Description
A simulation modeling framework which significantly extends capabilities from the 'MGDrivE' simulation package via a new mathematical and computational framework based on stochastic Petri nets. For more information about 'MGDrivE', see our publication: Sánchez et al. (2019) <doi:10.1111/2041-210X.13318> Some of the notable capabilities of 'MGDrivE2' include: incorporation of human populations, epidemiological dynamics, time-varying parameters, and a continuous-time simulation framework with various sampling algorithms for both deterministic and stochastic interpretations. 'MGDrivE2' relies on the genetic inheritance structures provided in package 'MGDrivE', so we suggest installing that package initially.
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CRAN Check Status
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | ERROR |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (1 non-OK)
re-building of vignette outputs
Error(s) in re-building vignettes:
--- re-building ‘advanced_topics.Rmd’ using rmarkdown
--- finished re-building ‘advanced_topics.Rmd’
--- re-building ‘epi-SEIR.Rmd’ using rmarkdown
--- finished re-building ‘epi-SEIR.Rmd’
--- re-building ‘epi-network.Rmd’ using rmarkdown
--- finished re-building ‘epi-network.Rmd’
--- re-building ‘epi-node-Imperial-decoupled.Rmd’ using rmarkdown
--- finished re-building ‘epi-node-Imperial-decoupled.Rmd’
--- re-building ‘epi-node-SIS-decoupled.Rmd’ using rmarkdown
--- finished re-building ‘epi-node-SIS-decoupled.Rmd’
--- re-building ‘epi-node.Rmd’ using rmarkdown
--- finished re-building ‘epi-node.Rmd’
--- re-building ‘inhomogeneous.Rmd’ using rmarkdown
--- finished re-building ‘inhomogeneous.Rmd’
--- re-building ‘lifecycle-network.Rmd’ using rmarkdown
Quitting from lifecycle-network.Rmd:34-46 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no
...[truncated]...
--
Backtrace:
▆
1. └─base::library(MGDrivE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'lifecycle-network.Rmd' failed with diagnostics:
there is no package called 'MGDrivE'
--- failed re-building ‘lifecycle-network.Rmd’
--- re-building ‘lifecycle-node.Rmd’ using rmarkdown
Quitting from lifecycle-node.Rmd:42-52 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'MGDrivE'
---
Backtrace:
▆
1. └─base::library(MGDrivE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'lifecycle-node.Rmd' failed with diagnostics:
there is no package called 'MGDrivE'
--- failed re-building ‘lifecycle-node.Rmd’
SUMMARY: processing the following files failed:
‘lifecycle-network.Rmd’ ‘lifecycle-node.Rmd’
Error: Vignette re-building failed.
Execution halted
Check History
ERROR 13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 30, 2026
re-building of vignette outputs
Error(s) in re-building vignettes: --- re-building ‘advanced_topics.Rmd’ using rmarkdown --- finished re-building ‘advanced_topics.Rmd’ --- re-building ‘epi-SEIR.Rmd’ using rmarkdown --- finished re-building ‘epi-SEIR.Rmd’ --- re-building ‘epi-netw ...[truncated]... d with diagnostics: there is no package called 'MGDrivE' --- failed re-building ‘lifecycle-node.Rmd’ SUMMARY: processing the following files failed: ‘lifecycle-network.Rmd’ ‘lifecycle-node.Rmd’ Error: Vignette re-building failed. Execution halted