Astrophysical and Cosmological Relativity Group

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====== Useful tips for using Minerva ======

===== Quota =====

To find your current quota:

    beegfs-ctl --getquota --uid $(id -u) --mount=/home
    beegfs-ctl --getquota --uid $(id -u) --mount=/work

===== Unsorted =====

(From Ian's collection of useful commands.  TODO: tidy these up)

<code>
Using ethernet

                export I_MPI_FABRICS=shm:tcp
                export I_MPI_TCP_NETMASK=enp7s0

Idle loaded nodes

sinfo -p container -t idle -o "%n %O" -h|sort -k 2 -n|awk '$2 > 0.5 {print}'

Rogue processes

for n in $(sinfo -p container -t idle -o %n -h); do printf "%s\t%s\n" $n $(ssh -n $n ps -e -o comm= |grep -v 'supervisord\|slurmd\|rsyslogd\|sshd\|rsyslogd\|ps\|munged\|nslcd'); done

for n in $(sinfo -p container -t drain,idle -o %n -h); do printf "%s\t%s\n" $n $(ssh -n $n ps -e -o comm= |grep -v 'supervisord\|slurmd\|rsyslogd\|sshd\|rsyslogd\|ps\|munged\|nslcd'); done

Active processes on each node

while read node; do echo $node; ssh $node top -b -n 1 -i -d 10 </dev/null|tail -n +8; done <machines.txt

Job results

sacct -S 2016-07-19 -u ian -o jobid,end,alloccpus,jobname%20,state|grep -v batch|sort -k 2

Reason nodes are in drain

sinfo -o "%P %.5a %.10l %.6D %.6t %N %E"

sinfo -p normal -t drain,down -o "%20H  %.40E: %N" | sort -r
(with timestamps)

Nodes used by users

squeue -a|awk '$5 == "R" {user = $4; nodes[user] += $7} END {for (u in nodes) {print u,nodes[u]}}'


Nodes in job
c[109,135-141]


for node in c109 c135 c136 c137 c138 c139 c140 c141; do echo $node; ssh $node top -b -n 1 -i -d 10 </dev/null|tail -n +8; done

Node list of a job

squeue -j 37411 -o %N -h

Interactive job

srun -N 1 --pty bash

</code>


===== Installing LALSimulation =====

<code>
git clone git@git.ligo.org:lscsoft/lalsuite.git
cd lalsuite
module load gsl/gcc/2.4
export LIBRARY_PATH=/home/sossokine/sw/lib
export CPATH=/home/sossokine/sw/include
export PYTHONPATH=$PWD/lalsimulation/python:$PWD/lal/python/lal:$PYTHONPATH
./00boot
./configure --prefix ~/software/lalsuite --enable-all-lal=no --enable-lalsimulation=yes
nice make -j 8
make install
</code>