Last updated on 2022-04-24 03:53:06 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| dnapath | 5 | 7 | |
| SeqNet | 8 | 4 |
Current CRAN status: ERROR: 5, OK: 7
Version: 0.6.11
Check: examples
Result: ERROR
Running examples in 'dnapath-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_reactome_pathways
> ### Title: Obtain Reactome pathways
> ### Aliases: get_reactome_pathways
>
> ### ** Examples
>
> # Obtaining a pathway list for human (Homo sapiens).
> # In this example, overlapping pathways are not combined (this is
> # specified by setting overlap_limit to NULL).
> pathway_list <- get_reactome_pathways("Homo sapiens", overlap_limit = NULL,
+ min_size = 10, max_size = 20)
Obtaining reactome pathway information for species: Homo sapiens
Error in get_reactome_pathways("Homo sapiens", overlap_limit = NULL, min_size = 10, :
Homo sapiens is not an available species. Use one of the following:
1-diphosphate,
Bos taurus
,
Caenorhabditis elegans
,
Canis familiaris
,
Danio rerio
,
Dictyostelium discoideum
,
Drosophila melanogaster
,
Gallus gallus
,
Homo sapiens
,
Mus musculus
,
Mycobacterium tuberculosis
,
Plasmodium falciparum
,
Rattus norvegicus
,
Saccharomyces cerevisiae
,
Schizosaccharomyces pombe
,
Sus scrofa
Xenopus tropicalis
.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64
Version: 0.6.11
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building 'introduction_to_dnapath.Rmd' using rmarkdown
--- finished re-building 'introduction_to_dnapath.Rmd'
--- re-building 'package_data.Rmd' using rmarkdown
Quitting from lines 30-31 (package_data.Rmd)
Error: processing vignette 'package_data.Rmd' failed with diagnostics:
Homo sapiens is not an available species. Use one of the following:
1-diphosphate,
Bos taurus
,
Caenorhabditis elegans
,
Canis familiaris
,
Danio rerio
,
Dictyostelium discoideum
,
Drosophila melanogaster
,
Gallus gallus
,
Homo sapiens
,
Mus musculus
,
Mycobacterium tuberculosis
,
Plasmodium falciparum
,
Rattus norvegicus
,
Saccharomyces cerevisiae
,
Schizosaccharomyces pombe
,
Sus scrofa
Xenopus tropicalis
.
--- failed re-building 'package_data.Rmd'
SUMMARY: processing the following file failed:
'package_data.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64
Version: 0.6.11
Check: examples
Result: ERROR
Running examples in ‘dnapath-Ex.R’ failed
The error most likely occurred in:
> ### Name: get_reactome_pathways
> ### Title: Obtain Reactome pathways
> ### Aliases: get_reactome_pathways
>
> ### ** Examples
>
> # Obtaining a pathway list for human (Homo sapiens).
> # In this example, overlapping pathways are not combined (this is
> # specified by setting overlap_limit to NULL).
> pathway_list <- get_reactome_pathways("Homo sapiens", overlap_limit = NULL,
+ min_size = 10, max_size = 20)
Obtaining reactome pathway information for species: Homo sapiens
Error in get_reactome_pathways("Homo sapiens", overlap_limit = NULL, min_size = 10, :
Homo sapiens is not an available species. Use one of the following:
1-diphosphate,
Bos taurus
,
Caenorhabditis elegans
,
Canis familiaris
,
Danio rerio
,
Dictyostelium discoideum
,
Drosophila melanogaster
,
Gallus gallus
,
Homo sapiens
,
Mus musculus
,
Mycobacterium tuberculosis
,
Plasmodium falciparum
,
Rattus norvegicus
,
Saccharomyces cerevisiae
,
Schizosaccharomyces pombe
,
Sus scrofa
Xenopus tropicalis
.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.6.11
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘introduction_to_dnapath.Rmd’ using rmarkdown
--- finished re-building ‘introduction_to_dnapath.Rmd’
--- re-building ‘package_data.Rmd’ using rmarkdown
Quitting from lines 30-31 (package_data.Rmd)
Error: processing vignette 'package_data.Rmd' failed with diagnostics:
Homo sapiens is not an available species. Use one of the following:
1-diphosphate,
Bos taurus
,
Caenorhabditis elegans
,
Canis familiaris
,
Danio rerio
,
Dictyostelium discoideum
,
Drosophila melanogaster
,
Gallus gallus
,
Homo sapiens
,
Mus musculus
,
Mycobacterium tuberculosis
,
Plasmodium falciparum
,
Rattus norvegicus
,
Saccharomyces cerevisiae
,
Schizosaccharomyces pombe
,
Sus scrofa
Xenopus tropicalis
.
--- failed re-building ‘package_data.Rmd’
SUMMARY: processing the following file failed:
‘package_data.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Current CRAN status: NOTE: 8, OK: 4
Version: 1.1.3
Check: installed package size
Result: NOTE
installed size is 5.9Mb
sub-directories of 1Mb or more:
data 4.7Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.1.3
Check: dependencies in R code
Result: NOTE
Namespace in Imports field not imported from: ‘Rdpack’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64