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reactome / container

:construction: Repository for files for running a Reactome production-like environment inside a docker container. Currently, this project's status is "Work-In-Progress". :construction:
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Feature/solr #26

Closed AyushyaChitransh closed 7 years ago

SolomonShorser-OICR commented 7 years ago

I am getting errors when solr starts:

solr-for-reactome   | 2017-07-24 15:33:28.337 ERROR (coreLoadExecutor-6-thread-1) [   x:reactome] o.a.s.c.SolrCore Error while closing
solr-for-reactome   | java.lang.NullPointerException
solr-for-reactome   |   at org.apache.solr.core.SolrCore.close(SolrCore.java:1600)
solr-for-reactome   |   at org.apache.solr.core.SolrCore.<init>(SolrCore.java:969)
solr-for-reactome   |   at org.apache.solr.core.SolrCore.<init>(SolrCore.java:830)
solr-for-reactome   |   at org.apache.solr.core.CoreContainer.create(CoreContainer.java:920)
solr-for-reactome   |   at org.apache.solr.core.CoreContainer.lambda$load$5(CoreContainer.java:558)
solr-for-reactome   |   at com.codahale.metrics.InstrumentedExecutorService$InstrumentedCallable.call(InstrumentedExecutorService.java:197)
solr-for-reactome   |   at java.util.concurrent.FutureTask.run(FutureTask.java:266)
solr-for-reactome   |   at org.apache.solr.common.util.ExecutorUtil$MDCAwareThreadPoolExecutor.lambda$execute$0(ExecutorUtil.java:229)
solr-for-reactome   |   at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
solr-for-reactome   |   at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
solr-for-reactome   |   at java.lang.Thread.run(Thread.java:748)
solr-for-reactome   | 2017-07-24 15:33:28.339 ERROR (coreContainerWorkExecutor-2-thread-1) [   ] o.a.s.c.CoreContainer Error waiting for SolrCore to be created
solr-for-reactome   | java.util.concurrent.ExecutionException: org.apache.solr.common.SolrException: Unable to create core [reactome]
solr-for-reactome   |   at java.util.concurrent.FutureTask.report(FutureTask.java:122)
...
solr-for-reactome   | Caused by: java.nio.file.AccessDeniedException: /opt/solr/server/solr/mycores/reactome/data/snapshot_metadata
solr-for-reactome   |   at sun.nio.fs.UnixException.translateToIOException(UnixException.java:84)
solr-for-reactome   |   at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:102)
solr-for-reactome   |   at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:107)
solr-for-reactome   |   at sun.nio.fs.UnixFileSystemProvider.createDirectory(UnixFileSystemProvider.java:384)
solr-for-reactome   |   at java.nio.file.Files.createDirectory(Files.java:674)
solr-for-reactome   |   at java.nio.file.Files.createAndCheckIsDirectory(Files.java:781)
solr-for-reactome   |   at java.nio.file.Files.createDirectories(Files.java:767)
solr-for-reactome   |   at org.apache.lucene.store.FSDirectory.<init>(FSDirectory.java:157)
solr-for-reactome   |   at org.apache.lucene.store.MMapDirectory.<init>(MMapDirectory.java:159)
solr-for-reactome   |   at org.apache.lucene.store.MMapDirectory.<init>(MMapDirectory.java:112)
solr-for-reactome   |   at org.apache.lucene.store.FSDirectory.open(FSDirectory.java:197)
solr-for-reactome   |   at org.apache.solr.core.NRTCachingDirectoryFactory.create(NRTCachingDirectoryFactory.java:55)
solr-for-reactome   |   at org.apache.solr.core.CachingDirectoryFactory.get(CachingDirectoryFactory.java:346)
solr-for-reactome   |   at org.apache.solr.core.SolrCore.initSnapshotMetaDataManager(SolrCore.java:482)