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Installation of SGE on CentOS 7

Right now there are two options for SGE installation on CENTOS 7:


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[Nov 08, 2018] SGE Installation on Centos 7

Nov 08, 2018 | liv.ac.uk

I installed SGE on Centos 7 back in January this year. If my recolection is correct, the procedure was analogous to the instructions for Centos 6. There were some issues with the firewalld service (make sure that it is not blocking SGE), as well as some issues with SSL.
Check out these threads for reference:

http://arc.liv.ac.uk/pipermail/sge-discuss/2017-January/001050.html

Max

[Aug 17, 2018] Rocks 7.0 Manzanita (CentOS 7.4)

Aug 17, 2018 | www.rocksclusters.org

Operating System Base

Rocks 7.0 (Manzanita) x86_64 is based upon CentOS 7.4 with all updates available as of 1 Dec 2017.

Building a bare-bones compute cluster Building a more complex cluster

In addition to above, select the following rolls:

  • area51
  • fingerprint
  • ganglia
  • kvm (used for virtualization)
  • hpc
  • htcondor (used independently or in conjunction with sge)
  • perl
  • python
  • sge
  • zfs-linux (used to build reliable storage systems)
Building Custom Clusters

If you wish to build a custom cluster, you must choose from our a la carte selection, but make sure to download the required base , kernel and both CentOS rolls. The CentOS rolls include CentOS 7.4 w/updates pre-applied. Most users will want the full updated OS so that other software can be added.

MD5 Checksums

Please double check the MD5 checksums for all the rolls you download.

Downloads

All ISOs are available for downloads from here . Individual links are listed below.

Name Description Name Description
kernel Rocks Bootable Kernel Roll required zfs-linux ZFS On Linux Roll. Build and Manage Multi Terabyte File Systems.
base Rocks Base Roll required fingerprint Fingerprint application dependencies
core Core Roll required hpc Rocks HPC Roll
CentOS CentOS Roll required htcondor HTCondor High Throughput Computing (version 8.2.8)
Updates-CentOS CentOS Updates Roll required sge Sun Grid Engine (Open Grid Scheduler) job queueing system
kvm Support for building KVM VMs on cluster nodes perl Support for Newer Version of Perl
ganglia Cluster monitoring system from UCB python Python 2.7 and Python 3.x
area51 System security related services and utilities openvswitch Rocks integration of OpenVswitch

[Aug 17, 2018] Installation of Son of Grid Engine(SGE) on CentOS7 by byeon iksu

Oct 15, 2017 | biohpc.blogspot.com

Installation of Son of Grid Engine(SGE) on CentOS7

SGE Master installation

master# hostnamectl set-hostname qmaster.local

master# vi /etc/hosts
192.168.56.101 qmaster.local qmaster
192.168.56.102 compute01.local compute01

master# mkdir -p /BiO/src
master# yum -y install epel-release
master# yum -y install jemalloc-devel openssl-devel ncurses-devel pam-devel libXmu-devel hwloc-devel hwloc hwloc-libs java-devel javacc ant-junit libdb-devel motif-devel csh ksh xterm db4-utils perl-XML-Simple perl-Env xorg-x11-fonts-ISO8859-1-100dpi xorg-x11-fonts-ISO8859-1-75dpi
master# groupadd -g 490 sgeadmin
master# useradd -u 495 -g 490 -r -m -d /home/sgeadmin -s /bin/bash -c "SGE Admin" sgeadmin
master# visudo
%sgeadmin ALL=(ALL) NOPASSWD: ALL
master# cd /BiO/src
master# wget http://arc.liv.ac.uk/downloads/SGE/releases/8.1.9/sge-8.1.9.tar.gz
master# tar zxvfp sge-8.1.9.tar.gz
master# cd sge-8.1.9/source/
master# sh scripts/bootstrap.sh && ./aimk && ./aimk -man
master# export SGE_ROOT=/BiO/gridengine && mkdir $SGE_ROOT
master# echo Y | ./scripts/distinst -local -allall -libs -noexit
master# chown -R sgeadmin.sgeadmin /BiO/gridengine

master# cd $SGE_ROOT
master# ./install_qmaster
press enter at the intro screen
press "y" and then specify sgeadmin as the user id
leave the install dir as /BiO/gridengine
You will now be asked about port configuration for the master, normally you would choose the default (2) which uses the /etc/services file
accept the sge_qmaster info
You will now be asked about port configuration for the master, normally you would choose the default (2) which uses the /etc/services file
accept the sge_execd info
leave the cell name as "default"
Enter an appropriate cluster name when requested
leave the spool dir as is
press "n" for no windows hosts!
press "y" (permissions are set correctly)
press "y" for all hosts in one domain
If you have Java available on your Qmaster and wish to use SGE Inspect or SDM then enable the JMX MBean server and provide the requested information - probably answer "n" at this point!
press enter to accept the directory creation notification
enter "classic" for classic spooling (berkeleydb may be more appropriate for large clusters)
press enter to accept the next notice
enter "20000-20100" as the GID range (increase this range if you have execution nodes capable of running more than 100 concurrent jobs)
accept the default spool dir or specify a different folder (for example if you wish to use a shared or local folder outside of SGE_ROOT
enter an email address that will be sent problem reports
press "n" to refuse to change the parameters you have just configured
press enter to accept the next notice
press "y" to install the startup scripts
press enter twice to confirm the following messages
press "n" for a file with a list of hosts
enter the names of your hosts who will be able to administer and submit jobs (enter alone to finish adding hosts)
skip shadow hosts for now (press "n")
choose "1" for normal configuration and agree with "y"
press enter to accept the next message and "n" to refuse to see the previous screen again and then finally enter to exit the installer

master# cp /BiO/gridengine/default/common/settings.sh /etc/profile.d/
master# qconf -ah compute01.local
compute01.local added to administrative host list

master# yum -y install nfs-utils
master# vi /etc/exports
/BiO 192.168.56.0/24(rw,no_root_squash)

master# systemctl start rpcbind nfs-server
master# systemctl enable rpcbind nfs-server

SGE Client installation

compute01# yum -y install hwloc-devel
compute01# hostnamectl set-hostname compute01.local
compute01# vi /etc/hosts
192.168.56.101 qmaster.local qmaster
192.168.56.102 compute01.local compute01

compute01# groupadd -g 490 sgeadmin
compute01# useradd -u 495 -g 490 -r -m -d /home/sgeadmin -s /bin/bash -c "SGE Admin" sgeadmin

compute01# yum -y install nfs-utils
compute01# systemctl start rpcbind
compute01# systemctl enable rpcbind
compute01# mkdir /BiO
compute01# mount -t nfs 192.168.56.101:/BiO /BiO
compute01# vi /etc/fstab
192.168.56.101:/BiO /BiO nfs defaults 0 0

compute01# export SGE_ROOT=/BiO/gridengine
compute01# export SGE_CELL=default
compute01# cd $SGE_ROOT
compute01# ./install_execd
compute01# cp /BiO/gridengine/default/common/settings.sh /etc/profile.d/

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Last modified: July 28, 2019