Computing infrastructure

Depending on your needs (project, analysis, ...) and familiarity with command-line, Bilille can give you access to several computing infrastructures including:

  • dedicated resources on the mutualised cloud hosted by the Université de Lille mesocenter in the regional Datacenter. This includes high memory virtual machines for resource intensive analysis (e.g. genome assembly).
  • dedicated resources on the mutualised SLURM cluster hosted by the Université de Lille mesocenter in the regional Datacenter. This will soon include access to a wide range of pre-installed bioinformatics tools as well as GPUs for specific tasks (Deep Learning, Alphafold, ...).
  • personalised support for use of the national IFB-core cluster: https://www.france-bioinformatique.fr/en/ifb-core-cluster/
  • personalised support for use of the national cloud federation Biosphere: https://biosphere.france-bioinformatique.fr/
  • personalised support for use of the national Galaxy infrastructure: https://usegalaxy.fr

Access

Dedicated resources on the shared cloud of the mesocenter are accessible via Bilille. Any member of a local biology and health academic research unit or platform can request access to these resources following the procedure described below. 

The Process

Your administrative manager (usually your laboratory director) and then a Bilille manager must approve your account creation request. Administrative manager approval is required for any use of IT resources. Bilille then checks that your request fits within the platform's scientific perimeter. Then, the mesocenter team will create your account.

In Practice

The request is made by email. You must send a mail from your institutional address to your administrative manager, with a copy to bililleuniv-lillefr and hpcuniv-lillefr.

Subject: Request to open an account on the Lille Mesocentre OpenStack Cloud (Bilille project).

Email text: Ask your manager to authorize you to use the Bilille Cloud by replying to your message with "Reply All". Specify your laboratory, the nature of the project, the software used, your contract end date for fixed-term contracts, and any software licenses.

Example email:

Dear Sir/Madam,

As part of my research, I would like to use the HPC resources of Bilille and the Lille University Computing Centre.
I will, therefore, request access to the OpenStack Cloud, which requires your validation.
To do so, simply reply to this email (via reply all) approving my request.

Research Unit and Team: XXXXX / XXXXX
Establishment: XXXXX
End date: XXXXX
Nature of the project: XXXXX
Software used: XXXXX

Thank you in advance.
Sincerely,

Best Practices and Rules of Use

Before using the cloud for the first time, please read the Bilille Cloud charter (PDF). In this document, you will find useful information: VM lifecycle, data confidentiality, obligations in case of publication, etc. The use of the cloud is conditional on the acceptance of the terms of this charter.

Mailing List

Bilille Cloud users are automatically subscribed to the bilille-cloud-usersuniv-lillefr mailing list. This list has two objectives: to allow the dissemination of information relating to the cloud to users (new resources, modifications to the charter, etc.) on the one hand, and to allow users to contact each other on the other hand (to regulate the sharing of resources, for example).

Documentation

All information on cloud configuration can be found on the Univ. Lille mesocenter documentation: https://hpc-doc.univ-lille.fr/en/docs/category/cloud-openstack/.

Thanks to the pooled funding from the EquipEx+ MuDiS4LS project and the Cross-Disciplinary-Project PIE (Protein-Interaction-Evolution), 22 Nvidia L40S 48Gb GPUs will be progressively installed in the mutualised cluster from late 2024 to mid-2025. In addition, 182TB of storage, usable from the cluster, will be made available for research on these two projects.

Any member of a local biology and health academic research unit or platform can request access to these GPU resources following the procedure described below. 

The Process

Your administrative manager (usually your laboratory director) and then a Bilille representative must approve your account creation request. Administrative manager approval is required for any use of IT resources. Bilille then checks that your request fits within the platform's scientific perimeter. Then, the mesocenter team will create your account.

In Practice

The request is made by email. You must send a mail from your institutional address to your administrative manager, with a copy to bililleuniv-lillefrguillaume.brysbaertuniv-lillefr and hpcuniv-lillefr.

Subject: Request to open an account on the Lille Mesocentre HPC Cluster (Bilille project).

Email text: Ask your manager to authorize you to use the HPC Cluster by replying to your message with "Reply All". Specify your laboratory, the nature of the project, the software used, your contract end date for fixed-term contracts, and any software licenses.

Example email:

Dear Sir/Madam,

As part of my research, I would like to use the HPC resources of Bilille and the Lille University Computing Centre.
I will, therefore, request access to the HPC Cluster, which requires your validation.
To do so, simply reply to this email (via reply all) approving my request.

Research Unit and Team: XXXXX / XXXXX
Establishment: XXXXX
End date: XXXXX
Nature of the project: XXXXX
Software used: XXXXX

Thank you in advance.
Sincerely,

Best Practices and Rules of Use

The use of the storage space is conditional on the acceptance of the mudis4ls-storage charter (PDF).

You must notify bililleuniv-lillefr and hpcuniv-lillefr of any publication or communication of results requiring the use of the HPC Cluster. You must also explicitly acknowledge Bilille and the Université de Lille mesocenter in these publications.

Documentation

All information on the HPC Cluster can be found on the Univ. Lille mesocenter documentation: https://hpc-doc.univ-lille.fr/en/docs/category/cluster-hybride/

Fundings

Bilille local infrastructure is historically hosted and administrated by the Université de Lille mesocenter. Thus, Bilille regularly provides funding for the purchase of computing resources within this mesocenter to guarantee access to dedicated resources.

In 2024, thanks to the EquipEx+ MuDiS4LS project and the Cross-Disciplinary-Project PIE, Bilille is investing in dedicated resources on the mutualised SLURM cluster hosted by the Université de Lille mesocenter.

Funding history:

- GIS IBiSA: in 2023 the funding associated with the GIS IBiSA labeling has enabled the renewal of part of the cloud's resources and to increase our capacity for hosting application.

- Université de Lille call for support: in 2019 and 2021 the Université de Lille through its call for support, has financed the renewal of part of the cloud's resources.

- RENABI-IFB: between 2015 and 2017 the ANR project RENABI-IFB has enabled the creation of the mutualised cloud used by Bilille and its expansion.