Back to Multiple platform build/check report for BioC 3.13 experimental data
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

CHECK report for MSstatsBioData on riesling1

This page was generated on 2021-01-21 16:01:32 -0500 (Thu, 21 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE MSstatsBioData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 240/386HostnameOS / ArchINSTALLBUILDCHECK
MSstatsBioData 1.13.0
Meena Choi
Snapshot Date: 2021-01-21 09:00:14 -0500 (Thu, 21 Jan 2021)
URL: https://git.bioconductor.org/packages/MSstatsBioData
Branch: master
Last Commit: 026711e
Last Changed Date: 2020-10-27 10:23:13 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK [ WARNINGS ]

Summary

Package: MSstatsBioData
Version: 1.13.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MSstatsBioData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MSstatsBioData_1.13.0.tar.gz
StartedAt: 2021-01-21 11:36:58 -0500 (Thu, 21 Jan 2021)
EndedAt: 2021-01-21 11:40:17 -0500 (Thu, 21 Jan 2021)
EllapsedTime: 198.5 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: MSstatsBioData.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MSstatsBioData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MSstatsBioData_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/MSstatsBioData.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MSstatsBioData/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MSstatsBioData' version '1.13.0'
* 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 'MSstatsBioData' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   5.0Mb
* 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
* 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 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 ... WARNING
File 'data/datalist' contains malformed line(s):
  ''
* 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 (user + system) or elapsed time > 5s
                    user system elapsed
SRM_crc_validation 40.52   0.02   40.61
DDA_cardio         22.78   0.31   23.19
SRM_crc_training   11.72   0.03   11.82
SRM_mpm_validation  5.03   0.00    5.13
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
SRM_crc_validation 41.13   0.03   41.29
DDA_cardio         22.68   0.64   23.49
SRM_crc_training   11.97   0.03   12.08
SRM_mpm_validation  5.28   0.04    5.37
* 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, 1 NOTE
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/MSstatsBioData.Rcheck/00check.log'
for details.



Installation output

MSstatsBioData.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/MSstatsBioData_1.13.0.tar.gz && rm -rf MSstatsBioData.buildbin-libdir && mkdir MSstatsBioData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MSstatsBioData.buildbin-libdir MSstatsBioData_1.13.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL MSstatsBioData_1.13.0.zip && rm MSstatsBioData_1.13.0.tar.gz MSstatsBioData_1.13.0.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
  0 2861k    0 15815    0     0   275k      0  0:00:10 --:--:--  0:00:10  270k
100 2861k  100 2861k    0     0  3586k      0 --:--:-- --:--:-- --:--:-- 3581k

install for i386

* installing *source* package 'MSstatsBioData' ...
** using staged installation
** data
*** moving datasets to lazyload DB
** inst
** help
*** installing help indices
  converting help for package 'MSstatsBioData'
    finding HTML links ... done
    DDA_cardio                              html  
REDIRECT:topic	 data:DDA_cardio -> DDA_cardio.html [ FAIL ]
REDIRECT:topic	 DDA_cardio -> DDA_cardio.html [ SUCCESS ]
    MSstatsBioData-package                  html  
REDIRECT:topic	 MSstatsBioData-package -> MSstatsBioData-package.html [ SUCCESS ]
REDIRECT:topic	 MSstatsBioData -> MSstatsBioData-package.html [ SUCCESS ]
    SRM_crc_training                        html  
REDIRECT:topic	 data:SRM_crc_training -> SRM_crc_training.html [ FAIL ]
REDIRECT:topic	 SRM_crc_training -> SRM_crc_training.html [ SUCCESS ]
    SRM_crc_validation                      html  
REDIRECT:topic	 data:SRM_crc_validation -> SRM_crc_validation.html [ FAIL ]
REDIRECT:topic	 SRM_crc_validation -> SRM_crc_validation.html [ SUCCESS ]
    SRM_mpm_training                        html  
REDIRECT:topic	 data:SRM_mpm_training -> SRM_mpm_training.html [ FAIL ]
REDIRECT:topic	 SRM_mpm_training -> SRM_mpm_training.html [ SUCCESS ]
    SRM_mpm_validation                      html  
REDIRECT:topic	 data:SRM_mpm_validation -> SRM_mpm_validation.html [ FAIL ]
REDIRECT:topic	 SRM_mpm_validation -> SRM_mpm_validation.html [ SUCCESS ]
    SRM_ovarian                             html  
REDIRECT:topic	 data:SRM_ovarian -> SRM_ovarian.html [ FAIL ]
REDIRECT:topic	 SRM_ovarian -> SRM_ovarian.html [ SUCCESS ]
    SRM_yeast                               html  
REDIRECT:topic	 data:SRM_yeast -> SRM_yeast.html [ FAIL ]
REDIRECT:topic	 SRM_yeast -> SRM_yeast.html [ SUCCESS ]
** 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 'MSstatsBioData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MSstatsBioData' as MSstatsBioData_1.13.0.zip
* DONE (MSstatsBioData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'MSstatsBioData' successfully unpacked and MD5 sums checked

Tests output


Example timings

MSstatsBioData.Rcheck/examples_i386/MSstatsBioData-Ex.timings

nameusersystemelapsed
DDA_cardio22.78 0.3123.19
SRM_crc_training11.72 0.0311.82
SRM_crc_validation40.52 0.0240.61
SRM_mpm_training4.330.004.45
SRM_mpm_validation5.030.005.13
SRM_ovarian2.510.012.56
SRM_yeast2.580.032.65

MSstatsBioData.Rcheck/examples_x64/MSstatsBioData-Ex.timings

nameusersystemelapsed
DDA_cardio22.68 0.6423.49
SRM_crc_training11.97 0.0312.08
SRM_crc_validation41.13 0.0341.29
SRM_mpm_training4.370.004.52
SRM_mpm_validation5.280.045.37
SRM_ovarian2.210.032.36
SRM_yeast2.730.012.81