rhdfs.init() failure

[centiteo]

I have successfully installed rhdfs in R over hadoop cluster. But when I invoke hdfs.init(), it complains with:

/usr/lib64/Revo-6.0/R-2.14.2/lib64/R/lib/libExaCore.so.1(_Z21CriticalSignalHandleri+0x1e)[0x7f05695ca75e] /usr/java/jdk1.6.0_31/jre/lib/amd64/server/libjvm.so(+0x71158d)[0x7f056d4f158d] /usr/java/jdk1.6.0_31/jre/lib/amd64/server/libjvm.so(+0x70e4db)[0x7f056d4ee4db] /usr/java/jdk1.6.0_31/jre/lib/amd64/server/libjvm.so(JVM_handle_linux_signal+0x170)[0x7f056d4f2040] /usr/java/jdk1.6.0_31/jre/lib/amd64/server/libjvm.so(+0x70e3ee)[0x7f056d4ee3ee] /lib64/libpthread.so.0(+0xf4a0)[0x7f0577d434a0] [0x7f04cd05e4d3]

I cannot figure out what was the problem. Could you please help to look at it? Thanks!

[RevolutionAnalytics]

Hi,

can you tell me what version of Hadoop you are using? Also, can you tell me what your HADOOP_CMD environment variable value is?

Thanks

David

[RevolutionAnalytics]

Can you also check the namenode and/or datanode logs to see if there are any errors or stack traces

[centiteo]

We use hadoop-1.0.3. The HADOOP_CMD is: /usr/lib/hadoop/bin/hadoop.

There is nothing abnormal in namenode/datanode log.

Do I need to set the HADOOP_CMD env in all nodes or just the node running R console? Thanks!

Best Regards, Jianzhong

From: Revolution Analytics [mailto:notifications@github.com] Sent: Saturday, September 01, 2012 4:57 AM To: RevolutionAnalytics/RHadoop Cc: Chen, Jianzhong Subject: Re: [RHadoop] rhdfs.init() failure (#128)

Can you also check the namenode and/or datanode logs to see if there are any errors or stack traces

— Reply to this email directly or view it on GitHubhttps://github.com/RevolutionAnalytics/RHadoop/issues/128#issuecomment-8204770.

[centiteo]

Sometimes, when I type the following commands, it will be okay: " library(rhdfs) Loading required package: rJava

HADOOP_CMD=/usr/lib/hadoop/bin/hadoop

Be sure to run hdfs.init() hdfs.ls() Error in .jcall("java/lang/Class", "Ljava/lang/Class;", "forName", cl, : No running JVM detected. Maybe .jinit() would help. Error in .jfindClass(as.character(class)) : No running JVM detected. Maybe .jinit() would help. hdfs.init() Warning: $HADOOP_HOME is deprecated.

"

I have installed R and rhdfs on all hadoop nodes, set all HADOOP_CMD env. Also I randomly choose a node to run the R console.

[yugi2245]

Hi All,

I too face the same issue and resolved by reconfiguring the Java for R by simple command in Linux CentOS 6.2.

$R CMD javareconf

Thanks, Yugandhar