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Tutorial: Porting An Existing Model (Influenza-Epidemia) To MSR #162

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3b06874
skeleton of tutorial file wo/ code yet ported into it
AFg6K7h4fhy2 Jun 6, 2024
4f90fe4
Merge branch 'main' of github.com:CDCgov/multisignal-epi-inference in…
AFg6K7h4fhy2 Jun 7, 2024
de8e9f7
very minor edit
AFg6K7h4fhy2 Jun 7, 2024
42dbc0f
move some content from sandbox to here
AFg6K7h4fhy2 Jun 11, 2024
e8cb4e8
Merge branch 'main' into 135-UPX3-instantiate-cfas-epidemia-for-flu-m…
AFg6K7h4fhy2 Jun 20, 2024
d9c986c
remove poetry lock
AFg6K7h4fhy2 Jun 20, 2024
d5671aa
further additions; not yet taking into account DHM's math suggestions
AFg6K7h4fhy2 Jun 21, 2024
9a3bc9f
Merge branch 'main' into 135-UPX3-instantiate-cfas-epidemia-for-flu-m…
AFg6K7h4fhy2 Jun 21, 2024
850c9ad
Merge branch 'main' into 135-UPX3-instantiate-cfas-epidemia-for-flu-m…
AFg6K7h4fhy2 Jun 25, 2024
4d0510f
Merge branch 'main' into 135-UPX3-instantiate-cfas-epidemia-for-flu-m…
AFg6K7h4fhy2 Jul 3, 2024
ed59b4d
updating writing here to match my sandbox
AFg6K7h4fhy2 Jul 3, 2024
afb0ae5
merge w/ main to update
AFg6K7h4fhy2 Jul 17, 2024
458d436
merge origin/main
AFg6K7h4fhy2 Jul 22, 2024
24345d1
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 23, 2024
d4c7076
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 25, 2024
6287373
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 25, 2024
e48ce28
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 25, 2024
8817f69
Merge branch 'main' into 135-UPX3-instantiate-cfas-epidemia-for-flu-m…
AFg6K7h4fhy2 Jul 29, 2024
7824381
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 30, 2024
07274df
cfaepim updates
AFg6K7h4fhy2 Jul 30, 2024
23a35cf
update writing section
AFg6K7h4fhy2 Jul 30, 2024
329d68c
try to change observation class and Rt class
AFg6K7h4fhy2 Jul 30, 2024
413b1fd
updated remarks post DHM meeting
AFg6K7h4fhy2 Jul 30, 2024
22043ec
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 30, 2024
3ad461c
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Jul 31, 2024
c5a6b59
add toml to fix deptry
AFg6K7h4fhy2 Jul 31, 2024
263c2b6
again try adding toml
AFg6K7h4fhy2 Jul 31, 2024
e247d57
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 1, 2024
cfd4835
some minor updates to obs and rt
AFg6K7h4fhy2 Aug 1, 2024
47dc45c
correct key context
AFg6K7h4fhy2 Aug 1, 2024
cf34382
DHM updates
AFg6K7h4fhy2 Aug 1, 2024
0fa0712
Update model/src/pyrenew/transformation/builtin.py
AFg6K7h4fhy2 Aug 1, 2024
22f6529
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 2, 2024
d699faa
pre- and post- DHM updates
AFg6K7h4fhy2 Aug 2, 2024
b8b622e
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 5, 2024
1d89894
add logging, need to change init days back to 8
AFg6K7h4fhy2 Aug 5, 2024
fb4916c
logging and reorganizing
AFg6K7h4fhy2 Aug 6, 2024
96d131d
modify obs
AFg6K7h4fhy2 Aug 6, 2024
c69c7ee
dhm comments; samples working; still some bugs w/ step size
AFg6K7h4fhy2 Aug 6, 2024
ccb3925
fix deptry
AFg6K7h4fhy2 Aug 6, 2024
3200f51
add docs, try getting validate, NamedTuple
AFg6K7h4fhy2 Aug 7, 2024
79d1621
vectorization, plotting (unfinished), some diagnostics
AFg6K7h4fhy2 Aug 7, 2024
f00dfb2
fix deptry
AFg6K7h4fhy2 Aug 7, 2024
95a929c
post dhm edits and comments
AFg6K7h4fhy2 Aug 8, 2024
91a5e8a
proper pre-obs
AFg6K7h4fhy2 Aug 8, 2024
03920f7
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 9, 2024
7631432
synth data + forecast + comments
AFg6K7h4fhy2 Aug 12, 2024
51213e5
attempt additional plotting and saving
AFg6K7h4fhy2 Aug 13, 2024
91d6a69
fix deptry
AFg6K7h4fhy2 Aug 13, 2024
ab21c38
slight changes DHM meeting
AFg6K7h4fhy2 Aug 13, 2024
e16752b
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 14, 2024
8b5ac44
further plotting changes; need to add quantile eval. changes back
AFg6K7h4fhy2 Aug 16, 2024
23fd50c
fix arviz from GLM PR
AFg6K7h4fhy2 Aug 16, 2024
d436f8a
template forecasttools usage
AFg6K7h4fhy2 Aug 16, 2024
ec9dd5e
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 19, 2024
2ac7d36
Merge remote-tracking branch 'origin/main' into 135-UPX3-instantiate-…
AFg6K7h4fhy2 Aug 23, 2024
eb35bd5
attempt fix rpy2 issues
AFg6K7h4fhy2 Aug 23, 2024
5b3feac
change sus prior to positive normal
AFg6K7h4fhy2 Aug 23, 2024
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1 change: 1 addition & 0 deletions .pre-commit-config.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -54,3 +54,4 @@ repos:
rev: v1.19.0
hooks:
- id: typos
args: ["--force-exclude"]
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