Last updated on 2024-12-23 12:49:54 CET.
| Package | ERROR | OK |
|---|---|---|
| FieldSimR | 1 | 12 |
Current CRAN status: ERROR: 1, OK: 12
Version: 1.4.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘compound_symmetry_GxE_demo.Rmd’ using rmarkdown
*** caught segfault ***
address 0x58, cause 'memory not mapped'
An irrecoverable exception occurred. R is aborting now ...
<02><01>: 0: cannot open <03>: No such file
Segmentation fault
--- re-building ‘spatial_variation_demo.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-10-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 44236 bytes
Input file size = 44374 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 41964
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 = 5 IDAT size = 41964
Output IDAT size = 41964 bytes (2272 bytes decrease)
Output file size = 42042 bytes (2332 bytes = 5.26% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-11-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 43245 bytes
Input file size = 43383 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 40874
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 = 5 IDAT size = 40874
Output IDAT size = 40874 bytes (2371 bytes decrease)
Output file size = 40952 bytes (2431 bytes = 5.60% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-12-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 43132 bytes
Input file size = 43270 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 40823
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 = 5 IDAT size = 40823
Output IDAT size = 40823 bytes (2309 bytes decrease)
Output file size = 40901 bytes (2369 bytes = 5.47% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-13-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 42479 bytes
Input file size = 42617 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 40128
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 = 5 IDAT size = 40128
Output IDAT size = 40128 bytes (2351 bytes decrease)
Output file size = 40206 bytes (2411 bytes = 5.66% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-15-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 41945 bytes
Input file size = 42083 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 39611
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 = 5 IDAT size = 39611
Output IDAT size = 39611 bytes (2334 bytes decrease)
Output file size = 39689 bytes (2394 bytes = 5.69% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR/vignettes/spatial_variation_demo_files/figure-html/unnamed-chunk-16-1.png
1728x768 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 34365 bytes
Input file size = 34491 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
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 IDAT size = 32722
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 = 5 IDAT size = 32722
Output IDAT size = 32722 bytes (1643 bytes decrease)
Output file size = 32800 bytes (1691 bytes = 4.90% decrease)
--- finished re-building ‘spatial_variation_demo.Rmd’
--- re-building ‘unstructured_GxE_demo.Rmd’ using rmarkdown
Quitting from lines 227-239 [unnamed-chunk-15] (unstructured_GxE_demo.Rmd)
*** caught segfault ***
address 0x7f35313932c0, cause 'invalid permissions'
Traceback:
1: makeRestartList(...)
2: withRestarts({ signalCondition(cond) defaultHandler(cond)}, muffleMessage = function() NULL)
3: message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))
4: value[[3L]](cond)
5: tryCatchOne(expr, names, parentenv, handlers[[1L]])
6: tryCatchList(expr, classes, parentenv, handlers)terminate called after throwing an instance of 'std::bad_alloc'
7: 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)))})
8: tools:::.buildOneVignette("unstructured_GxE_demo.Rmd", "/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FieldSimR.Rcheck/vign_test/FieldSimR", TRUE, FALSE, "unstructured_GxE_demo", "UTF-8", "/tmp/RtmpBggYFr/file841024460ea3e.rds")
An irrecoverable exception occurred. R is aborting now ...
what(): std::bad_alloc
Aborted
SUMMARY: processing the following files failed:
‘compound_symmetry_GxE_demo.Rmd’ ‘unstructured_GxE_demo.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc