Nils Kurzawa
| Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020) |
| URL: https://git.bioconductor.org/packages/TPP2D |
| Branch: master |
| Last Commit: 3cbb5d9 |
| Last Changed Date: 2019-11-19 04:22:07 -0500 (Tue, 19 Nov 2019) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-01-16 13:54:22 -0500 (Thu, 16 Jan 2020).
| Package 1735/1818 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| TPP2D 1.3.0 Nils Kurzawa
| malbec2 | Linux (Ubuntu 18.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | NA | |||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: TPP2D |
| Version: 1.3.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:TPP2D.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings TPP2D_1.3.0.tar.gz |
| StartedAt: 2020-01-16 09:33:41 -0500 (Thu, 16 Jan 2020) |
| EndedAt: 2020-01-16 09:35:58 -0500 (Thu, 16 Jan 2020) |
| EllapsedTime: 136.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: TPP2D.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:TPP2D.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings TPP2D_1.3.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/TPP2D.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 ‘TPP2D/DESCRIPTION’ ... OK
* this is package ‘TPP2D’ 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 ‘TPP2D’ 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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
fitAndEvalDataset 9.087 0.268 9.356
computeFstat 8.024 0.253 8.276
computePvalFromKernelDensity 6.551 1.145 10.384
competeModels 5.110 0.146 5.255
findHits 2.022 0.073 5.907
computeFdr 1.931 0.050 6.978
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.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
TPP2D.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL TPP2D ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘TPP2D’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** 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 (TPP2D)
TPP2D.Rcheck/tests/testthat.Rout
R Under development (unstable) (2019-12-14 r77572) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> Sys.setenv("R_TESTS" = "")
> library(testthat)
> library(TPP2D)
Loading required package: dplyr
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
>
> test_check("TPP2D")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 11 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
5.923 0.434 9.282
TPP2D.Rcheck/TPP2D-Ex.timings
| name | user | system | elapsed | |
| TPP_importCheckConfigTable | 0.038 | 0.008 | 0.046 | |
| annotateDataList | 0.719 | 0.023 | 0.741 | |
| bootstrapNull | 0.112 | 0.011 | 2.613 | |
| competeModels | 5.110 | 0.146 | 5.255 | |
| computeFdr | 1.931 | 0.050 | 6.978 | |
| computeFstat | 8.024 | 0.253 | 8.276 | |
| computePvalFromKernelDensity | 6.551 | 1.145 | 10.384 | |
| configWide2Long | 0.010 | 0.002 | 0.013 | |
| config_tab | 0.003 | 0.002 | 0.004 | |
| filterOutContaminants | 0.066 | 0.003 | 0.069 | |
| findHits | 2.022 | 0.073 | 5.907 | |
| fitAndEvalDataset | 9.087 | 0.268 | 9.356 | |
| fitH0Model | 0.074 | 0.004 | 0.078 | |
| fitH1Model | 1.207 | 0.029 | 1.237 | |
| gg_qq | 0.071 | 0.007 | 0.078 | |
| import2dDataset | 0.59 | 0.01 | 0.60 | |
| import2dMain | 0.204 | 0.007 | 0.212 | |
| plot2dTppFit | 0.672 | 0.019 | 0.691 | |
| plot2dTppProfile | 0.406 | 0.003 | 0.409 | |
| plot2dTppRelProfile | 0.342 | 0.003 | 0.346 | |
| raw_dat_list | 0.002 | 0.001 | 0.003 | |
| recomputeSignalFromRatios | 0.047 | 0.002 | 0.049 | |
| renameColumns | 0.379 | 0.007 | 0.386 | |
| simulated_cell_extract_df | 0.003 | 0.002 | 0.004 | |