Job Details
Software Developer (DevOps)
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Location:

EMBL-EBI Hinxton near Cambridge, UK

Staff Category:

Staff member

Contract Duration:

Until 31.12.2020

Grading:

5 (monthly salary starting at £2,552 after tax). For more information about pay and benefits click here

Closing Date:

17 November 2017

Reference Number:

EBI_01066
Job Description
EMBL-EBI seeks an experienced systems engineer to assist in the design and lead the implementation of high throughput workflows in OpenStack and public cloud environments, following the DevOps methodology.

You will be responsible for designing, implementing and automating the virtual infrastructure (100’s of VMs or containers complete with monitoring and automation) for a large scale scientific workload within a cloud environment and provide training for external collaborators in using this infrastructure. After establishing the virtual infrastructure you will utilise it to run thousands of compute and storage intensive jobs. In particular, you will:
  • Establish a reusable deployment, management and monitoring methodology in an OpenStack environment for scientific workloads
  • Automate bioinformatic pipelines and other workflows for cancer genome analysis
  • Manage the data lifecycle & security
  • Train other users in the use of the cloud-based workflows
You will contribute to cancer research by supporting a team of cutting-edge genomic specialists. Genomic markers can be used to better predict diagnose patients and determine the best therapy for their tumours. Despite the emerging availability of genomic sequencing on cancer samples, the analysis of the data is still a challenge. This is due in large part to the size of the data, which requires substantial capabilities in terms of storage and compute. Processing these large datasets requires robust software solutions that can be deployed in a wide variety of compute infrastructures.

You will work within the Genome Analysis team (led by Daniel Zerbino) and collaborate closely with the Computational Cancer Biology research group (led by Moritz Gerstung), which will provide scientific expertise for algorithmic development, and the Systems Application group, which will provide technical expertise for OpenStack cloud computing on the 6,000 core, 4.5PB Embassy Cloud. The Genome Analysis team is itself part of Ensembl (led by Paul Flicek).

At EMBL-EBI, we help scientists realise the potential of ‘big data’ in biology by enabling them to exploit complex information to make discoveries that benefit mankind. Working for EMBL-EBI gives you an opportunity to apply your skills and energy for the greater good. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 22 member states and two associate member states and proud to be an equal-opportunity employer. We are located on the Wellcome Genome Campus near Cambridge in the UK, and our 600 staff are engineers, technicians, scientists and other professionals from all over the world
Qualifications and Experience
You will have a degree or equivalent qualification/experience in a Computational, Physical or Biological Sciences and the ability to work effectively in English. In addition, you are required to have:
  • Experience of configuration & management of Linux systems to meet the needs of large scale, high throughput applications;
  • Experience of communicating and working with expert technical users (e.g. in a science community);
  • Demonstrable experience deploying & managing workloads in virtual machines or containers on any of the following;
    • OpenStack
    • AWS
    • Google Compute Platform
    • Azure
    • Or equivalent cloud platform
Additionally, the following experiences and skills would be beneficial:
  • Experience in working in large scientific projects, especially in the field of (cancer) genomics
  • Scripting languages (Perl, Python)
  • Git
You must be capable of working autonomously in a timely and detail-oriented fashion, as you will have to keep track of many parallel tasks. You will have excellent English and communication skills and be able to work well within a team.
Benefits
EMBL is an inclusive, equal opportunity employer offering attractive conditions and benefits appropriate to an international research organisation. The remuneration package comprises a competitive salary, a comprehensive pension scheme and health insurance, educational and other family related benefits where applicable, as well as financial support for relocation and installation.
 
We have an informal culture, international working environment and excellent professional development opportunities but one of the really amazing things about us is the concentration of technical and scientific expertise – something you probably won’t find anywhere else.
 
If you’ve ever visited the campus you’ll have experienced first-hand our friendly, collegial and supportive atmosphere, set in the beautiful Cambridgeshire countryside. Our staff also enjoy excellent sports facilities including a gym, a free shuttle bus, an on-site nursery, cafés and restaurant and a library.
Application Instructions
To apply please submit a covering letter and CV, with two referees, through our online system.
Additional Information
Applications are welcome from all nationalities - visa information will be discussed in more depth with applicants selected for interview.

EMBL-EBI is committed to achieving gender balance and strongly encourages applications from women, who are currently under-represented at all levels. Appointment will be based on merit alone.

This position is limited to the contract project duration.

Applications will close at 23:00 GMT on the date listed above.



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