Replacing PyMC3 plots w/ Arviz plots & sigma Param change [Part 5]

[CloudChaoszero]

Description

The following is a large PR breakdown of PR #16.

Replace PyMC3 dependent plots with arviz plots in case studies & examples.

• The issue is a 3-part step for the following:
  • Initiative via Issue Remove Plots & Diagnostics from PyMC Code Base pymc#4371 (Leave open)

Replace parameter sd with sigma (e.g. some examples have pm.Normal(...sd=...)

• Closes issue Use sigma instead of sd #2

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[twiecki]

This plot isn't displaying for some reason.

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[CloudChaoszero]

Yeah, I realized I didn't properly re-run the notebook. In order to do so, I resolved issues like:

• Specifying core param on pm.sample
• Update submodule ref (e.g From theano.Op to theano.tensor.Op)

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twiecki commented on 2021-03-14T11:29:40Z
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which pymc3 version is this?

CloudChaoszero commented on 2021-03-15T02:23:59Z
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3.11, added it the respective print statement now :D

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twiecki commented on 2021-03-14T11:29:41Z
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Why is NUTS tuning failing here? maybe only try adapt_diag.

CloudChaoszero commented on 2021-03-15T02:03:48Z
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Yeah, I'm unsure why as well. I get a sampling error when using adapt_diagor other adapter types....unsure why.

The error

SamplingError: Bad initial energy

in particular is in the next comment after this (seen in Github UI)

CloudChaoszero commented on 2021-03-15T03:03:20Z
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Added here https://github.com//issues/43

[CloudChaoszero]

Yeah, I'm unsure why as well. I get a sampling error when using adapt_diagor other adapter types....unsure why.

The error

SamplingError: Bad initial energy

in particular is in the next comment after this (seen in Github UI)

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Updated after ReviewNB comment ^^^

[CloudChaoszero]

3.11, added it the respective print statement now :D

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[CloudChaoszero]

Added here https://github.com//issues/43

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