BioC 3.5: CHECK report for flowQB on malbec2

Package: flowQB

Version: 2.4.0

Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings flowQB_2.4.0.tar.gz

StartedAt: 2017-08-15 23:03:55 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 23:15:32 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 697.0 seconds

RetCode: 0

Status:  OK

CheckDir: flowQB.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 flowQB_2.4.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/flowQB.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowQB/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowQB’ version ‘2.4.0’
* 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 ‘flowQB’ 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 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
fit_beads        279.476  5.364 285.049
fit_led           11.964  0.296  14.168
qb_from_fits      10.264  0.292  10.565
calc_mean_sd_197   7.260  0.456   8.037
* 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 ‘flowQB’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (flowQB)

name	user	system	elapsed
calc_mean_sd_197	7.260	0.456	8.037
calc_mean_sd_background	2.544	0.084	2.082
calc_mean_sd_capture	0.316	0.028	0.373
calc_mean_sd_capture_all	4.612	0.176	4.472
calc_mean_sd_duke	2.104	0.104	1.950
find_peak	0.000	0.000	0.001
fit_beads	279.476	5.364	285.049
fit_led	11.964	0.296	14.168
fitted_ellipse_gate	0.440	0.144	0.581
get_results_for_dyes	2.064	0.096	2.140
peak_gate-methods	0.488	0.104	0.597
pick_parameters-methods	0.280	0.044	0.324
qb_from_fits	10.264	0.292	10.565
split_in_two-methods	0.320	0.020	0.343