The build should work fine now. On Mon, Dec 21, 2015 at 8:17 PM, Heejoon Chae <[email protected]> wrote:
> Unfortunately, the compile fails at certain point, > > [INFO] > ------------------------------------------------------------------------ > [INFO] BUILD FAILURE > [INFO] > ------------------------------------------------------------------------ > [INFO] Total time: 7:41.368s > [INFO] Finished at: Tue Dec 22 10:05:36 KST 2015 > [INFO] Final Memory: 95M/3073M > [INFO] > ------------------------------------------------------------------------ > [ERROR] Failed to execute goal > org.apache.maven.plugins:maven-compiler-plugin:3.1:compile > (default-compile) on project airavata-client-samples: Compilation failure: > Compilation failure: > [ERROR] > /data/project/mcpg/airavata/test/airavata/airavata-api/airavata-client-sdks/java-client-samples/src/main/java/org/apache/airavata/client/samples/CancelExperiments.java:[63,55] > incompatible types: java.lang.String cannot be converted to > org.apache.airavata.model.security.AuthzToken > [ERROR] > /data/project/mcpg/airavata/test/airavata/airavata-api/airavata-client-sdks/java-client-samples/src/main/java/org/apache/airavata/client/samples/DataManagerSample.java:[38,65] > incompatible types: java.lang.String cannot be converted to > org.apache.airavata.model.security.AuthzToken > [ERROR] > /data/project/mcpg/airavata/test/airavata/airavata-api/airavata-client-sdks/java-client-samples/src/main/java/org/apache/airavata/client/tools/RegisterSampleApplications.java:[193,81] > incompatible types: java.lang.String cannot be converted to > org.apache.airavata.model.security.AuthzToken > > Thanks, > Heejoon. > > On Tue, Dec 22, 2015 at 10:02 AM, Heejoon Chae <[email protected]> > wrote: > >> Sorry, I found my JAVA_HOME set to different location even I use java 1.8. >> >> Now it seems building goes correctly! >> >> Thank you! >> Heejoon. >> >> On Tue, Dec 22, 2015 at 9:56 AM, Heejoon Chae <[email protected]> >> wrote: >> >>> Yes. I am using java 1.8 >>> >>> [heechae@biobrainpool airavata]$ which java >>> /packages/jdk1.8.0_65/bin/java >>> >>> Thanks, >>> Heejoon. >>> >>> On Tue, Dec 22, 2015 at 9:46 AM, Chathuri Wimalasena < >>> [email protected]> wrote: >>> >>>> Hi Heejoon, >>>> >>>> I hope you are using java 1.8. >>>> >>>> Thanks.. >>>> Chathuri >>>> >>>> On Mon, Dec 21, 2015 at 7:08 PM, Heejoon Chae <[email protected]> >>>> wrote: >>>> >>>>> Hi, Supun, >>>>> >>>>> Thank you for fixing that. I updated and do mvn clean install. >>>>> I got some errors like, >>>>> >>>>> INFO] BUILD FAILURE >>>>> [INFO] >>>>> ------------------------------------------------------------------------ >>>>> [INFO] Total time: 7.754s >>>>> [INFO] Finished at: Tue Dec 22 09:05:21 KST 2015 >>>>> [INFO] Final Memory: 36M/1931M >>>>> [INFO] >>>>> ------------------------------------------------------------------------ >>>>> [ERROR] Failed to execute goal >>>>> org.apache.maven.plugins:maven-compiler-plugin:3.1:compile >>>>> (default-compile) on project airavata-data-models: Fatal error compiling: >>>>> invalid target release: 1.8 -> [Help 1] >>>>> [ERROR] >>>>> [ERROR] To see the full stack trace of the errors, re-run Maven with >>>>> the -e switch. >>>>> [ERROR] Re-run Maven using the -X switch to enable full debug logging. >>>>> [ERROR] >>>>> [ERROR] For more information about the errors and possible solutions, >>>>> please read the following articles: >>>>> [ERROR] [Help 1] >>>>> http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException >>>>> [ERROR] >>>>> [ERROR] After correcting the problems, you can resume the build with >>>>> the command >>>>> [ERROR] mvn <goals> -rf :airavata-data-models >>>>> >>>>> Thanks, >>>>> Heejoon. >>>>> >>>>> On Tue, Dec 22, 2015 at 12:35 AM, Supun Nakandala < >>>>> [email protected]> wrote: >>>>> >>>>>> Hi Heejoon, >>>>>> >>>>>> There was an issue in the pom files and I fixed it now. Can you check >>>>>> whether your build is working now >>>>>> >>>>>> On Sun, Dec 20, 2015 at 7:52 PM, Heejoon Chae <[email protected] >>>>>> > wrote: >>>>>> >>>>>>> I got following as well, >>>>>>> >>>>>>> [INFO] Scanning for projects... >>>>>>> [ERROR] The build could not read 2 projects -> [Help 1] >>>>>>> [ERROR] >>>>>>> [ERROR] The project >>>>>>> org.apache.airavata:data-manager-cpi:0.16-SNAPSHOT >>>>>>> (/data/project/mcpg/airavata/test/airavata/modules/data-manager/data-manager-cpi/pom.xml) >>>>>>> has 1 error >>>>>>> [ERROR] Non-resolvable parent POM: Could not find artifact >>>>>>> org.apache.airavata:airavata:pom:0.16-SNAPSHOT and 'parent.relativePath' >>>>>>> points at wrong local POM @ line 5, column 13 -> [Help 2] >>>>>>> [ERROR] >>>>>>> [ERROR] The project >>>>>>> org.apache.airavata:data-manager-core:0.16-SNAPSHOT >>>>>>> (/data/project/mcpg/airavata/test/airavata/modules/data-manager/data-manager-core/pom.xml) >>>>>>> has 1 error >>>>>>> [ERROR] Non-resolvable parent POM: Could not find artifact >>>>>>> org.apache.airavata:airavata:pom:0.16-SNAPSHOT and 'parent.relativePath' >>>>>>> points at wrong local POM @ line 5, column 13 -> [Help 2] >>>>>>> [ERROR] >>>>>>> [ERROR] To see the full stack trace of the errors, re-run Maven with >>>>>>> the -e switch. >>>>>>> [ERROR] Re-run Maven using the -X switch to enable full debug >>>>>>> logging. >>>>>>> [ERROR] >>>>>>> [ERROR] For more information about the errors and possible >>>>>>> solutions, please read the following articles: >>>>>>> [ERROR] [Help 1] >>>>>>> http://cwiki.apache.org/confluence/display/MAVEN/ProjectBuildingException >>>>>>> [ERROR] [Help 2] >>>>>>> http://cwiki.apache.org/confluence/display/MAVEN/UnresolvableModelException >>>>>>> >>>>>>> Thanks, >>>>>>> Heejoon. >>>>>>> >>>>>>> On Mon, Dec 21, 2015 at 9:48 AM, Chathuri Wimalasena < >>>>>>> [email protected]> wrote: >>>>>>> >>>>>>>> Instead of building only credential store module, could you build >>>>>>>> from airavata source root. Credential store module depends on >>>>>>>> airavata-server-configuration and other jars. That should resolve >>>>>>>> your issue.. >>>>>>>> >>>>>>>> Thanks. >>>>>>>> Chathuri >>>>>>>> >>>>>>>> On Sun, Dec 20, 2015 at 7:45 PM, Heejoon Chae < >>>>>>>> [email protected]> wrote: >>>>>>>> >>>>>>>>> Hi, Chathuri, >>>>>>>>> >>>>>>>>> Thank you for the explanation. >>>>>>>>> >>>>>>>>> I cloned the git and tried to compile credential-store with 'mvn >>>>>>>>> clean install -Dmaven.test.skip=true' with mvn 3.0 and java 8 but got >>>>>>>>> following errors. >>>>>>>>> >>>>>>>>> >>>>>>>>> >>>>>>>>> ############################################################################################################### >>>>>>>>> Downloaded: >>>>>>>>> http://repo1.maven.org/maven2/org/apache/derby/derbyclient/10.11.1.1/derbyclient-10.11.1.1.jar >>>>>>>>> (571 KB at 2.8 KB/sec) >>>>>>>>> [INFO] >>>>>>>>> ------------------------------------------------------------------------ >>>>>>>>> [INFO] BUILD FAILURE >>>>>>>>> [INFO] >>>>>>>>> ------------------------------------------------------------------------ >>>>>>>>> [INFO] Total time: 3:53.576s >>>>>>>>> [INFO] Finished at: Mon Dec 21 09:38:34 KST 2015 >>>>>>>>> [INFO] Final Memory: 11M/1931M >>>>>>>>> [INFO] >>>>>>>>> ------------------------------------------------------------------------ >>>>>>>>> [ERROR] Failed to execute goal on project >>>>>>>>> airavata-credential-store: Could not resolve dependencies for project >>>>>>>>> org.apache.airavata:airavata-credential-store:jar:0.16-SNAPSHOT: The >>>>>>>>> following artifacts could not be resolved: >>>>>>>>> org.apache.airavata:airavata-credential-store-stubs:jar:0.16-SNAPSHOT, >>>>>>>>> org.apache.airavata:airavata-server-configuration:jar:0.16-SNAPSHOT, >>>>>>>>> org.apache.airavata:airavata-commons:jar:0.16-SNAPSHOT: Could not find >>>>>>>>> artifact >>>>>>>>> org.apache.airavata:airavata-credential-store-stubs:jar:0.16-SNAPSHOT >>>>>>>>> in >>>>>>>>> apache.snapshots (http://repository.apache.org/snapshots) -> >>>>>>>>> [Help 1] >>>>>>>>> [ERROR] >>>>>>>>> [ERROR] To see the full stack trace of the errors, re-run Maven >>>>>>>>> with the -e switch. >>>>>>>>> [ERROR] Re-run Maven using the -X switch to enable full debug >>>>>>>>> logging. >>>>>>>>> [ERROR] >>>>>>>>> [ERROR] For more information about the errors and possible >>>>>>>>> solutions, please read the following articles: >>>>>>>>> [ERROR] [Help 1] >>>>>>>>> http://cwiki.apache.org/confluence/display/MAVEN/DependencyResolutionException >>>>>>>>> >>>>>>>>> ############################################################################################################### >>>>>>>>> >>>>>>>>> Any suggestion? >>>>>>>>> >>>>>>>>> Thanks, >>>>>>>>> Heejoon. >>>>>>>>> >>>>>>>>> On Fri, Dec 18, 2015 at 9:29 PM, Chathuri Wimalasena < >>>>>>>>> [email protected]> wrote: >>>>>>>>> >>>>>>>>>> Hi Heejoon, >>>>>>>>>> >>>>>>>>>> You need to set up a valid credential store token in the >>>>>>>>>> credential store (experiment-catalog database has tables related to >>>>>>>>>> credential store). Same credential store token needs to be set in >>>>>>>>>> gateway >>>>>>>>>> profiles. This token is used when airavata ssh to resource, input >>>>>>>>>> staging >>>>>>>>>> and all the remote connections with the resource. Credential store >>>>>>>>>> token is >>>>>>>>>> the identifier for SSH credential object which contains valid SSH >>>>>>>>>> keys. >>>>>>>>>> Refer this code >>>>>>>>>> https://github.com/apache/airavata/blob/master/modules/credential-store/credential-store-service/src/test/java/org/apache/airavata/credential/store/store/impl/db/SSHCredentialTest.java. >>>>>>>>>> There are API methods to generate SSH keys as well. You can use any >>>>>>>>>> of the >>>>>>>>>> two methods. >>>>>>>>>> >>>>>>>>>> Thanks.. >>>>>>>>>> Chathuri >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> On Fri, Dec 18, 2015 at 12:02 AM, Heejoon Chae < >>>>>>>>>> [email protected]> wrote: >>>>>>>>>> >>>>>>>>>>> Hi, Suresh, >>>>>>>>>>> >>>>>>>>>>> Thank you for the help. It correctly parses the email. >>>>>>>>>>> >>>>>>>>>>> Now I have another error caused by 'credential token' as below, >>>>>>>>>>> >>>>>>>>>>> ERROR] expId: ttt_d0a8ca90-46b3-4225-add7-c29207130fc8, >>>>>>>>>>> processId: PROCESS_273f058f-a0bc-400b-9a82-5d71246c8fa8, taskId: >>>>>>>>>>> TASK_fc9dd43b-f0ea-4e6c-bd92-c5daa698257b type: DATA_STAGING,:- >>>>>>>>>>> output >>>>>>>>>>> staging failed, reason: Provided credential store token is not >>>>>>>>>>> valid. >>>>>>>>>>> Please provide the correct credential store token >>>>>>>>>>> [INFO] expId: ttt_d0a8ca90-46b3-4225-add7-c29207130fc8, >>>>>>>>>>> processId: PROCESS_273f058f-a0bc-400b-9a82-5d71246c8fa8 :- Process >>>>>>>>>>> status >>>>>>>>>>> changed FAILED -> FAILED >>>>>>>>>>> [INFO] Publishing status to rabbitmq... >>>>>>>>>>> [ERROR] GFac Worker throws an exception >>>>>>>>>>> org.apache.airavata.gfac.core.GFacException: Error while staging >>>>>>>>>>> output data >>>>>>>>>>> at >>>>>>>>>>> org.apache.airavata.gfac.impl.GFacEngineImpl.outputDataStaging(GFacEngineImpl.java:478) >>>>>>>>>>> at >>>>>>>>>>> org.apache.airavata.gfac.impl.GFacEngineImpl.runProcessOutflow(GFacEngineImpl.java:393) >>>>>>>>>>> at >>>>>>>>>>> org.apache.airavata.gfac.impl.GFacWorker.runProcessOutflow(GFacWorker.java:172) >>>>>>>>>>> at >>>>>>>>>>> org.apache.airavata.gfac.impl.GFacWorker.run(GFacWorker.java:105) >>>>>>>>>>> at >>>>>>>>>>> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) >>>>>>>>>>> at >>>>>>>>>>> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) >>>>>>>>>>> at java.lang.Thread.run(Thread.java:745) >>>>>>>>>>> >>>>>>>>>>> I actually set 'false' for storing credential in the >>>>>>>>>>> 'airavata-server.properties' file as bellow >>>>>>>>>>> >>>>>>>>>>> start.credential.store=false >>>>>>>>>>> >>>>>>>>>>> but it seems still they are active. >>>>>>>>>>> >>>>>>>>>>> Thank you, >>>>>>>>>>> Heejoon. >>>>>>>>>>> >>>>>>>>>>> On Fri, Dec 18, 2015 at 12:42 AM, Suresh Marru < >>>>>>>>>>> [email protected]> wrote: >>>>>>>>>>> >>>>>>>>>>>> Hi Heejoon, >>>>>>>>>>>> >>>>>>>>>>>> You will need to configure your email within gfac-config.yaml >>>>>>>>>>>> (you will find it in the bin directory). >>>>>>>>>>>> >>>>>>>>>>>> If you can add your email to: >>>>>>>>>>>> >>>>>>>>>>>> - jobManagerType: SLURM >>>>>>>>>>>> commandOutputParser: >>>>>>>>>>>> org.apache.airavata.gfac.impl.job.SlurmOutputParser >>>>>>>>>>>> emailParser: >>>>>>>>>>>> org.apache.airavata.gfac.monitor.email.parser.SLURMEmailParser >>>>>>>>>>>> resourceEmailAddresses: >>>>>>>>>>>> - SDSC Admin <[email protected]> # comet >>>>>>>>>>>> - [email protected] # stampede >>>>>>>>>>>> - [email protected] >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>>> Thanks, >>>>>>>>>>>> Suresh >>>>>>>>>>>> >>>>>>>>>>>> > On Dec 16, 2015, at 6:33 PM, Heejoon Chae < >>>>>>>>>>>> [email protected]> wrote: >>>>>>>>>>>> > >>>>>>>>>>>> > Hi, Suresh, >>>>>>>>>>>> > >>>>>>>>>>>> > I am using one month old version of PGA and Airavata server. >>>>>>>>>>>> Both were recent version at that time. >>>>>>>>>>>> > >>>>>>>>>>>> > apache-airavata-server-0.16-SNAPSHOT >>>>>>>>>>>> > >>>>>>>>>>>> > Thank you, >>>>>>>>>>>> > Heejoon. >>>>>>>>>>>> > >>>>>>>>>>>> > >>>>>>>>>>>> > >>>>>>>>>>>> > On Thu, Dec 17, 2015 at 8:28 AM, Suresh Marru < >>>>>>>>>>>> [email protected]> wrote: >>>>>>>>>>>> > Hi Heejoon, >>>>>>>>>>>> > >>>>>>>>>>>> > Are you using Airavata 0.15 or 0.16 for this purpose? >>>>>>>>>>>> > >>>>>>>>>>>> > Suresh >>>>>>>>>>>> > >>>>>>>>>>>> >> On Dec 16, 2015, at 5:38 PM, Heejoon Chae < >>>>>>>>>>>> [email protected]> wrote: >>>>>>>>>>>> >> >>>>>>>>>>>> >> Hi, >>>>>>>>>>>> >> >>>>>>>>>>>> >> I have succeeded run job with SLURM. >>>>>>>>>>>> >> >>>>>>>>>>>> >> Now, the job monitoring through email causes some errors as >>>>>>>>>>>> bellow. >>>>>>>>>>>> >> >>>>>>>>>>>> >> It seems the Airavata server correctly log in the email >>>>>>>>>>>> account and bring email list, but it could not parse it correctly. >>>>>>>>>>>> >> >>>>>>>>>>>> >> >>>>>>>>>>>> ################################################################################# >>>>>>>>>>>> >> [ERROR] [EJM]: Error parsing email message >>>>>>>>>>>> =====================================> >>>>>>>>>>>> >> org.apache.airavata.common.exception.AiravataException: >>>>>>>>>>>> [EJM]: Couldn't identify Resource job manager type from address >>>>>>>>>>>> [email protected] >>>>>>>>>>>> >> at >>>>>>>>>>>> org.apache.airavata.gfac.monitor.email.EmailBasedMonitor.getJobMonitorType(EmailBasedMonitor.java:160) >>>>>>>>>>>> >> at >>>>>>>>>>>> org.apache.airavata.gfac.monitor.email.EmailBasedMonitor.parse(EmailBasedMonitor.java:144) >>>>>>>>>>>> >> at >>>>>>>>>>>> org.apache.airavata.gfac.monitor.email.EmailBasedMonitor.processMessages(EmailBasedMonitor.java:239) >>>>>>>>>>>> >> at >>>>>>>>>>>> org.apache.airavata.gfac.monitor.email.EmailBasedMonitor.run(EmailBasedMonitor.java:208) >>>>>>>>>>>> >> at java.lang.Thread.run(Thread.java:745) >>>>>>>>>>>> >> [ERROR] FROM: [email protected] >>>>>>>>>>>> >> [ERROR] TO: [email protected] >>>>>>>>>>>> >> [ERROR] SUBJECT: SLURM Job_id=116 Name=A1514598207 Ended, >>>>>>>>>>>> Run time 00:00:01, COMPLETED, ExitCode 0 >>>>>>>>>>>> >> >>>>>>>>>>>> ################################################################################# >>>>>>>>>>>> >> >>>>>>>>>>>> >> Thank you, >>>>>>>>>>>> >> Heejoon. >>>>>>>>>>>> > >>>>>>>>>>>> > >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>> >>>>>>>>> >>>>>>>> >>>>>>> >>>>>> >>>>>> >>>>>> -- >>>>>> Thank you >>>>>> Supun Nakandala >>>>>> Dept. Computer Science and Engineering >>>>>> University of Moratuwa >>>>>> >>>>> >>>>> >>>> >>> >> > -- Thank you Supun Nakandala Dept. Computer Science and Engineering University of Moratuwa
