BioC 3.6: CHECK report for flowQB on malbec1

Package: flowQB

Version: 2.5.0

Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowQB_2.5.0.tar.gz

StartedAt: 2017-08-15 23:11:11 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 23:22:09 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 658.1 seconds

RetCode: 0

Status:  OK

CheckDir: flowQB.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowQB_2.5.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.6-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 ‘2.5.0’
* 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                255.844  6.208 262.061
qb_from_fits              10.304  0.276  10.579
fit_led                    9.964  0.340  10.740
calc_mean_sd_197           7.132  0.504   9.024
calc_mean_sd_capture_all   5.144  0.240   5.822
* 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	7.132	0.504	9.024
calc_mean_sd_background	2.072	0.092	1.612
calc_mean_sd_capture	0.212	0.012	0.236
calc_mean_sd_capture_all	5.144	0.240	5.822
calc_mean_sd_duke	2.408	0.112	2.551
find_peak	0.000	0.000	0.002
fit_beads	255.844	6.208	262.061
fit_led	9.964	0.340	10.740
fitted_ellipse_gate	0.456	0.216	0.672
get_results_for_dyes	1.684	0.064	1.591
peak_gate-methods	0.416	0.184	0.601
pick_parameters-methods	0.360	0.008	0.368
qb_from_fits	10.304	0.276	10.579
split_in_two-methods	0.364	0.224	0.587