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Parallel image processing code that identifies C. elegans in images
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pycelegans

Parallel image processing code that identifies C. elegans in images

Contact

David Biron Assistant Professor Department of Physics dbiron@uchicago.edu

Nicholas Labello Scientific Computing Consultant UChicago Research Computing Center labello@uchicago.edu

Note

This code is an ongoing research project. You are encouraged to contact us before installing it.

The requirements to run the code are a Python 2.7 environment and the addons NumPy, SciPy, PyMorph, and Scikits-Image. MPI4Py is required for multi-node parallelism.

Timing

Run on the University of Chicago Research Computing Center Midway cluster (rcc.uchicago.edu). The CPU model is Intel Xeon CPU E5-2670 0 @ 2.60GHz.

Time to process 1000 images

Cores | Visualization-Off 8 | 144.5 16 | 85.5 32 | 46.0 64 | 25.7

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