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January 2022
Created 308 commits in 20 repositories
Created a pull request in mrc-ide/dust that received 3 comments
Allow underscores in dust::name and similar
See mrc-ide/odin.dust#98 for the trigger. We just fall back to using dust for the dll name which should work fine. For packages, this is not a prob…
+46
−27
•
3
comments
Opened 28 other pull requests in 8 repositories
mrc-ide/mcstate
11
merged
- Allow use of compiled compare in more places
- Use path for storing out-of-process chains, simplify parallelism
- Add support for one-shot nested update
- Support for initial log likelihoods
- Allow filtering pmcmc on creation
- Refactor particle filter data for nested data
- Refactor nested PMCMC support
- Nested deterministic models
- Allow use of multistage parameters in nested models
- EPIC: refactor nested particle filter and MCMC
- Reduce code duplication between nested and normal particle filter
mrc-ide/sircovid
6
merged
mrc-ide/spimalot
6
merged
mrc-ide/dust
1
merged
mrc-ide/rrq
1
merged
mrc-ide/viralload
1
merged
mrc-ide/odin
1
merged
richfitz/redux
1
merged
Reviewed 33 pull requests in 17 repositories
reside-ic/constellation
5 pull requests
mrc-ide/spimalot
4 pull requests
vimc/orderly.server
3 pull requests
mrc-ide/mcstate
3 pull requests
mrc-ide/hint-deploy
3 pull requests
mrc-ide/naomi-pipelines
2 pull requests
vimc/montagu-monitor
2 pull requests
reside-ic/reside-hyperv-scripts
2 pull requests
reside-ic/proxy-nginx
1 pull request
mrc-ide/dust
1 pull request
mrc-ide/rrq
1 pull request
reside-ic/fakerbase
1 pull request
vimc/orderly
1 pull request
reside-ic/cookiecutter-r-package
1 pull request
mrc-ide/hintr
1 pull request
richfitz/redux
1 pull request
mrc-ide/sircovid
1 pull request
Created an issue in mrc-ide/mcstate that received 1 comment
Add pmcmc_chains_combine that accepts path
This would make the split-and-run process a bit nicer. Also consider renaming pmcmc_chains_run to singular
1
comment
Opened 20 other issues in 5 repositories
mrc-ide/mcstate
11
open
2
closed
- faster vignettes
- test suite not robust to missing optional deps
- pmcmc's initial argument should have no default and move ahead of initial
- Add support for computing covariance matrices etc into the package
- rename pars_multi
- Confirm nested behaviour with staggered data
- Check that particle filter data is still valid after subsetting
- Support for using the compiled compare in more places
- Check that pmcmc initial parameters are in range
- Add set_rng_method to filter, use this from pmcmc
- particle_filter$state should get option to return single trajectory
- Particle filter caries index that has too much information
- Improvements to particle filter data (nested)
mrc-ide/dust
1
open
1
closed
mrc-ide/sircovid
2
open
mrc-ide/spimalot
1
open
1
closed
mrc-ide/odin.dust
1
open
42
contributions
in private repositories
Jan 4 – Jan 25