Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 13:39:36 -0400 (Tue, 09 Apr 2019).
Package 1233/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
projectR 0.99.628 Genevieve Stein-O'Brien
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: projectR |
Version: 0.99.628 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:projectR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings projectR_0.99.628.tar.gz |
StartedAt: 2019-04-09 03:01:29 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 03:04:50 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 200.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: projectR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:projectR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings projectR_0.99.628.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/projectR.Rcheck’ * using R Under development (unstable) (2018-11-27 r75683) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘projectR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘projectR’ version ‘0.99.628’ * 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 ... NOTE Found the following hidden files and directories: .travis.yml These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘projectR’ 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.9-bioc/meat/projectR.Rcheck/00check.log’ for details.
projectR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL projectR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘projectR’ ... ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (projectR)
projectR.Rcheck/tests/testthat.Rout
R Under development (unstable) (2018-11-27 r75683) -- "Unsuffered Consequences" Copyright (C) 2018 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. > library(testthat) > library(projectR) > > test_check("projectR") This is CoGAPS version 3.3.40 Running Standard CoGAPS on 108 genes and 54 samples with parameters: -- Standard Parameters -- nPatterns 5 nIterations 5000 seed 505 singleCell FALSE sparseOptimization FALSE -- Sparsity Parameters -- alpha 0.01 maxGibbsMass 100 Loading Data...Done! (00:00:00) -- Calibration Phase -- 2500 of 5000, Atoms: 447(255), ChiSq: 30314, Time: 00:00:00 / 00:00:00 5000 of 5000, Atoms: 498(221), ChiSq: 28948, Time: 00:00:01 / 00:00:02 -- Sampling Phase -- 2500 of 5000, Atoms: 486(231), ChiSq: 28190, Time: 00:00:03 / 00:00:04 5000 of 5000, Atoms: 487(215), ChiSq: 28249, Time: 00:00:04 / 00:00:04 [1] "93 row names matched between data and loadings" [1] "Updated dimension of data: 93 9" [1] "93 row names matched between data and loadings" [1] "Updated dimension of data: 93 9" [1] "93 row names matched between data and loadings" [1] "Updated dimension of data: 93 9" ══ testthat results ═══════════════════════════════════════════════════════════ OK: 24 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 13.979 0.546 14.553
projectR.Rcheck/projectR-Ex.timings
name | user | system | elapsed | |
auc_mat | 0.060 | 0.011 | 0.071 | |
cluster2pattern-methods | 0.211 | 0.024 | 0.235 | |
clusterPlotR-methods | 0 | 0 | 0 | |
correlateR | 0.184 | 0.004 | 0.190 | |
geneMatchR | 0.026 | 0.018 | 0.045 | |
intersectoR-methods | 0.036 | 0.006 | 0.042 | |
projectR-methods | 4.387 | 0.050 | 4.454 | |
rotatoR | 0.004 | 0.000 | 0.005 | |