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We are sequencing genomes, for the purpose of understanding the causes of various terminal diseases, using a custom ruby-based pipeline of software with RVM 1.25.28 and ruby 1.9.3p448. RVM, ruby, and all other dependencies, exist on a NFS-exported home directory across a group of servers. We can run our pipeline successfully on the older RHEL 6.3 servers. I built a new CentOS 6.8 server where we cannot now run the pipeline. When we have "set -o nounset" included on this Centos 6.8 server, it dies immediately with the error:
/home/aladdin/.rvm/scripts/hook: line 17: rvm_hooks_path: unbound variable
However jobs run successfully on the older RHEL 6.3 server with that option in place.
Though they do run on the CentOS 6.8 server with that option removed...
Do you have any idea on case given RVM, ruby, bash, and all other dependencies are the same across these servers given the shared NFS directory?
Description
We are sequencing genomes, for the purpose of understanding the causes of various terminal diseases, using a custom ruby-based pipeline of software with RVM 1.25.28 and ruby 1.9.3p448. RVM, ruby, and all other dependencies, exist on a NFS-exported home directory across a group of servers. We can run our pipeline successfully on the older RHEL 6.3 servers. I built a new CentOS 6.8 server where we cannot now run the pipeline. When we have "set -o nounset" included on this Centos 6.8 server, it dies immediately with the error:
However jobs run successfully on the older RHEL 6.3 server with that option in place.
Though they do run on the CentOS 6.8 server with that option removed...
Do you have any idea on case given RVM, ruby, bash, and all other dependencies are the same across these servers given the shared NFS directory?
Steps to reproduce
CentOS release 6.8 (Final)
2.6.32-642.13.1.el6.x86_64
aladdin@epicore07 scratch001 $ cat /home/aladdin/.rvm/scripts/hook
In ~/.rvm/scripts/initialize I see:
So why unbound?
Expected behavior
The jobs run in SGE
Actual behavior
Immediate crash
Environment info
aladdin@epicore07 scratch001 $ rvm info
aladdin@epicore07 scratch001 $ rvm requirements run
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