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Feature/post taup 2021 frequentist analysis #65

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Feature/post taup 2021 frequentist analysis #65

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feature branch contains processors used to do Phase II frequentist analysis.

casesyh and others added 30 commits June 25, 2020 23:03
@casesyh
fixed gas_scatter_proportion tested
0b00553
@casesyh
add chi2 calculation
9bf9ca2
@casesyh
fix the checking of scatter spectra file
bb0bc61
@casesyh
fix the checking of scatter spectra file
fab92a7
@casesyh
internal config error
c173168
@casesyh
fix magnetic field mismatch between notebook and mermithid result
fa62da5
@casesyh
add radiation loss
96f1259
@casesyh
check in before adding file for composite trap fitting
a27dc40
@casesyh
composite gaussian resolution function implemented
021156b
@casesyh
add poisson chi2
6727ea2
@casesyh
update KrComplexLineShape to use simulated resolution for fake data g…
5a8fae7 
…enerator
@casesyh
add convolve_ins_resolution
69617b9
@casesyh
resolve probabilities containing NaN
6ac5ac1
@casesyh
testing stan analysis test scripts in termite
d5d090a
@casesyh
use termite script for testing
a582ef7
@casesyh
update the files
e04a4f3
@casesyh
delete configuration for magnetic field
be09e5a
@casesyh
make path_to_ins_resolution_data_txt configurable in fake_data_stan_a…
5825a96 
…nalysis.py configurable
@casesyh
test resolution function configurable
352c672
@taliaweiss
Loading/using simulated resolution file
d5ddea3
@taliaweiss
Adopting YuHao's simulated res file naming
1494fd0
@taliaweiss
Sample simulated resolution counts rates to account for errors
186ee0f
@casesyh
add MultiGAsComplexLineShape.py
10c08f3
@casesyh
np.random in convolve_ins_resolution
7c013dc
@casesyh
update convolve_ins_resolution_combining_four_trap
cc4f411
@casesyh
update convolve_ins_resolution_combining_four_trap
bd27aaa
@taliaweiss
started adding new options re ins resolution
acf830a
@taliaweiss
Merge branch 'simulated_ins_resolution_in_fake_data_generator' of htt…
5fd5dde 
…ps://github.com/project8/mermithid into simulated_ins_resolution_in_fake_data_generator
@casesyh
add dirac peak option to every make_spectrum
3231065
@casesyh
change fix_ftc to use_simulated_inst_reso
0d6cd30
cclaessens and others added 27 commits November 10, 2022 15:34
@cclaessens
returning LL given true mass model instead of tue data
9e5354f
@cclaessens
use neg neg likelihood to get constrained result
bc2aa39
@cclaessens
back to only using true mass
ada791c
@cclaessens
back to just using pos loglikelihood
bbb7da5
@cclaessens
added ll normalization
6ff097e
@cclaessens
comparing likelihoods of given all but mass parameter true
b5dde80
@cclaessens
more normalization and using other parameters' best fit values again
2099fd5
@cclaessens
swapped expectation and observation for likelihood ratio
c45bf05
@cclaessens
commented elif resolution is gaussian. also changed number of detecto…
6282e29 
…r response stepsize back to old default.
@cclaessens
adding frequency variation with gaussian resolution. Also adding effi…
09c8ad1 
…icency function for sampling before interpolation.
@cclaessens
Sampling simulated resolution once during configuration.
a91751e
@cclaessens
Response energy stepzise can be modified. Efficiency is sampled first…
de870bd 
…, then interpolated.
@cclaessens
Merge branch 'feature/FakeDataGeneratorUpdate' into feature/post_taup…
9ff9f99 
…_2021_frequentist_analysis
@cclaessens
added correlation from max SNR of p q with width resolution in freque…
f600baf 
…ntist analysis.
@cclaessens
using actual max SNR uncertainty on sigma
657a56e
@cclaessens
preparing for FC jobs
4aa16cd
@cclaessens
preparing for llnl FC jobs
f450296
@cclaessens
making -mbeta² model configurable
6493d58
@cclaessens
trying mean priors instead of best fits for other parameters to gener…
1d296d7 
…age FC plot
@cclaessens
going back to using best fit values
7de4327
@cclaessens
setting background to zero
da47a46
@cclaessens
using prior means again for likelihood calculation
e71f3b1
@cclaessens
back to setting background 0 in LL ratio calculation
2a46342
Updated Cicada (v1.4.1) and Phylloxera (v1.3.1)
26cb45e
Update Scarab and Cicada option setting
2d1f818
Don't update pip3 (some version shear problem)
c7b8703
Updated .gitignore to exclude build directories
c7ab6c3
@taliaweiss taliaweiss self-assigned this Oct 31, 2024
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@casesyh casesyh Awaiting requested review from casesyh

@benanator77 benanator77 Awaiting requested review from benanator77

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@cclaessens @taliaweiss @casesyh @huyanxy @Juliana-S