Last updated on 2025-06-06 01:51:41 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.5 | 14.77 | 124.45 | 139.22 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.5 | 9.74 | 87.71 | 97.45 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.1.5 | 213.68 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.5 | 213.78 | OK | |||
| r-devel-windows-x86_64 | 1.1.5 | 16.00 | 202.00 | 218.00 | ERROR | |
| r-patched-linux-x86_64 | 1.1.5 | 13.07 | 117.73 | 130.80 | OK | |
| r-release-linux-x86_64 | 1.1.5 | 12.87 | 117.09 | 129.96 | OK | |
| r-release-macos-arm64 | 1.1.5 | 106.00 | OK | |||
| r-release-macos-x86_64 | 1.1.5 | 177.00 | OK | |||
| r-release-windows-x86_64 | 1.1.5 | 15.00 | 147.00 | 162.00 | OK | |
| r-oldrel-macos-arm64 | 1.1.5 | 118.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.1.5 | 130.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.1.5 | 20.00 | 185.00 | 205.00 | OK |
Version: 1.1.5
Check: examples
Result: ERROR
Running examples in ‘refseqR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: refseq_AAmol_wt
> ### Title: Extract the molecular weight from a protein accession
> ### Aliases: refseq_AAmol_wt
>
> ### ** Examples
>
> # Get the molecular weight from a single protein accession
> protein <- "XP_020244413"
> refseq_AAmol_wt(protein)
Error: HTTP failure: 500
{"error":"error forwarding request /entrez/eutils/efetch.fcgi?db=protein&rettype=gp&retmode=&id=XP_020244413&email=david.winter%40gmail.com&tool=rentrez","api-key":"137.208.57.30","type":"ip",
"status":"ok"}
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘refseqR.Rmd’ using rmarkdown
Quitting from refseqR.Rmd:102-107 [unnamed-chunk-9]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! HTTP failure: 500
{"error":"error forwarding request /entrez/eutils/efetch.fcgi?db=nuccore&rettype=fasta&retmode=&id=XM_004487701&email=david.winter%40gmail.com&tool=rentrez","api-key":"137.208.57.30","type":"ip",
"status":"ok"}
---
Backtrace:
▆
1. └─rentrez::entrez_fetch(db = "nuccore", id = transcript, rettype = "fasta")
2. ├─base::do.call(make_entrez_query, args)
3. └─rentrez (local) `<fn>`(...)
4. └─rentrez:::entrez_check(response)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'refseqR.Rmd' failed with diagnostics:
HTTP failure: 500
{"error":"error forwarding request /entrez/eutils/efetch.fcgi?db=nuccore&rettype=fasta&retmode=&id=XM_004487701&email=david.winter%40gmail.com&tool=rentrez","api-key":"137.208.57.30","type":"ip",
"status":"ok"}
--- failed re-building ‘refseqR.Rmd’
SUMMARY: processing the following file failed:
‘refseqR.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'refseqR.Rmd' using rmarkdown
Quitting from refseqR.Rmd:109-111 [unnamed-chunk-10]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! HTTP failure: 500
{"error":"error forwarding request /entrez/eutils/efetch.fcgi?db=nuccore&rettype=gp&retmode=&id=XM_004487701&email=david.winter%40gmail.com&tool=rentrez","api-key":"129.217.207.203","type":"ip",
"status":"ok"}
---
Backtrace:
▆
1. ├─base::substr(toString(refseq_CDSseq(transcript)), 1, 60)
2. ├─base::toString(refseq_CDSseq(transcript))
3. └─refseqR::refseq_CDSseq(transcript)
4. └─refseqR::refseq_CDScoords(transcript)
5. └─rentrez::entrez_fetch(db = "nuccore", id = x, rettype = "gp")
6. ├─base::do.call(make_entrez_query, args)
7. └─rentrez (local) `<fn>`(...)
8. └─rentrez:::entrez_check(response)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'refseqR.Rmd' failed with diagnostics:
HTTP failure: 500
{"error":"error forwarding request /entrez/eutils/efetch.fcgi?db=nuccore&rettype=gp&retmode=&id=XM_004487701&email=david.winter%40gmail.com&tool=rentrez","api-key":"129.217.207.203","type":"ip",
"status":"ok"}
--- failed re-building 'refseqR.Rmd'
SUMMARY: processing the following file failed:
'refseqR.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64