BioC 3.5: CHECK report for uSORT on malbec2

Package: uSORT

Version: 1.2.0

Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings uSORT_1.2.0.tar.gz

StartedAt: 2017-10-18 03:03:30 -0400 (Wed, 18 Oct 2017)

EndedAt: 2017-10-18 03:06:09 -0400 (Wed, 18 Oct 2017)

EllapsedTime: 159.7 seconds

RetCode: 0

Status:  OK

CheckDir: uSORT.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings uSORT_1.2.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/uSORT.Rcheck’
* using R version 3.4.2 (2017-09-28)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘uSORT/DESCRIPTION’ ... OK
* this is package ‘uSORT’ version ‘1.2.0’
* 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 22.024  0.484  22.490
autoSPIN    15.720  0.164  15.926
* 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
Warning in fun(libname, pkgname) : couldn't connect to display ":1.0"
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning in fun(libname, pkgname) : couldn't connect to display ":1.0"
* DONE (uSORT)

name	user	system	elapsed
Rwanderlust	0.920	0.052	0.972
SPIN	0.076	0.000	0.075
STS_sortingcost	0.040	0.004	0.044
autoSPIN	15.720	0.164	15.926
driving_force_gene_selection	0.000	0.000	0.001
elbow_detection	0.004	0.000	0.004
monocle_wrapper	0.000	0.000	0.001
neighborhood_sortingcost	0.056	0.000	0.056
pca_gene_selection	4.076	0.036	4.124
sWanderlust	22.024	0.484	22.490
uSORT	0.004	0.000	0.002
uSORT_GUI	0.000	0.000	0.001
uSORT_preProcess	2.568	0.048	2.620
uSORT_sorting_wrapper	2.984	0.040	3.021
uSORT_write_results	0.000	0.000	0.001