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Fix bugs related in non-integer ratios with thin #21

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Fix bugs related in non-integer ratios with thin #21

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21336ab
fix index error in chain arrays
paulthebaker Aug 18, 2021
b5f6c9e
update _writeToFile docstring
paulthebaker Aug 18, 2021
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8 changes: 4 additions & 4 deletions PTMCMCSampler/PTMCMCSampler.py
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Original file line number Diff line number Diff line change
Expand Up @@ -179,7 +179,7 @@ def initialize(
self.neff = neff
self.tstart = 0

N = int(maxIter / thin)
N = int(np.ceil(maxIter / thin))

self._lnprob = np.zeros(N)
self._lnlike = np.zeros(N)
Expand Down Expand Up @@ -710,9 +710,9 @@ def temperatureLadder(self, Tmin, Tmax=None, tstep=None):

def _writeToFile(self, iter):
"""
Function to write chain file. File has 3+ndim columns,
the first is log-posterior (unweighted), log-likelihood,
and acceptance probability, followed by parameter values.
Function to write chain file. File has ndim+4 columns,
appended to the parameter values are log-posterior (unnormalized),
log-likelihood, acceptance rate, and PT acceptance rate.

@param iter: Iteration of sampler

Expand Down