* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/MapGAM.Rcheck’
* using R Under development (unstable) (2025-02-15 r87725)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
clang version 20.1.0-rc2
flang version 20.1.0-rc2
* running under: Fedora Linux 40 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘MapGAM/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MapGAM’ version ‘1.3’
* 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 ‘MapGAM’ can be installed ... [19s/23s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/MapGAM-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 ... [31s/37s] OK
* checking Rd files ... NOTE
checkRd: (-1) MapGAM-package.Rd:28: Lost braces
28 | Bai L, Gillen DL, Bartell SM, Vieira VM. \doi{10.32614/RJ-2020-001}{Mapping smoothed spatial effect estimates from individual-level data: MapGAM}. The R Journal 2020, 12:32-48.
| ^
checkRd: (-1) MapGAM-package.Rd:32: Lost braces
32 | Kelsall J, Diggle P. \doi{10.1111/1467-9876.00128}{Spatial variation in risk of disease: a nonparametric binary regression approach}. J Roy Stat Soc C-App 1998, 47:559-573.
| ^
checkRd: (-1) MapGAM-package.Rd:34: Lost braces
34 | Tang IW, Bartell SM, Vieira VM. \doi{10.1016/j.sste.2023.100584}{Unmatched Spatially Stratified Controls: A simulation study examining efficiency and precision using spatially-diverse controls and generalized additive models}. Spatial and Spatio-temporal Epidemiology 2023, 45:100584.
| ^
checkRd: (-1) MapGAM-package.Rd:36: Lost braces
36 | Vieira V, Webster T, Weinberg J, Aschengrau A, Ozonoff D. \doi{10.1186/1476-069X-4-11}{Spatial analysis of lung, colorectal, and breast cancer on Cape Cod: An application of generalized additive models to case-control data}. Environmental Health 2005, 4:11.
| ^
checkRd: (-1) MapGAM-package.Rd:38: Lost braces
38 | Webster T, Vieira V, Weinberg J, Aschengrau A. \doi{10.1186/1476-072X-5-26}{Method for mapping population-based case-control studies using Generalized Additive Models}. International Journal of Health Geographics 2006, 5:26.
| ^
checkRd: (-1) MapGAM-package.Rd:40: Lost braces
40 | Young RL, Weinberg J, Vieira V, Ozonoff A, Webster TF. \doi{10.1186/1476-072X-9-37}{A power comparison of generalized additive models and the spatial scan statistic in a case-control setting}. International Journal of Health Geographics 2010, 9:37.
| ^
checkRd: (-1) modgam.Rd:108: Lost braces
108 | Bai L, Gillen DL, Bartell SM, Vieira VM. \doi{10.32614/RJ-2020-001}{Mapping smoothed spatial effect estimates from individual-level data: MapGAM}. The R Journal 2020, 12:32-48.
| ^
checkRd: (-1) modgam.Rd:112-113: Lost braces
112 | Kelsall J, Diggle P. \doi{10.1111/1467-9876.00128}{Spatial variation in risk of disease: a nonparametric binary
| ^
checkRd: (-1) modgam.Rd:115: Lost braces
115 | Vieira V, Webster T, Weinberg J, Aschengrau A, Ozonoff D. \doi{10.1186/1476-069X-4-11}{Spatial analysis of lung, colorectal, and breast cancer on Cape Cod: An application of generalized additive models to case-control data}. Environmental Health 2005, 4:11.
| ^
checkRd: (-1) modgam.Rd:117: Lost braces
117 | Webster T, Vieira V, Weinberg J, Aschengrau A. \doi{10.1186/1476-072X-5-26}{Method for mapping population-based case-control studies using Generalized Additive Models}. International Journal of Health Geographics 2006, 5:26.
| ^
checkRd: (-1) modgam.Rd:119: Lost braces
119 | Young RL, Weinberg J, Vieira V, Ozonoff A, Webster TF. \doi{10.1186/1476-072X-9-37}{A power comparison of generalized additive models and the spatial scan statistic in a case-control setting}. International Journal of Health Geographics 2010, 9:37.
| ^
checkRd: (-1) sampcont.Rd:74: Lost braces
74 | Tang IW, Bartell SM, Vieira VM. \doi{10.1016/j.sste.2023.100584}{Unmatched Spatially Stratified Controls: A simulation study examining efficiency and precision using spatially-diverse controls and generalized additive models}. Spatial and Spatio-temporal Epidemiology 2023, 45:100584.
| ^
* 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 data for ASCII and uncompressed saves ... OK
* checking examples ... [9s/13s] OK
* checking PDF version of manual ... [9s/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