R Development Page
surveillance log file (check_x86_64_windows)
* using log directory 'R:/run/building/build_2022-08-05-17-30/RF_PKG_CHECK/PKGS/surveillance.Rcheck'
* using R version 4.2.1 Patched (2022-08-03 r82668 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using options '--no-examples --no-tests --no-vignettes --as-cran'
* checking for file 'surveillance/DESCRIPTION' ... OK
* this is package 'surveillance' version '1.20.1'
* package encoding: latin1
* checking CRAN incoming feasibility ... WARNING
Maintainer: 'Sebastian Meyer '
Insufficient package version (submitted: 1.20.1, existing: 1.20.1)
Suggests or Enhances not in mainstream repositories:
INLA
Availability using Additional_repositories specification:
INLA yes https://inla.r-inla-download.org/R/stable/
Package has a VignetteBuilder field but no prebuilt vignette index.
Found the following (possibly) invalid URLs:
URL: https://case.folkhalsomyndigheten.se/
From: man/algo.outbreakP.Rd
Status: Error
Message: libcurl error code 28:
Failed to connect to case.folkhalsomyndigheten.se port 443 after 21024 ms: Timed out
Found the following (possibly) invalid DOIs:
DOI: 10.1002/bimj.200900050
From: DESCRIPTION
Status: Service Unavailable
Message: 503
DOI: 10.1002/sim.4177
From: DESCRIPTION
Status: Service Unavailable
Message: 503
DOI: 10.1111/j.1541-0420.2011.01684.x
From: DESCRIPTION
Status: Service Unavailable
Message: 503
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package suggested but not available for checking: 'INLA'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'surveillance' can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.3Mb
sub-directories of 1Mb or more:
R 1.7Mb
libs 1.1Mb
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking files in 'vignettes' ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
'glrnb.Rnw', 'hhh4-cache.RData', 'hhh4.Rnw',
'hhh4_spacetime-cache.RData', 'hhh4_spacetime.Rnw',
'monitoringCounts-cache/boda.RData',
'monitoringCounts-cache/boda.covars.RData',
'monitoringCounts-cache/fPlot.R',
'monitoringCounts-cache/fPlot1.pdf',
'monitoringCounts-cache/fPlot2.pdf',
'monitoringCounts-cache/pMC.RData',
'monitoringCounts-cache/pMarkovChain.RData',
'monitoringCounts.Rnw', 'monitoringCounts.bib', 'references.bib',
'surveillance-cache.RData', 'surveillance-hmm.pdf',
'surveillance.Rnw', 'twinSIR-cache.RData', 'twinSIR.Rnw',
'twinstim-cache.RData', 'twinstim.Rnw'
* checking examples ... SKIPPED
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... SKIPPED
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Directory 'inst/doc' does not exist.
Package vignettes without corresponding single PDF/HTML:
'glrnb.Rnw'
'hhh4.Rnw'
'monitoringCounts.Rnw'
'surveillance.Rnw'
'hhh4_spacetime.Rnw'
'twinSIR.Rnw'
'twinstim.Rnw'
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* skipping checking HTML version of manual: no command 'tidy' found
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 3 WARNINGs, 2 NOTEs
See
'R:/run/building/build_2022-08-05-17-30/RF_PKG_CHECK/PKGS/surveillance.Rcheck/00check.log'
for details.
Run time: 288.71 seconds.