Package: PrInCE

Version: 1.2.0

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_1.2.0.tar.gz

StartedAt: 2020-04-15 04:44:39 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 04:48:39 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 240.0 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_1.2.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/PrInCE.Rcheck’
* using R version 3.6.3 (2020-02-29)
* 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 ‘1.2.0’
* 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 ‘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 or elapsed time > 5s
                      user system elapsed
PrInCE               7.614  0.403   8.023
calculate_precision  7.507  0.373   7.889
predict_ensemble     7.423  0.363   7.796
predict_interactions 6.903  0.326   7.243
threshold_precision  6.312  0.329   6.645
* 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/3.6/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 'quantmod':
  method            from
  as.zoo.data.frame zoo 
*** 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	7.614	0.403	8.023
adjacency_matrix_from_data_frame	0.002	0.000	0.002
adjacency_matrix_from_list	2.184	0.034	2.219
build_gaussians	0.883	0.022	0.905
calculate_precision	7.507	0.373	7.889
check_gaussians	0.162	0.004	0.166
choose_gaussians	0.349	0.003	0.354
clean_profile	0.074	0.002	0.076
clean_profiles	0.067	0.002	0.070
co_apex	0.179	0.004	0.184
detect_complexes	0.146	0.004	0.151
filter_profiles	0.449	0.020	0.469
fit_curve	0.200	0.010	0.209
fit_gaussians	0.246	0.012	0.259
impute_neighbors	0.065	0.004	0.069
is_unweighted	2.110	0.034	2.152
is_weighted	1.953	0.013	1.966
make_initial_conditions	0.068	0.001	0.070
make_labels	2.053	0.006	2.061
match_matrix_dimensions	3.155	0.010	3.167
predict_ensemble	7.423	0.363	7.796
predict_interactions	6.903	0.326	7.243
threshold_precision	6.312	0.329	6.645