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Issue 350: Optimise stan via profiling #501

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merged 19 commits into from
Aug 22, 2024
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Issue 350: Optimise stan via profiling #501

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20dfb00
drop not required truncation and use offset + multiplier for mean int…
seabbs Aug 19, 2024
056d3c0
get rid of zero_truncated_normal
seabbs Aug 19, 2024
e0b913b
performance tune allocations in critical code
seabbs Aug 19, 2024
b58bad6
check single time series vignette
seabbs Aug 19, 2024
ab3672b
add news items
seabbs Aug 19, 2024
0574b08
fix inits
seabbs Aug 19, 2024
722d0a2
update expected_obs tests
seabbs Aug 19, 2024
446c458
update snapshot tests
seabbs Aug 19, 2024
0d31b7f
fix linting
seabbs Aug 19, 2024
e67c0df
update example data
seabbs Aug 19, 2024
16fd5a3
update snapshots
seabbs Aug 19, 2024
bb7b592
check tests
seabbs Aug 19, 2024
194df6a
typo in news
seabbs Aug 19, 2024
8c3fd4a
tweak pathfinder
seabbs Aug 19, 2024
9886ebb
performance tune allocations in critical code
seabbs Aug 19, 2024
3c63681
add news items
seabbs Aug 19, 2024
c5290e4
Update inst/stan/functions/expected_obs.stan
seabbs Aug 22, 2024
24a1eeb
Remove duplicate enw_stan_to_r call
seabbs Aug 22, 2024
1fd88d0
Update NEWS.md
seabbs Aug 22, 2024
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Update NEWS.md
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@seabbs
seabbs authored Aug 22, 2024
commit 1fd88d00a8fd2eea2bbcc54c6aae5cbbc0051d46
2 changes: 1 addition & 1 deletion NEWS.md
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- Performance tuned `expected_obs()` and related functions to improve speed and reduce memory usage. See #501 by @seabbs and reviewed by .
- Used the `offset` and `multiplier` stan translation functions to improve the speed of the model. See #501 by @seabbs and reviewed by .
- Removed normalisation of truncated priors as this is not required during inference and increases run time. See #501 by @seabbs and reviewed by .
- Tightened the prior on the overdispersion parameter to provide less support to extreme overdispersion. This change is unlikely to impact results for most users but should help to improve run time. See #501 by @seabbs and reviewed by .
- Tightened the prior on the overdispersion parameter to provide less support to extreme overdispersion. This change is unlikely to impact results for most users but should help to improve run time. See #501 by @seabbs and reviewed by @jessalynnsebastian.

## Documentation

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