Package: PrInCE

Version: 1.3.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:PrInCE.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PrInCE_1.3.0.tar.gz

StartedAt: 2020-01-16 07:39:16 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 07:44:50 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 333.4 seconds

RetCode: 0

Status:  OK

CheckDir: PrInCE.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:PrInCE.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PrInCE_1.3.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/PrInCE.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PrInCE/DESCRIPTION’ ... OK
* this is package ‘PrInCE’ version ‘1.3.0’
* 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 ‘PrInCE’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
PrInCE               9.797  1.045  10.847
calculate_precision  9.594  0.831  10.430
predict_ensemble     9.374  0.861  10.238
predict_interactions 8.580  0.696   9.279
threshold_precision  7.804  0.601   8.408
* 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

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL PrInCE
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘PrInCE’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
Loading required namespace: PrInCE
Registered S3 method overwritten by 'xts':
  method     from
  as.zoo.xts zoo 
Registered S3 method overwritten by 'quantmod':
  method            from
  as.zoo.data.frame zoo 
Registered S3 methods overwritten by 'forecast':
  method             from    
  fitted.fracdiff    fracdiff
  residuals.fracdiff fracdiff
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (PrInCE)

name	user	system	elapsed
PrInCE	9.797	1.045	10.847
adjacency_matrix_from_data_frame	0.004	0.000	0.004
adjacency_matrix_from_list	2.300	0.055	2.357
build_gaussians	1.289	0.052	1.342
calculate_precision	9.594	0.831	10.430
check_gaussians	0.205	0.010	0.215
choose_gaussians	0.454	0.010	0.465
clean_profile	0.068	0.003	0.071
clean_profiles	0.078	0.004	0.082
co_apex	0.204	0.005	0.209
detect_complexes	0.169	0.010	0.179
filter_profiles	0.572	0.034	0.606
fit_curve	0.324	0.013	0.336
fit_gaussians	0.344	0.010	0.355
impute_neighbors	0.070	0.003	0.072
is_unweighted	2.179	0.040	2.220
is_weighted	2.272	0.019	2.291
make_initial_conditions	0.071	0.002	0.072
make_labels	2.276	0.010	2.286
match_matrix_dimensions	3.373	0.018	3.391
predict_ensemble	9.374	0.861	10.238
predict_interactions	8.580	0.696	9.279
threshold_precision	7.804	0.601	8.408