CRAN Package Check Results for Maintainer ‘Michael Dumelle <Dumelle.Michael at epa.gov>’

Last updated on 2026-05-05 11:51:59 CEST.

Package	ERROR	OK
spmodel	2	11
spsurvey	1	12
SSN2		13

Package spmodel

Current CRAN status: ERROR: 2, OK: 11

Version: 0.12.0
Check: examples
Result: ERROR Running examples in ‘spmodel-Ex.R’ failed The error most likely occurred in: > ### Name: augment.spmodel > ### Title: Augment data with information from fitted model objects > ### Aliases: augment.spmodel augment.splm augment.spautor augment.spglm > ### augment.spgautor > > ### ** Examples > > spmod <- splm(z ~ water + tarp, + data = caribou, + spcov_type = "exponential", xcoord = x, ycoord = y + ) > augment(spmod) # A tibble: 30 × 10 z water tarp x y .fitted .resid .hat .cooksd .std.resid <dbl> <fct> <fct> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> 1 2.42 Y clear 1 6 1.97 0.454 0.116 0.209 2.53 2 2.44 Y shade 2 6 2.25 0.190 0.137 0.0468 1.09 3 1.81 Y none 3 6 2.05 -0.237 0.137 0.0752 -1.38 4 1.97 N clear 4 6 2.05 -0.0838 0.174 0.00211 -0.200 5 2.38 N shade 5 6 2.34 0.0407 0.153 0.0159 0.594 6 2.22 Y none 1 5 2.05 0.177 0.147 0.0434 1.00 7 2.10 N clear 2 5 2.05 0.0512 0.156 0.00936 0.450 8 1.80 Y clear 3 5 1.97 -0.163 0.122 0.0135 -0.624 9 1.96 Y shade 4 5 2.25 -0.290 0.119 0.0642 -1.38 10 2.10 Y none 5 5 2.05 0.0522 0.131 0.0264 0.837 # ℹ 20 more rows > spmod_sulf <- splm(sulfate ~ 1, data = sulfate, spcov_type = "exponential") > augment(spmod_sulf) Simple feature collection with 197 features and 6 fields Geometry type: POINT Dimension: XY Bounding box: xmin: -2292550 ymin: 386181.1 xmax: 2173345 ymax: 3090370 Projected CRS: NAD83 / Conus Albers # A tibble: 197 × 7 sulfate .fitted .resid .hat .cooksd .std.resid geometry * <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <POINT [m]> 1 12.9 5.92 7.00 0.00334 0.00161 -0.694 (817738.8 1080571) 2 20.2 5.92 14.2 0.00256 0.00192 0.865 (914593.6 1295545) 3 16.8 5.92 10.9 0.00259 0.000395 0.390 (359574.1 1178228) 4 16.2 5.92 10.3 0.00239 0.000363 0.390 (265331.9 1239089) 5 7.86 5.92 1.93 0.00202 0.00871 -2.07 (304528.8 1453636) 6 15.4 5.92 9.43 0.00201 0.000240 0.345 (162932.8 1451625) 7 0.986 5.92 -4.94 0.00380 0.000966 -0.503 (-1437776 1568022) 8 0.425 5.92 -5.50 0.0138 0.00584 -0.646 (-1572878 1125529) 9 3.58 5.92 -2.34 0.00673 0.0000148 -0.0467 (-1282009 1204889) 10 2.38 5.92 -3.54 0.0123 0.0000139 -0.0335 (-1972775 1464991) # ℹ 187 more rows > augment(spmod_sulf, newdata = sulfate_preds) OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead. OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set). Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.12.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘introduction.Rmd’ using rmarkdown OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead. OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set). Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.12.0
Check: examples
Result: ERROR Running examples in ‘spmodel-Ex.R’ failed The error most likely occurred in: > ### Name: augment.spmodel > ### Title: Augment data with information from fitted model objects > ### Aliases: augment.spmodel augment.splm augment.spautor augment.spglm > ### augment.spgautor > > ### ** Examples > > spmod <- splm(z ~ water + tarp, + data = caribou, + spcov_type = "exponential", xcoord = x, ycoord = y + ) > augment(spmod) # A tibble: 30 × 10 z water tarp x y .fitted .resid .hat .cooksd .std.resid <dbl> <fct> <fct> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> 1 2.42 Y clear 1 6 1.97 0.454 0.116 0.209 2.53 2 2.44 Y shade 2 6 2.25 0.190 0.137 0.0468 1.09 3 1.81 Y none 3 6 2.05 -0.237 0.137 0.0752 -1.38 4 1.97 N clear 4 6 2.05 -0.0838 0.174 0.00211 -0.200 5 2.38 N shade 5 6 2.34 0.0407 0.153 0.0159 0.594 6 2.22 Y none 1 5 2.05 0.177 0.147 0.0434 1.00 7 2.10 N clear 2 5 2.05 0.0512 0.156 0.00936 0.450 8 1.80 Y clear 3 5 1.97 -0.163 0.122 0.0135 -0.624 9 1.96 Y shade 4 5 2.25 -0.290 0.119 0.0642 -1.38 10 2.10 Y none 5 5 2.05 0.0522 0.131 0.0264 0.837 # ℹ 20 more rows > spmod_sulf <- splm(sulfate ~ 1, data = sulfate, spcov_type = "exponential") > augment(spmod_sulf) Simple feature collection with 197 features and 6 fields Geometry type: POINT Dimension: XY Bounding box: xmin: -2292550 ymin: 386181.1 xmax: 2173345 ymax: 3090370 Projected CRS: NAD83 / Conus Albers # A tibble: 197 × 7 sulfate .fitted .resid .hat .cooksd .std.resid geometry * <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <POINT [m]> 1 12.9 5.92 7.00 0.00334 0.00161 -0.694 (817738.8 1080571) 2 20.2 5.92 14.2 0.00256 0.00192 0.865 (914593.6 1295545) 3 16.8 5.92 10.9 0.00259 0.000395 0.390 (359574.1 1178228) 4 16.2 5.92 10.3 0.00239 0.000363 0.390 (265331.9 1239089) 5 7.86 5.92 1.93 0.00202 0.00871 -2.07 (304528.8 1453636) 6 15.4 5.92 9.43 0.00201 0.000240 0.345 (162932.8 1451625) 7 0.986 5.92 -4.94 0.00380 0.000966 -0.503 (-1437776 1568022) 8 0.425 5.92 -5.50 0.0138 0.00584 -0.646 (-1572878 1125529) 9 3.58 5.92 -2.34 0.00673 0.0000148 -0.0467 (-1282009 1204889) 10 2.38 5.92 -3.54 0.0123 0.0000139 -0.0335 (-1972775 1464991) # ℹ 187 more rows > augment(spmod_sulf, newdata = sulfate_preds) Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.12.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘introduction.Rmd’ using rmarkdown Flavor: r-devel-linux-x86_64-fedora-gcc

Package spsurvey

Current CRAN status: ERROR: 1, OK: 12

Version: 5.6.0
Check: examples
Result: ERROR Running examples in ‘spsurvey-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: cont_cdftest > ### Title: Cumulative distribution function (CDF) inference for a > ### probability survey > ### Aliases: cont_cdftest > ### Keywords: survey > > ### ** Examples > > n <- 200 > mysiteID <- paste("Site", 1:n, sep = "") > dframe <- data.frame( + siteID = mysiteID, + wgt = runif(n, 10, 100), + xcoord = runif(n), + ycoord = runif(n), + stratum = rep(c("Stratum1", "Stratum2"), n / 2), + Resource_Class = sample(c("Agr", "Forest", "Urban"), n, replace = TRUE) + ) > ContVar <- numeric(n) > tst <- dframe$Resource_Class == "Agr" > ContVar[tst] <- rnorm(sum(tst), 10, 1) > tst <- dframe$Resource_Class == "Forest" > ContVar[tst] <- rnorm(sum(tst), 10.1, 1) > tst <- dframe$Resource_Class == "Urban" > ContVar[tst] <- rnorm(sum(tst), 10.5, 1) > dframe$ContVar <- ContVar > myvars <- c("ContVar") > mysubpops <- c("Resource_Class") > mypopsize <- data.frame( + Resource_Class = rep(c("Agr", "Forest", "Urban"), rep(2, 3)), + stratum = rep(c("Stratum1", "Stratum2"), 3), + Total = c(2500, 1500, 1000, 500, 600, 450) + ) > cont_cdftest(dframe, + vars = myvars, subpops = mysubpops, siteID = "siteID", + weight = "wgt", xcoord = "xcoord", ycoord = "ycoord", + stratumID = "stratum", popsize = mypopsize, testname = "RaoScott_First" + ) Error in as.data.frame.integer(x[[i]], optional = TRUE) : row names contain missing values Calls: cont_cdftest ... data.frame -> as.data.frame -> as.data.frame.integer Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 5.6.0
Check: tests
Result: ERROR Running ‘testthat.R’ [56s/72s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(spsurvey) Loading required package: sf Linking to GEOS 3.14.1, GDAL 3.12.3, PROJ 9.8.1; sf_use_s2() is TRUE Loading required package: survey Loading required package: grid Loading required package: Matrix Loading required package: survival Attaching package: 'survey' The following object is masked from 'package:graphics': dotchart > > test_check("spsurvey") Saving _problems/test-cont_cdftest-92.R [ FAIL 1 | WARN 0 | SKIP 0 | PASS 814 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-cont_cdftest.R:88:1'): (code run outside of `test_that()`) ───── Error in `as.data.frame.integer(x[[i]], optional = TRUE)`: row names contain missing values Backtrace: ▆ 1. └─spsurvey::cont_cdftest(...) at test-cont_cdftest.R:88:1 2. ├─base::rbind(...) 3. └─base::data.frame(...) 4. ├─base::as.data.frame(x[[i]], optional = TRUE) 5. └─base::as.data.frame.integer(x[[i]], optional = TRUE) [ FAIL 1 | WARN 0 | SKIP 0 | PASS 814 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Package SSN2

Current CRAN status: OK: 13