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opencb / hpg-bigdata

This repository implements converters and tools for working with NGS data in HPC or Hadoop cluster
Apache License 2.0
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Fix bug when running the 'variant query' CLI #55

Closed jtarraga closed 8 years ago

jtarraga commented 8 years ago

It has to be fixed. The problem occurs when running the 'variant query' CLI. Error trace:

Exception in thread "main" java.lang.NoSuchMethodError: io.netty.util.concurrent.SingleThreadEventExecutor.(Lio/netty/util/concurrent/EventExecutorGroup;Ljava/util/concurrent/Executor;ZILio/netty/util/concurrent/RejectedExecutionHandler;)V at io.netty.channel.SingleThreadEventLoop.(SingleThreadEventLoop.java:58) at io.netty.channel.nio.NioEventLoop.(NioEventLoop.java:134) at io.netty.channel.nio.NioEventLoopGroup.newChild(NioEventLoopGroup.java:126) at io.netty.channel.nio.NioEventLoopGroup.newChild(NioEventLoopGroup.java:36) at io.netty.util.concurrent.MultithreadEventExecutorGroup.(MultithreadEventExecutorGroup.java:84) at io.netty.util.concurrent.MultithreadEventExecutorGroup.(MultithreadEventExecutorGroup.java:58) at io.netty.util.concurrent.MultithreadEventExecutorGroup.(MultithreadEventExecutorGroup.java:47) at io.netty.channel.MultithreadEventLoopGroup.(MultithreadEventLoopGroup.java:58) at io.netty.channel.nio.NioEventLoopGroup.(NioEventLoopGroup.java:77) at io.netty.channel.nio.NioEventLoopGroup.(NioEventLoopGroup.java:72) at io.netty.channel.nio.NioEventLoopGroup.(NioEventLoopGroup.java:59) at org.apache.spark.network.util.NettyUtils.createEventLoop(NettyUtils.java:54) at org.apache.spark.network.client.TransportClientFactory.(TransportClientFactory.java:104) at org.apache.spark.network.TransportContext.createClientFactory(TransportContext.java:89) at org.apache.spark.rpc.netty.NettyRpcEnv.(NettyRpcEnv.scala:70) at org.apache.spark.rpc.netty.NettyRpcEnvFactory.create(NettyRpcEnv.scala:444) at org.apache.spark.rpc.RpcEnv$.create(RpcEnv.scala:44) at org.apache.spark.SparkEnv$.create(SparkEnv.scala:224) at org.apache.spark.SparkEnv$.createDriverEnv(SparkEnv.scala:165) at org.apache.spark.SparkContext.createSparkEnv(SparkContext.scala:259) at org.apache.spark.SparkContext.(SparkContext.scala:423) at org.opencb.hpg.bigdata.app.cli.local.VariantCommandExecutor.query(VariantCommandExecutor.java:519) at org.opencb.hpg.bigdata.app.cli.local.VariantCommandExecutor.execute(VariantCommandExecutor.java:92) at org.opencb.hpg.bigdata.app.BigDataLocalMain.main(BigDataLocalMain.java:95)