cps.CpsThreadGroup.access$400(CpsThreadGroup.java:96)
	at org.jenkinsci.plugins.workflow.cps.CpsThreadGroup$2.call(CpsThreadGroup.java:312)
	at org.jenkinsci.plugins.workflow.cps.CpsThreadGroup$2.call(CpsThreadGroup.java:276)
	at org.jenkinsci.plugins.workflow.cps.CpsVmExecutorService$2.call(CpsVmExecutorService.java:67)
	at java.util.concurrent.FutureTask.run(FutureTask.java:266)
	at hudson.remoting.SingleLaneExecutorService$1.run(SingleLaneExecutorService.java:139)
	at jenkins.util.ContextResettingExecutorService$1.run(ContextResettingExecutorService.java:28)
	at jenkins.security.ImpersonatingExecutorService$1.run(ImpersonatingExecutorService.java:68)
	at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
	at java.util.concurrent.FutureTask.run(FutureTask.java:266)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
	at java.lang.Thread.run(Thread.java:748)
Finished: FAILURE