[3dem] Software Developer Position at the Simons Electron Microscopy Center

[Clint Potter]

Software Developer at the Simons Electron Microscopy Center

The Simons Electron Microscopy Center (SEMC) (https://urldefense.proofpoint.com/v2/url?u=https-3A__semc.nysbc.org&d=DwIGaQ&c=-35OiAkTchMrZOngvJPOeA&r=L7-zyQ-04fFCMRqzLIOnx7H0exGZHwIQe_wMPuY600I&m=guFcFrsJg2ovpSwixb2wv-_CPyXnsy2mIVFId1S7bQEHeriDM2e9MX8PYfO7YtcB&s=BHSSYBzyqbvUt3HMZpDBL6w1XS_EqExmVKUUu0zJbfA&e= ) is one of the leading cryo electron microscopy centers in the world. Software and computing infrastructure is a critical component in a pipeline that enables collection, management and analysis of very large volumes of data. SEMC supports a national user community and is a “center of centers” including the following:

 The National Resource for Automated Molecular Microscopy (NRAMM) is a NIH Biotechnology resource that focuses on technology development for cryoEM and is driven by biological projects
 The National Center for CryoEM Access and Training (NCCAT) is a NIH Common Fund center that provides access and training to the national academic community
 The National Center for In-situ Tomographic Ultramicroscopy (NCITU) is a NIH Common Fund center to provides access and training for preparing in situ specimens for cryo electron tomography (cryoET)
 The Simons Machine Learning Center is a new initiative that will focus on developing machine learning methods to accelerate protein structure determination.

The SEMC computing group provides and supports the computing infrastructure essential to the collection and analysis of image data generated by 8 high-end electron microscopes and a range of supporting instruments. The group is responsible for overseeing and maintaining control software, data collection, data management, and the network of computers that enable the work of more than 1,000 users from the national community.

We are seeking a web developer to extend and maintain software applications that electron microscope users and operators utilize to manage data collection and computation. The candidate must have experience in developing applications in an environment that is largely based on Linux, MySQL, PHP, Python and Django, as well as familiarity with UI/UX concepts.

The software developer will be responsible for:

 Maintaining and extending existing software applications
 Collaborating with microscope operators on functionality and features
 Working with system administrators to create front-end / back-end standards
 Becoming familiar with Leginon, a system designed for automated collection of images from a transmission electron microscope
 Rebuilding some applications to utilize new back-end systems functionalities
 Integrating with local infrastructure services consisting of OpenLDAP and MySQL
 Maintaining source code in Git

Please send inquiries to: Bruno Scap ( bscap at nysbc.org)


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Clint Potter
NRAMM: National Resource for Automated Molecular Microscopy
NCCAT: National Center for CryoEM Access and Training
NCITU: National Center for In-situ Tomographic Ultramicroscopy
Simons Electron Microscopy Center
New York Structural Biology Center
89 Convent Ave., New York, NY 10027
(212) 939-0660 x301
cpotter at nysbc.org

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