CRAN Package Check Results for Package rentrez

Last updated on 2019-04-13 01:58:18 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.1 2.99 39.98 42.97 OK
r-devel-linux-x86_64-debian-gcc 1.2.1 2.68 30.83 33.51 OK
r-devel-linux-x86_64-fedora-clang 1.2.1 46.46 WARN
r-devel-linux-x86_64-fedora-gcc 1.2.1 39.41 WARN
r-devel-windows-ix86+x86_64 1.2.1 9.00 62.00 71.00 OK --no-vignettes
r-patched-linux-x86_64 1.2.1 3.22 31.63 34.85 WARN
r-patched-solaris-x86 1.2.1 66.50 ERROR
r-release-linux-x86_64 1.2.1 2.10 29.98 32.08 ERROR
r-release-windows-ix86+x86_64 1.2.1 5.00 41.00 46.00 OK --no-vignettes
r-release-osx-x86_64 1.2.1 OK
r-oldrel-windows-ix86+x86_64 1.2.1 3.00 96.00 99.00 OK --no-vignettes
r-oldrel-osx-x86_64 1.2.1 OK

Check Details

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘rentrez_tutorial.Rmd’ using rmarkdown
    Quitting from lines 296-299 (rentrez_tutorial.Rmd)
    Error: processing vignette 'rentrez_tutorial.Rmd' failed with diagnostics:
    Error in the HTTP2 framing layer
    --- failed re-building ‘rentrez_tutorial.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘rentrez_tutorial.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘rentrez_tutorial.Rmd’ using rmarkdown
    Quitting from lines 22-52 (rentrez_tutorial.Rmd)
    Error: processing vignette 'rentrez_tutorial.Rmd' failed with diagnostics:
    Error in the HTTP2 framing layer
    --- failed re-building ‘rentrez_tutorial.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘rentrez_tutorial.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘rentrez_tutorial.Rmd’ using rmarkdown
    Quitting from lines 155-158 (rentrez_tutorial.Rmd)
    Error: processing vignette 'rentrez_tutorial.Rmd' failed with diagnostics:
    subscript out of bounds
    --- failed re-building ‘rentrez_tutorial.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘rentrez_tutorial.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-linux-x86_64

Version: 1.2.1
Check: examples
Result: ERROR
    Running examples in ‘rentrez-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: parse_pubmed_xml
    > ### Title: Summarize an XML record from pubmed.
    > ### Aliases: parse_pubmed_xml
    >
    > ### ** Examples
    >
    >
    > hox_paper <- entrez_search(db="pubmed", term="10.1038/nature08789[doi]")
    > hox_rel <- entrez_link(db="pubmed", dbfrom="pubmed", id=hox_paper$ids)
    > recs <- entrez_fetch(db="pubmed",
    + id=hox_rel$links$pubmed_pubmed[1:3],
    + rettype="xml")
    Error in curl::curl_fetch_memory(url, handle = handle) :
     Error in the HTTP2 framing layer
    Calls: entrez_fetch ... request_fetch -> request_fetch.write_memory -> <Anonymous>
    Execution halted
Flavor: r-patched-solaris-x86

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘rentrez_tutorial.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Quitting from lines 22-52 (rentrez_tutorial.Rmd)
    Error: processing vignette 'rentrez_tutorial.Rmd' failed with diagnostics:
    Error in the HTTP2 framing layer
    --- failed re-building ‘rentrez_tutorial.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘rentrez_tutorial.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-solaris-x86

Version: 1.2.1
Check: examples
Result: ERROR
    Running examples in ‘rentrez-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: parse_pubmed_xml
    > ### Title: Summarize an XML record from pubmed.
    > ### Aliases: parse_pubmed_xml
    >
    > ### ** Examples
    >
    >
    > hox_paper <- entrez_search(db="pubmed", term="10.1038/nature08789[doi]")
    > hox_rel <- entrez_link(db="pubmed", dbfrom="pubmed", id=hox_paper$ids)
    > recs <- entrez_fetch(db="pubmed",
    + id=hox_rel$links$pubmed_pubmed[1:3],
    + rettype="xml")
    Error in curl::curl_fetch_memory(url, handle = handle) :
     Error in the HTTP2 framing layer
    Calls: entrez_fetch ... request_fetch -> request_fetch.write_memory -> <Anonymous>
    Execution halted
Flavor: r-release-linux-x86_64

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Quitting from lines 94-95 (rentrez_tutorial.Rmd)
    Error: processing vignette ‘rentrez_tutorial.Rmd’ failed with diagnostics:
    Error in the HTTP2 framing layer
    Execution halted
Flavor: r-release-linux-x86_64