CRAN Package Check Results for Package refseqR

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

Check Details

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