Last updated on 2025-06-20 12:49:16 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.5.3 | 64.07 | 444.61 | 508.68 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.5.3 | 46.86 | 292.85 | 339.71 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.5.3 | 820.72 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.5.3 | 822.53 | OK | |||
| r-devel-windows-x86_64 | 1.5.3 | 72.00 | 391.00 | 463.00 | OK | |
| r-patched-linux-x86_64 | 1.5.3 | 73.53 | 301.29 | 374.82 | ERROR | |
| r-release-linux-x86_64 | 1.5.3 | 72.61 | 406.29 | 478.90 | OK | |
| r-release-macos-arm64 | 1.5.3 | 176.00 | OK | |||
| r-release-macos-x86_64 | 1.5.3 | 411.00 | OK | |||
| r-release-windows-x86_64 | 1.5.3 | 68.00 | 400.00 | 468.00 | OK | |
| r-oldrel-macos-arm64 | 1.5.3 | 215.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 1.5.3 | 393.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 1.5.3 | 87.00 | 557.00 | 644.00 | NOTE |
Version: 1.5.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘plot_design_optimization.Rmd’ using rmarkdown
Warning in in_dir(input_dir(), expr) :
You changed the working directory to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/FORTLS/data (probably via setwd()). It will be restored to /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS/vignettes. See the Note section in ?knitr::knit
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS/vignettes/plot_design_optimization_files/figure-html/unnamed-chunk-2-1.png
672x672 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 28827 bytes
Input file size = 29721 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25445
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25445
Output IDAT size = 25445 bytes (3382 bytes decrease)
Output file size = 25523 bytes (4198 bytes = 14.12% decrease)
--- finished re-building ‘plot_design_optimization.Rmd’
--- re-building ‘stand_level.Rmd’ using rmarkdown
Warning in in_dir(input_dir(), expr) :
You changed the working directory to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/FORTLS/data (probably via setwd()). It will be restored to /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS/vignettes. See the Note section in ?knitr::knit
--- finished re-building ‘stand_level.Rmd’
--- re-building ‘tree_level.Rmd’ using rmarkdown
trying URL 'https://www.dropbox.com/s/17yl25pbrapat52/PinusRadiata.laz?dl=1'
downloaded 160 KB
trying URL 'https://www.dropbox.com/scl/fi/es5pfj87wj0g6y8414dpo/PiceaAbies.laz?rlkey=ayt21mbndc6i6fyiz2e7z6oap&dl=1'
Content type 'application/binary' length 12898220 bytes (12.3 MB)
==================================================
downloaded 12.3 MB
ERROR: wrong file signature '<!DOCTYPE html>
<html class="maestro global-header" xmlns="http://www.w3.org/1999/xhtml" lang="en">
<head'
ERROR: cannot open lasreaderlas with file name '/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS/vignettes/PinusRadiata.laz'
Error: LASlib internal error. See message above.
ERROR: wrong file signature '<!DOCTYPE html>
<html class="maestro global-header" xmlns="http://www.w3.org/1999/xhtml" lang="en">
<head'
ERROR: cannot open lasreaderlas with file name '/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS/vignettes/PinusRadiata.laz'
*** caught segfault ***
address 0xc0, cause 'memory not mapped'
Traceback:
1: C_reader(ifiles, ofile, select, filter, polygons)
2: rlas::read_and_write.las(ifiles, ofile, select, filter, geom)
3: streamLAS.character(files, ofile = "", select, filter)
4: streamLAS(files, ofile = "", select, filter)
5: readLAS.character(file.path(dir.data, las), select = select_option)
6: lidR::readLAS(file.path(dir.data, las), select = select_option)
7: withCallingHandlers(expr, message = function(c) if (inherits(c, classes)) tryInvokeRestart("muffleMessage"))
8: suppressMessages(lidR::readLAS(file.path(dir.data, las), select = select_option))
9: withCallingHandlers(expr, warning = function(w) if (inherits(w, classes)) tryInvokeRestart("muffleWarning"))
10: suppressWarnings(suppressMessages(lidR::readLAS(file.path(dir.data, las), select = select_option)))
11: normalize(las = "PinusRadiata.laz", normalized = NULL, x.center = 0, y.center = 0, max.dist = 10, min.height = NULL, max.height = NULL, algorithm.dtm = "knnidw", res.dtm = 0.2, csf = list(cloth_resolution = 0.5), RGB = TRUE, scan.approach = "single", id = NULL, file = "single.txt", dir.data = dir.data, save.result = FALSE, dir.result = NULL)
12: eval(expr, envir)
13: eval(expr, envir)
14: withVisible(eval(expr, envir))
15: withCallingHandlers(code, message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) { if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd) watcher$push(cnd) } if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
16: eval(call)
17: eval(call)
18: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
19: doWithOneRestart(return(expr), restart)
20: withOneRestart(expr, restarts[[1L]])
21: withRestartList(expr, restarts[-nr])
22: doWithOneRestart(return(expr), restart)
23: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
24: withRestartList(expr, restarts)
25: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
26: evaluate::evaluate(...)
27: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))
28: in_dir(input_dir(), expr)
29: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)))
30: eng_r(options)
31: block_exec(params)
32: call_block(x)
33: process_group(group)
34: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
35: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
36: process_file(text, output)
37: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
38: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
39: vweave_rmarkdown(...)
40: engine$weave(file, quiet = quiet, encoding = enc)
41: doTryCatch(return(expr), name, parentenv, handler)
42: tryCatchOne(expr, names, parentenv, handlers[[1L]])
43: tryCatchList(expr, classes, parentenv, handlers)
44: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
45: tools:::.buildOneVignette("tree_level.Rmd", "/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/FORTLS.Rcheck/vign_test/FORTLS", TRUE, FALSE, "tree_level", "UTF-8", "/home/hornik/tmp/scratch/RtmpJET3LS/file18459d7e5062b2.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
SUMMARY: processing the following file failed:
‘tree_level.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.5.3
Check: installed package size
Result: NOTE
installed size is 17.1Mb
sub-directories of 1Mb or more:
data 2.7Mb
doc 1.2Mb
libs 12.5Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64