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This page was generated on 2022-01-12 13:06:36 -0500 (Wed, 12 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4327
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4076
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4137
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 GCSscore on tokay2


To the developers/maintainers of the GCSscore package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GCSscore.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 708/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GCSscore 1.8.0  (landing page)
Guy M. Harris
Snapshot Date: 2022-01-11 01:55:07 -0500 (Tue, 11 Jan 2022)
git_url: https://git.bioconductor.org/packages/GCSscore
git_branch: RELEASE_3_14
git_last_commit: d7f279c
git_last_commit_date: 2021-10-26 12:55:52 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 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: GCSscore
Version: 1.8.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GCSscore.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GCSscore_1.8.0.tar.gz
StartedAt: 2022-01-11 19:56:03 -0500 (Tue, 11 Jan 2022)
EndedAt: 2022-01-11 19:58:14 -0500 (Tue, 11 Jan 2022)
EllapsedTime: 130.5 seconds
RetCode: 0
Status:   OK  
CheckDir: GCSscore.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GCSscore.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GCSscore_1.8.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/GCSscore.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 'GCSscore/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GCSscore' 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 'GCSscore' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 11.9Mb
  sub-directories of 1Mb or more:
    extdata  11.6Mb
* 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
** 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-3.14-bioc/meat/GCSscore.Rcheck/00check.log'
for details.



Installation output

GCSscore.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GCSscore_1.8.0.tar.gz && rm -rf GCSscore.buildbin-libdir && mkdir GCSscore.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GCSscore.buildbin-libdir GCSscore_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GCSscore_1.8.0.zip && rm GCSscore_1.8.0.tar.gz GCSscore_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
 43 4373k   43 1889k    0     0  3528k      0  0:00:01 --:--:--  0:00:01 3531k
100 4373k  100 4373k    0     0  3169k      0  0:00:01  0:00:01 --:--:-- 3171k

install for i386

* installing *source* package 'GCSscore' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GCSscore'
    finding HTML links ... done
    GCSscore                                html  
    calcSF                                  html  
    computeSscore                           html  
    get3primeIVTprobefileData               html  
    getClariomSprobefileData                html  
    getXTAprobefileData                     html  
    mismatch                                html  
    normalize                               html  
    rawScore                                html  
    zoneRQ                                  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 'GCSscore' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GCSscore' as GCSscore_1.8.0.zip
* DONE (GCSscore)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'GCSscore' successfully unpacked and MD5 sums checked

Tests output


Example timings

GCSscore.Rcheck/examples_i386/GCSscore-Ex.timings

nameusersystemelapsed
GCSscore000
calcSF000
computeSscore000
get3primeIVTprobefileData000
getClariomSprobefileData000
getXTAprobefileData000
mismatch000
normalize0.020.000.02
rawScore000
zoneRQ000

GCSscore.Rcheck/examples_x64/GCSscore-Ex.timings

nameusersystemelapsed
GCSscore000
calcSF000
computeSscore000
get3primeIVTprobefileData000
getClariomSprobefileData000
getXTAprobefileData000
mismatch000
normalize000
rawScore000
zoneRQ000