Ecosyste.ms: Issues

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GitHub / mrc-ide/malariasimulation issues and pull requests

#340 - Fix merging named lists and add custom function to utils

Pull Request - State: closed - Opened by CosmoNaught 3 months ago

#339 - inconsistency in set_drug vector lengths does not introduce error

Issue - State: open - Opened by htopazian 3 months ago
Labels: small

#338 - Fix continuous benchmarking:

Pull Request - State: closed - Opened by giovannic 4 months ago - 3 comments

#337 - Documentation - cloud run

Issue - State: open - Opened by pwinskill 4 months ago
Labels: documentation

#336 - Hex

Pull Request - State: closed - Opened by pwinskill 4 months ago

#335 - Dev

Pull Request - State: closed - Opened by giovannic 4 months ago - 2 comments

#334 - recovery_rates variable has been renamed as (disease) progression_rates.

Pull Request - State: closed - Opened by RJSheppard 4 months ago - 2 comments

#333 - Add R21 PEV profiles

Pull Request - State: closed - Opened by lmhaile 4 months ago - 3 comments

#332 - Check individual version

Pull Request - State: open - Opened by plietar 5 months ago

#331 - Add a range check to bitset_index.

Pull Request - State: closed - Opened by plietar 5 months ago

#330 - Vivax competing hazards main drugs

Pull Request - State: open - Opened by RJSheppard 6 months ago - 3 comments

#329 - Add seasonal/perennial vector mix example to set_carrying_capacity vignette

Issue - State: open - Opened by pwinskill 6 months ago
Labels: documentation

#328 - Model parameter consistency

Issue - State: open - Opened by RJSheppard 6 months ago

#327 - Should asymptomatic infectivity update at every timestep?

Issue - State: closed - Opened by RJSheppard 6 months ago - 1 comment

#326 - Correcting default average_age parameter

Pull Request - State: closed - Opened by RJSheppard 6 months ago

#325 - Assign names to all processes.

Pull Request - State: closed - Opened by plietar 6 months ago - 4 comments

#324 - added vignette for resumable simulations

Pull Request - State: open - Opened by lmhaile 7 months ago

#323 - Export the run_resumable_simulation

Pull Request - State: closed - Opened by plietar 7 months ago

#322 - Add equilibrium solution to P.v model

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 2 comments

#321 - Add hypnozoites to the P.v model

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 10 comments

#320 - Allow p.v subpatent infections

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 2 comments

#319 - Remove severe immunity for P.v

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 3 comments

#318 - p.v sub-patent duration is immunity dependent.

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 3 comments

#317 - Remove blood immunity from p.v model

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 1 comment

#316 - p.v constant asymptomatic infectivity

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 4 comments

#315 - Vivax competing hazards main parameters

Pull Request - State: closed - Opened by RJSheppard 7 months ago - 5 comments

#314 - Export run_resumable_simulation into namespace

Issue - State: closed - Opened by lmhaile 7 months ago - 4 comments

#313 - Add support for probes in the model

Issue - State: open - Opened by plietar 7 months ago

#312 - Add indication of evidence base and WHO position to intervention documentation and vignettes

Issue - State: open - Opened by pwinskill 7 months ago - 1 comment
Labels: enhancement, help wanted

#311 - Cherry-pick fixes for latest dqrng release.

Pull Request - State: closed - Opened by plietar 8 months ago - 1 comment

#310 - adding in n_spray output

Pull Request - State: closed - Opened by htopazian 8 months ago

#309 - Bug/spraying

Pull Request - State: closed - Opened by htopazian 8 months ago

#308 - Bug/spraying

Pull Request - State: closed - Opened by htopazian 8 months ago

#306 - Update README.md

Pull Request - State: closed - Opened by rateilp 8 months ago - 1 comment

#305 - Depend on dqrng from CRAN again.

Pull Request - State: closed - Opened by plietar 8 months ago

#304 - Add GitHub workflow for continuous benchmarking.

Pull Request - State: closed - Opened by plietar 8 months ago - 4 comments

#303 - Age-based coverage of PMC

Issue - State: open - Opened by ginacuomo 8 months ago - 4 comments
Labels: enhancement

#302 - Example correlation diagnostics:

Pull Request - State: closed - Opened by giovannic 9 months ago - 1 comment

#301 - Older age groups (older than equilibrium age object) are not correctl…

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 1 comment

#300 - Competing hazards recovery infection resolution

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 19 comments

#299 - Parameter and output documentation.

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 1 comment

#298 - lm pcr prevalence explicit

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 2 comments

#297 - Function for setting age-structured outputs.

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 1 comment

#296 - calculate_eir function correction

Pull Request - State: closed - Opened by RJSheppard 9 months ago

#295 - Changing create_progression_process() rates to probs

Pull Request - State: closed - Opened by tbreweric 9 months ago - 4 comments

#294 - Update the specification format of the TBV

Issue - State: open - Opened by pwinskill 9 months ago

#293 - Allow correlations to be extended when resuming.

Pull Request - State: closed - Opened by plietar 9 months ago - 1 comment

#292 - Moved mortality to the end of processes to resolve order of competing…

Pull Request - State: closed - Opened by RJSheppard 9 months ago - 4 comments

#291 - Clarify some intervention parametrization documentation.

Pull Request - State: closed - Opened by plietar 9 months ago

#289 - Antimalarial Resistance: Slow Parasite Clearance

Pull Request - State: closed - Opened by tbreweric 10 months ago - 2 comments

#288 - Update description of the dt parameter.

Pull Request - State: closed - Opened by plietar 10 months ago

#287 - Improve correlation tests.

Pull Request - State: closed - Opened by plietar 10 months ago

#286 - Allow simulation to be restored with new interventions.

Pull Request - State: closed - Opened by plietar 10 months ago - 1 comment

#285 - Rewrite the exponential decay process in C++.

Pull Request - State: closed - Opened by plietar 10 months ago - 4 comments

#283 - Age structured mean rendering

Pull Request - State: closed - Opened by RJSheppard 11 months ago

#281 - Feat/grid

Pull Request - State: open - Opened by giovannic 12 months ago - 1 comment

#280 - Add initial support for saving and restoring simulation state.

Pull Request - State: closed - Opened by plietar 12 months ago - 2 comments

#279 - Bug/maternal immunity sampling

Pull Request - State: closed - Opened by tbreweric about 1 year ago - 2 comments

#278 - Added liver stage drug prophylaxis effects to MDA and SMC code.

Pull Request - State: closed - Opened by RJSheppard about 1 year ago - 1 comment

#277 - Add asymmetric transmission in mixing:

Pull Request - State: closed - Opened by giovannic about 1 year ago

#276 - Output render function

Pull Request - State: closed - Opened by RJSheppard about 1 year ago

#275 - Age-disaggregated outputs can be slow

Issue - State: open - Opened by pwinskill about 1 year ago - 3 comments

#274 - Vivax drugs

Pull Request - State: closed - Opened by RJSheppard about 1 year ago - 1 comment

#273 - Merge pull request #260 from mrc-ide/vivax_remove_severe

Pull Request - State: closed - Opened by RJSheppard about 1 year ago

#272 - Custom carrying capacity is set as a relative scaler, not absolute value

Pull Request - State: closed - Opened by pwinskill about 1 year ago - 2 comments

#271 - Vivax set equilibrium

Pull Request - State: closed - Opened by RJSheppard about 1 year ago

#270 - Implement time varying coverage for PEV boosters:

Pull Request - State: closed - Opened by giovannic about 1 year ago - 2 comments

#269 - Model changing booster coverage over time using set_pev_epi

Issue - State: open - Opened by lmhaile about 1 year ago

#267 - Housing

Pull Request - State: open - Opened by EllieSherrardSmith about 1 year ago

#266 - Vivax remove severe

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#265 - Fix competing hazards for mass and EPI pev:

Pull Request - State: closed - Opened by giovannic over 1 year ago

#264 - Fix bug with pev min_wait

Pull Request - State: closed - Opened by giovannic over 1 year ago - 4 comments

#263 - Antimalarial resistance/etf

Pull Request - State: closed - Opened by tbreweric over 1 year ago - 2 comments

#262 - Documentation still exists for severe malaria prevalence

Issue - State: open - Opened by giovannic over 1 year ago - 1 comment

#261 - Vivax hypnozoites

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#260 - Vivax remove severe

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#259 - Feat/metapopulation model

Pull Request - State: closed - Opened by giovannic over 1 year ago - 1 comment

#258 - Specify timesteps in create process

Pull Request - State: closed - Opened by pwinskill over 1 year ago

#250 - Vivax subpatent duration

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#249 - Vivax pre eryth imm

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#248 - Vivax asymp infectivity

Pull Request - State: closed - Opened by RJSheppard over 1 year ago

#238 - Vignettes: Demography

Pull Request - State: closed - Opened by tbreweric over 1 year ago

#237 - Vignette: Mass Drug Administration and Chemoprevention

Pull Request - State: closed - Opened by tbreweric over 1 year ago

#230 - Vignette/treatment

Pull Request - State: closed - Opened by RJSheppard almost 2 years ago

#225 - Vignettes/variation

Pull Request - State: closed - Opened by kellymccain28 almost 2 years ago - 1 comment

#218 - Flexibility in seasonal dynamics

Issue - State: closed - Opened by pwinskill almost 2 years ago

#217 - Time varying sesaonlity profiles

Issue - State: closed - Opened by pwinskill almost 2 years ago

#213 - Clarify confusion between bed net input coverage and resulting population usage

Issue - State: closed - Opened by pwinskill almost 2 years ago
Labels: documentation, help wanted

#196 - Ability to save and load state and simulation history

Issue - State: open - Opened by pwinskill over 2 years ago - 4 comments
Labels: enhancement

#192 - Calibration should be documented better

Issue - State: closed - Opened by giovannic over 2 years ago

#171 - Set individual mosquitos off by default

Issue - State: closed - Opened by pwinskill over 2 years ago - 1 comment
Labels: small

#167 - correlations do not respect set.seed()

Issue - State: closed - Opened by htopazian over 2 years ago - 1 comment

#165 - Lsm test

Pull Request - State: closed - Opened by EllieSherrardSmith almost 3 years ago - 3 comments

#164 - different seasonal profiles for each mosquito species

Issue - State: closed - Opened by EllieSherrardSmith almost 3 years ago - 1 comment