* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/vpc.Rcheck’ * using R Under development (unstable) (2024-04-24 r86484) * using platform: x86_64-pc-linux-gnu * R was compiled by clang version 18.1.4 flang-new version 18.1.4 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘vpc/DESCRIPTION’ ... OK * this is package ‘vpc’ version ‘1.2.2’ * 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 ‘vpc’ can be installed ... [15s/19s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/vpc-00install.html' for details. * checking installed package size ... OK * 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 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 ... [21s/28s] OK * checking Rd files ... NOTE checkRd: (-1) new_vpc_theme.Rd:21: Lost braces; missing escapes or markup? 21 | \item{obs_color}: {color for observations points} | ^ checkRd: (-1) new_vpc_theme.Rd:22: Lost braces; missing escapes or markup? 22 | \item{obs_size}: {size for observation points} | ^ checkRd: (-1) new_vpc_theme.Rd:23: Lost braces; missing escapes or markup? 23 | \item{obs_median_color}: {color for median observation line} | ^ checkRd: (-1) new_vpc_theme.Rd:24: Lost braces; missing escapes or markup? 24 | \item{obs_median_linetype}: {linetype for median observation line} | ^ checkRd: (-1) new_vpc_theme.Rd:25: Lost braces; missing escapes or markup? 25 | \item{obs_median_size}: {size for median observation line} | ^ checkRd: (-1) new_vpc_theme.Rd:26: Lost braces; missing escapes or markup? 26 | \item{obs_ci_fill}: {color for observation CI fill} | ^ checkRd: (-1) new_vpc_theme.Rd:27: Lost braces; missing escapes or markup? 27 | \item{obs_ci_color}: {color for observation CI lines} | ^ checkRd: (-1) new_vpc_theme.Rd:28: Lost braces; missing escapes or markup? 28 | \item{obs_ci_linetype}: {linetype for observation CI lines} | ^ checkRd: (-1) new_vpc_theme.Rd:29: Lost braces; missing escapes or markup? 29 | \item{obs_ci_size}: {size for observations CI lines} | ^ checkRd: (-1) new_vpc_theme.Rd:30: Lost braces; missing escapes or markup? 30 | \item{sim_pi_fill}: {fill color for simulated prediction interval areas} | ^ checkRd: (-1) new_vpc_theme.Rd:31: Lost braces; missing escapes or markup? 31 | \item{sim_pi_alpha}: {transparency for simulated prediction interval areas} | ^ checkRd: (-1) new_vpc_theme.Rd:32: Lost braces; missing escapes or markup? 32 | \item{sim_pi_color}: {color for simulated prediction interval lines} | ^ checkRd: (-1) new_vpc_theme.Rd:33: Lost braces; missing escapes or markup? 33 | \item{sim_pi_linetype}: {linetype for simulated prediction interval lines} | ^ checkRd: (-1) new_vpc_theme.Rd:34: Lost braces; missing escapes or markup? 34 | \item{sim_pi_size}: {size for simulated prediction interval lines} | ^ checkRd: (-1) new_vpc_theme.Rd:35: Lost braces; missing escapes or markup? 35 | \item{sim_median_fill}: {fill color for simulated median area} | ^ checkRd: (-1) new_vpc_theme.Rd:36: Lost braces; missing escapes or markup? 36 | \item{sim_median_alpha}: {transparency for simulated median area} | ^ checkRd: (-1) new_vpc_theme.Rd:37: Lost braces; missing escapes or markup? 37 | \item{sim_median_color}: {color for simulated median line} | ^ checkRd: (-1) new_vpc_theme.Rd:38: Lost braces; missing escapes or markup? 38 | \item{sim_median_linetype}: {linetype for simulated median line} | ^ checkRd: (-1) new_vpc_theme.Rd:39: Lost braces; missing escapes or markup? 39 | \item{sim_median_size}: {size for simulated median line} | ^ checkRd: (-1) new_vpc_theme.Rd:40: Lost braces; missing escapes or markup? 40 | \item{bin_separators_color}: {color for bin separator lines, NA for don't plot} | ^ checkRd: (-1) new_vpc_theme.Rd:41: Lost braces; missing escapes or markup? 41 | \item{bin_separators_location}: {where to plot bin separators ("t" for top, "b" for bottom)} | ^ checkRd: (-1) new_vpc_theme.Rd:42: Lost braces; missing escapes or markup? 42 | \item{loq_color}: {color of line showing limit of quantification} | ^ * 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 ... [39s/47s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [73s/89s] OK Running ‘test-add_sim_index_number.R’ [17s/20s] Running ‘test-filter_dv.R’ Running ‘test-labeller.R’ [8s/10s] Running ‘test-scales.R’ [8s/10s] Running ‘test-softwaretype.R’ Running ‘test-strat-col-detection.R’ Running ‘test-vpc.R’ Running ‘test-vpc_cat.R’ Running ‘test-vpc_cens.R’ [9s/11s] Running ‘test-vpc_tte.R’ [13s/17s] * checking PDF version of manual ... [8s/12s] 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