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CHECK report for HDCytoData on riesling1

This page was generated on 2021-01-04 15:59:18 -0500 (Mon, 04 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE HDCytoData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 164/385HostnameOS / ArchINSTALLBUILDCHECK
HDCytoData 1.11.0
Lukas M. Weber
Snapshot Date: 2021-01-04 09:00:11 -0500 (Mon, 04 Jan 2021)
URL: https://git.bioconductor.org/packages/HDCytoData
Branch: master
Last Commit: 58d130f
Last Changed Date: 2020-10-27 10:26:33 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK [ OK ]

Summary

Package: HDCytoData
Version: 1.11.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HDCytoData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings HDCytoData_1.11.0.tar.gz
StartedAt: 2021-01-04 11:22:50 -0500 (Mon, 04 Jan 2021)
EndedAt: 2021-01-04 11:28:19 -0500 (Mon, 04 Jan 2021)
EllapsedTime: 329.0 seconds
RetCode: 0
Status:  OK  
CheckDir: HDCytoData.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HDCytoData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings HDCytoData_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/HDCytoData.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 'HDCytoData/DESCRIPTION' ... OK
* this is package 'HDCytoData' version '1.11.0'
* 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 'HDCytoData' 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' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
Samusik_all_SE            9.53   0.61   15.70
Bodenmiller_BCR_XL_SE     5.99   0.83    7.54
Levine_32dim_SE           5.12   0.28    5.94
Weber_AML_sim_main_5pc_SE 4.51   0.58    6.04
Mosmann_rare_SE           4.35   0.30    6.04
Krieg_Anti_PD_1_SE        4.21   0.19    5.28
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
Samusik_all_SE            8.82   0.53    9.93
Bodenmiller_BCR_XL_SE     6.07   0.88    7.48
Levine_32dim_SE           5.08   0.24    5.88
Weber_AML_sim_main_5pc_SE 4.72   0.47    5.75
Mosmann_rare_SE           4.64   0.34    5.56
Krieg_Anti_PD_1_SE        4.42   0.28    5.23
* 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: OK


Installation output

HDCytoData.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/HDCytoData_1.11.0.tar.gz && rm -rf HDCytoData.buildbin-libdir && mkdir HDCytoData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HDCytoData.buildbin-libdir HDCytoData_1.11.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL HDCytoData_1.11.0.zip && rm HDCytoData_1.11.0.tar.gz HDCytoData_1.11.0.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 66340  100 66340    0     0   558k      0 --:--:-- --:--:-- --:--:--  558k

install for i386

* installing *source* package 'HDCytoData' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'HDCytoData'
    finding HTML links ... done
    Bodenmiller_BCR_XL_SE                   html  
REDIRECT:topic	 Bodenmiller_BCR_XL -> Bodenmiller_BCR_XL_SE.html [ SUCCESS ]
REDIRECT:topic	 Bodenmiller_BCR_XL_SE -> Bodenmiller_BCR_XL_SE.html [ SUCCESS ]
REDIRECT:topic	 Bodenmiller_BCR_XL_flowSet -> Bodenmiller_BCR_XL_SE.html [ SUCCESS ]
    finding level-2 HTML links ... done

    HDCytoData-package                      html  
REDIRECT:topic	 HDCytoData -> HDCytoData-package.html [ SUCCESS ]
REDIRECT:topic	 HDCytoData-package -> HDCytoData-package.html [ SUCCESS ]
    Krieg_Anti_PD_1_SE                      html  
REDIRECT:topic	 Krieg_Anti_PD_1 -> Krieg_Anti_PD_1_SE.html [ SUCCESS ]
REDIRECT:topic	 Krieg_Anti_PD_1_SE -> Krieg_Anti_PD_1_SE.html [ SUCCESS ]
REDIRECT:topic	 Krieg_Anti_PD_1_flowSet -> Krieg_Anti_PD_1_SE.html [ SUCCESS ]
    Levine_13dim_SE                         html  
REDIRECT:topic	 Levine_13dim -> Levine_13dim_SE.html [ SUCCESS ]
REDIRECT:topic	 Levine_13dim_SE -> Levine_13dim_SE.html [ SUCCESS ]
REDIRECT:topic	 Levine_13dim_flowSet -> Levine_13dim_SE.html [ SUCCESS ]
    Levine_32dim_SE                         html  
REDIRECT:topic	 Levine_32dim -> Levine_32dim_SE.html [ SUCCESS ]
REDIRECT:topic	 Levine_32dim_SE -> Levine_32dim_SE.html [ SUCCESS ]
REDIRECT:topic	 Levine_32dim_flowSet -> Levine_32dim_SE.html [ SUCCESS ]
    Mosmann_rare_SE                         html  
REDIRECT:topic	 Mosmann_rare -> Mosmann_rare_SE.html [ SUCCESS ]
REDIRECT:topic	 Mosmann_rare_SE -> Mosmann_rare_SE.html [ SUCCESS ]
REDIRECT:topic	 Mosmann_rare_flowSet -> Mosmann_rare_SE.html [ SUCCESS ]
    Nilsson_rare_SE                         html  
REDIRECT:topic	 Nilsson_rare -> Nilsson_rare_SE.html [ SUCCESS ]
REDIRECT:topic	 Nilsson_rare_SE -> Nilsson_rare_SE.html [ SUCCESS ]
REDIRECT:topic	 Nilsson_rare_flowSet -> Nilsson_rare_SE.html [ SUCCESS ]
    Samusik_01_SE                           html  
REDIRECT:topic	 Samusik_01 -> Samusik_01_SE.html [ SUCCESS ]
REDIRECT:topic	 Samusik_01_SE -> Samusik_01_SE.html [ SUCCESS ]
REDIRECT:topic	 Samusik_01_flowSet -> Samusik_01_SE.html [ SUCCESS ]
    Samusik_all_SE                          html  
REDIRECT:topic	 Samusik_all -> Samusik_all_SE.html [ SUCCESS ]
REDIRECT:topic	 Samusik_all_SE -> Samusik_all_SE.html [ SUCCESS ]
REDIRECT:topic	 Samusik_all_flowSet -> Samusik_all_SE.html [ SUCCESS ]
    Weber_AML_sim_main_5pc_SE               html  
REDIRECT:topic	 Weber_AML_sim -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_5pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_5pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_5pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_0.1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_0.1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_0.1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_blasts_all -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_blasts_all_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_main_blasts_all_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_null -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_null_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_null_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_5pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_5pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_5pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_0.1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_0.1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_random_seeds_0.1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_5pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_5pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_5pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_0.1pc -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_0.1pc_SE -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_AML_sim_less_distinct_0.1pc_flowSet -> Weber_AML_sim_main_5pc_SE.html [ SUCCESS ]
    Weber_BCR_XL_sim_main_SE                html  
REDIRECT:topic	 Weber_BCR_XL_sim -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_main -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_main_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_main_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep1 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep1_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep1_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep2 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep2_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep2_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep3 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep3_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_null_rep3_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep1 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep1_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep1_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep2 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep2_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep2_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep3 -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep3_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_random_seeds_rep3_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_50pc -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_50pc_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_50pc_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_75pc -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_75pc_SE -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
REDIRECT:topic	 Weber_BCR_XL_sim_less_distinct_less_75pc_flowSet -> Weber_BCR_XL_sim_main_SE.html [ SUCCESS ]
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
snapshotDate(): 2020-12-22
** testing if installed package can be loaded from final location
snapshotDate(): 2020-12-22
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'HDCytoData' ...
** testing if installed package can be loaded
snapshotDate(): 2020-12-22
* MD5 sums
packaged installation of 'HDCytoData' as HDCytoData_1.11.0.zip
* DONE (HDCytoData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'HDCytoData' successfully unpacked and MD5 sums checked

Tests output


Example timings

HDCytoData.Rcheck/examples_i386/HDCytoData-Ex.timings

nameusersystemelapsed
Bodenmiller_BCR_XL_SE5.990.837.54
Krieg_Anti_PD_1_SE4.210.195.28
Levine_13dim_SE3.820.154.78
Levine_32dim_SE5.120.285.94
Mosmann_rare_SE4.350.306.04
Nilsson_rare_SE3.420.274.28
Samusik_01_SE3.830.295.00
Samusik_all_SE 9.53 0.6115.70
Weber_AML_sim_main_5pc_SE4.510.586.04
Weber_BCR_XL_sim_main_SE3.740.254.64

HDCytoData.Rcheck/examples_x64/HDCytoData-Ex.timings

nameusersystemelapsed
Bodenmiller_BCR_XL_SE6.070.887.48
Krieg_Anti_PD_1_SE4.420.285.23
Levine_13dim_SE3.880.234.61
Levine_32dim_SE5.080.245.88
Mosmann_rare_SE4.640.345.56
Nilsson_rare_SE3.990.144.64
Samusik_01_SE3.970.354.86
Samusik_all_SE8.820.539.93
Weber_AML_sim_main_5pc_SE4.720.475.75
Weber_BCR_XL_sim_main_SE4.030.224.78