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Proceedings of the 16th Python in Science Conference (SciPy 2017)

Katy Huff, David Lippa, Dillon Niederhut, M Pacer

July 10 - July 16

Austin, Texas


Organizers | Sponsored Students


SPORCO: A Python package for standard and convolutional sparse representations 1
Brendt Wohlberg

Software Transactional Memory in Pure Python 9
Dillon Niederhut

BespON: Extensible config files with multiline strings, lossless round-tripping, and hex floats 12
Geoffrey M. Poore

LabbookDB: A Wet-Work-Tracking Database Application Framework 20
Horea-Ioan Ioanas, Bechara John Saab, Markus Rudin

pyMolDyn: Identification, structure, and properties of cavities in condensed matter and molecules 28
Ingo Heimbach, Florian Rhiem, Fabian Beule, David Knodt, Josef Heinen, Robert O. Jones

PyHRF: A Python Library for the Analysis of fMRI Data Based on Local Estimation of the Hemodynamic Response Function 34
Jaime Arias, Philippe Ciuciu, Michel Dojat, Florence Forbes, Aina Frau-Pascual, Thomas Perret, Jan M. Warnking

SciSheets: Providing the Power of Programming With The Simplicity of Spreadsheets 41
Alicia Clark, Joseph L. Hellerstein

The Sacred Infrastructure for Computational Research 49
Klaus Greff, Aaron Klein, Martin Chovanec, Frank Hutter, Jürgen Schmidhuber

FigureFirst: A Layout-first Approach for Scientific Figures 57
Theodore Lindsay, Peter T. Weir, Floris van Breugel

Parallel Analysis in MDAnalysis using the Dask Parallel Computing Library 64
Mahzad Khoshlessan, Ioannis Paraskevakos, Shantenu Jha, Oliver Beckstein

MatchPy: A Pattern Matching Library 73
Manuel Krebber, Henrik Bartels, Paolo Bientinesi

pulse2percept: A Python-based simulation framework for bionic vision 81
Michael Beyeler, Geoffrey M. Boynton, Ione Fine, Ariel Rokem

Optimised finite difference computation from symbolic equations 89
Michael Lange, Navjot Kukreja, Fabio Luporini, Mathias Louboutin, Charles Yount, Jan Hückelheim, Gerard J. Gorman

Python meets systems neuroscience: affordable, scalable and open-source electrophysiology in awake, behaving rodents 98
Narendra Mukherjee, Joseph Wachutka, Donald B Katz

Accelerating Scientific Python with Intel Optimizations 106
Oleksandr Pavlyk, Denis Nagorny, Andres Guzman-Ballen, Anton Malakhov, Hai Liu, Ehsan Totoni, Todd A. Anderson, Sergey Maidanov

NEXT: A system to easily connect crowdsourcing and adaptive data collection 113
Scott Sievert, Daniel Ross, Lalit Jain, Kevin Jamieson, Rob Nowak, Robert Mankoff

ChiantiPy: a Python package for Astrophysical Spectroscopy 120
Will T. Barnes, Kenneth P. Dere