BioC 3.5: CHECK report for uSORT on toluca2

Package: uSORT

Version: 1.1.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings uSORT_1.1.0.tar.gz

StartedAt: 2017-04-23 11:02:11 -0400 (Sun, 23 Apr 2017)

EndedAt: 2017-04-23 11:06:28 -0400 (Sun, 23 Apr 2017)

EllapsedTime: 256.9 seconds

RetCode: 0

Status:  OK

CheckDir: uSORT.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings uSORT_1.1.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/uSORT.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘uSORT/DESCRIPTION’ ... OK
* this is package ‘uSORT’ version ‘1.1.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘uSORT’ 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
* 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 ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
sWanderlust        34.673  3.069  60.820
autoSPIN           19.475  1.525  29.037
pca_gene_selection  4.788  0.234   5.014
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.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

* installing *source* package ‘uSORT’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (uSORT)

name	user	system	elapsed
Rwanderlust	1.208	0.092	1.293
SPIN	0.076	0.005	0.081
STS_sortingcost	0.054	0.005	0.060
autoSPIN	19.475	1.525	29.037
driving_force_gene_selection	0.001	0.000	0.002
elbow_detection	0.003	0.000	0.004
monocle_wrapper	0.000	0.000	0.001
neighborhood_sortingcost	0.083	0.011	0.094
pca_gene_selection	4.788	0.234	5.014
sWanderlust	34.673	3.069	60.820
uSORT	0.002	0.001	0.001
uSORT_GUI	0	0	0
uSORT_preProcess	3.157	0.229	3.682
uSORT_sorting_wrapper	3.388	0.231	4.535
uSORT_write_results	0.001	0.001	0.003