Add PyMC3 sampler (!139) · Merge requests · lscsoft / bilby · GitLab

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Merged Matthew David Pitkin requested to merge matthew-pitkin/bilby:pymc3 into master 6 years ago

Aug 23, 2018
- Add theano to optional_requirements.txt · ee968514
  Matthew David Pitkin authored 6 years ago
  
  ee968514
- sampler.py: tidy up PyMC3 prior map dictionary · 3760dcb8
  Matthew David Pitkin authored 6 years ago
  
  3760dcb8
- likelihood.py: remove args and kwargs from Likelihood log_likelihood method · 3a8a278e
  Matthew David Pitkin authored 6 years ago
  
  3a8a278e
Aug 21, 2018
- Merge branch 'master' into pymc3 · 58f9cd19
  Matthew David Pitkin authored 6 years ago
  
  58f9cd19
Aug 20, 2018
- sampler.py: add new likelihood functions to PyMC3 runner · d6180af6
  Matthew David Pitkin authored 6 years ago
  
  d6180af6
- sampler.py: add mappings of new priors to PyMC3 equivalents · 197384bb
  Matthew David Pitkin authored 6 years ago
  
  197384bb
- Merge branch 'master' into pymc3 · 07d55349
  Matthew David Pitkin authored 6 years ago
  
  07d55349
Aug 13, 2018
- Allow PyMC3 prior to be set through the Prior ln_prob method - added this to PyMC3 example · a7654deb
  Matthew David Pitkin authored 6 years ago
  
  a7654deb
- likelihood.py: remove definition of pymc3_likelihood from Likelihood class... · 77283738
  Matthew David Pitkin authored 6 years ago
  
  likelihood.py: remove definition of pymc3_likelihood from Likelihood class definition as this it no longer required
  77283738
- Add example of defining a custom likelihood for PyMC3 · 7fca9723
  Matthew David Pitkin authored 6 years ago
  
  7fca9723
- Some changes to the structure of the Pymc3 sampler class with regard to how... · 704e2c29
  Matthew David Pitkin authored 6 years ago
  
  Some changes to the structure of the Pymc3 sampler class with regard to how the context managers are applied
  704e2c29
- radioactive_decay.py: change scaling of N0 (very small values on prior cause problems with Pymc3) · 547f448c
  Matthew David Pitkin authored 6 years ago
  
  547f448c
- sampler.py: ignore DeltaFunctions in output samples for Pymc3 · ed3fbde5
  Matthew David Pitkin authored 6 years ago
  
  ed3fbde5
- sampler.py: remove unnecessary print statement · 841bdef0
  Matthew David Pitkin authored 6 years ago
  
  841bdef0
- Allow PyMC3 step name to be passed to code · 53d27a61
  Matthew David Pitkin authored 6 years ago
  
  53d27a61
- sampler.py: minor fix · 92e4b033
  Matthew David Pitkin authored 6 years ago
  
  92e4b033
- Move PyMC3 specific likelihood functions into the sampler class · d17fb19e
  Matthew David Pitkin authored 6 years ago
  
  d17fb19e
- sampler.py: fix bug · 9fc0969f
  Matthew David Pitkin authored 6 years ago
  
  9fc0969f
- sampler.py: add mapping of tupak PowerLaw prior to PyMC3 prior · 58963dfc
  Matthew David Pitkin authored 6 years ago
  
  58963dfc
- Start adding custom PyMC3 priors for distributions that are not in PyMC3 · 73687567
  Matthew David Pitkin authored 6 years ago
  
  - rework how the Pymc3 sampler class sets the priors
  73687567
- likelihood.py: add pymc3_likelihood method for PoissonLikelihood class · 195e300d
  Matthew David Pitkin authored 6 years ago
  
  195e300d
- Move setting of PyMC3 priors: · 76509005
  Matthew David Pitkin authored 6 years ago
  
  - move the setting of the PyMC3 priors into the Pymc3 sampler class
  76509005
- Remove use_pymc3 arguments from Prior class as not required · d3100cd0
  Matthew David Pitkin authored 6 years ago
  
  d3100cd0
- prior.py: add pymc3_prior method to Gaussian prior · 5de653b8
  Matthew David Pitkin authored 6 years ago
  
  5de653b8
- Move setting of PyMC3 prior into Prior class · 1abfa584
  Matthew David Pitkin authored 6 years ago
  
  1abfa584
- linear_regression_pymc3.py: use draws kwarg · 7aaab5fe
  Matthew David Pitkin authored 6 years ago
  
  7aaab5fe
- prior.py: do not need to add new sample method · cd59aab3
  Matthew David Pitkin authored 6 years ago
  
  cd59aab3
- Add working example of using the PyMC3 sampler · 254481f4
  Matthew David Pitkin authored 6 years ago
  
  254481f4
- Adding PyMC3 sampler: · cb5440b2
  Matthew David Pitkin authored 6 years ago
  
  - this is the start of adding functionality to use the PyMC3 sampler. There is a lot more that needs doing, but the basics work.
  cb5440b2