"Research for a life without cancer" is our mission at the German Cancer Research Center. We investigate how cancer develops, identify cancer risk factors and look for new cancer prevention strategies. We develop new methods with which tumors can be diagnosed more precisely and cancer patients can be treated more successfully. Every contribution counts – whether in research, administration or infrastructure. This is what makes our daily work so meaningful and exciting.

The Omics IT & Data Management Core Facility of the German Cancer Research Center (DKFZ) provides automated workflow analyses and data management of research and patient data, including data from clinical studies.

To strengthen our team we are looking for the next possible date for a

Your Tasks

We are looking for an experienced software developer to work at the interface of the two in-house developed open-source applications WESkit (https://gitlab.com/one-touch-pipeline/weskit) and OTP (https://gitlab.com/one-touch-pipeline/otp). WESkit is a Workflow Execution Service (https://github.com/ga4gh/workflow-execution-service-schemas) and submits bioinformatic workflows implemented with Snakemake or Nextflow into our high-throughput cluster. The One Touch Pipeline (OTP) is a metadata management and workflow orchestration system specialized on biological high-throughput data. The stakeholders of these systems are data managers, biologists and bioinformaticians, project managers, and system adminstrators.

Your short-term goal will be to develop WESkit to production-level and establish it as backend service for OTP. You will work in a small distributed team on implementing the last missing features of WESkit. In Heidelberg, you will support the OTP team in deploying and running WESkit and collaboratively finding solutions for any occuring problems.

Long-term, you will continue to work with the OTP team on operating WESkit and adapting it to changing requirements. Additionally, you can share your software-development expertise in other the research software projects. Dependent on your expertise and interests, and our needs, this may encompass working on any of the diverse in-house (including open-source) projects, such as data-provisioning analysis services and workflows.

Your Profile

Your profile (Required):

• Good knowledge of English (equivalent to CERF B2 or better); knowledge of German is not required but advantageous
• A university degree (including of applied sciences) in computer science, or a related field
• The ability to communicate with diverse stakeholders to solve their problems
• Willingness to maintain and improve legacy software
• The ability to quickly understand new technologies and effectively put them into application
• Experience writing production-quality software (e.g., testing, continuous integration)

Technical Skills (Required):

• Python (including typed Python using Mypy), Celery, Flask
• Container technologies, in particular Docker and Apptainer
• Basic experiences with high-throughput cluster systems, such as IBM LSF or SLURM
• Experience with LINUX

Bonus Skills:

• Software design and architecture
• Experience in the bioinformatic domain, such as with bioinformatic workflow manangement systems like Snakemake and Nextflow
• Experience in a regulated context (e.g., IEC 62304, ISO 15189)

We Offer

Are you interested?

Then become part of the DKFZ and join us in contributing to a life without cancer!

Share this job!