Last updated on 2024-10-19 02:49:23 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.4 | 13.66 | 122.31 | 135.97 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.4 | 10.06 | 93.42 | 103.48 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.1.4 | 233.42 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.4 | 180.19 | ERROR | |||
| r-devel-windows-x86_64 | 1.1.4 | 16.00 | 172.00 | 188.00 | OK | |
| r-patched-linux-x86_64 | 1.1.4 | ERROR | ||||
| r-release-linux-x86_64 | 1.1.4 | 12.35 | 113.08 | 125.43 | ERROR | |
| r-release-macos-arm64 | 1.1.4 | 131.00 | OK | |||
| r-release-macos-x86_64 | 1.1.4 | 252.00 | OK | |||
| r-release-windows-x86_64 | 1.1.4 | 16.00 | 172.00 | 188.00 | ERROR | |
| r-oldrel-macos-arm64 | 1.1.4 | 153.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.1.4 | 237.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.1.4 | 18.00 | 249.00 | 267.00 | OK |
Version: 1.1.4
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_GeneID
> ### Title: Get the GeneID
> ### Aliases: refseq_GeneID
>
> ### ** Examples
>
> # Get the gene symbol from a set of transcript accessions
> transcript = c("XM_004487701", "XM_004488493")
> sapply(transcript, function(x) refseq_GeneID (x, db = "nuccore", retries = 4), USE.NAMES = FALSE)
Error in curl::curl_fetch_memory(url, handle = handle) :
transfer closed with outstanding read data remaining
Calls: sapply ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
Flavors: r-devel-linux-x86_64-debian-gcc, r-release-linux-x86_64
Version: 1.1.4
Check: examples
Result: ERROR
Running examples in ‘refseqR-Ex.R’ failed
The error most likely occurred in:
> ### Name: refseq_RNA2protein
> ### Title: Get the protein accession from the transcript accession
> ### Aliases: refseq_RNA2protein
>
> ### ** Examples
>
> # Get the protein id from a single transcript accession
> transcript <- "XM_004487701"
> refseq_RNA2protein(transcript)
Error: HTTP failure: 500
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘refseqR.Rmd’ using rmarkdown
Quitting from lines 140-142 [unnamed-chunk-15] (refseqR.Rmd)
Error: processing vignette 'refseqR.Rmd' failed with diagnostics:
HTTP failure: 500
--- 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-fedora-gcc
Version: 1.1.4
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_GeneID
> ### Title: Get the GeneID
> ### Aliases: refseq_GeneID
>
> ### ** Examples
>
> # Get the gene symbol from a set of transcript accessions
> transcript = c("XM_004487701", "XM_004488493")
> sapply(transcript, function(x) refseq_GeneID (x, db = "nuccore", retries = 4), USE.NAMES = FALSE)
Error: HTTP failure: 500
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.1//EN" "http://www.w3.org/TR/xhtml11/DTD/xhtml11.dtd">
<html>
<head>
<title>NCBI/eutils102 - WWW Error 500 Diagnostic</title>
<style type="text/css">
h1.error {color: red; font-size: 40pt}
div.diags {text-indent: 0.5in }
</style>
</head>
<body>
<h1>Server Error</h1>
<p>Your request could not be processed due to a problem on
our Web server. This could be a transient problem, please
try the query again. If it doesn't clear up within a
reasonable period of time, e-mail a short description of your
query and the diagnostic information shown below to:</p>
<p>
pubmed@nlm.nih.gov - for problems with PubMed<br/>
webadmin@ncbi.nlm.nih.gov - for problems with other services<br/>
</p>
<p>Thank you for your assistance. We will try to fix the
problem as soon as possible.
</p>
<hr/>
<p>
Diagnostic Information:</p>
<div class="diags">Error: 500</div>
<div class="diags">URL: h t t p : / / e x t - h t t p - e u t i l s . l
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘refseqR.Rmd’ using rmarkdown
Quitting from lines 140-142 [unnamed-chunk-15] (refseqR.Rmd)
Error: processing vignette 'refseqR.Rmd' failed with diagnostics:
HTTP failure: 500
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.1//EN" "http://www.w3.org/TR/xhtml11/DTD/xhtml11.dtd">
<html>
<head>
<title>NCBI/eutils201-new - WWW Error 500 Diagnostic</title>
<style type="text/css">
h1.error {color: red; font-size: 40pt}
div.diags {text-indent: 0.5in }
</style>
</head>
<body>
<h1>Server Error</h1>
<p>Your request could not be processed due to a problem on
our Web server. This could be a transient problem, please
try the query again. If it doesn't clear up within a
reasonable period of time, e-mail a short description of your
query and the diagnostic information shown below to:</p>
<p>
pubmed@nlm.nih.gov - for problems with PubMed<br/>
webadmin@ncbi.nlm.nih.gov - for problems with other services<br/>
</p>
<p>Thank you for your assistance. We will try to fix the
problem as soon as possible.
</p>
<hr/>
<p>
Diagnostic Information:</p>
<div class="diags">Error: 500</div>
<div class="diags">URL: h t t p : / / e x t - h t t p - e u t i l s . l i n k e r d . n c b i . n l m . n i h . g o v / e n t r e z / e u t i l s / e s e a r c h . f c g i ? d b = g e n e & a m p ; t e r m = X P _ 0 2 0 2 4 4 4 1 3 & a m p ; r e t m o d e = x m l & a m p ; u s e h i s t o r y = n & a m p ; e m a i l = d a v i d . w i n t e r 4 0 g m a i l . c o m & a m p ; t o o l = r e n t r e z </div>
<div class="diags">Client: 130.14.22.147</div>
<div class="diags">Server: eutils201-new</div>
<div class="diags">Time: Tue Oct 15 21:40:39 EDT 2024</div>
<p>
NOTE: The above is an internal URL which may differ from the one you used to address the page.</p>
<hr/>
<p>Rev. 01/04/08</p>
</body>
</html>
--- failed re-building ‘refseqR.Rmd’
SUMMARY: processing the following file failed:
‘refseqR.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘refseqR.Rmd’ using rmarkdown
Quitting from lines 90-92 [unnamed-chunk-7] (refseqR.Rmd)
Error: processing vignette 'refseqR.Rmd' failed with diagnostics:
transfer closed with outstanding read data remaining
--- failed re-building ‘refseqR.Rmd’
SUMMARY: processing the following file failed:
‘refseqR.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.1.4
Check: examples
Result: ERROR
Running examples in 'refseqR-Ex.R' failed
The error most likely occurred in:
> ### Name: refseq_GeneID
> ### Title: Get the GeneID
> ### Aliases: refseq_GeneID
>
> ### ** Examples
>
> # Get the gene symbol from a set of transcript accessions
> transcript = c("XM_004487701", "XM_004488493")
> sapply(transcript, function(x) refseq_GeneID (x, db = "nuccore", retries = 4), USE.NAMES = FALSE)
Error in curl::curl_fetch_memory(url, handle = handle) :
transfer closed with outstanding read data remaining
Calls: sapply ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
Flavor: r-release-windows-x86_64