Last updated on 2026-07-07 00:50:08 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.0 | 301.64 | 150.67 | 452.31 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.2.0 | 291.04 | 131.11 | 422.15 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.2.0 | 335.00 | 238.17 | 573.17 | NOTE | |
| r-devel-linux-x86_64-fedora-gcc | 0.2.0 | 660.00 | 277.82 | 937.82 | NOTE | |
| r-devel-windows-x86_64 | 0.2.0 | 361.00 | 192.00 | 553.00 | NOTE | |
| r-patched-linux-x86_64 | 0.2.0 | 320.91 | 172.57 | 493.48 | NOTE | |
| r-release-linux-x86_64 | 0.2.0 | 354.77 | 176.81 | 531.58 | NOTE | |
| r-release-macos-arm64 | 0.2.0 | 65.00 | -5.00 | 60.00 | NOTE | |
| r-release-macos-x86_64 | 0.2.0 | 208.00 | 128.00 | 336.00 | NOTE | |
| r-release-windows-x86_64 | 0.2.0 | 364.00 | 192.00 | 556.00 | NOTE | |
| r-oldrel-macos-arm64 | 0.2.0 | NOTE | ||||
| r-oldrel-macos-x86_64 | 0.2.0 | 195.00 | 28.00 | 223.00 | NOTE | |
| r-oldrel-windows-x86_64 | 0.2.0 | 473.00 | 241.00 | 714.00 | NOTE |
Version: 0.2.0
Check: DESCRIPTION meta-information
Result: NOTE
Missing dependency on R >= 4.1.0 because package code uses the pipe
|> or function shorthand \(...) syntax added in R 4.1.0.
File(s) using such syntax:
‘getPrevalence.R’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 0.2.0
Check: examples
Result: ERROR
Running examples in ‘PoolTestR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: PoolRegBayes
> ### Title: Bayesian Mixed or Fixed Effect Logistic Regression with
> ### Presence/Absence Tests on Pooled Samples
> ### Aliases: PoolRegBayes
>
> ### ** Examples
>
> # Perform logistic-type regression modelling for a synthetic dataset consisting
> # of pools (sizes 1, 5, or 10) taken from 4 different regions and 3 different
> # years. Within each region specimens are collected at 4 different villages,
> # and within each village specimens are collected at 8 different sites.
>
>
> ### Models in a frequentist framework
> #ignoring hierarchical sampling frame within each region
> Mod <- PoolReg(Result ~ Region + Year,
+ data = SimpleExampleData,
+ poolSize = NumInPool)
[1] "Model has no group/random effects. Using a fixed effect model (glm)"
> summary(Mod)
Call:
stats::glm(formula = formula, family = stats::binomial(PoolLink(data[[poolSize]])),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -1.97190 0.12559 -15.701 < 2e-16 ***
RegionB -1.20591 0.17890 -6.741 1.58e-11 ***
RegionC -2.40943 0.27082 -8.897 < 2e-16 ***
RegionD -0.11001 0.14466 -0.760 0.4470
Year -0.13874 0.07716 -1.798 0.0722 .
---
Signif. codes: 0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 1304.34 on 1151 degrees of freedom
Residual deviance: 990.58 on 1147 degrees of freedom
AIC: 1000.6
Number of Fisher Scoring iterations: 6
>
> #accounting hierarchical sampling frame within each region
> HierMod <- PoolReg(Result ~ Region + Year + (1|Village) + (1|Site),
+ data = SimpleExampleData,
+ poolSize = NumInPool)
[1] "Detected group/random effects. Using a mixed effect model (glmer)"
Error: Downdated VtV is not positive definite
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.2.0
Check: dependencies in R code
Result: NOTE
Namespaces in Imports field not imported from:
‘RcppParallel’ ‘rstantools’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc