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HPC & HTC User Documentation
All user support documentation related to the Cirrus HPC and HTC service
Getting access
Documentation on how to get access to CNCA.
General User Documentation
General documentation regarding the CNCA infrastructure.
Cloud user documentation
User documentation related to the Stratus Openstack Cloud Infrastructure
CNCA Institutional Information
Public Information about CNCA infrastructure and usage
Training
In this section you will find information related to training and other materials.
Services
Services deployed in the CNCA infrastructure
Manage jobs
Submitting and managing jobs in the Cirrus HPC and HTC clusters
Filesystem User Guide
Filesystems and data organization in the Cirrus HPC and HTC clusters
How to login
Guidance on how to access the CNCA Cirrus computing services
Compute Node Specs and Information
Compute nodes specs and hardware information for the Cirrus HPC and HTC clusters
Software
How the software is managed in the Cirrus HTC and HPC clusters
Getting Started
Short user guide to request access to the CNCA infrastructure
User Support
General user support at CNCA
Frequently Asked Questions
Common questions regarding CNCA Users Portal usability.
Acknowledgements
How to acknowledge the use of the CNCA Cloud and Distributed computing infrastructure
Openstack users manual
User manuals and tutorials for Openstack
Scientific Publications
Scientific publications which used CNCA resources
Organized events
List of events organized by CNCA
Dissemination
Participation in dissemination events
Training events
Training events and online material about CNCA services and users support
Usage Metrics
Several usefull metrics reporting the Institutional usage of the infrastructure
Cloud Service
Book with links and materials with Cloud user manual, tutorials and training. Includes Virtualization, security considerations for VMs, and resource accounting
Thematic Services Tutorials
Training material for the Thematic Services officially supported by INCD
Containers Tutorials
List of tutorials used in training for using containers for scientific applications and services
Official Reports
CNCA official reports and related documents
Customized resources
Customized resources and queues for specific research groups and organizations
Lustre
Lustre basic description of the Cirrus filesystem
Connect and login
Internet access to the CNCA Cirrus HPC and HTC clusters
Using ssh keys
Basic description on how to use ssh keys
GPU user guide
Troubleshooting information
Applying
Filling the request/registration form
Regarding organizations
* What type of organizations can apply? * Can private companies apply to use the INCD infrastructure? * Research Infrastructures
User Software Installation
Tips and examples on how to install software locally
OpenStack Services
Documentation for CNCA Services available for users
Events
Supported Projects
Projects supported by the CNCA infrastructure
Supported Institutions
Supported institutions per number of activities.
Maturity Evaluation 2019
Documents related to the FCT infrastructures roadmap maturity evaluation of 2019 Documentos relativos à avaliação de maturidade de 2019 das infraestruturas do roteiro da FCT
LNEC users
The information contained on this chapter is complementary information specific for LNEC users that is not covered on the general guidelines
LIP users
The information contained on this chapter is complementary information specific for LIP users that is not covered on the general guidelines
PINFRA/22153/2016
Materials related to the FCT infrastructures roadmap project 01/SAICT/2016 nº 22153
Manage slurm jobs
How to manage jobs using slurm the batch system in the Cirrus clusters.
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Security recommendations for cloud
Security recommendations for cloud users, in particular when instantiating and managing VMs
Lustre Basics
The latest Lustre documentation is available at Lustre
Lustre best practices
Distributed filesystems such as Lustre are ideal for HPC and HTC environments. In these environments the typical workload consists of large files that have to be accessed from many compute nodes with very high bandwidth and/or low latency. Therefore these file...
How to connect and login into the Cirrus HPC and HTC clusters
Public login services Access to the CNCA clusters is only available to registered users. To use the HPC services users need to login via SSH into a front-end server. The login servers can be customized according to the user requirements (OS, Hardware resource...
Create a ssh key
Access to the CNCA computing clusters is performed via SSH and requires the use of SSH keys for authentication. Authentication with passwords is not supported. Each SSH key pair has two components a public key that must be added to the hosts to be remotely acc...
Security
Choose strong passwords - at least 9 characters long, a mixture of alphanumeric mixed case and symbol characters. The password should be completely different from the password you use on any other system. Never use the same password across different systems ...
Configuring SSH
In order to simplify SSH access to remote hosts we recommend CNCA users to adopt the following recommendatios and configuration defaults. Enabling SSH agents and X11 forwarding Activate the forwarding of both SSH authentication credentials and X11 graphical wi...
Access
CNCA is open to all academic and scientific researchers and institutions. In order to use our services please go to the CNCA portal and follow the instructions there. For guidance and further information about the access conditions see the FAQ List warning Pl...
Login and network access
Access to the CNCA cloud and distributed computing infrastructure is available only to registered users. Access to login machines may be filtered by IP address of origin. During the registration process you may be asked to provide your IP address in order to ...
My jobs need to run longer than the queues permit
At Cirrus the default max elapsed time for the queues is 72h. The values for all queues can be consulted here In case you cannot parallelize your job (split one single job into multiple parallel jobs) you can use job dependencies. In this case you create ...
Helpdesk
To contact the CNCA user support please send email to: helpdesk (at) acnca.pt For other institutional contacts see: contacts web page
Directories and filesystems
The Cirrus filesystems are based on the Lustre shared filesystem which is mounted in the compute nodes and in the submission/login nodes. Lustre is mostly suited to the storage of large/huge files. Summary CNCA-Lisbon cluster Name[1] Purpose Availability Qu...
Disk Quota Policy
To prevent storage misuse and problems resulting from filesystems becoming full, Cirrus has implemented the following data usage policies and limits. File system Hard Limit Exceeded /home Once quota or number of files exceeded, new files will not be all...
How to transfer files between Cirrus and a local machine
NOTE Please note that the Cirrus Lustre storage is not designed for small files. Attempting to store or retrieve files less than a few megabytes will result in extremely poor performance for all users. If you wish to store lots of small files to massdata, ple...
How to access files belonging to someone else or another project
Users are allowed to change the default permissions file permissions in all folders they own. The default access rights to Cirrus filesystem is the folllowing: /home All files under /home are only accessible by the user. /data All files under /data/unixgrp/...
Who can apply to use the CNCA infrastructure?
CNCA is open to researchers from Portuguese scientific and academic organizations in all areas of knowledge.
Can researchers from foreign organizations apply to use the CNCA infrastructure?
Researchers from foreign organizations can be eligible to use CNCA when they cooperate with Portuguese researchers in common projects, initiatives and infrastructures. The initial application form must be submitted by a researcher from a Portuguese academic o...
How to apply to use the CNCA infrastructure?
Please apply via the FCT Calls for Advanced Computing Projects (CPCA). FCT CPCA calls
How much time will it take to gain access?
Depends on the size and specificities of the request. If you have an FCT or European research project already approved and resources are available your request may be fast-tracked. Requests for smaller compute and storage capacities (CPCA A0/A1) are generally...
How to contact us?
You can contact us via e-mail to the CNCA Computing Services helpdesk address: helpdesk at acnca.pt
Do I need to specify a research project?
Large requests should be backed by approved peer-reviewed research projects either national or European. Requests without a peer reviewed project will have lower priority, please fill the access request form with the maximum detail to facilitate the evaluati...