CHAPTER: Computational Environment

[darribas]

Thread to discuss chapter on computational environment and infrastructure. Picks up from gds#8.

[darribas]

I've started drafting this over at ch01_draft. I'll add questions that come to mind here as I'm going along and, once a first draft is ready, I'll suggest we merge the branch so either @sjsrey or @ljwolf can do a pass and review it.

[darribas]

Bits to improve/add:

• Refs to Open Science section (I'm currently marking parts where a ref or two would help as XXXref?XXX)
• Some sections rely a lot on hyperlinks to websites (e.g. section on Python). We need to turn these into either citations, footnotes, or remove them as they won't look good on a book.

[darribas]

OK with #68 now completed, once merged, we can move this draft --> review on the labels and either @ljwolf or @sjsrey can take up as asignee.

[darribas]

Ready for review by either @ljwolf or @sjsrey

[darribas]

@sjsrey added comments and sugested edits on #72

[darribas]

With @darribas for first of the final edits pass

[darribas]

@darribas pass is over at #174

[darribas]

Final passes:

• Dani (Ch2 fpass dab #174)
• Serge
• Levi

[sjsrey]

For further reading:

@Article{Rule_2019,
author = {Rule, Adam and Birmingham, Amanda and Zuniga, Cristal and
Altintas, Ilkay and Huang, Shih-Cheng and Knight, Rob and
Moshiri, Niema and Nguyen, Mai H. and Rosenthal, Sara Brin and
Pérez, Fernando and et al.},
title = {Ten simple rules for writing and sharing computational
analyses in Jupyter Notebooks},
year = 2019,
editor = {Lewitter, FranEditor},
volume = 15,
number = 7,
month = {Jul},
pages = {e1007007},
issn = {1553-7358},
doi = {10.1371/journal.pcbi.1007007},
url = {http://dx.doi.org/10.1371/journal.pcbi.1007007},
journal = {PLOS Computational Biology},
publisher = {Public Library of Science (PLoS)}
}

@Article{rey2009,
ids = {rey2009b},
title = {Show Me the Code: Spatial Analysis and Open Source},
author = {Rey, Sergio J.},
year = {2009},
month = apr,
journal = {Journal of Geographical Systems},
volume = {11},
number = {2},
pages = {191--207},
publisher = {{Springer Science and Business Media LLC}},
issn = {1435-5949},
doi = {10.1007/s10109-009-0086-8},
keywords = {open source},
file = {/home/serge/Zotero/storage/WRV6XGX8/Rey - 2009 - Show me the code spatial analysis and open source.pdf}
}

https://journals.sagepub.com/doi/full/10.1177/0309132515599625