Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:29:29 -0400 (Thu, 06 May 2021).
To the developers/maintainers of the TPP2D package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1882/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
TPP2D 1.6.0 (landing page) Nils Kurzawa
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
Package: TPP2D |
Version: 1.6.0 |
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:TPP2D.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings TPP2D_1.6.0.tar.gz |
StartedAt: 2021-05-06 06:45:05 -0400 (Thu, 06 May 2021) |
EndedAt: 2021-05-06 06:47:26 -0400 (Thu, 06 May 2021) |
EllapsedTime: 141.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: TPP2D.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:TPP2D.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings TPP2D_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/TPP2D.Rcheck’ * using R version 4.0.5 (2021-03-31) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘TPP2D/DESCRIPTION’ ... OK * this is package ‘TPP2D’ version ‘1.6.0’ * 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 getModelParamsDf 9.236 0.024 9.287 fitAndEvalDataset 8.724 0.012 8.747 computeFStatFromParams 8.248 0.008 8.266 plot2dTppVolcano 7.632 0.016 7.655 getFDR 2.168 0.020 6.665 findHits 1.624 0.036 6.386 * 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: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL TPP2D ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/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 version 4.0.5 (2021-03-31) -- "Shake and Throw" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (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") [1] "Warning: You have specificed B < 20, it is recommended to use at least B = 20 in order to obtain reliable results." | | | 0% | |======================================================================| 100% [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ] > > proc.time() user system elapsed 7.092 0.104 7.203
TPP2D.Rcheck/TPP2D-Ex.timings
name | user | system | elapsed | |
TPP_importCheckConfigTable | 0.024 | 0.000 | 0.026 | |
annotateDataList | 1.000 | 0.012 | 1.010 | |
bootstrapNull | 0.112 | 0.016 | 2.848 | |
bootstrapNullAlternativeModel | 3.168 | 0.028 | 3.208 | |
competeModels | 4.204 | 0.008 | 4.220 | |
computeFStatFromParams | 8.248 | 0.008 | 8.266 | |
computeFstat | 4.720 | 0.000 | 4.725 | |
configWide2Long | 0.008 | 0.000 | 0.007 | |
filterOutContaminants | 0.032 | 0.000 | 0.030 | |
findHits | 1.624 | 0.036 | 6.386 | |
fitAndEvalDataset | 8.724 | 0.012 | 8.747 | |
fitH0Model | 0.252 | 0.000 | 0.252 | |
fitH1Model | 1.728 | 0.000 | 1.729 | |
getFDR | 2.168 | 0.020 | 6.665 | |
getModelParamsDf | 9.236 | 0.024 | 9.287 | |
getPEC504Temperature | 0.588 | 0.000 | 0.586 | |
getPvalues | 0.752 | 0.016 | 4.043 | |
gg_qq | 0.048 | 0.008 | 0.056 | |
import2dDataset | 0.844 | 0.000 | 0.843 | |
import2dMain | 0.448 | 0.008 | 0.457 | |
plot2dTppFcHeatmap | 0.308 | 0.008 | 0.315 | |
plot2dTppFit | 0.312 | 0.000 | 0.316 | |
plot2dTppProfile | 0.444 | 0.000 | 0.448 | |
plot2dTppRelProfile | 0.436 | 0.000 | 0.437 | |
plot2dTppVolcano | 7.632 | 0.016 | 7.655 | |
recomputeSignalFromRatios | 0.096 | 0.000 | 0.096 | |
renameColumns | 1.040 | 0.000 | 1.041 | |
resolveAmbiguousProteinNames | 0.072 | 0.000 | 0.073 | |
runTPP2D | 2.232 | 0.008 | 2.243 | |
tpp2dExperiment-class | 0 | 0 | 0 | |