Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:06:15 -0400 (Fri, 15 Oct 2021).

CHECK results for PERFect on tokay2

To the developers/maintainers of the PERFect package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PERFect.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 1372/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PERFect 1.6.0  (landing page)
Quy Cao
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/PERFect
git_branch: RELEASE_3_13
git_last_commit: 65e5dbb
git_last_commit_date: 2021-05-19 12:46:54 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: PERFect
Version: 1.6.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PERFect.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings PERFect_1.6.0.tar.gz
StartedAt: 2021-10-15 03:18:18 -0400 (Fri, 15 Oct 2021)
EndedAt: 2021-10-15 03:21:33 -0400 (Fri, 15 Oct 2021)
EllapsedTime: 195.0 seconds
RetCode: 0
Status:   OK  
CheckDir: PERFect.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PERFect.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings PERFect_1.6.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/PERFect.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 'PERFect/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PERFect' version '1.6.0'
* 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 'PERFect' 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 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
** running examples for arch 'x64' ... 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: OK


Installation output

PERFect.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/PERFect_1.6.0.tar.gz && rm -rf PERFect.buildbin-libdir && mkdir PERFect.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PERFect.buildbin-libdir PERFect_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL PERFect_1.6.0.zip && rm PERFect_1.6.0.tar.gz PERFect_1.6.0.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
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  317k  100  317k    0     0  1034k      0 --:--:-- --:--:-- --:--:-- 1033k

install for i386

* installing *source* package 'PERFect' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PERFect'
    finding HTML links ... done
    DiffFiltLoss                            html  
    FL_J                                    html  
    FiltLoss                                html  
    NC_Order                                html  
    NCw_Order                               html  
    NP_Order                                html  
    PERFect_perm                            html  
    PERFect_perm_reorder                    html  
    PERFect_sim                             html  
    TraditR1                                html  
    TraditR2                                html  
    mock2                                   html  
    pvals_Order                             html  
    pvals_Plots                             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 'PERFect' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PERFect' as PERFect_1.6.0.zip
* DONE (PERFect)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'PERFect' successfully unpacked and MD5 sums checked

Tests output


Example timings

PERFect.Rcheck/examples_i386/PERFect-Ex.timings

nameusersystemelapsed
DiffFiltLoss0.170.040.22
FL_J000
FiltLoss0.170.000.18
NC_Order0.020.000.01
NCw_Order000
NP_Order0.000.020.02
PERFect_perm0.480.000.48
PERFect_perm_reorder0.020.000.02
PERFect_sim0.680.010.70
TraditR10.020.000.02
TraditR20.010.000.01
pvals_Order0.490.000.49
pvals_Plots0.640.000.64

PERFect.Rcheck/examples_x64/PERFect-Ex.timings

nameusersystemelapsed
DiffFiltLoss0.210.030.23
FL_J0.010.000.02
FiltLoss0.190.040.22
NC_Order0.000.010.01
NCw_Order0.000.020.02
NP_Order0.020.000.01
PERFect_perm0.620.000.63
PERFect_perm_reorder000
PERFect_sim0.830.010.84
TraditR10.010.000.02
TraditR20.020.000.01
pvals_Order0.560.020.58
pvals_Plots0.780.000.78