* using log directory ‘/Users/ripley/R/packages/tests-devel/gstat.Rcheck’ * using R Under development (unstable) (2024-04-27 r86487) * using platform: aarch64-apple-darwin23.4.0 * R was compiled by Apple clang version 15.0.0 (clang-1500.3.9.4) GNU Fortran (GCC) 12.2.0 * running under: macOS Sonoma 14.4.1 * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘gstat/DESCRIPTION’ ... OK * this is package ‘gstat’ version ‘2.1-1’ * 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 ‘gstat’ can be installed ... OK * used C compiler: ‘Apple clang version 15.0.0 (clang-1500.3.9.4)’ * used SDK: ‘MacOSX14.4.sdk’ * checking installed package size ... OK * 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 whether startup messages can be suppressed ... 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 ... OK * checking Rd files ... NOTE checkRd: (-1) jura.Rd:29: Lost braces; missing escapes or markup? 29 | \item{Cd}{ mg cadmium kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:30: Lost braces; missing escapes or markup? 30 | \item{Co}{ mg cobalt kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:31: Lost braces; missing escapes or markup? 31 | \item{Cr}{ mg chromium kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:32: Lost braces; missing escapes or markup? 32 | \item{Cu}{ mg copper kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:33: Lost braces; missing escapes or markup? 33 | \item{Ni}{ mg nickel kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:34: Lost braces; missing escapes or markup? 34 | \item{Pb}{ mg lead kg^{-1} topsoil } | ^ checkRd: (-1) jura.Rd:35: Lost braces; missing escapes or markup? 35 | \item{Zn}{ mg zinc kg^{-1} topsoil } | ^ checkRd: (-1) variogramST.Rd:49: Lost braces; missing escapes or markup? 49 | time lag $t$, the pseudo cross variogram $(Z_i(s)-Z_{i+t}(s+h))^2$ is averaged over all time | ^ checkRd: (-1) variogramST.Rd:50: Lost braces; missing escapes or markup? 50 | lagged observation sets $Z_i$ and $Z_{i+t}$ available (weighted by the number of pairs involved). | ^ * checking Rd metadata ... 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 line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘allier.R’ Comparing ‘allier.Rout’ to ‘allier.Rout.save’ ... OK Running ‘blockkr.R’ Comparing ‘blockkr.Rout’ to ‘blockkr.Rout.save’ ... OK Running ‘covtable.R’ Comparing ‘covtable.Rout’ to ‘covtable.Rout.save’ ... OK Running ‘cv.R’ Comparing ‘cv.Rout’ to ‘cv.Rout.save’ ... OK Running ‘cv3d.R’ Comparing ‘cv3d.Rout’ to ‘cv3d.Rout.save’ ... OK Running ‘fit.R’ Comparing ‘fit.Rout’ to ‘fit.Rout.save’ ... OK Running ‘krige0.R’ Comparing ‘krige0.Rout’ to ‘krige0.Rout.save’ ... OK Running ‘line.R’ Comparing ‘line.Rout’ to ‘line.Rout.save’ ... OK Running ‘merge.R’ Comparing ‘merge.Rout’ to ‘merge.Rout.save’ ... OK Running ‘na.action.R’ Comparing ‘na.action.Rout’ to ‘na.action.Rout.save’ ... OK Running ‘rings.R’ Comparing ‘rings.Rout’ to ‘rings.Rout.save’ ... OK Running ‘sim.R’ Comparing ‘sim.Rout’ to ‘sim.Rout.save’ ... OK Running ‘stars.R’ Comparing ‘stars.Rout’ to ‘stars.Rout.save’ ...16c16 < > crs = CRS("EPSG:28992") --- > > crs = CRS("+init=epsg:28992") 66c66 < > crs = CRS("EPSG:28992") --- > > crs = CRS("+init=epsg:28992") 107a108,110 > [4] "Attributes: < Component \"proj4string\": Attributes: < Names: 1 string mismatch > >" > [5] "Attributes: < Component \"proj4string\": Attributes: < Length mismatch: comparison on first 2 components > >" > [6] "Attributes: < Component \"proj4string\": Attributes: < Component 2: 1 string mismatch > >" 112a116,118 > Warning message: > In CPL_crs_from_input(x) : > GDAL Message 1: +init=epsg:XXXX syntax is deprecated. It might return a CRS with a non-EPSG compliant axis order. 115c121 < User input: Amersfoort / RD New --- > User input: +init=epsg:28992 142c148,149 < ID["EPSG",8807]]], --- > ID["EPSG",8807]], > ID["EPSG",19914]], 144c151 < AXIS["easting (X)",east, --- > AXIS["(E)",east, 146,147c153,155 < LENGTHUNIT["metre",1]], < AXIS["northing (Y)",north, --- > LENGTHUNIT["metre",1, > ID["EPSG",9001]]], > AXIS["(N)",north, 149c157,158 < LENGTHUNIT["metre",1]], --- > LENGTHUNIT["metre",1, > ID["EPSG",9001]]], 151c160 < SCOPE["Engineering survey, topographic mapping."], --- > SCOPE["unknown"], 153,154c162 < BBOX[50.75,3.2,53.7,7.22]], < ID["EPSG",28992]] --- > BBOX[50.75,3.2,53.7,7.22]]] 169a178,180 > [8] "Attributes: < Component 5: Attributes: < Names: 1 string mismatch > >" > [9] "Attributes: < Component 5: Attributes: < Length mismatch: comparison on first 2 components > >" > [10] "Attributes: < Component 5: Attributes: < Component 2: 1 string mismatch > >" 247c258 < time 1 4 2019-02-25 15:37:25 GMT 1 secs POSIXct --- > time 1 4 2019-02-25 15:37:25 UTC 1 secs POSIXct 419,420c430,431 < [1] "2019-02-25 15:37:26 GMT" "2019-02-25 15:37:27 GMT" < [3] "2019-02-25 15:37:28 GMT" "2019-02-25 15:37:29 GMT" --- > [1] "2019-02-25 15:37:26 UTC" "2019-02-25 15:37:27 UTC" > [3] "2019-02-25 15:37:28 UTC" "2019-02-25 15:37:29 UTC" 432,433c443,444 < y 1 4 -1.11e-16 -0.7 NA [y] < time 1 4 2019-02-25 15:37:25 GMT 1 secs POSIXct --- > y 1 4 -1.11022e-16 -0.7 NA [y] > time 1 4 2019-02-25 15:37:25 UTC 1 secs POSIXct Running ‘unproj.R’ Comparing ‘unproj.Rout’ to ‘unproj.Rout.save’ ...60c60 < Spam version 2.10-0 (2023-10-23) is loaded. --- > Spam version 2.9-1 (2022-08-07) is loaded. 74c74 < Linking to GEOS 3.12.1, GDAL 3.8.5, PROJ 9.4.0; sf_use_s2() is TRUE --- > Linking to GEOS 3.11.1, GDAL 3.6.2, PROJ 9.1.1; sf_use_s2() is TRUE Running ‘variogram.R’ Comparing ‘variogram.Rout’ to ‘variogram.Rout.save’ ... OK Running ‘vdist.R’ Comparing ‘vdist.Rout’ to ‘vdist.Rout.save’ ...23c23 < 1500 (180260, 331300) 5.647694 1.100095 --- > 1500 (180260, 331300) 5.50671 1.100095 Running ‘windst.R’ Comparing ‘windst.Rout’ to ‘windst.Rout.save’ ... OK [16s/16s] OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [19s/20s] OK * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 NOTE See ‘/Users/ripley/R/packages/tests-devel/gstat.Rcheck/00check.log’ for details. 74.97 real 61.18 user 10.26 sys