Slurm Installation on Debian

Job Scheduler Slurm

Slurm Installation

In this section we describe all the administration tasks for the Slurm Workload Manager in the frontend node (Server) and in the compute nodes (Client)

Slurm Installation on Debian from repositories

1. Make sure the clocks, users and groups (UIDs and GIDs) are synchronized across the cluster.

2. Install MUNGE

   apt-get install -y libmunge-dev libmunge2 munge

3. Generate MUNGE key. There are various ways to do this, depending on the desired level of key quality. Refer to the MUNGE installation guide for complete details.

   Wait around for some random data (recommended for the paranoid):

   dd if=/dev/random bs=1 count=1024 > /etc/munge/munge.key

   Grab some pseudorandom data (recommended for the impatient):

   dd if=/dev/urandom bs=1 count=1024 > /etc/munge/munge.key

   Permissions

   chown munge:munge /etc/munge/munge.key chmod 400 /etc/munge/munge.key

4. Edit file /etc/passwd

   vi /etc/passwd

   Modify user munge in each machine

   File: /etc/passwd

   munge:x:501:501::var/run/munge;/sbin/nologin

5. Start MUNGE

   /etc/init.d/munge start

6. Testing Munge

   The following steps can be performed to verify that the software has been properly installed and configured:

   Generate a credential on stdout:

   munge -n

   Check if a credential can be locally decoded:

   munge -n | unmunge

   Check if a credential can be remotely decoded:

   munge -n | ssh somehost unmunge

   Run a quick benchmark:

   remunge

7. Install SLURM from repositories

   apt-get install -y slurm-wlm slurm-wlm-doc

8. Create and copy slurm.conf

   Exist some ways to generate the slurm.cfg file. It have a web-based configuration tool which can be used to build a simple configuration file, which can then be manually edited for more complex configurations. The tool is located in /usr/share/doc/slurmctld/slurm-wlm-configurator.html

   Open this file in your browser

   sftp://ip-server/usr/share/doc/slurmctld/slurm-wlm-configurator.html

   NOTE: Executing the command slurmd -C on each compute node will print its physical configuration (sockets, cores, real memory size, etc.), which can be used in constructing the slurm.conf file.

   Copy the result from web-based configuration tool in /etc/slurm/slurm.conf and configure it such that it looks like the following (This is a example - build a configuration file customized for your environment) - http://slurm.schedmd.com/slurm.conf.html

   File: /etc/slurm/slurm.conf

   #
   # slurm.conf file generated by configurator.html.
   #
   # See the slurm.conf man page for more information.
   #
   ClusterName=GUANE
   ControlMachine=guane
   #
   SlurmUser=slurm
   SlurmctldPort=6817
   SlurmdPort=6818
   AuthType=auth/munge
   StateSaveLocation=/tmp
   SlurmdSpoolDir=/var/spool/slurm/slurmd
   SwitchType=switch/none
   MpiDefault=none
   SlurmctldPidFile=/var/run/slurmctld.pid
   SlurmdPidFile=/var/run/slurmd.pid
   ProctrackType=proctrack/pgid
   CacheGroups=0
   ReturnToService=1
   #
   # TIMERS
   SlurmctldTimeout=300
   SlurmdTimeout=300
   InactiveLimit=0
   MinJobAge=300
   KillWait=30
   Waittime=0
   #
   # SCHEDULING
   SchedulerType=sched/backfill
   SelectType=select/linear
   FastSchedule=1
   #
   # LOGGING
   SlurmctldDebug=3
   SlurmdDebug=3
   JobCompType=jobcomp/none
   JobCompLoc=/tmp/slurm_job_completion.txt
   #
   # ACCOUNTING
   JobAcctGatherType=jobacct_gather/linux
   JobAcctGatherFrequency=30
   #
   #AccountingStorageType=accounting_storage/slurmdbd
   #AccountingStorageHost=slurm
   #AccountingStorageLoc=/tmp/slurm_job_accounting.txt
   #AccountingStoragePass=
   #AccountingStorageUser=
   #
   # COMPUTE NODES
   # control node
   NodeName=guane NodeAddr=192.168.1.70 Port=17000 State=UNKNOWN
   
   # each logical node is on the same physical node, so we need different ports for them
   # name guane-[*] is arbitrary
   NodeName=guane-1 NodeAddr=192.168.1.71 Port=17002 State=UNKNOWN
   NodeName=guane-2 NodeAddr=192.168.1.72 Port=17003 State=UNKNOWN
   
   # PARTITIONS
   # partition name is arbitrary
   PartitionName=guane Nodes=guane-[1-2] Default=YES MaxTime=8-00:00:00 State=UP
   

9. Install munge in each node of cluster

   apt-get install -y libmunge-dev libmunge2 munge

10. Copy munge.key file from server to each node from cluster

    scp /etc/munge/munge.key root@node:/etc/munge/munge.key

11. Install SLURM compute node daemon

    apt-get install -y slurmd

12. Start slurm in the nodes and server

    /etc/init.d/slurmd start
    /etc/init.d/slurmctld start

Slurm Installation on Debian from source

http://wildflower.diablonet.net/~scaron/slurmsetup.html

CONTROLLER CONFIGURATION

Prerequisites

apt-get install -y build-essential

1. Install MUNGE

apt-get install -y libmunge-dev libmunge2 munge

2. Generate MUNGE key. There are various ways to do this, depending on the desired level of key quality. Refer to the MUNGE installation guide for complete details.

Wait around for some random data (recommended for the paranoid): dd if=/dev/random bs=1 count=1024 > /etc/munge/munge.key

Grab some pseudorandom data (recommended for the impatient): dd if=/dev/urandom bs=1 count=1024 > /etc/munge/munge.key

chown munge:munge /etc/munge/munge.key chmod 400 /etc/munge/munge.key

3. Start MUNGE.

/etc/init.d/munge start

4. Testing Munge

The following steps can be performed to verify that the software has been properly installed and configured:

   Generate a credential on stdout: 

   $ munge -n 

   Check if a credential can be locally decoded: 

   $ munge -n | unmunge 

   Check if a credential can be remotely decoded: 

   $ munge -n | ssh somehost unmunge 

   Run a quick benchmark: 

   $ remunge 

5. Install MySQL server (for SLURM accounting) and development tools (to build SLURM). We'll also install the BLCR tools so that SLURM can take advantage of that checkpoint-and-restart functionality.

apt-get install mysql-server libmysqlclient-dev libmysqld-dev libmysqld-pic apt-get install gcc bison make flex libncurses5-dev tcsh pkg-config apt-get install blcr-util blcr-testsuite libcr-dbg libcr-dev libcr0

6. Download lastets version. (http://www.schedmd.com/#repos)

wget http://www.schedmd.com/download/latest/slurm-14.11.6.tar.bz2

7. Unpack and build SLURM.

tar xvf slurm-14.11.6.tar.bz2 cd slurm-14.11.6 ./configure --enable-multiple-slurmd make make install

8. Exist some ways to generate the slurm.cfg file. It have a web-based configuration tool which can be used to build a simple configuration file, which can then be manually edited for more complex configurations. The tool is located in doc/html/configurator.html, this file can opened in the browser if it's copy to /usr/share/ (sftp://ip-server/usr/share/doc/slurm/configurator.html).

mkdir /usr/share/doc/slurm/ cd [slurm-src]/doc/html/ cp configurator.* /usr/share/doc/slurm/

Other way is copy the example configuration files out to /etc/slurm.

mkdir /etc/slurm cd [slurm-src] cp etc/slurm.conf.example /etc/slurm/slurm.conf cp etc/slurmdbd.conf.example /etc/slurm/slurmdbd.conf

Executing the command slurmd -C on each compute node will print its physical configuration (sockets, cores, real memory size, etc.), which can be used in constructing the slurm.conf file.

9. Set things up for slurmdbd (the SLURM accounting daemon) in MySQL.

mysql -u root -p create database slurm_db; create user 'slurm'@'localhost'; set password for 'slurm'@'localhost' = password('MyPassword'); grant usage on *.* to 'slurm'@'localhost'; grant all privileges on slurm_db.* to 'slurm'@'localhost'; flush privileges; quit