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surveillance log file (check_x86_64_linux)

Wed Mar 27 15:31:27 2019: Checking package surveillance (SVN revision 2425) ...
Additional arguments to R CMD check: --no-examples --no-tests --no-vignettes
* using log directory ‘/srv/rf/building/build_2019-03-27-15-28/RF_PKG_CHECK/PKGS/surveillance.Rcheck’
* using R version 3.5.3 Patched (2019-03-11 r76221)
* using platform: x86_64-pc-linux-gnu (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 ‘1.17.0.9000’
* package encoding: latin1
* checking CRAN incoming feasibility ... NOTE
Maintainer: ‘Sebastian Meyer ’

Version contains large components (1.17.0.9000)

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.
* 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 executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking serialization versions ... OK
* checking whether package ‘surveillance’ can be installed ... [56s/57s] OK
* checking installed package size ... NOTE
  installed size is  6.8Mb
  sub-directories of 1Mb or more:
    R      1.8Mb
    help   1.0Mb
    libs   2.5Mb
* checking package directory ... 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 ... [61s/61s] 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/pMC.RData’,
    ‘monitoringCounts-cache/pMarkovChain.RData’,
    ‘monitoringCounts.Rnw’, ‘monitoringCounts.bib’, ‘references.bib’,
    ‘surveillance-cache.RData’, ‘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
Package vignettes without corresponding 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
* DONE

Status: 2 WARNINGs, 3 NOTEs
See
  ‘/srv/rf/building/build_2019-03-27-15-28/RF_PKG_CHECK/PKGS/surveillance.Rcheck/00check.log’
for details.


Run time: 310.37 seconds.

Additional Logs:   00install.out
Thanks to:
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