[StarCluster] failed to add/remove additional nodes

Ryan Golhar ngsbioinformatics at gmail.com
Thu Apr 3 14:32:45 EDT 2014


Hi all - I have a 50 node spot cluster running.  I tried to add 10
additional nodes and at some point along the way it failed.  Only 2 nodes
were added to the cluster, but they aren't getting SGE jobs.  I tried
re-adding the nodes using '-x -a' but it fails.  So I then tried to remove
the nodes, and that is failing as well.  How do I fix this?  Here's the
output:

[ec2-user at awsmicro plugins]$ starcluster removenode ngscluster node060

StarCluster - (http://star.mit.edu/cluster) (v. 0.9999)

Software Tools for Academics and Researchers (STAR)

Please submit bug reports to starcluster at mit.edu


>>> Running plugin tagger.TaggerPlugin

>>> Running plugin setupuserenv.SetupUserEnvironment

>>> Running plugin starcluster.plugins.users.CreateUsers

>>> Running plugin starcluster.plugins.sge.SGEPlugin

>>> Removing node060 from SGE

!!! ERROR - Error occured while running plugin
'starcluster.plugins.sge.SGEPlugin':

!!! ERROR - remote command 'source /etc/profile && qconf -dattr

!!! ERROR - hostgroup hostlist node060 @allhosts' failed with status 1:

!!! ERROR - error writing object "@allhosts" to spooling database


At this point, I have to go into the AWS web console and remove the nodes
myself as starcluster isn't able to.
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