* using log directory ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/SIMICO.Rcheck’
* using R Under development (unstable) (2025-02-25 r87824)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-16) 14.2.0
    GNU Fortran (Debian 14.2.0-16) 14.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘SIMICO/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SIMICO’ version ‘0.2.0’
* 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 serialization versions ... OK
* checking whether package ‘SIMICO’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/SIMICO-00install.html' for details.
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ 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 code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [2s/2s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/3s] OK
* checking loading without being on the library search path ... [2s/3s] 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 ... [12s/14s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) fd_term.Rd:4: Lost braces; missing escapes or markup?
     4 | d/d_{theta_l}
       |     ^
checkRd: (-1) gamma_fd.Rd:4: Lost braces; missing escapes or markup?
     4 | d/d_{gamma_l}
       |     ^
checkRd: (-1) gamma_off.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{gamma_l}d{gamma_m}
       |       ^
checkRd: (-1) gamma_off.Rd:4: Lost braces
     4 | d^2/d_{gamma_l}d{gamma_m}
       |                 ^
checkRd: (-1) gamma_off.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the [off-diagonal] Information matrix term for I_{gamma gamma} with respect to outcome l and outcome m.
       |                                                             ^
checkRd: (-1) gamma_on.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{gamma_l}d{gamma_l}
       |       ^
checkRd: (-1) gamma_on.Rd:4: Lost braces
     4 | d^2/d_{gamma_l}d{gamma_l}
       |                 ^
checkRd: (-1) gamma_on.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the [on-diagonal] Information matrix term for I_{gamma gamma} with respect to outcome l.
       |                                                            ^
checkRd: (-1) gammasigma.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{gamma_l}d{sigma^2}
       |       ^
checkRd: (-1) gammasigma.Rd:4: Lost braces
     4 | d^2/d_{gamma_l}d{sigma^2}
       |                 ^
checkRd: (-1) gammasigma.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{eta gamma} for one outcome of interest l.
       |                                             ^
checkRd: (-1) gammatheta.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{gamma_k}d{theta_k}
       |       ^
checkRd: (-1) gammatheta.Rd:4: Lost braces
     4 | d^2/d_{gamma_k}d{theta_k}
       |                 ^
checkRd: (-1) gammatheta.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{eta gamma} for outcome k.
       |                                             ^
checkRd: (-1) gammatheta_off.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{gamma_l}d{theta_m}
       |       ^
checkRd: (-1) gammatheta_off.Rd:4: Lost braces
     4 | d^2/d_{gamma_l}d{theta_m}
       |                 ^
checkRd: (-1) gammatheta_off.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{eta gamma} for outcomes l and m
       |                                             ^
checkRd: (-1) haz_left.Rd:4: Lost braces; missing escapes or markup?
     4 | H_{ik}(L_{ik})
       |   ^
checkRd: (-1) haz_left.Rd:4: Lost braces; missing escapes or markup?
     4 | H_{ik}(L_{ik})
       |          ^
checkRd: (-1) haz_right.Rd:4: Lost braces; missing escapes or markup?
     4 | H_{ik}(R_{ik})
       |   ^
checkRd: (-1) haz_right.Rd:4: Lost braces; missing escapes or markup?
     4 | H_{ik}(R_{ik})
       |          ^
checkRd: (-1) sd_off.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{theta_k}d{sigma^2}
       |       ^
checkRd: (-1) sd_off.Rd:4: Lost braces
     4 | d^2/d_{theta_k}d{sigma^2}
       |                 ^
checkRd: (-1) sd_off.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{theta sigma^2} for outcomes l and m.
       |                                             ^
checkRd: (-1) sd_on.Rd:4: Lost braces
     4 | d^2/d{sigma^2}^2
       |      ^
checkRd: (-1) sd_on.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{sigma^2 sigma^2} for outcome l.
       |                                             ^
checkRd: (-1) simico_out.Rd:17: Lost braces; missing escapes or markup?
    17 |   \item{Itt}{I_{theta theta} - Information matrix of theta.}
       |                ^
checkRd: (-1) ss_fd.Rd:4: Lost braces; missing escapes or markup?
     4 | d/d_{sigma^2}
       |     ^
checkRd: (-1) ss_sd.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{sigma^2}^2
       |       ^
checkRd: (-1) st_off.Rd:4: Lost braces; missing escapes or markup?
     4 | d^2/d_{theta_l}d{sigma^2}
       |       ^
checkRd: (-1) st_off.Rd:4: Lost braces
     4 | d^2/d_{theta_l}d{sigma^2}
       |                 ^
checkRd: (-1) st_off.Rd:7: Lost braces; missing escapes or markup?
     7 | Calculates the Information matrix term of I_{eta theta} for one outcome of interest l.
       |                                             ^
checkRd: (-1) surv_diff.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik}) - S_{ik}(R_{ik})
       |   ^
checkRd: (-1) surv_diff.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik}) - S_{ik}(R_{ik})
       |          ^
checkRd: (-1) surv_diff.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik}) - S_{ik}(R_{ik})
       |                    ^
checkRd: (-1) surv_diff.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik}) - S_{ik}(R_{ik})
       |                           ^
checkRd: (-1) surv_left.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik})
       |   ^
checkRd: (-1) surv_left.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(L_{ik})
       |          ^
checkRd: (-1) surv_right.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(R_{ik})
       |   ^
checkRd: (-1) surv_right.Rd:4: Lost braces; missing escapes or markup?
     4 | S_{ik}(R_{ik})
       |          ^
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [9s/12s] OK
Examples with CPU (user + system) or elapsed time > 5s
            user system elapsed
simico_out 4.009  0.181    5.81
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [140s/187s] OK
* checking PDF version of manual ... [4s/6s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE