BioC 3.1: CHECK report for sidap on petty

Package: sidap

Version: 0.99.9

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch sidap_0.99.9.tar.gz

StartedAt: 2015-02-09 01:33:22 -0800 (Mon, 09 Feb 2015)

EndedAt: 2015-02-09 01:40:50 -0800 (Mon, 09 Feb 2015)

EllapsedTime: 447.3 seconds

RetCode: 0

Status:  OK

CheckDir: sidap.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch sidap_0.99.9.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.1-bioc/meat/sidap.Rcheck’
* using R Under development (unstable) (2015-01-31 r67686)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sidap/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sidap’ version ‘0.99.9’
* 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 ‘sidap’ can be installed ... [15s/15s] 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 ... [258s/279s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
DensVM_cluster 216.029 27.987  265.19
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’ [10s/10s]
 [10s/11s] 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 ‘sidap’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (sidap)

name	user	system	elapsed
DensVM_cluster	216.029	27.987	265.190
clust_mean_heatmap	0.078	0.005	0.083
clust_percentage_heatmap	0.074	0.007	0.080
clust_state	0.025	0.002	0.027
cluster_gridPlot	0.986	0.087	1.057
cluster_plot	0.683	0.062	0.733
cytof_dimReduction	2.372	0.008	2.382
cytof_tsne_densvm	0.002	0.000	0.002
cytof_tsne_densvm_GUI	0.001	0.000	0.001
cytof_write_resluts	0.002	0.000	0.002
fcs_lgcl	0.899	0.055	0.951
fcs_lgcl_merge	0.914	0.039	0.949
peaksGamma_plot	0.288	0.027	0.309
sidap	0.003	0.001	0.004