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CHECK report for antiProfiles on tokay1

This page was generated on 2020-08-13 11:37:17 -0400 (Thu, 13 Aug 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE antiProfiles PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 68/1885HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
antiProfiles 1.29.0
Hector Corrada Bravo
Snapshot Date: 2020-08-12 14:52:00 -0400 (Wed, 12 Aug 2020)
URL: https://git.bioconductor.org/packages/antiProfiles
Branch: master
Last Commit: d37e7c1
Last Changed Date: 2020-04-27 14:34:13 -0400 (Mon, 27 Apr 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  OK 
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: antiProfiles
Version: 1.29.0
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:antiProfiles.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings antiProfiles_1.29.0.tar.gz
StartedAt: 2020-08-13 01:22:29 -0400 (Thu, 13 Aug 2020)
EndedAt: 2020-08-13 01:23:01 -0400 (Thu, 13 Aug 2020)
EllapsedTime: 31.7 seconds
RetCode: 0
Status:  OK  
CheckDir: antiProfiles.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:antiProfiles.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings antiProfiles_1.29.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/antiProfiles.Rcheck'
* using R version 4.0.2 (2020-06-22)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'antiProfiles/DESCRIPTION' ... OK
* this is package 'antiProfiles' version '1.29.0'
* 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 'antiProfiles' 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 ... NOTE
ev: no visible global function definition for 'predict'
ev: no visible global function definition for 'smoothScatter'
ev : f1: no visible global function definition for 'predict'
ev: no visible global function definition for 'curve'
Undefined global functions or variables:
  curve predict smoothScatter
Consider adding
  importFrom("graphics", "curve", "smoothScatter")
  importFrom("stats", "predict")
to your NAMESPACE file.
* 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
** 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.12-bioc/meat/antiProfiles.Rcheck/00check.log'
for details.



Installation output

antiProfiles.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.12/bioc/src/contrib/antiProfiles_1.29.0.tar.gz && rm -rf antiProfiles.buildbin-libdir && mkdir antiProfiles.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=antiProfiles.buildbin-libdir antiProfiles_1.29.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL antiProfiles_1.29.0.zip && rm antiProfiles_1.29.0.tar.gz antiProfiles_1.29.0.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
100 11594  100 11594    0     0   276k      0 --:--:-- --:--:-- --:--:--  306k

install for i386

* installing *source* package 'antiProfiles' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'antiProfiles'
    finding HTML links ... done
    antiProfiles-package                    html  
    antiprofile-class                       html  
    antiprofilestats-class                  html  
    apCount-methods                         html  
    apReorder-methods                       html  
    apStats                                 html  
    buildAntiProfile-methods                html  
    ev                                      html  
    tissueSpecAntiprofile-class             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 'antiProfiles' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'antiProfiles' as antiProfiles_1.29.0.zip
* DONE (antiProfiles)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'antiProfiles' successfully unpacked and MD5 sums checked

Tests output


Example timings

antiProfiles.Rcheck/examples_i386/antiProfiles-Ex.timings

nameusersystemelapsed
antiprofile-class0.990.031.02
antiprofilestats-class0.290.030.33
apCount-methods0.120.030.15
apReorder-methods0.150.020.17
apStats0.180.010.19
buildAntiProfile-methods0.150.030.19
ev0.250.000.25
tissueSpecAntiprofile-class0.190.020.20

antiProfiles.Rcheck/examples_x64/antiProfiles-Ex.timings

nameusersystemelapsed
antiprofile-class0.650.040.68
antiprofilestats-class0.200.080.29
apCount-methods0.080.020.10
apReorder-methods0.100.030.12
apStats0.070.020.09
buildAntiProfile-methods0.080.030.11
ev0.110.000.11
tissueSpecAntiprofile-class0.110.010.13