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Add R extension for accessing GP props #15

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Add R extension for accessing GP props #15

wants to merge 89 commits into from

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elijah-tai
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Addresses issue #11

spocks added 19 commits January 16, 2017 23:18
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elijah-tai commented Feb 14, 2017 •
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Not ready - still have bugs importing GPy modules into R.
Numpy fails to import as well.

Proposing new design (does not use rPython as dep):

  1. Creation of temp files which will have X and single/multiple Y value(s) in specific format to be read by Python script.
  2. Python script reads the temp files, fits GP, and calculate statistics and output them in a new temp file to be read by Xeva.
  3. Xeva prints statistics derived from GPs to user.

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Rebased, and ready for review.

@elijah-tai
Adds full GP functionality
2e5bb9e 
Some further questions:
- [ ] should we delete temp files after processing?
- [ ] is using the replicate ids the right way to go?

Some TODOs:
- [ ] documentation for dependency management (probably a
requirements.txt and a bash script to install using pip)

Addresses issue #11
@elijah-tai elijah-tai requested a review from spocks March 9, 2017 17:25
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elijah-tai commented Mar 9, 2017 •
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TODO after meeting with Arvind:

  • modify getGPStatistics to also return the time, prediction and variance of fit control and case replicates
  • store temp files in randomly generate temp folder
  • delete temp files created by both R and python

@spocks spocks closed this Jul 23, 2020
@spocks spocks deleted the wonjunetai-11 branch July 24, 2020 01:09
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@elijah-tai @spocks @benmbrew @bhaibeka