* using log directory ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ImputeLongiCovs.Rcheck’
* using R Under development (unstable) (2025-02-26 r87830)
* 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 ‘ImputeLongiCovs/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ImputeLongiCovs’ version ‘0.1.0’
* 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 ‘ImputeLongiCovs’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/ImputeLongiCovs-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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [4s/5s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) analyses_data.Rd:19: Lost braces; missing escapes or markup?
    19 |   \item {patient_id}: {Unique identifier for each patient}
       |                       ^
checkRd: (-1) analyses_data.Rd:20: Lost braces; missing escapes or markup?
    20 |   \item {tran_Year}: {numeric, starting from 1 up to the number of transitions}
       |                      ^
checkRd: (-1) analyses_data.Rd:21: Lost braces; missing escapes or markup?
    21 |   \item {transition_year}: {text explanation of the transition}
       |                            ^
checkRd: (-1) analyses_data.Rd:22: Lost braces; missing escapes or markup?
    22 |   \item {state_from}: {the state at the beginning of a transition}
       |                       ^
checkRd: (-1) analyses_data.Rd:23: Lost braces; missing escapes or markup?
    23 |   \item {state_to}: {the state at the end of a transition}
       |                     ^
checkRd: (-1) analyses_data.Rd:24: Lost braces; missing escapes or markup?
    24 |   \item {prob_matrix}: {the probability matrix that was generated by the initial data}
       |                        ^
checkRd: (-1) analyses_data.Rd:25: Lost braces; missing escapes or markup?
    25 |   \item {cardio_state_from}: {cardiovascular disease at the beginning of the transition, binary, if 1 == Yes, else No}
       |                              ^
checkRd: (-1) analyses_data.Rd:26: Lost braces; missing escapes or markup?
    26 |   \item {cardio_state_to}: {cardiovascular disease at the end of the transition, binary, if 1 == Yes, else No}
       |                            ^
checkRd: (-1) analyses_data.Rd:27: Lost braces; missing escapes or markup?
    27 |   \item {flu_vaccination_state_from}: {flu vaccination at the end of the transition, binary, if 1 == Yes, else No}
       |                                       ^
checkRd: (-1) analyses_data.Rd:28: Lost braces; missing escapes or markup?
    28 |   \item {flu_vaccination_state_to}: {flu vaccination disease at the end of the transition, binary, if 1 == Yes, else No}
       |                                     ^
checkRd: (-1) initial_data.Rd:19: Lost braces; missing escapes or markup?
    19 |   \item {patient_id}: {Unique identifier for each patient}
       |                       ^
checkRd: (-1) initial_data.Rd:20: Lost braces; missing escapes or markup?
    20 |   \item {tran_Year}: {numeric, starting from 1 up to the number of transitions}
       |                      ^
checkRd: (-1) initial_data.Rd:21: Lost braces; missing escapes or markup?
    21 |   \item {transition_year}: {text explanation of the transition}
       |                            ^
checkRd: (-1) initial_data.Rd:22: Lost braces; missing escapes or markup?
    22 |   \item {state_from}: {the state at the beginning of a transition}
       |                       ^
checkRd: (-1) initial_data.Rd:23: Lost braces; missing escapes or markup?
    23 |   \item {state_to}: {the state at the end of a transition}
       |                     ^
checkRd: (-1) initial_data.Rd:24: Lost braces; missing escapes or markup?
    24 |   \item {cardio_state_from}: {cardiovascular disease at the beginning of the transition, binary, if 1 == Yes, else No}
       |                              ^
checkRd: (-1) initial_data.Rd:25: Lost braces; missing escapes or markup?
    25 |   \item {cardio_state_to}: {cardiovascular disease at the end of the transition, binary, if 1 == Yes, else No}
       |                            ^
checkRd: (-1) initial_data.Rd:26: Lost braces; missing escapes or markup?
    26 |   \item {flu_vaccination_state_from}: {flu vaccination at the end of the transition, binary, if 1 == Yes, else No}
       |                                       ^
checkRd: (-1) initial_data.Rd:27: Lost braces; missing escapes or markup?
    27 |   \item {flu_vaccination_state_to}: {flu vaccination disease at the end of the transition, binary, if 1 == Yes, else No}
       |                                     ^
* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [7s/8s] OK
Examples with CPU (user + system) or elapsed time > 5s
                               user system elapsed
impute_categorical_covariates 5.108  0.166   6.093
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [6s/8s] OK
* checking PDF version of manual ... [3s/5s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE