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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:rpx.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings rpx_2.2.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/rpx.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'rpx/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'rpx' version '2.2.2'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'rpx' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'rpx-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cache
> ### Title: Package cache
> ### Aliases: cache rpxCache pxCachedProjects
> 
> ### ** Examples
> 
> 
> ## Default rpx cache
> rpxCache()
class: BiocFileCache
bfccache: C:\Users\biocbuild\AppData\Local/R/cache/R/rpx
bfccount: 9
For more information see: bfcinfo() or bfcquery()
> 
> ## Set up your own cache by providing a file or a directory to
> ## BiocFileCache::BiocFileCache()
> my_cache <- BiocFileCache::BiocFileCache(tempfile())
> my_cache
class: BiocFileCache
bfccache: C:\Users\biocbuild\bbs-3.14-bioc\tmpdir\RtmpuyeKHE\fileec6442d76a93
bfccount: 0
For more information see: bfcinfo() or bfcquery()
> px <- PXDataset("PXD000001", cache = my_cache)
Querying ProteomeXchange for PXD000001.
Warning in file(file, "rt") :
  the 'wininet' method of url() is deprecated for ftp:// URLs
Warning in file(file, "rt") :
  InternetOpenUrl failed: 'A connection with the server could not be established
'
Error in file(file, "rt") : cannot open the connection
Calls: PXDataset -> read.delim -> read.table -> file
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'rpx-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cache
> ### Title: Package cache
> ### Aliases: cache rpxCache pxCachedProjects
> 
> ### ** Examples
> 
> 
> ## Default rpx cache
> rpxCache()
class: BiocFileCache
bfccache: C:\Users\biocbuild\AppData\Local/R/cache/R/rpx
bfccount: 9
For more information see: bfcinfo() or bfcquery()
> 
> ## Set up your own cache by providing a file or a directory to
> ## BiocFileCache::BiocFileCache()
> my_cache <- BiocFileCache::BiocFileCache(tempfile())
> my_cache
class: BiocFileCache
bfccache: C:\Users\biocbuild\bbs-3.14-bioc\tmpdir\Rtmp4QwJtC\filed6d42b7b6bd0
bfccount: 0
For more information see: bfcinfo() or bfcquery()
> px <- PXDataset("PXD000001", cache = my_cache)
Querying ProteomeXchange for PXD000001.
Warning in file(file, "rt") :
  the 'wininet' method of url() is deprecated for ftp:// URLs
Warning in file(file, "rt") :
  InternetOpenUrl failed: 'The connection with the server was reset
'
Error in file(file, "rt") : cannot open the connection
Calls: PXDataset -> read.delim -> read.table -> file
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/rpx.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/rpx_2.2.2.tar.gz && rm -rf rpx.buildbin-libdir && mkdir rpx.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rpx.buildbin-libdir rpx_2.2.2.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL rpx_2.2.2.zip && rm rpx_2.2.2.tar.gz rpx_2.2.2.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  6 18638    6  1141    0     0  13349      0  0:00:01 --:--:--  0:00:01 13423
100 18638  100 18638    0     0   151k      0 --:--:-- --:--:-- --:--:--  151k

install for i386

* installing *source* package 'rpx' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'rpx'
    finding HTML links ... done
    PXDataset1                              html  
    PXDataset2                              html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/rpx.buildbin-libdir/00LOCK-rpx/00new/rpx/help/pxCacheInfo+2CPXdataset-method.html
    cache                                   html  
    pxannounced                             html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'rpx' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rpx' as rpx_2.2.2.zip
* DONE (rpx)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'rpx' successfully unpacked and MD5 sums checked