* using log directory 'd:/Rcompile/CRANpkg/local/3.5/sp.Rcheck' * using R version 3.5.3 (2019-03-11) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'sp/DESCRIPTION' ... OK * this is package 'sp' version '1.4-1' * 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 whether package 'sp' can be installed ... OK * 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... NOTE Missing or unexported objects: 'rgdal::checkCRSArgs_ng' 'rgdal::new_proj_and_gdal' * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [27s] OK * checking Rd files ... OK * 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 C/C++/Fortran sources/headers ... OK * checking pragmas in C/C++ headers and code ... 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 ... ** running examples for arch 'i386' ... [21s] OK ** running examples for arch 'x64' ... [23s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... [25s] OK Running 'agg.R' [3s] Comparing 'agg.Rout' to 'agg.Rout.save' ... OK Running 'base.R' [2s] Comparing 'base.Rout' to 'base.Rout.save' ... OK Running 'fail1.R' [2s] Comparing 'fail1.Rout' to 'fail1.Rout.save' ... OK Running 'grid.R' [2s] Comparing 'grid.Rout' to 'grid.Rout.save' ... OK Running 'over2.R' [2s] Comparing 'over2.Rout' to 'over2.Rout.save' ... OK Running 'pass1.R' [3s] Comparing 'pass1.Rout' to 'pass1.Rout.save' ...50,72c50,72 < lime landuse zinc elev dist.m < 0:111 W :50 Min. : 113.0 Min. : 5.180 Min. : 10.0 < 1: 44 Ah :39 1st Qu.: 198.0 1st Qu.: 7.546 1st Qu.: 80.0 < Am :22 Median : 326.0 Median : 8.180 Median : 270.0 < Fw :10 Mean : 469.7 Mean : 8.165 Mean : 290.3 < Ab : 8 3rd Qu.: 674.5 3rd Qu.: 8.955 3rd Qu.: 450.0 < (Other):25 Max. :1839.0 Max. :10.520 Max. :1000.0 < NA's : 1 < dist soil copper om lead < Min. :0.00000 1:97 Min. : 14.00 Min. : 1.000 Min. : 37.0 < 1st Qu.:0.07569 2:46 1st Qu.: 23.00 1st Qu.: 5.300 1st Qu.: 72.5 < Median :0.21184 3:12 Median : 31.00 Median : 6.900 Median :123.0 < Mean :0.24002 Mean : 40.32 Mean : 7.478 Mean :153.4 < 3rd Qu.:0.36407 3rd Qu.: 49.50 3rd Qu.: 9.000 3rd Qu.:207.0 < Max. :0.88039 Max. :128.00 Max. :17.000 Max. :654.0 < NA's :2 < cadmium ffreq < Min. : 0.200 1:84 < 1st Qu.: 0.800 2:48 < Median : 2.100 3:23 < Mean : 3.246 < 3rd Qu.: 3.850 < Max. :18.100 --- > lime om landuse ffreq zinc > 0:111 Min. : 1.000 W :50 1:84 Min. : 113.0 > 1: 44 1st Qu.: 5.300 Ah :39 2:48 1st Qu.: 198.0 > Median : 6.900 Am :22 3:23 Median : 326.0 > Mean : 7.478 Fw :10 Mean : 469.7 > 3rd Qu.: 9.000 Ab : 8 3rd Qu.: 674.5 > Max. :17.000 (Other):25 Max. :1839.0 > NA's :2 NA's : 1 > dist copper cadmium soil dist.m > Min. :0.00000 Min. : 14.00 Min. : 0.200 1:97 Min. : 10.0 > 1st Qu.:0.07569 1st Qu.: 23.00 1st Qu.: 0.800 2:46 1st Qu.: 80.0 > Median :0.21184 Median : 31.00 Median : 2.100 3:12 Median : 270.0 > Mean :0.24002 Mean : 40.32 Mean : 3.246 Mean : 290.3 > 3rd Qu.:0.36407 3rd Qu.: 49.50 3rd Qu.: 3.850 3rd Qu.: 450.0 > Max. :0.88039 Max. :128.00 Max. :18.100 Max. :1000.0 > > lead elev > Min. : 37.0 Min. : 5.180 > 1st Qu.: 72.5 1st Qu.: 7.546 > Median :123.0 Median : 8.180 > Mean :153.4 Mean : 8.165 > 3rd Qu.:207.0 3rd Qu.: 8.955 > Max. :654.0 Max. :10.520 280c280 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 315c315 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 338c338 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 361c361 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 385c385 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 407c407 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 425c425 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 445c445 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 467c467 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 485c485 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 Running 'point.in.polygon.R' [1s] Comparing 'point.in.polygon.Rout' to 'point.in.polygon.Rout.save' ... OK Running 'sel.R' [2s] Comparing 'sel.Rout' to 'sel.Rout.save' ... OK Running 'sp1.R' [1s] Comparing 'sp1.Rout' to 'sp1.Rout.save' ... OK Running 'spDists.R' [3s] Comparing 'spDists.Rout' to 'spDists.Rout.save' ...15c15 < [1] 1.774598e-10 --- > [1] 0 18c18 < -9.095e-13 0.000e+00 0.000e+00 3.690e-16 0.000e+00 9.095e-13 --- > 0 0 0 0 0 0 22c22 < [1] 1.774598e-10 --- > [1] 0 25c25 < -9.095e-13 0.000e+00 0.000e+00 3.690e-16 0.000e+00 9.095e-13 --- > 0 0 0 0 0 0 Running 'spplot.R' [1s] Comparing 'spplot.Rout' to 'spplot.Rout.save' ... OK Running 'zerodist.R' [1s] Comparing 'zerodist.Rout' to 'zerodist.Rout.save' ...23,24c23,24 < [145] 145 146 147 148 149 150 151 152 153 154 155 100 91 148 141 25 64 97 < [163] 71 5 92 --- > [145] 145 146 147 148 149 150 151 152 153 154 155 140 9 26 7 90 17 133 > [163] 82 35 116 ** running tests for arch 'x64' ... [24s] OK Running 'agg.R' [3s] Comparing 'agg.Rout' to 'agg.Rout.save' ... OK Running 'base.R' [2s] Comparing 'base.Rout' to 'base.Rout.save' ... OK Running 'fail1.R' [2s] Comparing 'fail1.Rout' to 'fail1.Rout.save' ... OK Running 'grid.R' [2s] Comparing 'grid.Rout' to 'grid.Rout.save' ... OK Running 'over2.R' [2s] Comparing 'over2.Rout' to 'over2.Rout.save' ... OK Running 'pass1.R' [3s] Comparing 'pass1.Rout' to 'pass1.Rout.save' ...50,72c50,72 < lime landuse zinc elev dist.m < 0:111 W :50 Min. : 113.0 Min. : 5.180 Min. : 10.0 < 1: 44 Ah :39 1st Qu.: 198.0 1st Qu.: 7.546 1st Qu.: 80.0 < Am :22 Median : 326.0 Median : 8.180 Median : 270.0 < Fw :10 Mean : 469.7 Mean : 8.165 Mean : 290.3 < Ab : 8 3rd Qu.: 674.5 3rd Qu.: 8.955 3rd Qu.: 450.0 < (Other):25 Max. :1839.0 Max. :10.520 Max. :1000.0 < NA's : 1 < dist soil copper om lead < Min. :0.00000 1:97 Min. : 14.00 Min. : 1.000 Min. : 37.0 < 1st Qu.:0.07569 2:46 1st Qu.: 23.00 1st Qu.: 5.300 1st Qu.: 72.5 < Median :0.21184 3:12 Median : 31.00 Median : 6.900 Median :123.0 < Mean :0.24002 Mean : 40.32 Mean : 7.478 Mean :153.4 < 3rd Qu.:0.36407 3rd Qu.: 49.50 3rd Qu.: 9.000 3rd Qu.:207.0 < Max. :0.88039 Max. :128.00 Max. :17.000 Max. :654.0 < NA's :2 < cadmium ffreq < Min. : 0.200 1:84 < 1st Qu.: 0.800 2:48 < Median : 2.100 3:23 < Mean : 3.246 < 3rd Qu.: 3.850 < Max. :18.100 --- > lime om landuse ffreq zinc > 0:111 Min. : 1.000 W :50 1:84 Min. : 113.0 > 1: 44 1st Qu.: 5.300 Ah :39 2:48 1st Qu.: 198.0 > Median : 6.900 Am :22 3:23 Median : 326.0 > Mean : 7.478 Fw :10 Mean : 469.7 > 3rd Qu.: 9.000 Ab : 8 3rd Qu.: 674.5 > Max. :17.000 (Other):25 Max. :1839.0 > NA's :2 NA's : 1 > dist copper cadmium soil dist.m > Min. :0.00000 Min. : 14.00 Min. : 0.200 1:97 Min. : 10.0 > 1st Qu.:0.07569 1st Qu.: 23.00 1st Qu.: 0.800 2:46 1st Qu.: 80.0 > Median :0.21184 Median : 31.00 Median : 2.100 3:12 Median : 270.0 > Mean :0.24002 Mean : 40.32 Mean : 3.246 Mean : 290.3 > 3rd Qu.:0.36407 3rd Qu.: 49.50 3rd Qu.: 3.850 3rd Qu.: 450.0 > Max. :0.88039 Max. :128.00 Max. :18.100 Max. :1000.0 > > lead elev > Min. : 37.0 Min. : 5.180 > 1st Qu.: 72.5 1st Qu.: 7.546 > Median :123.0 Median : 8.180 > Mean :153.4 Mean : 8.165 > 3rd Qu.:207.0 3rd Qu.: 8.955 > Max. :654.0 Max. :10.520 280c280 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 315c315 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 338c338 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 361c361 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 385c385 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 407c407 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 425c425 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 445c445 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 467c467 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 485c485 < +towgs84=565.4171,50.3319,465.5524,-0.398957,0.343988,-1.87740,4.0725 --- > +towgs84=565.2369,50.0087,465.658,-0.406857,0.350733,-1.87035,4.0812 Running 'point.in.polygon.R' [1s] Comparing 'point.in.polygon.Rout' to 'point.in.polygon.Rout.save' ... OK Running 'sel.R' [2s] Comparing 'sel.Rout' to 'sel.Rout.save' ... OK Running 'sp1.R' [1s] Comparing 'sp1.Rout' to 'sp1.Rout.save' ... OK Running 'spDists.R' [3s] Comparing 'spDists.Rout' to 'spDists.Rout.save' ... OK Running 'spplot.R' [2s] Comparing 'spplot.Rout' to 'spplot.Rout.save' ... OK Running 'zerodist.R' [1s] Comparing 'zerodist.Rout' to 'zerodist.Rout.save' ...23,24c23,24 < [145] 145 146 147 148 149 150 151 152 153 154 155 100 91 148 141 25 64 97 < [163] 71 5 92 --- > [145] 145 146 147 148 149 150 151 152 153 154 155 140 9 26 7 90 17 133 > [163] 82 35 116 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking re-building of vignette outputs ... [55s] OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE