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Dynesty #327

Merged
merged 68 commits into from
Apr 11, 2024
Merged

Dynesty #327

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124af8d
Nested Sampling implementation and testing
thea-mckenna Nov 3, 2022
74bd36f
add dynesty to requirements
sblunt Nov 4, 2022
eab057a
test files
thea-mckenna Nov 17, 2022
53d9e51
fixed gaussian and uniform priors draw_samples()
thea-mckenna Nov 17, 2022
47ec88a
fixed SinPrior draw_samples()
thea-mckenna Nov 21, 2022
1393d09
run_sampler tweaks
thea-mckenna Dec 2, 2022
107dd2c
new tests
thea-mckenna Feb 1, 2023
40240db
fake data changes
thea-mckenna Feb 17, 2023
f518535
fixed Dynesty branch comments
thea-mckenna Feb 17, 2023
88a23ae
nested sampler testing
thea-mckenna Mar 10, 2023
d85d099
new tests
thea-mckenna Mar 30, 2023
38ca2f1
fixed pfrac for static sampler
thea-mckenna Mar 30, 2023
c1b1a45
reseearch note function
thea-mckenna Apr 13, 2023
26007c3
updates to research note function
thea-mckenna Apr 13, 2023
9b13c47
replaced issubclass in ptform
thea-mckenna Apr 20, 2023
6e964d5
edits
thea-mckenna Apr 20, 2023
e9c750c
parallellization!
thea-mckenna May 5, 2023
6e8eb85
num_threads in run_sampler
thea-mckenna May 14, 2023
7dc691f
nested sampler "kill" switch
thea-mckenna Jun 12, 2023
597778c
edited "kill" switch attribute
thea-mckenna Jun 12, 2023
900e07b
Merge branch 'main' into dynesty
sblunt Jun 29, 2023
7ab3615
moved files to personal computer, fixed uncertainty to 2 milliarcseconds
thea-mckenna Jul 5, 2023
61f54f7
delete icloud files
sblunt Jul 5, 2023
101d425
Delete .DS_Store
sblunt Jul 5, 2023
149c965
Delete .DS_Store
sblunt Jul 5, 2023
f7901be
Delete .DS_Store
sblunt Jul 5, 2023
eb80e2f
Delete .DS_Store
sblunt Jul 5, 2023
fb3d53a
add ds_store files to gitignore
sblunt Jul 5, 2023
df63e4d
Merge branch 'dynesty' of https://github.com/sblunt/orbitize into dyn…
sblunt Jul 5, 2023
ebba94c
Merge branch 'main' into dynesty
sblunt Jul 5, 2023
e220f0e
renamed MCMC tutorial
sblunt Jul 5, 2023
4b28943
revert deletion of other tutorials
sblunt Jul 5, 2023
3a6e7bf
add todo list
sblunt Jul 5, 2023
a88a7da
pep8
sblunt Jul 5, 2023
bdf1bf0
kepler's 3rd law bugfix
sblunt Jul 5, 2023
c0cc7b8
change savdir of nested_test
sblunt Jul 5, 2023
3037cd9
fix parallelization & update docs a bit
sblunt Jul 5, 2023
b528ab3
bit of cleanup for e2e tests
sblunt Jul 5, 2023
30b74cf
delete researchnote_func
sblunt Jul 5, 2023
299a8fd
go back to optimized dynesty parallelization method
sblunt Jul 5, 2023
cc5af7a
clean up generate synethetic data documentation
sblunt Jul 5, 2023
eccdf48
clean up unit test a bit; test both dynamic & static samplers
sblunt Jul 5, 2023
5faf0e8
tweaks here and there
sblunt Jul 5, 2023
87cbcb8
don't use mp unless n_threads>1
sblunt Jul 5, 2023
76a7e0d
getting unit tests to pass
sblunt Jul 5, 2023
e6879b3
set default values for generate synthetic data func
sblunt Jul 5, 2023
65b976e
parallelization in tests
sblunt Jul 5, 2023
589b51e
remove kill switch
sblunt Jul 5, 2023
cb1efd2
remove unused var
sblunt Jul 5, 2023
350c043
bugfix
sblunt Jul 5, 2023
49e7bab
actually fixing the bug
sblunt Jul 5, 2023
fa8b4a1
remember when I said I fixed the bug well guess what
sblunt Jul 6, 2023
4d2e0da
bugfix for loguniform transform_samples; pep8 cleanup
sblunt Jul 7, 2023
736725e
fixed no_negatives keyword in GaussianPrior
sblunt Jul 7, 2023
fd6abdb
nested sampler tutorial!
thea-mckenna Jul 20, 2023
a70f04e
don't bootstrap by default
sblunt Nov 18, 2023
59c02a6
Merge branch 'v3' into dynesty
sblunt Jan 12, 2024
dd5468f
in progress updates
sblunt Feb 29, 2024
d7108ed
complete tutorial
sblunt Mar 15, 2024
46a2c6d
make dynesty sampler an attribute of NestedSampler
sblunt Mar 15, 2024
271dafe
restrict angle range in nested e2e test
sblunt Mar 15, 2024
758a27a
Merge branch 'v3' into dynesty
sblunt Mar 15, 2024
dad850e
time nested e2e test
sblunt Mar 15, 2024
75b7507
Merge branch 'dynesty' of https://github.com/sblunt/orbitize into dyn…
sblunt Mar 15, 2024
20bf7a9
lint
sblunt Mar 17, 2024
4dd3c2d
fix loguniform prior bug
sblunt Mar 17, 2024
3786cda
protect e2e nested sampler entry point
sblunt Mar 17, 2024
cc3a076
add keyword for passing kwargs into run_nested()
sblunt Mar 17, 2024
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1 change: 1 addition & 0 deletions .gitignore
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Original file line number Diff line number Diff line change
Expand Up @@ -3,6 +3,7 @@ orbitize/example_data/rebound*.csv
orbitize/example_data/*test.hdf5
.vscode/launch.json
.vscode/settings.json
*.DS_Store

# images & storage files generated by tutorials
*.hdf5
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329 changes: 329 additions & 0 deletions docs/tutorials/dynesty_tutorial.ipynb
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