pymc-devs / pymc3 / 4555
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Added live_traceplot function (#1934)

* Added live_traceplot function

* Cosmetic change

* Changed the API to pm.sample(..., live_plot=True)

* Don't include `-np.inf` in calculating average ELBO (#1880)

* Adds an infmean for advi reporting

* fixing typo

* Add tutorial to detect sampling problems (#1866)

* Expand sampler-stats.ipynb example

include model diagnose from case study example in Stan http://mc-stan.org/documentation/case-studies/divergences_and_bias.html

* Sampler Diagnose for NUTS

* descriptive annotation and axis labels

* Fix typos

* PEP8 styling

* minor updates

1, add example to examples.rst
2, original content in Markdown code block

* Make install scripts idempotent (#1879)

* DOC Change heading names.

* Add examples of censored data models (#1870)

* Raise TypeError on non-data values of observed (#1872)

* Raise TypeError on non-data values of observed

* Added check for observed TypeError

* Make exponential mode have the correct shape

* Fix support of LKJCorr

* Added tutorial notebook on updating priors

* Fixed y-axis bug in forestplot; added transform argument to summary

* Style cleanup

* Made small changes and executed the notebook

* Added probit and invprobit functions

* Added carriage return to end of file

* Fixed indentation

* Changed probit test to use assert_allclose

* Fix tests for LKJCorr

* Added warning for ignoring init arguments in sample

* Kill stray tab

* Improve performance of transformations

* DOC Add new features

* Bump version.

* Added docs and scripts to MANIFEST

* WIP: Implement opvi (#1694)

* migrate useful functions from previous PR

(cherry picked from commit 9f61ab4)

* opvi draft

(cherry picked from commit d0997ff)

* made some test work

(cherry picked from commit b1a87d5)

* refactored approximation to support aevb (without test)

* refactor opvi

delete unnecessary methods from ... (continued)

37 of 37 new or added lines in 2 files covered. (100.0%)

10427 of 12106 relevant lines covered (86.13%)

1.35 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
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14
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Uncovered Existing Lines

Lines Coverage ∆ File
1
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 pymc3/vartypes.py
2
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 pymc3/tests/test_sampling.py
Jobs
ID Job ID Ran Files Coverage
4 4555.4 (PYTHON_VERSION=3.6 TESTCMD=" -vv --with-timer --with-coverage --cover-package=pymc3 -e test_examples -e test_distributions") 0
76.85
 Travis Job 4555.4
5 4555.5 (PYTHON_VERSION=3.6 TESTCMD=" -vv --with-timer --with-coverage --cover-package=pymc3 pymc3.tests.test_distributions pymc3.tests.test_examples") 0
32.55
 Travis Job 4555.5
6 4555.6 (PYTHON_VERSION=3.6 TESTCMD=" -vv --with-timer --with-coverage --cover-package=pymc3 pymc3.tests.test_distributions_random") 0
25.9
 Travis Job 4555.6
Source Files on build 4555
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