Back to Multiple platform build/check report for BioC 3.13
ABCDE[F]GHIJKLMNOPQRSTUVWXYZ

This page was generated on 2021-10-15 15:06:05 -0400 (Fri, 15 Oct 2021).

CHECK results for FoldGO on tokay2

To the developers/maintainers of the FoldGO package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FoldGO.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 673/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FoldGO 1.10.0  (landing page)
Daniil Wiebe
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/FoldGO
git_branch: RELEASE_3_13
git_last_commit: defd37f
git_last_commit_date: 2021-05-19 12:37:57 -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: FoldGO
Version: 1.10.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FoldGO.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings FoldGO_1.10.0.tar.gz
StartedAt: 2021-10-14 23:18:45 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 23:22:04 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 199.6 seconds
RetCode: 0
Status:   OK  
CheckDir: FoldGO.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FoldGO.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings FoldGO_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/FoldGO.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 'FoldGO/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'FoldGO' version '1.10.0'
* 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 'FoldGO' 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... 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
fagroupstopgo_class          5.47   0.38    5.94
plot-FoldSpecTest-ANY-method 5.38   0.00    5.38
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                             user system elapsed
plot-FoldSpecTest-ANY-method  5.5      0     5.5
* 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

FoldGO.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/FoldGO_1.10.0.tar.gz && rm -rf FoldGO.buildbin-libdir && mkdir FoldGO.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FoldGO.buildbin-libdir FoldGO_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL FoldGO_1.10.0.zip && rm FoldGO_1.10.0.tar.gz FoldGO_1.10.0.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
  0 1748k    0  2487    0     0  30338      0  0:00:59 --:--:--  0:00:59 30329
 72 1748k   72 1262k    0     0  1175k      0  0:00:01  0:00:01 --:--:-- 1175k
100 1748k  100 1748k    0     0  1313k      0  0:00:01  0:00:01 --:--:-- 1312k

install for i386

* installing *source* package 'FoldGO' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB

** inst
** byte-compile and prepare package for lazy loading
in method for 'getAnnotation' with signature '"MgsaSets"': no definition for class "MgsaSets"
** help
*** installing help indices
  converting help for package 'FoldGO'
    finding HTML links ... done
    examdata_bg                             html  
    examdata_degs                           html  
    examdata_objs                           html  
    fagroupstopgo_class                     html  
    foldspectest_class                      html  
    gafreader_class                         html  
    genegroups_class                        html  
    getAnnotation                           html  
    getWholeIntName                         html  
    plot-FoldSpecTest-ANY-method            html  
    rna_seq_data                            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 'FoldGO' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FoldGO' as FoldGO_1.10.0.zip
* DONE (FoldGO)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'FoldGO' successfully unpacked and MD5 sums checked

Tests output


Example timings

FoldGO.Rcheck/examples_i386/FoldGO-Ex.timings

nameusersystemelapsed
examdata_bg000
examdata_degs000
examdata_objs0.000.020.02
fagroupstopgo_class5.470.385.94
foldspectest_class3.130.003.13
gafreader_class2.190.092.28
genegroups_class0.010.010.03
getAnnotation000
getWholeIntName2.450.002.45
plot-FoldSpecTest-ANY-method5.380.005.38

FoldGO.Rcheck/examples_x64/FoldGO-Ex.timings

nameusersystemelapsed
examdata_bg0.000.010.02
examdata_degs000
examdata_objs000
fagroupstopgo_class4.690.134.81
foldspectest_class3.120.003.13
gafreader_class1.720.101.83
genegroups_class0.030.000.03
getAnnotation000
getWholeIntName2.490.002.48
plot-FoldSpecTest-ANY-method5.50.05.5