Senior HPC Engineer

Clearance Level
Systems Engineering
Hamilton, Montana

REQ#: RQ119224

Travel Required: Less than 10%
Public Trust: NACLC (T3)
Requisition Type: Regular
We are seeking a Sr. High Performance Computing Engineer to join our team to support National Institutes of Allergy and Infectious Diseases (NIAID) activities at the Hamilton, Montana, Rocky Mountain Laboratories campus. As a Senior High Performance Computing Engineer, you will be working with a 500+ core HPC cluster, implementing and supporting bioinformatics applications for a large research community, and creating scalable and optimal solutions.

In this role, a typical day will include:

  • Maintaining a 500+ core high performance compute cluster designed to support genomics, molecular dynamics, cryo-EM analysis, proteomics, phylogenetics, and deep learning research
  • Developing and implementing innovative and complex solutions, ensuring that upgrades and changes comply with established guidelines and processes
  • Monitoring and reporting on cluster performance, install and configure complex bioinformatics applications, and assist with the resolution of the most difficult system problems
  • Helping further develop and execute high performance computing solutions using cluster/grid technologies
  • Collaborating with researchers understanding their scientific pipelines, implementing efficient, technical solutions
  • Advising on HPC technology directions and investments and making technical presentations to other technical personnel and department leadership


  • BA/BS or equivalent and 10 years related experience or a MS and eight years’ experience
  • Minimum of five years of experience with Linux/Unix variants, especially RedHat/RHEL and its derivatives
  • Experience supporting scientific applications and ability to compile, package, install, and upgrade software as well as troubleshooting application issues
  • Scripting experience in Python and other languages (e.g. bash, R, Perl, Ruby)
  • Automation/configuration management experience (e.g. Puppet, Ansible, Chef, Salt)
  • Experience with revision control tools, such as git/github, cvs, and svn.
  • Ability to clearly present ideas to both technical and non-technical users in formal and informal settings
  • Good decision-making skills and leadership ability to assist with management of project portfolio and daily operations for team
  • Experience managing HPC software with Spack, EasyBuild, Modules, or other common HPC tools
  • Must be able to obtain a NIH Public Trust


  • Minimum of five years of experience supporting high performance clusters with Grid Engine (in any variant) or Slurm Workload Manager
  • Experience with assisting researchers with configuring job submission scripts 
  • Hands-on experience supporting IBM Spectrum Scale (formerly known as IBM GPFS)
  • Experience architecting and supporting InfiniBand networks
  • Experience running parallel jobs with OpenMP or MPI
  • Knowledge of GPU computation and CUDA
  • Experience supporting LDAP/IPA, NFS, Samba, Web servers
  • Versed in science and scientific software, life science tools, bioinformatics
  • Experience working and collaborating in an academic environment
  • Experience in customer collaborations involving scientific research supported by high performance computing infrastructure




About Our Work

We are GDIT. The people supporting some of the most complex government, defense, and intelligence projects across the country. We deliver. Bringing the expertise needed to understand and advance critical missions. We transform. Shifting the ways clients invest in, integrate, and innovate technology solutions. We ensure today is safe and tomorrow is smarter. We are there. On the ground, beside our clients, in the lab, and everywhere in between. Offering the technology transformations, strategy, and mission services needed to get the job done.

COVID-19 Vaccination

GDIT does not have a vaccination mandate applicable to all employees. To protect the health and safety of its employees and to comply with customer requirements, however, GDIT may require employees in certain positions to be fully vaccinated against COVID-19. Vaccination requirements will depend on the status of the federal contractor mandate and customer site requirements.

GDIT is an Equal Opportunity/Affirmative Action employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, or veteran status, or any other protected class.