Project Jupyter: Architecture and Evolution of an Open Platform for Modern Data Science

Lecture presented at BIDS, the Berkeley Institute for Data Science on April 17, 2018. Description and video of the talk:

https://bids.berkeley.edu/resources/videos/project-jupyter-architecture-and-evolution-open-platform-modern-data-science

Code for Polyglot DS demo: http://nbviewer.jupyter.org/gist/fperez/5b49246af4e340c37549265a90894ce6/polyglot-ds.ipynb

Transcript

1. Fernando Pérez fernando.perez@berkeley.edu Building an open platform for research and education in data science Project Jupyter
2. A few bits about me Medellín, Colombia University of Colorado, Boulder Physics Applied Math Computation
3. Statistics & me: then and now If your result needs a statistician then you should design a better experiment (prob. mis-attributed) E. Rutherford PhD: Lattice QCD Simulations
4. Why?
5. Why? ❖ Ethical: openness as fairness ❖ Human/social: openness fosters collaboration. ❖ Epistemological: proprietary science is an oxymoron. ❖ Technical: Python was cool :)
6. Python - The Beginning the most important lesson I learned was about sharing – Guido van Rossum http://neopythonic.blogspot.com/2016/04/kings-day-speech.html Slide credit: C. Willing
7. Designed for Learning In reality, programming languages are how programmers express and communicate ideas — and the audience for those ideas is other programmers, not computers. http://neopythonic.blogspot.com/2016/04/kings-day-speech.html – Guido van Rossum Slide credit: C. Willing
8. What?
10. IPython: Interactive Python, 2001 A humble start: IPython 0.0.1, 259 LOC “Just an afternoon hack” https://gist.github.com/fperez/1579699
11. Team today: where all the credit goes Plus ~ 1500 more Open source contributors!
12. The IPython/Jupyter Notebook ❖ Rich web client ❖ Text & math ❖ Code ❖ Results ❖ Share, reproduce.
13. Core ideas of the web: HTTP & HTML HTML: format to represent content HyperText Markup Language HTTP: protocol to connect clients and servers HyperText Transport Protocol Image credit: eviltester.com
14. Core ideas of Jupyter Document Format https://github.com/CamDavidsonPilon/Probabilistic-Programming-and-Bayesian-Methods-for-Hackers Interactive Computing Protocol SUB SUB DEAL Client SUB DEAL DEAL DEAL ROUT PUB ROUT ROUT Kernel ØMQ + JSON
15. Jupyter Protocol web-age capture of the process of interactive computing any mime-type output ❖ text ❖ svg, png, jpeg ❖ latex, pdf ❖ html, javascript ❖ interactive widgets
16. Jupyter Protocol is language agnostic u a l j i ~100 different kernels: https://github.com/jupyter/jupyter/wiki/Jupyter-kernels
18. Classic ‘Notebook’…
19. JupyterLab: a grand unified theory of Jupyter Huge Team Effort! C. Colbert, S. Corlay, A. Darian, B. Granger, J. Grout, P. Ivanov, I. Rose, S. Silvester, C. Willing, J. Zosa-Forde …
20. Live Demo!
21. Reproducible Research An article about computational science in a scientific publication is not the scholarship itself, it is merely advertising of the scholarship. The actual scholarship is the complete software development environment and the complete set of instructions which generated the figures. Buckheit and Donoho, WaveLab and Reproducible Research, 1995
26. JupyterHub: multiuser support
27. CODING ENVIRONMENT AUTHENTICATION Slides credit: C. Holdgraf
28. What does this mean for science + education? ❖ Can utilize… ❖ ...shared hardware/compute for running code ❖ ...shared data storage for big datasets ❖ ...shared environments for doing work ❖ ...shared workflows, ideas, and results
29. CODING ENVIRONMENT AUTHENTICATION FANCY HARDWARE
30. CODING ENVIRONMENT AUTHENTICATION CONTENT ON THE WEB
31. mybinder.org: shareable reproducibility github.com/freeman-lab Explicit Dependencies + + Origins
32. CONTENT ON THE WEB ON-DEMAND ENVIRONMENTS BinderHub
34. A long time ago in a galaxy far, far away… Rµ⌫ 1 2 R gµ⌫ + ⇤gµ⌫ = 8⇡G c4 Tµ⌫ <latexit sha1_base64="YC1B4aBScjwbH91PFK5cn2nrvCY=">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</latexit> <latexit sha1_base64="YC1B4aBScjwbH91PFK5cn2nrvCY=">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</latexit> <latexit sha1_base64="YC1B4aBScjwbH91PFK5cn2nrvCY=">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</latexit> <latexit sha1_base64="YC1B4aBScjwbH91PFK5cn2nrvCY=">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</latexit> Einstein’s Field Equations of General Relativity Annalen der Physik, 1916
35. Two identical detectors: Hanford, WA and Livingston, LA LIGO: a feat of science & engineering Detection problem: • ~ 1/1000 proton over 4 km. • Sensitivity ~ 1e-21 • Milky Way: 1e+21m across!
36. September 14, 2015
37. The song of the universe Using the IPython.display.Audio object
38. LIGO: Open Science with Jupyter
39. Binder: reproducible, executable scholarship from averaging ~150 people per week to averaging ~2,900 people per week Berkeley: Yuvi Panda, Chris Holdgraf Cal Poly: Carol Willing Simula: Min Ragan-Kelley Jessica Zosa-Forde, Tim Head
40. A tool FOR research, a subject OF research
41. Anatomy of a notebook http://adamrule.com/files/papers/chi_2018_computational_notebooks_final_web.pdf https://blog.jupyter.org/we-analyzed-1-million-jupyter-notebooks-now-you-can-too- guest-post-8116a964b536 Structure and design • Adam Rule et al. (UCSD) • analyzed 1 million notebooks • design opportunities • Dataset is PUBLIC! Slide credit: C. Willing
42. Education
43. Berkeley’s Data Science Courses http://data8.org ❖ Freshmen & upper division ❖ Interactive textbooks: Jupyter Notebooks ❖ Course deployment: JupyterHub http://ds100.org
44. DataHub datahub.berkeley.edu Supporting 2,500+ users Being used for Data 8, as well as several other courses Requires @berkeley.edu to access Running on Azure with almost zero maintenance Slide: C. Holdgraf
45. Data 8 & Data100: massive uptake D100 Sp18: ~650 students D8 Sp18: ~1,100 students
46. Fastest growing courses in Berkeley history Thanks to
 Yuvi Panda (DSEP), Ryan Lovett (Statistics), DSEP team
47. Berkeley in a few years… “We are witnessing a monumental phase shift in data science knowledge on campus - undergrads are extremely well trained…” Ciera Martinez, BIDS Fellow
48. Today! (April 17, 2018)
49. From K-12 to HPC !
50. Wide industrial adoption
51. 2018! Save 20% with PJ20 jupytercon.com @JupyterCon
52. You may have seen this last week :) https://www.theatlantic.com/science/archive/2018/04/the-scientific-paper-is-obsolete/556676
53. The world of science and education wants open platforms https://github.com/parente/nbestimate ~1.7M notebooks on GitHub in Jan 2018
54. Back to openness: ethics and inclusion
55. Jupyter @ Berkeley and LBNL
56. Funding and resources
57. Thank You!