* using log directory 'd:/RCompile/CRANincoming/R-devel/spmoran.Rcheck' * using R Under development (unstable) (2024-01-22 r85820 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 12.3.0 GNU Fortran (GCC) 12.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'spmoran/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'spmoran' version '0.2.3.0' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Daisuke Murakami ' Possibly misspelled words in DESCRIPTION: GPs (8:235, 8:245) * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking serialization versions ... OK * checking whether package 'spmoran' can be installed ... OK * checking installed package size ... OK * 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 R 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 ... [38s] OK * checking Rd files ... NOTE checkRd: (-1) addlearn_local.Rd:17: Lost braces; missing escapes or markup? 17 | \item{xgroup0}{Matrix of group indeces at prediction sites that may be group IDs (integers) or group names (N_0 x K_{group}). Default is NULL} | ^ checkRd: (-1) addlearn_local.Rd:29: Lost braces; missing escapes or markup? 29 | \item{c}{Matrix with columns for the estimated coefficients on xconst, their standard errors, z-values, and p-values (K_{c} x 4)} | ^ checkRd: (-1) addlearn_local.Rd:30: Lost braces; missing escapes or markup? 30 | \item{b_g}{List of K_{g} matrices with columns for the estimated group effects, their standard deviations, and t-values} | ^ checkRd: (-1) besf_vc.Rd:18: Lost braces; missing escapes or markup? 18 | \item{xconst}{Matrix of explanatory variables with constant coefficients (N x K_{c}). Default is NULL} | ^ checkRd: (-1) besf_vc.Rd:42: Lost braces; missing escapes or markup? 42 | \item{c}{Matrix with columns for the estimated coefficients on xconst, their standard errors, z-values, and p-values (K_{c} x 4). Effective if xconst_nvc = FALSE} | ^ checkRd: (-1) besf_vc.Rd:43: Lost braces; missing escapes or markup? 43 | \item{c_vc}{Matrix of estimated NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) besf_vc.Rd:44: Lost braces; missing escapes or markup? 44 | \item{cse_vc}{Matrix of standard errors for the NVCs on xconst (N x k_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) besf_vc.Rd:45: Lost braces; missing escapes or markup? 45 | \item{cz_vc}{Matrix of z-values for the NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) besf_vc.Rd:46: Lost braces; missing escapes or markup? 46 | \item{cp_vc}{Matrix of p-values for the NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) nongauss_y.Rd:17: Lost braces; missing escapes or markup? 17 | If tr_num >0, the SAL transformation is iterated tr_num times to Gaussianize y. The SAL transformation is defined as SAL(y)=a+b*sinh(c*arcsinh(y)-d) where {a,b,c,d} are parameters. Based on Rios and Tobar (2019), the iteration of the SAL transformation approximates a wide variety of non-Gaussian distributions without explicitly assuming data distribution. The resf and resf_vc functions return tr_par, which is a list whose k-th element includes the {a,b,c,d} parameters used for the k-th SAL transformation. | ^ checkRd: (-1) nongauss_y.Rd:17: Lost braces; missing escapes or markup? 17 | If tr_num >0, the SAL transformation is iterated tr_num times to Gaussianize y. The SAL transformation is defined as SAL(y)=a+b*sinh(c*arcsinh(y)-d) where {a,b,c,d} are parameters. Based on Rios and Tobar (2019), the iteration of the SAL transformation approximates a wide variety of non-Gaussian distributions without explicitly assuming data distribution. The resf and resf_vc functions return tr_par, which is a list whose k-th element includes the {a,b,c,d} parameters used for the k-th SAL transformation. | ^ checkRd: (-1) predict0.Rd:16: Lost braces; missing escapes or markup? 16 | \item{xgroup0}{Matrix/vector of group IDs at prediction sites that may be integer or name by group (N_0 x K_{group}). Default is NULL} | ^ checkRd: (-1) predict0_vc.Rd:15: Lost braces; missing escapes or markup? 15 | \item{xgroup0}{Matrix of group indeces at prediction sites that may be group IDs (integers) or group names (N_0 x K_{group}). Default is NULL} | ^ checkRd: (-1) resf.Rd:15: Lost braces; missing escapes or markup? 15 | \item{xgroup}{Matrix of group IDs. The IDs may be group numbers or group names (N x K_{group}). Default is NULL} | ^ checkRd: (-1) resf.Rd:31: Lost braces; missing escapes or markup? 31 | \item{b_g}{List of K_{group} matrices with columns for the estimated group effects, their standard errors, and t-values} | ^ checkRd: (-1) resf_vc.Rd:21: Lost braces; missing escapes or markup? 21 | \item{xconst}{Matrix of explanatory variables assuming constant coefficients (N x K_{c}). Default is NULL} | ^ checkRd: (-1) resf_vc.Rd:22: Lost braces; missing escapes or markup? 22 | \item{xgroup}{Matrix of group IDs for modeling group-wise random effects. The IDs may be group numbers or group names (N x K_{g}). Default is NULL} | ^ checkRd: (-1) resf_vc.Rd:48: Lost braces; missing escapes or markup? 48 | \item{c}{Matrix with columns for the estimated coefficients on xconst, their standard errors, t-values, and p-values (K_{c} x 4). Effective if xconst_nvc = FALSE} | ^ checkRd: (-1) resf_vc.Rd:49: Lost braces; missing escapes or markup? 49 | \item{c_vc}{Matrix of estimated NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) resf_vc.Rd:50: Lost braces; missing escapes or markup? 50 | \item{cse_vc}{Matrix of standard errors for the NVCs on xconst (N x k_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) resf_vc.Rd:51: Lost braces; missing escapes or markup? 51 | \item{ct_vc}{Matrix of t-values for the NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) resf_vc.Rd:52: Lost braces; missing escapes or markup? 52 | \item{cp_vc}{Matrix of p-values for the NVCs on xconst (N x K_{c}). Effective if xconst_nvc = TRUE} | ^ checkRd: (-1) resf_vc.Rd:53: Lost braces; missing escapes or markup? 53 | \item{b_g}{List of K_{g} matrices with columns for the estimated group effects, their standard errors, and t-values} | ^ * 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 sizes of PDF files under 'inst/doc' ... OK * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [55s] NOTE Examples with CPU (user + system) or elapsed time > 10s user system elapsed addlearn_local 36.44 3.31 39.75 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... [13s] OK * checking HTML version of manual ... OK * DONE Status: 3 NOTEs