Package: CCPROMISE

Version: 1.9.0

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CCPROMISE.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings CCPROMISE_1.9.0.tar.gz

StartedAt: 2019-04-09 01:35:54 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 01:40:24 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 269.8 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: CCPROMISE.Rcheck

Warnings: 1

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CCPROMISE.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings CCPROMISE_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/CCPROMISE.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CCPROMISE/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CCPROMISE' version '1.9.0'
* 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 'CCPROMISE' can be installed ... WARNING
Found the following significant warnings:
  Note: break used in wrong context: no loop is visible 
See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/CCPROMISE.Rcheck/00install.out' for details.
Information on the location(s) of code generating the 'Note's can be
obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
to 'yes'.
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
CCPROMISE         18.47   0.12   18.59
CANN              17.58   0.07   17.67
CCPROMISE-package 16.61   0.04   16.64
PrbPROMISE         5.60   0.05    5.66
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
CCPROMISE         24.86   0.05   24.90
CCPROMISE-package 22.14   0.03   22.18
CANN              16.00   0.02   16.02
PrbPROMISE         7.23   0.01    7.25
* 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
See
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/CCPROMISE.Rcheck/00check.log'
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/CCPROMISE_1.9.0.tar.gz && rm -rf CCPROMISE.buildbin-libdir && mkdir CCPROMISE.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CCPROMISE.buildbin-libdir CCPROMISE_1.9.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL CCPROMISE_1.9.0.zip && rm CCPROMISE_1.9.0.tar.gz CCPROMISE_1.9.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  975k  100  975k    0     0  8277k      0 --:--:-- --:--:-- --:--:-- 8792k

install for i386

* installing *source* package 'CCPROMISE' ...
** R
** data
** byte-compile and prepare package for lazy loading
Note: break used in wrong context: no loop is visible 
Note: break used in wrong context: no loop is visible 
Note: break used in wrong context: no loop is visible 
Note: break used in wrong context: no loop is visible 
** help
*** installing help indices
  converting help for package 'CCPROMISE'
    finding HTML links ... done
    CANN                                    html  
    CCPROMISE-package                       html  
    CCPROMISE                               html  
    PROMISE2                                html  
    PrbCor                                  html  
    PrbPROMISE                              html  
    exmplESet                               html  
    exmplGeneSet                            html  
    exmplMSet                               html  
    exmplPat                                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 'CCPROMISE' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CCPROMISE' as CCPROMISE_1.9.0.zip
* DONE (CCPROMISE)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'CCPROMISE' successfully unpacked and MD5 sums checked