Last updated on 2025-06-14 12:48:53 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| RNAseqQC | 1 | 1 | 11 |
Current CRAN status: ERROR: 1, NOTE: 1, OK: 11
Version: 0.2.1
Check: examples
Result: ERROR
Running examples in 'RNAseqQC-Ex.R' failed
The error most likely occurred in:
> ### Name: plot_chromosome
> ### Title: Plot gene expression along a chromosome
> ### Aliases: plot_chromosome
>
> ### ** Examples
>
> library("DESeq2")
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: generics
Attaching package: 'generics'
The following objects are masked from 'package:base':
as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
setequal, union
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following object is masked from 'package:utils':
findMatches
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats
Attaching package: 'MatrixGenerics'
The following objects are masked from 'package:matrixStats':
colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'Biobase'
The following object is masked from 'package:MatrixGenerics':
rowMedians
The following objects are masked from 'package:matrixStats':
anyMissing, rowMedians
> chr1 <- T47D[which(mcols(T47D)$chromosome=="1"),]
> vsd <- vst(chr1)
> plot_chromosome(vsd, chr="1")
Error in Cairo(width, height, type = "png", file = filename, pointsize = pointsize, :
Graphics API version mismatch
Error: The size of the temporary image for rasterization is too huge (311 x
476 px) that it is cannot be handled by the device function
`Cairo:CairoPNG()`. Please reduce the maximal size of temporary image
by setting proper values for `ht_opt$raster_temp_image_max_width` and
`ht_opt$raster_temp_image_max_height`.
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.2.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'data.Rmd' using rmarkdown
--- finished re-building 'data.Rmd'
--- re-building 'introduction.Rmd' using rmarkdown
Quitting from introduction.Rmd:123-125 [unnamed-chunk-13]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! The size of the temporary image for rasterization is too huge (324 x
331 px) that it is cannot be handled by the device function
`Cairo:CairoPNG()`. Please reduce the maximal size of temporary image
by setting proper values for `ht_opt$raster_temp_image_max_width` and
`ht_opt$raster_temp_image_max_height`.
---
Backtrace:
▆
1. └─tools:::.buildOneVignette(...)
2. ├─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─engine$weave(file, quiet = quiet, encoding = enc)
7. └─knitr:::vweave_rmarkdown(...)
8. └─rmarkdown::render(...)
9. └─knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
10. └─knitr:::process_file(text, output)
11. ├─xfun:::handle_error(...)
12. ├─base::withCallingHandlers(...)
13. └─knitr:::process_group(group)
14. └─knitr:::call_block(x)
15. └─knitr:::block_exec(params)
16. └─knitr:::eng_r(options)
17. ├─knitr:::in_input_dir(...)
18. │ └─knitr:::in_dir(input_dir(), expr)
19. └─knitr (local) evaluate(...)
20. └─evaluate::evaluate(...)
21. ├─base::withRestarts(...)
22. │ └─base (local) withRestartList(expr, restarts)
23. │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
24. │ │ └─base (local) doWithOneRestart(return(expr), restart)
25. │ └─base (local) withRestartList(expr, restarts[-nr])
26. │ └─base (local) withOneRestart(expr, restarts[[1L]])
27. │ └─base (local) doWithOneRestart(return(expr), restart)
28. ├─evaluate:::with_handlers(...)
29. │ ├─base::eval(call)
30. │ │ └─base::eval(call)
31. │ └─base::withCallingHandlers(...)
32. └─watcher$print_value(ev$value, ev$visible, envir)
33. ├─base::withVisible(handle_value(handler, value, visible, envir))
34. └─evaluate:::handle_value(handler, value, visible, envir)
35. └─handler$value(value, visible)
36. └─knitr (local) fun(x, options = options)
37. ├─base::withVisible(knit_print(x, ...))
38. ├─knitr::knit_print(x, ...)
39. └─knitr:::knit_print.default(x, ...)
40. └─knitr::normal_print(x)
41. ├─base::print(x)
42. └─base::print.default(x)
43. ├─methods (local) `<stndrdGn>`(`<Heatmap[,2207]>`)
44. └─ComplexHeatmap (local) `<stndrdGn>`(`<Heatmap[,2207]>`)
45. ├─ComplexHeatmap::draw(object)
46. └─ComplexHeatmap::draw(object)
47. └─ComplexHeatmap (local) .local(object, ...)
48. ├─ComplexHeatmap::draw(ht_list, ...)
49. └─ComplexHeatmap::draw(ht_list, ...)
50. └─ComplexHeatmap (local) .local(object, ...)
51. ├─base::eval(code)
52. │ └─base::eval(code)
53. └─ht_graphic_fun_list[[j]](object)
54. ├─ComplexHeatmap::draw_heatmap_list(object)
55. └─ComplexHeatmap::draw_heatmap_list(object)
56. └─ComplexHeatmap (local) .local(object, ...)
57. ├─ComplexHeatmap::draw(ht, internal = TRUE)
58. └─ComplexHeatmap::draw(ht, internal = TRUE)
59. └─ComplexHeatmap (local) .local(object, ...)
60. └─ht_graphic_fun_list[[j]](object)
61. ├─ComplexHeatmap::draw_heatmap_body(...)
62. └─ComplexHeatmap::draw_heatmap_body(...)
63. └─ComplexHeatmap (local) .local(object, ...)
64. └─ComplexHeatmap:::stop_wrap(qq("The size of the temporary image for rasterization is too huge (@{temp_image_width} x @{temp_image_height} px) that it is cannot be handled by the device function `@{device_info[1]}:@{raster_device}()`. Please reduce the maximal size of temporary image by setting proper values for `ht_opt$raster_temp_image_max_width` and `ht_opt$raster_temp_image_max_height`."))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
The size of the temporary image for rasterization is too huge (324 x
331 px) that it is cannot be handled by the device function
`Cairo:CairoPNG()`. Please reduce the maximal size of temporary image
by setting proper values for `ht_opt$raster_temp_image_max_width` and
`ht_opt$raster_temp_image_max_height`.
--- failed re-building 'introduction.Rmd'
SUMMARY: processing the following file failed:
'introduction.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.2.1
Check: installed package size
Result: NOTE
installed size is 5.5Mb
sub-directories of 1Mb or more:
data 3.0Mb
doc 2.3Mb
Flavor: r-oldrel-macos-x86_64