* using log directory '/userdata/kingaa/projects/Rpkg/pomp/revdep/epimdr2.Rcheck'
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* using option '--as-cran'
* checking for file 'epimdr2/DESCRIPTION' ... OK
* this is package 'epimdr2' version '1.0-9'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* 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 whether package 'epimdr2' can be installed ... [27s/16s] OK
* checking installed package size ... OK
* 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 ... [54s/12s] NOTE
coyne: local variable ‘H1’ assigned but may not be used
coyne: local variable ‘H2’ assigned but may not be used
coyne: local variable ‘I’ assigned but may not be used
coyne: local variable ‘N’ assigned but may not be used
coyne: local variable ‘X’ assigned but may not be used
coyne: local variable ‘Y’ assigned but may not be used
coyne: local variable ‘dH1’ assigned but may not be used
coyne: local variable ‘dH2’ assigned but may not be used
coyne: local variable ‘dI’ assigned but may not be used
coyne: local variable ‘dX’ assigned but may not be used
coyne: local variable ‘dY’ assigned but may not be used
coyne: local variable ‘res’ assigned but may not be used
coyne2: local variable ‘E1’ assigned but may not be used
coyne2: local variable ‘E2’ assigned but may not be used
coyne2: local variable ‘I’ assigned but may not be used
coyne2: local variable ‘N’ assigned but may not be used
coyne2: local variable ‘R’ assigned but may not be used
coyne2: local variable ‘S’ assigned but may not be used
coyne2: local variable ‘dE1’ assigned but may not be used
coyne2: local variable ‘dE2’ assigned but may not be used
coyne2: local variable ‘dI’ assigned but may not be used
coyne2: local variable ‘dR’ assigned but may not be used
coyne2: local variable ‘dS’ assigned but may not be used
coyne2: local variable ‘res’ assigned but may not be used
retrospec: local variable ‘out’ assigned but may not be used
seirmod2: local variable ‘E’ assigned but may not be used
seirmod2: local variable ‘I’ assigned but may not be used
seirmod2: local variable ‘R’ assigned but may not be used
seirmod2: local variable ‘S’ assigned but may not be used
seirmod2: local variable ‘dE’ assigned but may not be used
seirmod2: local variable ‘dI’ assigned but may not be used
seirmod2: local variable ‘dR’ assigned but may not be used
seirmod2: local variable ‘dS’ assigned but may not be used
seirmod2: local variable ‘res’ assigned but may not be used
server: local variable ‘fld’ assigned but may not be used
sirAgemod: local variable ‘I’ assigned but may not be used
sirAgemod: local variable ‘R’ assigned but may not be used
sirAgemod: local variable ‘S’ assigned but may not be used
sirAgemod: local variable ‘dI’ assigned but may not be used
sirAgemod: local variable ‘dR’ assigned but may not be used
sirAgemod: local variable ‘dS’ assigned but may not be used
sirAgemod: local variable ‘phi’ assigned but may not be used
sirAgemod: local variable ‘res’ assigned but may not be used
sirChainmod: local variable ‘I’ assigned but may not be used
sirChainmod: local variable ‘R’ assigned but may not be used
sirChainmod: local variable ‘S’ assigned but may not be used
sirChainmod: local variable ‘dI’ assigned but may not be used
sirChainmod: local variable ‘dR’ assigned but may not be used
sirChainmod: local variable ‘dS’ assigned but may not be used
sirChainmod: local variable ‘i’ assigned but may not be used
sirChainmod: local variable ‘res’ assigned but may not be used
sirSpatmod: local variable ‘I’ assigned but may not be used
sirSpatmod: local variable ‘R’ assigned but may not be used
sirSpatmod: local variable ‘S’ assigned but may not be used
sirSpatmod: local variable ‘beta’ assigned but may not be used
sirSpatmod: local variable ‘dI’ assigned but may not be used
sirSpatmod: local variable ‘dR’ assigned but may not be used
sirSpatmod: local variable ‘dS’ assigned but may not be used
sirvmod: local variable ‘E’ assigned but may not be used
sirvmod: local variable ‘I’ assigned but may not be used
sirvmod: local variable ‘K’ assigned but may not be used
sirvmod: local variable ‘Q’ assigned but may not be used
sirvmod: local variable ‘R’ assigned but may not be used
sirvmod: local variable ‘S’ assigned but may not be used
sirvmod: local variable ‘dE’ assigned but may not be used
sirvmod: local variable ‘dI’ assigned but may not be used
sirvmod: local variable ‘dK’ assigned but may not be used
sirvmod: local variable ‘dR’ assigned but may not be used
sirvmod: local variable ‘dS’ assigned but may not be used
sirvmod: local variable ‘res’ assigned but may not be used
sirwmod: local variable ‘I’ assigned but may not be used
sirwmod: local variable ‘R’ assigned but may not be used
sirwmod: local variable ‘S’ assigned but may not be used
sirwmod: local variable ‘W’ assigned but may not be used
sirwmod: local variable ‘dI’ assigned but may not be used
sirwmod: local variable ‘dR’ assigned but may not be used
sirwmod: local variable ‘dS’ assigned but may not be used
sirwmod: local variable ‘dW’ assigned but may not be used
sirwmod: local variable ‘res’ assigned but may not be used
summary.netSir: local variable ‘t’ assigned but may not be used
twostrain: local variable ‘I1’ assigned but may not be used
twostrain: local variable ‘I2’ assigned but may not be used
twostrain: local variable ‘J1’ assigned but may not be used
twostrain: local variable ‘J2’ assigned but may not be used
twostrain: local variable ‘R’ assigned but may not be used
twostrain: local variable ‘R1’ assigned but may not be used
twostrain: local variable ‘R2’ assigned but may not be used
twostrain: local variable ‘S’ assigned but may not be used
twostrain: local variable ‘dI1’ assigned but may not be used
twostrain: local variable ‘dI2’ assigned but may not be used
twostrain: local variable ‘dJ1’ assigned but may not be used
twostrain: local variable ‘dJ2’ assigned but may not be used
twostrain: local variable ‘dR’ assigned but may not be used
twostrain: local variable ‘dR1’ assigned but may not be used
twostrain: local variable ‘dR2’ assigned but may not be used
twostrain: local variable ‘dS’ assigned but may not be used
twostrain: local variable ‘phi’ assigned but may not be used
twostrain: local variable ‘res’ assigned but may not be used
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [20s/11s] OK
** found \donttest examples: check also with --run-donttest
* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 NOTE
