BioC 3.4: CHECK report for chipenrich on tokay1

Package: chipenrich

Version: 1.12.1

Command: rm -rf chipenrich.buildbin-libdir chipenrich.Rcheck && mkdir chipenrich.buildbin-libdir chipenrich.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=chipenrich.buildbin-libdir chipenrich_1.12.1.tar.gz >chipenrich.Rcheck\00install.out 2>&1 && cp chipenrich.Rcheck\00install.out chipenrich-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=chipenrich.buildbin-libdir --install="check:chipenrich-install.out" --force-multiarch --no-vignettes --timings chipenrich_1.12.1.tar.gz

StartedAt: 2017-04-14 21:27:04 -0400 (Fri, 14 Apr 2017)

EndedAt: 2017-04-14 21:32:06 -0400 (Fri, 14 Apr 2017)

EllapsedTime: 302.5 seconds

RetCode: 0

Status:  OK

CheckDir: chipenrich.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf chipenrich.buildbin-libdir chipenrich.Rcheck && mkdir chipenrich.buildbin-libdir chipenrich.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=chipenrich.buildbin-libdir chipenrich_1.12.1.tar.gz >chipenrich.Rcheck\00install.out 2>&1 && cp chipenrich.Rcheck\00install.out chipenrich-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=chipenrich.buildbin-libdir --install="check:chipenrich-install.out" --force-multiarch --no-vignettes --timings chipenrich_1.12.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/chipenrich.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'chipenrich/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'chipenrich' version '1.12.1'
* 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 'chipenrich' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
plot_spline_length 19.64   0.08   19.83
chipenrich         13.80   0.17   15.22
plot_gene_coverage  6.16   0.01    6.17
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
plot_spline_length 19.28   0.12   19.41
chipenrich         13.24   0.03   17.57
plot_gene_coverage  7.36   0.02    7.37
* 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

install for i386

* installing *source* package 'chipenrich' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'chipenrich' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'chipenrich' as chipenrich_1.12.1.zip
* DONE (chipenrich)

name	user	system	elapsed
assign_peak_segments	0.63	0.03	3.90
assign_peaks	0.69	0.02	0.71
calc_peak_gene_overlap	0.76	0.02	0.78
chipenrich	13.80	0.17	15.22
load_peaks	0.09	0.00	0.17
num_peaks_per_gene	0.74	0.00	0.73
plot_dist_to_tss	0.54	0.00	0.55
plot_gene_coverage	6.16	0.01	6.17
plot_spline_length	19.64	0.08	19.83
read_bed	0.06	0.00	0.06
read_bedgff	0.03	0.00	0.03
supported_genesets	0	0	0
supported_genomes	0.02	0.00	0.02
supported_locusdefs	0	0	0
supported_methods	0	0	0
supported_read_lengths	0	0	0

name	user	system	elapsed
assign_peak_segments	0.30	0.00	0.29
assign_peaks	0.75	0.01	0.77
calc_peak_gene_overlap	0.79	0.00	0.80
chipenrich	13.24	0.03	17.57
load_peaks	0.03	0.00	0.03
num_peaks_per_gene	0.54	0.00	0.55
plot_dist_to_tss	0.32	0.00	0.31
plot_gene_coverage	7.36	0.02	7.37
plot_spline_length	19.28	0.12	19.41
read_bed	0.08	0.00	0.08
read_bedgff	0.04	0.00	0.05
supported_genesets	0	0	0
supported_genomes	0	0	0
supported_locusdefs	0.02	0.00	0.01
supported_methods	0	0	0
supported_read_lengths	0	0	0