CRAN Package Check Results for Package refseqR

Last updated on 2025-11-09 19:51:10 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.5 13.60 125.19 138.79 OK
r-devel-linux-x86_64-debian-gcc 1.1.5 10.52 91.18 101.70 ERROR
r-devel-linux-x86_64-fedora-clang 1.1.5 31.00 180.85 211.85 OK
r-devel-linux-x86_64-fedora-gcc 1.1.5 25.00 188.59 213.59 OK
r-devel-windows-x86_64 1.1.5 15.00 134.00 149.00 OK
r-patched-linux-x86_64 1.1.5 15.51 118.93 134.44 OK
r-release-linux-x86_64 1.1.5 12.94 117.14 130.08 OK
r-release-macos-arm64 1.1.5 7.00 99.00 106.00 OK
r-release-macos-x86_64 1.1.5 12.00 165.00 177.00 OK
r-release-windows-x86_64 1.1.5 14.00 132.00 146.00 OK
r-oldrel-macos-arm64 1.1.5 6.00 112.00 118.00 OK
r-oldrel-macos-x86_64 1.1.5 12.00 118.00 130.00 OK
r-oldrel-windows-x86_64 1.1.5 19.00 178.00 197.00 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: 400 +Error%3A+CEFetchPApplication%3A%3Aproxy_stream()%3A+-3.6%0A++++++++++++++++++++++++++++++++++++++++++++C182.7,97.4,189.2,93.7,192.9,88.1z%22%3E%3C%2Fpath%3E%0A++++++++++++++++++++++%3C%2Fg%3E%0A++++++++++++++++++++%3C%2Fg%3E%0A++++++++++++++++++++%3Ccircle+class%3D%22st30%22+cx%3D%22124.4%22+cy%3D%22128.8%22+r%3D%22108.2%22%3E%3C%2Fcircle%3E%0A++++++++++++++++++%3C%2Fg%3E%0A++++++++++++++++%3C%2Fsvg%3E%3C%2Fa%3E%3C%2Fli%3E%0A++++++++++++%3Cli+class%3D%22list-inline-item%22%3E%3Ca+href%3D%22https%3A%2F%2Fwww.facebook.com%2Fnationallibraryofmedicine%22%0A++++++++++++++++aria-label%3D%22Facebook%22+rel%3D%22noopener+noreferrer%22+target%3D%22_blank%22%3E%0A++++++++++++++++%3Csvg+version%3D%221.1%22+xmlns%3D%22http%3A%2F%2Fwww.w3.org%2F2000%2Fsvg%22+xmlns%3Axlink%3D%22http%3A%2F%2Fwww.w3.org%2F1999%2Fxlink%22+x%3D%220px%22%0A++++++++++++++++++y%3D%220px%22+viewBox%3D%220+0+249+249%22+style%3D%22enable-background%3Anew+0+0+249+249%3B%22+xml%3Aspace%3D%22preserve%22 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: 400 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v+class%3D%22col-lg-3+col-12+centered-lg%22%3E%0A++++++++++%3Cp%3E%3Ca+class%3D%22supportLink+text-white%22+href%3D%22https%3A%2F%2Fsupport.nlm.nih.gov%2F%22%3EHelp%3C%2Fa%3E%3Cbr%3E%0A++++++++++++%3Ca+href%3D%22https%3A%2F%2Fwww.nlm.nih.gov%2Faccessibility.html%22+class%3D%22text-white%22%3EAccessibility%3C%2Fa%3E%3Cbr%3E%0A++++++++++++%3Ca+href%3D%22https%3A%2F%2Fwww.nlm.nih.gov%2Fcareers%2Fcareers.html%22+class%3D%22text-white%22%3ECareers%3C%2Fa%3E%3C%2Fp%3E%0A++++++++%3C%2Fdiv%3E%0A++++++%3C%2Fdiv%3E%0A++++++%3Cdiv+class%3D%22row%22%3E%0A++++++++%3Cdiv+class%3D%22col-lg-12+centered-lg%22%3E%0A++++++++++%3Cnav+class%3D%22bottom-links%22%3E%0A++++++++++++%3Cul+class%3D%22mt-3%22%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22+href%3D%22%2F%2Fwww.nlm.nih.gov%2F%22%3ENLM%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22%0A++++++++++++++href%3D%22https%3A%2F%2Fwww.nih.gov%2F%22%3ENIH%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22+href%3D%22https%3A%2F%2Fwww.hhs.gov%2F%22%3EHHS%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca%0A++++++++++++++class%3D%22text-white%22+href%3D%22https%3A%2F%2Fwww.usa.gov%2F%22%3EUSA.gov%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++%3C%2Ful%3E%0A++++++++++%3C%2Fnav%3E%0A++++++++%3C%2Fdiv%3E%0A++++++%3C%2Fdiv%3E%0A++++%3C%2Fdiv%3E%0A++%3C%2Fsection%3E%0A%3C%2Ffooter%3E%0A%0A%3C%2Fbody%3E%0A%3Cscript%3E%0A++const+userEvents+%3D++%5B'click',+'keypress'%5D%3B%0A++for+(let+i+%3D+0%3B+i+%3C+userEvents.length%3B+i%2B%2B)+%7B%0A++++let+evt+%3D+userEvents%5Bi%5D%3B%0A++++document.querySelector('%23icon-section-header').addEventListener(evt,+function(e)%7B%0A++++++if+(document.body.clientWidth+%3C+993)+%7B%0A++++++++classToggle(e.target)%3B%0A++++++%7D%0A++++%7D)%3B%0A++%7D%0A++function+classToggle(elm)+%7B%0A++++elm.classList.toggle('opened')%3B%0A++%7D%0A++let+helpDeskBtn+%3D+document.querySelector('%23helpDeskBtn')%3B%0A++if+(!!helpDeskBtn)+%7B%0A++++let+helpDeskLink+%3D+'https%3A%2F%2Fsupport.nlm.nih.gov%2Fsupport%2Fcreate-case%3Ffrom%3D'+%2B+encodeURIComponent(window.location.href)%3B%0A++++helpDeskBtn.addEventListener('click',++function()%7B%0A++++++window.open(helpDeskLink,+'_blank')%0A++++%7D)%3B%0A++%7D%0A++let+ncbiHomeBtn+%3D+document.querySelector('%23ncbiHomeBtn')%3B%0A++if+(!!ncbiHomeBtn)+%7B%0A++++ncbiHomeBtn.addEventListener('click',+function()%7B%0A++++++window.open('https%3A%2F%2Fwww.ncbi.nlm.nih.gov',+'_blank')%0A++++%7D)%3B%0A++%7D%0A++%2F%2F+Following+JavaScript+is+to+toggle+top+banner+of+page.%0A++var+head_bnr+%3D+document.querySelector(%22.usa-banner+header.usa-banner-header%22)%3B%0A++var+btn_bnr+%3D+document.querySelector(%22.usa-banner+button.usa-accordion-button.usa-banner-button%22)%3B%0A++var+acr_bnr+%3D+document.querySelector(%22.usa-banner+div.usa-banner-content.usa-accordion-content%22)%3B%0A++btn_bnr.addEventListener(%22click%22,+function(e)+%7B%0A++++head_bnr.classList.toggle(%22usa-banner-header-expanded%22)%3B%0A++++var+aria_val+%3D+this.getAttribute(%22aria-expanded%2 --- 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: 400 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v+class%3D%22col-lg-3+col-12+centered-lg%22%3E%0A++++++++++%3Cp%3E%3Ca+class%3D%22supportLink+text-white%22+href%3D%22https%3A%2F%2Fsupport.nlm.nih.gov%2F%22%3EHelp%3C%2Fa%3E%3Cbr%3E%0A++++++++++++%3Ca+href%3D%22https%3A%2F%2Fwww.nlm.nih.gov%2Faccessibility.html%22+class%3D%22text-white%22%3EAccessibility%3C%2Fa%3E%3Cbr%3E%0A++++++++++++%3Ca+href%3D%22https%3A%2F%2Fwww.nlm.nih.gov%2Fcareers%2Fcareers.html%22+class%3D%22text-white%22%3ECareers%3C%2Fa%3E%3C%2Fp%3E%0A++++++++%3C%2Fdiv%3E%0A++++++%3C%2Fdiv%3E%0A++++++%3Cdiv+class%3D%22row%22%3E%0A++++++++%3Cdiv+class%3D%22col-lg-12+centered-lg%22%3E%0A++++++++++%3Cnav+class%3D%22bottom-links%22%3E%0A++++++++++++%3Cul+class%3D%22mt-3%22%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22+href%3D%22%2F%2Fwww.nlm.nih.gov%2F%22%3ENLM%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22%0A++++++++++++++href%3D%22https%3A%2F%2Fwww.nih.gov%2F%22%3ENIH%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca+class%3D%22text-white%22+href%3D%22https%3A%2F%2Fwww.hhs.gov%2F%22%3EHHS%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++++%3Cli%3E%0A++++++++++++++++%3Ca%0A++++++++++++++class%3D%22text-white%22+href%3D%22https%3A%2F%2Fwww.usa.gov%2F%22%3EUSA.gov%3C%2Fa%3E%0A++++++++++++++%3C%2Fli%3E%0A++++++++++++%3C%2Ful%3E%0A++++++++++%3C%2Fnav%3E%0A++++++++%3C%2Fdiv%3E%0A++++++%3C%2Fdiv%3E%0A++++%3C%2Fdiv%3E%0A++%3C%2Fsection%3E%0A%3C%2Ffooter%3E%0A%0A%3C%2Fbody%3E%0A%3Cscript%3E%0A++const+userEvents+%3D++%5B'click',+'keypress'%5D%3B%0A++for+(let+i+%3D+0%3B+i+%3C+userEvents.length%3B+i%2B%2B)+%7B%0A++++let+evt+%3D+userEvents%5Bi%5D%3B%0A++++document.querySelector('%23icon-section-header').addEventListener(evt,+function(e)%7B%0A++++++if+(document.body.clientWidth+%3C+993)+%7B%0A++++++++classToggle(e.target)%3B%0A++++++%7D%0A++++%7D)%3B%0A++%7D%0A++function+classToggle(elm)+%7B%0A++++elm.classList.toggle('opened')%3B%0A++%7D%0A++let+helpDeskBtn+%3D+document.querySelector('%23helpDeskBtn')%3B%0A++if+(!!helpDeskBtn)+%7B%0A++++let+helpDeskLink+%3D+'https%3A%2F%2Fsupport.nlm.nih.gov%2Fsupport%2Fcreate-case%3Ffrom%3D'+%2B+encodeURIComponent(window.location.href)%3B%0A++++helpDeskBtn.addEventListener('click',++function()%7B%0A++++++window.open(helpDeskLink,+'_blank')%0A++++%7D)%3B%0A++%7D%0A++let+ncbiHomeBtn+%3D+document.querySelector('%23ncbiHomeBtn')%3B%0A++if+(!!ncbiHomeBtn)+%7B%0A++++ncbiHomeBtn.addEventListener('click',+function()%7B%0A++++++window.open('https%3A%2F%2Fwww.ncbi.nlm.nih.gov',+'_blank')%0A++++%7D)%3B%0A++%7D%0A++%2F%2F+Following+JavaScript+is+to+toggle+top+banner+of+page.%0A++var+head_bnr+%3D+document.querySelector(%22.usa-banner+header.usa-banner-header%22)%3B%0A++var+btn_bnr+%3D+document.querySelector(%22.usa-banner+button.usa-accordion-button.usa-banner-button%22)%3B%0A++var+acr_bnr+%3D+document.querySelector(%22.usa-banner+div.usa-banner-content.usa-accordion-content%22)%3B%0A++btn_bnr.addEventListener(%22click%22,+function(e)+%7B%0A++++head_bnr.classList.toggle(%22usa-banner-header-expanded%22)%3B%0A++++var+aria_val+%3D+this.getAttribute(%22aria-expanded%2 --- 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