* using log directory ‘/data/gannet/ripley/R/packages/tests-devel/ccoptimalmatch.Rcheck’
* using R Under development (unstable) (2025-02-14 r87716)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
    GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘ccoptimalmatch/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ccoptimalmatch’ 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 whether package ‘ccoptimalmatch’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/ccoptimalmatch-00install.html' for details.
* checking package directory ... 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 ... 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 ... [8s/11s] OK
* checking Rd files ... NOTE
checkRd: (-1) being_processed.Rd:19: Lost braces; missing escapes or markup?
    19 |   \item {cluster_case}: {each case forms a cluster with all poosible controls to be matched}
       |                         ^
checkRd: (-1) being_processed.Rd:20: Lost braces; missing escapes or markup?
    20 |   \item {Patient_Id}: {Unique identifier for each patient}
       |                       ^
checkRd: (-1) being_processed.Rd:21: Lost braces; missing escapes or markup?
    21 |   \item {case_control}: {binary, if case==Colorectal Cancer, else control}
       |                         ^
checkRd: (-1) being_processed.Rd:22: Lost braces; missing escapes or markup?
    22 |   \item {case_ind}: {binary, if 1==case, else control}
       |                     ^
checkRd: (-1) being_processed.Rd:23: Lost braces; missing escapes or markup?
    23 |   \item {JCG}: {Year of Contact}
       |                ^
checkRd: (-1) being_processed.Rd:24: Lost braces; missing escapes or markup?
    24 |   \item {entry_year}: {the year that the patient first entrered the database}
       |                       ^
checkRd: (-1) being_processed.Rd:25: Lost braces; missing escapes or markup?
    25 |   \item {CI}: {Comorbidity Index. Count of chronic diseases before index data}
       |               ^
checkRd: (-1) being_processed.Rd:26: Lost braces; missing escapes or markup?
    26 |   \item {age_diff}: {difference of age between cases and controls}
       |                     ^
checkRd: (-1) being_processed.Rd:27: Lost braces; missing escapes or markup?
    27 |   \item {fup_diff}: {difference of follow-up between cases and controls}
       |                     ^
checkRd: (-1) being_processed.Rd:28: Lost braces; missing escapes or markup?
    28 |   \item {total_control_per_case}: {total controls that are available to be pooled per case}
       |                                   ^
checkRd: (-1) being_processed.Rd:29: Lost braces; missing escapes or markup?
    29 |   \item {freq_of_controls}: {how many times the control is available to be matched for different cases}
       |                             ^
checkRd: (-1) not_processed.Rd:19: Lost braces; missing escapes or markup?
    19 |   \item {Patient_Id}: {Unique identifier for each patient}
       |                       ^
checkRd: (-1) not_processed.Rd:20: Lost braces; missing escapes or markup?
    20 |   \item {JCG}: {Year of Contact}
       |                ^
checkRd: (-1) not_processed.Rd:21: Lost braces; missing escapes or markup?
    21 |   \item {Birth_Year}: {Patient's year of birth}
       |                       ^
checkRd: (-1) not_processed.Rd:22: Lost braces; missing escapes or markup?
    22 |   \item {Gender}: {Patient's Gender}
       |                   ^
checkRd: (-1) not_processed.Rd:23: Lost braces; missing escapes or markup?
    23 |   \item {Practice_Id}: {Patient's general practice}
       |                        ^
checkRd: (-1) not_processed.Rd:24: Lost braces; missing escapes or markup?
    24 |   \item {case_control}: {binary, if case==Colorectal Cancer, else control}
       |                         ^
checkRd: (-1) not_processed.Rd:25: Lost braces; missing escapes or markup?
    25 |   \item {entry_year}: {the year that the patient first entrered the database}
       |                       ^
checkRd: (-1) not_processed.Rd:26: Lost braces; missing escapes or markup?
    26 |   \item {fup_diff}: {difference of follow-up between cases and controls}
       |                     ^
checkRd: (-1) not_processed.Rd:27: Lost braces; missing escapes or markup?
    27 |   \item {CI}: {Comorbidity Index. Count of chronic diseases before index data}
       |               ^
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [44s/57s] OK
* 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