Back to Multiple platform build/check report for BioC 3.7
ABC[D]EFGHIJKLMNOPQRSTUVWXYZ

CHECK report for drawProteins on tokay2

This page was generated on 2018-10-17 08:45:06 -0400 (Wed, 17 Oct 2018).

Package 409/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
drawProteins 1.0.0
Paul Brennan
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/drawProteins
Branch: RELEASE_3_7
Last Commit: b069f74
Last Changed Date: 2018-04-30 10:35:49 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: drawProteins
Version: 1.0.0
Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drawProteins.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings drawProteins_1.0.0.tar.gz
StartedAt: 2018-10-17 01:40:34 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 01:41:31 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 57.6 seconds
RetCode: 0
Status:  OK  
CheckDir: drawProteins.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drawProteins.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings drawProteins_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/drawProteins.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'drawProteins/DESCRIPTION' ... OK
* this is package 'drawProteins' version '1.0.0'
* 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 'drawProteins' 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 '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: OK


Installation output

drawProteins.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/drawProteins_1.0.0.tar.gz && rm -rf drawProteins.buildbin-libdir && mkdir drawProteins.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=drawProteins.buildbin-libdir drawProteins_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL drawProteins_1.0.0.zip && rm drawProteins_1.0.0.tar.gz drawProteins_1.0.0.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
100 67872  100 67872    0     0  1150k      0 --:--:-- --:--:-- --:--:-- 1299k

install for i386

* installing *source* package 'drawProteins' ...
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'drawProteins'
    finding HTML links ... done
    drawProteins                            html  
    draw_canvas                             html  
    draw_chains                             html  
    draw_domains                            html  
    draw_motif                              html  
    draw_phospho                            html  
    draw_recept_dom                         html  
    draw_regions                            html  
    draw_repeat                             html  
    extract_feat_acc                        html  
    extract_names                           html  
    extract_transcripts                     html  
    feature_to_dataframe                    html  
    five_rel_data                           html  
    five_rel_list                           html  
    get_features                            html  
    phospho_site_info                       html  
    protein_json                            html  
    rel_A_features                          html  
    rel_json                                html  
    tnfs_data                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'drawProteins' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'drawProteins' as drawProteins_1.0.0.zip
* DONE (drawProteins)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'drawProteins' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output

drawProteins.Rcheck/tests_i386/testthat.Rout


R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 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(drawProteins)
> 
> test_check("drawProteins")
[1] "Download has worked"
[1] "An error has occured. Code: 400"
== testthat results  ===========================================================
OK: 108 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
   1.75    0.23    2.71 

drawProteins.Rcheck/tests_x64/testthat.Rout


R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 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(drawProteins)
> 
> test_check("drawProteins")
[1] "Download has worked"
[1] "An error has occured. Code: 400"
== testthat results  ===========================================================
OK: 108 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
   2.21    0.25    3.20 

Example timings

drawProteins.Rcheck/examples_i386/drawProteins-Ex.timings

nameusersystemelapsed
draw_canvas0.360.010.37
draw_chains0.610.000.61
draw_domains0.320.000.31
draw_motif0.230.000.23
draw_phospho0.170.000.17
draw_recept_dom0.280.020.30
draw_regions0.280.000.28
draw_repeat0.190.000.19
extract_feat_acc0.040.040.08
extract_names0.020.000.02
extract_transcripts0.060.000.06
feature_to_dataframe0.050.040.09
get_features0.200.030.88
phospho_site_info0.020.000.01

drawProteins.Rcheck/examples_x64/drawProteins-Ex.timings

nameusersystemelapsed
draw_canvas0.500.020.52
draw_chains1.240.001.23
draw_domains0.570.000.56
draw_motif0.330.000.33
draw_phospho0.20.00.2
draw_recept_dom0.340.010.36
draw_regions0.490.020.50
draw_repeat0.430.010.46
extract_feat_acc0.040.050.07
extract_names0.010.000.02
extract_transcripts0.080.010.09
feature_to_dataframe0.080.020.10
get_features0.080.020.83
phospho_site_info000