Multiple platform build/check report for BioC 3.9 - CHECK report for drawProteins on tokay2

Package: drawProteins

Version: 1.4.0

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drawProteins.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings drawProteins_1.4.0.tar.gz

StartedAt: 2019-10-16 03:21:48 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 03:22:55 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 66.6 seconds

RetCode: 0

Status: OK

CheckDir: drawProteins.Rcheck

Warnings: 0

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drawProteins.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings drawProteins_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/drawProteins.Rcheck'
* using R version 3.6.1 (2019-07-05)
* 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 '1.4.0'
* 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 ... NOTE
Namespace in Imports field not imported from: 'stringr'
  All declared Imports should be used.
* 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/drawProteins.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/drawProteins_1.4.0.tar.gz && rm -rf drawProteins.buildbin-libdir && mkdir drawProteins.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=drawProteins.buildbin-libdir drawProteins_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL drawProteins_1.4.0.zip && rm drawProteins_1.4.0.tar.gz drawProteins_1.4.0.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 72660  100 72660    0     0   981k      0 --:--:-- --:--:-- --:--:-- 1075k

install for i386

* installing *source* package 'drawProteins' ...
** using staged installation
** R
** data
** inst
** 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_folding                            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  
    parse_gff                               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 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 'drawProteins' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'drawProteins' as drawProteins_1.4.0.zip
* DONE (drawProteins)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'drawProteins' successfully unpacked and MD5 sums checked


R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 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: 183 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
   1.92    0.26    3.29


R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 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: 183 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
> 
> proc.time()
   user  system elapsed 
   2.65    0.23    4.06

name	user	system	elapsed
draw_canvas	0.27	0.05	0.31
draw_chains	0.65	0.00	0.66
draw_domains	0.32	0.00	0.31
draw_folding	0.53	0.00	0.53
draw_motif	0.22	0.00	0.22
draw_phospho	0.14	0.00	0.14
draw_recept_dom	0.26	0.00	0.27
draw_regions	0.38	0.00	0.37
draw_repeat	0.25	0.00	0.25
extract_feat_acc	0.03	0.05	0.08
extract_names	0.02	0.00	0.02
extract_transcripts	0.01	0.00	0.01
feature_to_dataframe	0.05	0.04	0.08
get_features	0.23	0.01	0.97
parse_gff	0.24	0.09	0.82
phospho_site_info	0.00	0.02	0.02

name	user	system	elapsed
draw_canvas	0.48	0.03	0.52
draw_chains	0.97	0.02	0.98
draw_domains	0.54	0.02	0.56
draw_folding	0.99	0.00	0.98
draw_motif	0.42	0.00	0.42
draw_phospho	0.31	0.00	0.32
draw_recept_dom	0.42	0.00	0.42
draw_regions	0.33	0.00	0.33
draw_repeat	0.20	0.00	0.21
extract_feat_acc	0.00	0.05	0.04
extract_names	0.02	0.00	0.02
extract_transcripts	0.02	0.00	0.01
feature_to_dataframe	0.04	0.01	0.07
get_features	0.07	0.00	0.79
parse_gff	0.31	0.02	0.64
phospho_site_info	0.01	0.00	0.02

CHECK report for drawProteins on tokay2

Summary

Command output

Installation output

Tests output

Example timings