• using R Under development (unstable) (2025-12-11 r89150)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘sarp.snowprofile.alignment/DESCRIPTION’ ... OK
• this is package ‘sarp.snowprofile.alignment’ version ‘2.0.2’
• 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 ‘sarp.snowprofile.alignment’ can be installed ... [12s/18s] OK See the install log for details.
• 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 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 ... [23s/26s] OK
• checking Rd files ... OK
• 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... ERROR Running examples in ‘sarp.snowprofile.alignment-Ex.R’ failed The error most likely occurred in: > ### Name: dtwSP > ### Title: Calculate DTW alignment of two snow profiles > ### Aliases: dtwSP > > ### ** Examples > > > ## Align a modeled and a manual snow profile, primarily based on default settings: > dtwAlignment <- dtwSP(SPpairs$A_modeled, SPpairs$A_manual, open.end = FALSE) Error in r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0] :   non-numeric argument to binary operator Calls: dtwSP ... format_snowprofileLayers -> snowprofileLayers -> diff -> diff.default Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... ERROR   Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(sarp.snowprofile.alignment)   Loading required package: sarp.snowprofile   >   > test_check("sarp.snowprofile.alignment")   Saving _problems/test-distanceSP-8.R   Saving _problems/test-dtwSP-8.R   Saving _problems/test-dtwSP-19.R   Saving _problems/test-dtwSP-31.R   Saving _problems/test-dtwSP-42.R   Saving _problems/test-dtwSP-54.R   Saving _problems/test-dtwSP-77.R   Saving _problems/test-dtwSP-112.R   Saving _problems/test-dtwSP-124.R   [ FAIL 9 | WARN 0 | SKIP 0 | PASS 0 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-distanceSP.R:5:3'): simSP calculated as anticipated ────────────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-distanceSP.R:5:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:5:3'): resampled, uneven (nL_q > nL_r), bottom.up (i.e., layer-tracking) ──   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:5:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:16:3'): resampled, uneven (nL_q > nL_r), top.down ──────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:16:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:28:3'): resampled, uneven (nL_q < nL_r), bottom.up (i.e., layer-tracking) ──   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:28:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:39:3'): resampled, uneven (nL_q < nL_r), top.down ──────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:39:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:51:3'): rescaled and resampled, top.down ───────────────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:51:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:74:3'): resampled, uneven, best match ──────────────────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:74:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:109:3'): resampled, uneven, bottom.up ──────────────────   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:109:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))   ── Error ('test-dtwSP.R:122:3'): resampled, uneven, top.down, unobservedBasalLayer, warp:jminTopDown ──   Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: non-numeric argument to binary operator   Backtrace:       ▆    1. └─sarp.snowprofile.alignment::dtwSP(...) at test-dtwSP.R:122:3    2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)    3. └─sarp.snowprofile::snowprofileLayers(...)    4. └─sarp.snowprofile::format_snowprofileLayers(...)    5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)    6. ├─base::diff(sapply(entries[!is.na(entries)], length))    7. └─base::diff.default(sapply(entries[!is.na(entries)], length))      [ FAIL 9 | WARN 0 | SKIP 0 | PASS 0 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [25s/43s] ERROR Error(s) in re-building vignettes: --- re-building ‘averaging.Rmd’ using rmarkdown Quitting from averaging.Rmd:45-52 [avgSPcalc] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `averageSP()`: ! Can't find an average profile! --- Backtrace:     ▆  1. └─sarp.snowprofile.alignment::averageSP(SPgroup2, n = 1, progressbar = FALSE) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'averaging.Rmd' failed with diagnostics: Can't find an average profile! --- failed re-building ‘averaging.Rmd’ --- re-building ‘clustering.Rmd’ using rmarkdown Quitting from clustering.Rmd:91-94 [unnamed-chunk-6] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `hclust()`: ! NA/NaN/Inf in foreign function call (arg 10) --- Backtrace:     ▆  1. └─sarp.snowprofile.alignment::clusterSP(...)  2. ├─base::do.call("hclust", c(list(d = distmat), config$args_cluster))  3. └─stats::hclust(d = `<dist[,5]>`) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'clustering.Rmd' failed with diagnostics: NA/NaN/Inf in foreign function call (arg 10) --- failed re-building ‘clustering.Rmd’ --- re-building ‘technical-details.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘technical-details.Rmd’ --- re-building ‘workflow.Rmd’ using rmarkdown Quitting from workflow.Rmd:38-41 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`: ! non-numeric argument to binary operator --- Backtrace:     ▆  1. └─sarp.snowprofile.alignment::dtwSP(...)  2. └─sarp.snowprofile.alignment::resampleSP(ref, h = resamplingRate)  3. └─sarp.snowprofile::snowprofileLayers(...)  4. └─sarp.snowprofile::format_snowprofileLayers(...)  5. └─sarp.snowprofile::snowprofileLayers(validate = FALSE, dropNAs = FALSE)  6. ├─base::diff(sapply(entries[!is.na(entries)], length))  7. └─base::diff.default(sapply(entries[!is.na(entries)], length)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'workflow.Rmd' failed with diagnostics: non-numeric argument to binary operator --- failed re-building ‘workflow.Rmd’ SUMMARY: processing the following files failed:   ‘averaging.Rmd’ ‘clustering.Rmd’ ‘workflow.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [9s/16s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 3 ERRORs