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Murillo Vellasco
Apr 2
Implementation of Adaptive Metropolis Algorithm by Haario et al., + storing rejected points
Hi everyone! I've been using emcee for some time, and for the purposes of our work I had to do
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Implementation of Adaptive Metropolis Algorithm by Haario et al., + storing rejected points
Hi everyone! I've been using emcee for some time, and for the purposes of our work I had to do
Apr 2
Carlo Cannarozzo
,
Dan Foreman-Mackey
2
6/7/23
TypeError: only size-1 arrays can be converted to Python scalars
Hi Carlo, This suggests that your log probability function is returning something that isn't just
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TypeError: only size-1 arrays can be converted to Python scalars
Hi Carlo, This suggests that your log probability function is returning something that isn't just
6/7/23
Zebedee Nicholls
,
David W Hogg
2
3/16/23
Backend for moves
My understanding is that it is hard or even impossible to adjust the emcee move adaptively and still
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Backend for moves
My understanding is that it is hard or even impossible to adjust the emcee move adaptively and still
3/16/23
nmov...@gmail.com
,
Dan Foreman-Mackey
4
12/10/22
How are mutable args handled in EnsembleSampler?
Yeah - I expect you'd get a different set of args for each thread, but I'm not totally sure!
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How are mutable args handled in EnsembleSampler?
Yeah - I expect you'd get a different set of args for each thread, but I'm not totally sure!
12/10/22
Noemi Manara
,
Dan Foreman-Mackey
3
11/24/22
Implementation of the Stretch Move
Now everything is clear to me, thank you very much! Noemi On Thu, Nov 24, 2022 at 4:05 AM Dan Foreman
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Implementation of the Stretch Move
Now everything is clear to me, thank you very much! Noemi On Thu, Nov 24, 2022 at 4:05 AM Dan Foreman
11/24/22
Arianna Foschi
11/21/22
Getting covariance matrix from emcee
Hello everybody, I apologies if this question has already been answered but I couldn't find any
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Getting covariance matrix from emcee
Hello everybody, I apologies if this question has already been answered but I couldn't find any
11/21/22
Nick Sorabella
,
Dan Foreman-Mackey
4
11/4/22
emcee not remembering definitions using multiprocess
Just an update, I did run the code successfully in vscode (still not running in Jupyter notebook). I
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emcee not remembering definitions using multiprocess
Just an update, I did run the code successfully in vscode (still not running in Jupyter notebook). I
11/4/22
A.N.
, …
David W Hogg
3
10/28/22
Implementing periodic or reflective boundary conditions in emcee
The key idea is that the stretch move assumes that the parameter space is a vector space that obeys
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Implementing periodic or reflective boundary conditions in emcee
The key idea is that the stretch move assumes that the parameter space is a vector space that obeys
10/28/22
A.N.
,
Dan Foreman-Mackey
3
10/19/22
Diagnosing very low mean acceptance fraction/ very large autocorrelation time
Thanks very much for your kind offer. I think I sorted out the low acceptance rate and long
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Diagnosing very low mean acceptance fraction/ very large autocorrelation time
Thanks very much for your kind offer. I think I sorted out the low acceptance rate and long
10/19/22
Hui Tong
10/15/22
question on on class emcee.moves.GaussianMove(cov, mode='vector', factor=None)
Hi everyone, I am trying to use simple MH GaussianMove but I am a little confused that For class`
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question on on class emcee.moves.GaussianMove(cov, mode='vector', factor=None)
Hi everyone, I am trying to use simple MH GaussianMove but I am a little confused that For class`
10/15/22
Gregor Boehl
10/10/22
Add DIMEMove
Hi there, I have been working on a move that is intended to provide fast burn-in for high-dimensional
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Add DIMEMove
Hi there, I have been working on a move that is intended to provide fast burn-in for high-dimensional
10/10/22
Hendrik Jennen
9/19/22
Emcee PR 436 with failing unit test
Hi all, Upon implementing a unit test using the KDEMove, I was not able to run the test
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Emcee PR 436 with failing unit test
Hi all, Upon implementing a unit test using the KDEMove, I was not able to run the test
9/19/22
Hendrik Jennen
, …
Will M. Farr
8
9/9/22
Symmetry of stretch move proposal
Hi Will, Thanks a lot for your answer, and especially for showing how to derive the correct ratio of
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Symmetry of stretch move proposal
Hi Will, Thanks a lot for your answer, and especially for showing how to derive the correct ratio of
9/9/22
Efrain
,
Dan Foreman-Mackey
3
8/18/22
Uncertainty of Fitted Parameters are the same
Thank you! That was a helpful hint to what was going on! Turns out that my log_prior function ranges
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Uncertainty of Fitted Parameters are the same
Thank you! That was a helpful hint to what was going on! Turns out that my log_prior function ranges
8/18/22
Haricash Ravi
,
Dan Foreman-Mackey
3
7/1/22
Running a multivariate example in emcee
Oh :facepalm: Thanks a lot for your help, Dan! Arun On Friday, 1 July 2022 at 18:40:22 UTC+5:30
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Running a multivariate example in emcee
Oh :facepalm: Thanks a lot for your help, Dan! Arun On Friday, 1 July 2022 at 18:40:22 UTC+5:30
7/1/22
chakresh singh
, …
Dan Foreman-Mackey
4
6/16/22
Attribute error : run the sampler with 'store==True' before accessing the results
sampler.reset() clears all the stored data so I'm confident that running sampler.reset() and then
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Attribute error : run the sampler with 'store==True' before accessing the results
sampler.reset() clears all the stored data so I'm confident that running sampler.reset() and then
6/16/22
Gade chang
5/19/22
How to fix my model to specfic points?
As the figure shows, the red curve is the model and green is the observed data, I want to fit the
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How to fix my model to specfic points?
As the figure shows, the red curve is the model and green is the observed data, I want to fit the
5/19/22
Nick Wogan
, …
Dan Foreman-Mackey
9
4/11/22
Walkers getting stuck outside uniform priors
Hi all, For those following along, Nick and I chatted off-list a bit and it looks like there was a
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Walkers getting stuck outside uniform priors
Hi all, For those following along, Nick and I chatted off-list a bit and it looks like there was a
4/11/22
linling S
,
Dustin Lang
2
3/30/22
Error when using emcee, multiprocessing and sympy together
Hi, Have you tried simplifying your problem to isolate exactly where the bug is? - multiprocessing
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Error when using emcee, multiprocessing and sympy together
Hi, Have you tried simplifying your problem to isolate exactly where the bug is? - multiprocessing
3/30/22
Peter Pauli
,
Dan Foreman-Mackey
2
2/8/22
Moves diagnostics
Hi Paul, The main metric to use is the required computation per effective sample, but you can't
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Moves diagnostics
Hi Paul, The main metric to use is the required computation per effective sample, but you can't
2/8/22
Radek Poleski
,
Dan Foreman-Mackey
4
1/17/22
posterior probability of modes
Yes - if all the walkers are sufficiently moving between modes then the relative number of samples in
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posterior probability of modes
Yes - if all the walkers are sufficiently moving between modes then the relative number of samples in
1/17/22
NAVIN CHAURASIYA
12/24/21
Does HDF backend slows down with MPI multiprocessing using schwimmbad?
Hi everyone, I tried to use the HDF backend with parallelised walkers (of the order of about 100)
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Does HDF backend slows down with MPI multiprocessing using schwimmbad?
Hi everyone, I tried to use the HDF backend with parallelised walkers (of the order of about 100)
12/24/21
Dr Hogarth
,
Dan Foreman-Mackey
3
11/22/21
Strange behaviour for emcee.autocorr.integratedtime
Hi Lucy, I'll need more details, so I'll email you offlist to try to diagnose the situation.
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Strange behaviour for emcee.autocorr.integratedtime
Hi Lucy, I'll need more details, so I'll email you offlist to try to diagnose the situation.
11/22/21
Deepesh S
, …
Dan Foreman-Mackey
7
11/9/21
How to initialize parameters in emcee
Yes Dan, You are right, I changed my coding after my 1st mail to eliminate the "nan" values
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How to initialize parameters in emcee
Yes Dan, You are right, I changed my coding after my 1st mail to eliminate the "nan" values
11/9/21
Alex Reeves
,
Dan Foreman-Mackey
2
10/20/21
Getting the intrinsic variance for estimators
Hi Alex, The Var(f(theta)) discussed in the docs is actually the posterior variance for the function
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Getting the intrinsic variance for estimators
Hi Alex, The Var(f(theta)) discussed in the docs is actually the posterior variance for the function
10/20/21
Maryam Tajalli
9/23/21
Best way to deal with computationally expensive posteriors
Hello everyone, I am using emcee to sample the parameter space and my posterior function includes an
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Best way to deal with computationally expensive posteriors
Hello everyone, I am using emcee to sample the parameter space and my posterior function includes an
9/23/21
mmenen
, …
Dan Foreman-Mackey
7
9/22/21
Minimal example for using the RedBlueMove
Hi all, this might be a "dumb" question but I have some problems understanding the
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Minimal example for using the RedBlueMove
Hi all, this might be a "dumb" question but I have some problems understanding the
9/22/21
Crispin
, …
Dan Foreman-Mackey
7
9/22/21
Problem with low cpu utilization over mpi
Good question. You need to be a little careful with this and make sure that you check that your
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Problem with low cpu utilization over mpi
Good question. You need to be a little careful with this and make sure that you check that your
9/22/21
Crispin
,
Dan Foreman-Mackey
2
9/22/21
Parallel mixing, burnin and the purpose of RedBlueMove?
It's not "mixing" that's the issue. Your sampler won't satisfy detailed balance
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Parallel mixing, burnin and the purpose of RedBlueMove?
It's not "mixing" that's the issue. Your sampler won't satisfy detailed balance
9/22/21
immu...@gmail.com
9/21/21
what exactly does c do for autocorr.integrated_time and what value to choose?
Hello, I have created some plots of tau for different values of c on a chain for 4 different
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what exactly does c do for autocorr.integrated_time and what value to choose?
Hello, I have created some plots of tau for different values of c on a chain for 4 different
9/21/21