* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/atakrig.Rcheck’ * using R Under development (unstable) (2025-11-16 r89026) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) * running under: Fedora Linux 40 (Workstation Edition) * using session charset: UTF-8 * checking for file ‘atakrig/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘atakrig’ version ‘0.9.8.1’ * 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 ‘atakrig’ can be installed ... [58s/56s] OK * used C++ compiler: ‘g++ (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)’ * 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 ... [11s/12s] OK * checking whether the package can be loaded with stated dependencies ... [10s/11s] OK * checking whether the package can be unloaded cleanly ... [10s/11s] OK * checking whether the namespace can be loaded with stated dependencies ... [11s/12s] OK * checking whether the namespace can be unloaded cleanly ... [10s/11s] OK * checking loading without being on the library search path ... [11s/12s] 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 ... [54s/59s] OK * checking Rd files ... NOTE checkRd: (-1) ataCoKriging.Rd:52: Lost braces; missing escapes or markup? 52 | only one contrained condition for all points and all variables, \\sum_{i=1}^n\\lambda_i +\\sum_{j=1}^m\\beta_j =1, assuming expected means of variables known and constant with the study area. | ^ checkRd: (-1) ataCoKriging.Rd:52: Lost braces; missing escapes or markup? 52 | only one contrained condition for all points and all variables, \\sum_{i=1}^n\\lambda_i +\\sum_{j=1}^m\\beta_j =1, assuming expected means of variables known and constant with the study area. | ^ * 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 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 $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking examples ... [11s/12s] OK * checking examples with --run-donttest ... [30m/33m] ERROR Running examples in ‘atakrig-Ex.R’ failed The error most likely occurred in: > ### Name: ataCoKriging > ### Title: Area-to-area, area-to-point coKriging prediciton, > ### cross-validation. > ### Aliases: ataCoKriging atpCoKriging ataCoKriging.cv > > ### ** Examples > > ## No test: > library(atakrig) > library(terra) terra 1.8.80 > > ## demo data ---- > rpath <- system.file("extdata", package="atakrig") > aod3k <- rast(file.path(rpath, "MOD04_3K_A2017042.tif")) > aod10 <- rast(file.path(rpath, "MOD04_L2_A2017042.tif")) > > aod3k.d <- discretizeRaster(aod3k, 1500) > aod10.d <- discretizeRaster(aod10, 1500) > grid.pred <- discretizeRaster(aod3k, 1500, type = "all") > > aod3k.d$areaValues$value <- log(aod3k.d$areaValues$value) > aod10.d$areaValues$value <- log(aod10.d$areaValues$value) > > ## area-to-area Kriging ---- > # point-scale variogram from combined AOD-3k and AOD-10 > aod.combine <- rbindDiscreteArea(x = aod3k.d, y = aod10.d) > vgm.ok_combine <- deconvPointVgm(aod.combine, model="Exp", ngroup=12, rd=0.75) iterating: 1 iterating: 2 iterating: 3 iterating: 4 iterating: 5 iterating: 6 iterating: 7 iterating: 8 iterating: 9 iterating: 10 iterating: 11 iterating: 12 iterating: 13 iterating: 14 > > # point-scale cross-variogram > aod.list <- list(aod3k=aod3k.d, aod10=aod10.d) > aod.list <- list(aod3k=aod3k.d, aod10=aod10.d) > vgm.ck <- deconvPointVgmForCoKriging(aod.list, model="Exp", ngroup=12, rd=0.75, + fixed.range = 9e4) Deconvoluting variogram of aod10 ... Deconvoluting variogram of aod3k ... Deconvoluting cross-variogram between aod10 and aod3k ... iterating: 1 iterating: 2 iterating: 3 iterating: 4 iterating: 5 iterating: 6 > > # prediction > ataStartCluster(2) # parallel with 2 nodes Loading required namespace: Rmpi 2 slaves are spawned successfully. 0 failed. [[1]] $rank [1] 1 $RECVTAG [1] 33 $SENDTAG [1] 22 $comm [1] 1 attr(,"class") [1] "MPInode" [[2]] $rank [1] 2 $RECVTAG [1] 33 $SENDTAG [1] 22 $comm [1] 1 attr(,"class") [1] "MPInode" attr(,"class") [1] "spawnedMPIcluster" "MPIcluster" "cluster" > pred.ataok <- ataKriging(aod10.d, grid.pred, vgm.ck$aod10, showProgress = TRUE) | | | 0% | | | 1% | |= | 1% | |= | 2% | |= | 3% | |== | 3% | |== | 4% | |== | 5% | |=== | 5% | |=== | 6% | |=== | 7% | |==== | 7% | |==== | 8% | |==== | 9% | |===== | 9% | |===== | 10% | |===== | 11% | |====== | 11% | |====== | 12% | |====== | 13% | |======= | 13% | |======= | 14% | |======= | 15% | |======== | 15% | |======== | 16% | |======== | 17% | |========= | 17% | |========= | 18% | |========= | 19% | |========== | 19% | |========== | 20% | |========== | 21% | |=========== | 21% | |=========== | 22% | |=========== | 23% | |============ | 23% | |============ | 24% | |============ | 25% | |============= | 25% | |============= | 26% | |============= | 27% | 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OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/data/blackswan/ripley/R/packages/tests-devel/atakrig.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 38:33.79, 2079.91 + 31.45