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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:LOBSTAHS.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings LOBSTAHS_1.18.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/LOBSTAHS.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'LOBSTAHS/DESCRIPTION' ... OK
* this is package 'LOBSTAHS' version '1.18.1'
* 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 'LOBSTAHS' can be installed ... WARNING
Found the following significant warnings:
  Warning: multiple methods tables found for 'polarity<-'
See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/LOBSTAHS.Rcheck/00install.out' for details.
* 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 ... NOTE
Warning: multiple methods tables found for 'polarity<-'

A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file.
** 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 ... NOTE
Warning: multiple methods tables found for 'polarity<-'

A namespace must be able to be loaded with just the base namespace
loaded: otherwise if the namespace gets loaded by a saved object, the
session will be unable to start.

Probably some imports need to be declared in the NAMESPACE file.
** 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
loadLOBdbase 13.54   0.15   13.71
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
loadLOBdbase 10.37   0.08   10.45
* 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: 1 WARNING, 2 NOTEs
See
  'C:/Users/biocbuild/bbs-3.13-bioc/meat/LOBSTAHS.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/LOBSTAHS_1.18.1.tar.gz && rm -rf LOBSTAHS.buildbin-libdir && mkdir LOBSTAHS.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=LOBSTAHS.buildbin-libdir LOBSTAHS_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL LOBSTAHS_1.18.1.zip && rm LOBSTAHS_1.18.1.tar.gz LOBSTAHS_1.18.1.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
  1 2315k    1 44575    0     0   262k      0  0:00:08 --:--:--  0:00:08  262k
 93 2315k   93 2173k    0     0  1874k      0  0:00:01  0:00:01 --:--:-- 1874k
100 2315k  100 2315k    0     0  1933k      0  0:00:01  0:00:01 --:--:-- 1933k

install for i386

* installing *source* package 'LOBSTAHS' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'polarity<-' in package 'LOBSTAHS'
** help
*** installing help indices
  converting help for package 'LOBSTAHS'
    finding HTML links ... done
    LOBSet-class                            html  
    finding level-2 HTML links ... done

    LOBSet                                  html  
    LOBdbase-class                          html  
    LOBdbase                                html  
    LOBdefaults                             html  
    doLOBscreen                             html  
    exportDBtoCSV                           html  
    extractLOBdbasedata                     html  
    generateLOBdbase                        html  
    getLOBpeaklist                          html  
    loadLOBdbase                            html  
** building package indices
** installing vignettes
   'LOBSTAHS.Rmd' using 'UTF-8' 
** testing if installed package can be loaded from temporary location
Warning: multiple methods tables found for 'polarity<-'
** testing if installed package can be loaded from final location
Warning: multiple methods tables found for 'polarity<-'
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'LOBSTAHS' ...
** testing if installed package can be loaded
Warning: multiple methods tables found for 'polarity<-'
* MD5 sums
packaged installation of 'LOBSTAHS' as LOBSTAHS_1.18.1.zip
* DONE (LOBSTAHS)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'LOBSTAHS' successfully unpacked and MD5 sums checked