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This page was generated on 2022-01-21 13:06:43 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for MSstatsSampleSize on tokay2


To the developers/maintainers of the MSstatsSampleSize package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MSstatsSampleSize.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1234/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MSstatsSampleSize 1.8.0  (landing page)
Ting Huang
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/MSstatsSampleSize
git_branch: RELEASE_3_14
git_last_commit: 15829c4
git_last_commit_date: 2021-10-26 12:54:51 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: MSstatsSampleSize
Version: 1.8.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MSstatsSampleSize.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MSstatsSampleSize_1.8.0.tar.gz
StartedAt: 2022-01-20 23:29:10 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 23:34:06 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 296.0 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: MSstatsSampleSize.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MSstatsSampleSize.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MSstatsSampleSize_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/MSstatsSampleSize.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MSstatsSampleSize/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MSstatsSampleSize' version '1.8.0'
* 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 'MSstatsSampleSize' 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 ... WARNING
Functions or methods with usage in documentation object '.classification' but not in code:
  '.classification'

* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                             old_size new_size compress
  classification_results.rda    1.8Mb    1.3Mb       xz
  simulated_datasets.rda        656Kb    511Kb       xz
  variance_estimation.rda       690Kb    320Kb       xz
* 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
designSampleSizeClassification      7.34   0.09    7.61
designSampleSizeClassificationPlots 3.58   0.27   48.92
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                    user system elapsed
designSampleSizeClassification      7.50   0.14    7.64
designSampleSizeClassificationPlots 4.06   0.23   50.11
* 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 WARNINGs
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/MSstatsSampleSize.Rcheck/00check.log'
for details.



Installation output

MSstatsSampleSize.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/MSstatsSampleSize_1.8.0.tar.gz && rm -rf MSstatsSampleSize.buildbin-libdir && mkdir MSstatsSampleSize.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MSstatsSampleSize.buildbin-libdir MSstatsSampleSize_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL MSstatsSampleSize_1.8.0.zip && rm MSstatsSampleSize_1.8.0.tar.gz MSstatsSampleSize_1.8.0.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
 71 3283k   71 2344k    0     0  2804k      0  0:00:01 --:--:--  0:00:01 2803k
100 3283k  100 3283k    0     0  3190k      0  0:00:01  0:00:01 --:--:-- 3193k

install for i386

* installing *source* package 'MSstatsSampleSize' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MSstatsSampleSize'
    finding HTML links ... done
    MSstatsSampleSize                       html  
    OV_SRM_train                            html  
    OV_SRM_train_annotation                 html  
    classification_results                  html  
    designSampleSizeClassification          html  
    designSampleSizeClassificationPlots     html  
    designSampleSizeHypothesisTestingPlot   html  
    designSampleSizePCAplot                 html  
    dot-classification                      html  
    dot-classificationModel                 html  
    dot-classificationPerformance           html  
    dot-logGeneration                       html  
    dot-randomImputation                    html  
    dot-sampleSimulation                    html  
    estimateVar                             html  
    meanSDplot                              html  
    simulateDataset                         html  
    simulated_datasets                      html  
    variance_estimation                     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 'MSstatsSampleSize' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MSstatsSampleSize' as MSstatsSampleSize_1.8.0.zip
* DONE (MSstatsSampleSize)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'MSstatsSampleSize' successfully unpacked and MD5 sums checked

Tests output

MSstatsSampleSize.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(MSstatsSampleSize)
> 
> test_check("MSstatsSampleSize")
[ FAIL 0 | WARN 10 | SKIP 0 | PASS 7 ]
> 
> proc.time()
   user  system elapsed 
  12.12    0.48   12.57 

MSstatsSampleSize.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(MSstatsSampleSize)
> 
> test_check("MSstatsSampleSize")
[ FAIL 0 | WARN 10 | SKIP 0 | PASS 7 ]
> 
> proc.time()
   user  system elapsed 
  12.75    0.42   13.14 

Example timings

MSstatsSampleSize.Rcheck/examples_i386/MSstatsSampleSize-Ex.timings

nameusersystemelapsed
OV_SRM_train0.010.000.02
OV_SRM_train_annotation000
classification_results0.050.020.07
designSampleSizeClassification7.340.097.61
designSampleSizeClassificationPlots 3.58 0.2748.92
designSampleSizeHypothesisTestingPlot0.340.000.34
designSampleSizePCAplot1.990.072.06
estimateVar0.250.020.27
meanSDplot1.500.091.59
simulateDataset0.260.030.30
simulated_datasets0.020.000.02
variance_estimation0.010.000.02

MSstatsSampleSize.Rcheck/examples_x64/MSstatsSampleSize-Ex.timings

nameusersystemelapsed
OV_SRM_train000
OV_SRM_train_annotation0.020.000.01
classification_results0.060.000.07
designSampleSizeClassification7.500.147.64
designSampleSizeClassificationPlots 4.06 0.2350.11
designSampleSizeHypothesisTestingPlot0.350.000.34
designSampleSizePCAplot2.050.022.06
estimateVar0.230.010.25
meanSDplot1.460.081.53
simulateDataset0.310.020.33
simulated_datasets0.030.000.03
variance_estimation0.010.000.01