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The old Medusa wiki page can be found here

Atividade 1 / Activity 1 Mi1.1 - Internal coordination and administration structture fully operational Mi1.2 - First version of the internal management information system Mi1.3 - All specialised centres established Mi1.4 - Business and sustainability m...

INCD-Lisbon HPC and HTC cluster (Cirrus-A) Access to the INCD advanced computing facilities in Lisbon is performed with: Almalinux 8 Login server ssh -l username cirrus.a.acnca.pt Note For further information on how to obtain access see the Getting Started...

Cluster specific information INCD provides acess to several HPC computing clusters. The policies, limits and characteristics of these HPC clusters can be different, always check where you are running and whether the manuals and/or instructions are the correct...

Slurm's architecture Slurm is made of a slurmd daemon running on each compute node and a central slurmctld daemon running on a management node. Node In slurm a node is a compute resource, usually defined by particular consumable resources, i.e. cores, memor...

Install by your own: See IBERGRID 2019 Tuturial, check also the general udocker tuturials page Use the already available installation: [user@pauli02 ~]$ module avail ------- /cvmfs/sw.el7/modules/soft ---------- gcc-5.5 matlab/R2018a ...

sinfo : overview of the resources offered by the cluster By default, sinfo lists the available partitions name(s), availability, time limit, number of nodes, their state and the nodelist. A partition is a set of compute nodes. The command sinfo by default ...

sacct: displays accounting data for all jobs and job steps in the Slurm job accounting log or Slurm database If you use the command without any paremeters it will show you the currently running jobs accounting data. $ sacct JobID JobName Partit...

scancel : used to signal jobs or job steps that are under the control of Slurm The command scancel is used to signal or cancel jobs, job arrays or job steps . A job or job step can only be signaled by the owner of that job or user root. If an attempt is mad...

squeue: view information about jobs located in the Slurm scheduling queue. gqueue: squeue alias formated to show specific jobs information general usage If you use the command without any paremeters it will show you the currently running jobs in the queue. ...

srun : Used to submit/initiate job or job step Typically, srun is invoked from a SLURM job script but alternatively, srun can be run directly from the command, in which case srun will first create a resource allocation for running the parallel job (the sall...

Examples Submit a simple MPI job On this example we run a small MPI application doing the following steps: Create a submission file Submit the job to the default partition Execute a simple MPI code Check the status of the job Read the output D...

The INCD-Lisbon facility provide a few GPU, check the Comput Node Specs page. Login on the submit node Login on the cluster submition node, check the How to Access page for more information: $ ssh -l <username> cirrus8.a.incd.pt [username@cirrus01 ~]...

Another example of conda environment setup. Login on the submit node Login on the cluster submission node, check the page How to Access for more information: $ ssh -l <username> cirrus.ncg.ingrid.pt [username@cirrus ~]$ _ Prepare a conda virtual e...

This example will show how to install Octave on the hipotetical user username home directory HOME/soft/octave/5.1.0. The example will use the interactive host to install the software but if you can also write a script and submit a job as long the command line ...

Example of environment configuration for Octave application installed on the example Example of a User application Installation page. Login on the submit node Login on the cluster submition node, check the page How to Access for more information: $ ssh -l &...

This Acceptable Use Policy (AUP) has been updated and is effective from 24 February 2020. This individual document must be considered in conjunction with all other INCD policy documents. By registering as an INCD user you declare that you have read, understoo...

The list of Virtual Machine flavors available to general users in the Stratus cloud computing service. INCD-Lisbon (Stratus-A) FLAVOR vCPUs RAM (GB) DISK (GB) svc1.xs 1 1 10 svc1.s 1 2 40 svc1.m 2 4 40 svc1.l 4 8 40 svc1.xl ...

List of software centrally available via the modules tool at the INCD Cirrus HPC and HTC clusters as of August 2022. Full list changes and to request the installation of additional software contact the INCD support helpdesk. Intel Compilers available Users c...