Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:59:33 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE scTensor PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1614/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
scTensor 1.4.3 Koki Tsuyuzaki
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK |
Package: scTensor |
Version: 1.4.3 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:scTensor.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings scTensor_1.4.3.tar.gz |
StartedAt: 2020-10-17 05:09:09 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 05:22:33 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 804.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: scTensor.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:scTensor.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings scTensor_1.4.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/scTensor.Rcheck’ * using R version 4.0.3 (2020-10-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘scTensor/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘scTensor’ version ‘1.4.3’ * 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 ‘scTensor’ 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 ... NOTE .simulateDropoutCounts: no visible binding for global variable 'v' .simulateDropoutCounts: no visible binding for global variable 'm' Undefined global functions or variables: m v * 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 * 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-3.11-bioc/meat/scTensor.Rcheck/00check.log’ for details.
scTensor.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL scTensor ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘scTensor’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for 'show' in package 'scTensor' ** 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 (scTensor)
scTensor.Rcheck/tests/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (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("scTensor") > > options(testthat.use_colours = FALSE) > > test_file("testthat/test_GermMale.R") ✔ | OK F W S | Context ⠏ | 0 | GermMale ✖ | 0 1 | GermMale ──────────────────────────────────────────────────────────────────────────────── test_GermMale.R:5: failure: (unknown) dim(GermMale) not equivalent to c(2547, 852). 1/2 mismatches [1] 242 - 2547 == -2305 ──────────────────────────────────────────────────────────────────────────────── ══ Results ═════════════════════════════════════════════════════════════════════ Duration: 0.2 s OK: 0 Failed: 1 Warnings: 0 Skipped: 0 > test_file("testthat/test_tsneGermMale.R") ✔ | OK F W S | Context ⠏ | 0 | tsneGermMale ✔ | 1 | tsneGermMale ══ Results ═════════════════════════════════════════════════════════════════════ OK: 1 Failed: 0 Warnings: 0 Skipped: 0 > test_file("testthat/test_labelGermMale.R") ✔ | OK F W S | Context ⠏ | 0 | labelGermMale ✔ | 1 | labelGermMale ══ Results ═════════════════════════════════════════════════════════════════════ OK: 1 Failed: 0 Warnings: 0 Skipped: 0 > test_file("testthat/test_cellCellFunctions.R") ✔ | OK F W S | Context ⠏ | 0 | cellCellFunctions ⠋ | 1 | cellCellFunctions ⠸ | 3 1 | cellCellFunctions ✖ | 3 3 | cellCellFunctions [2.6 s] ──────────────────────────────────────────────────────────────────────────────── test_cellCellFunctions.R:21: failure: (unknown) is.null(metadata(sce)$lrbase) isn't false. test_cellCellFunctions.R:22: failure: (unknown) is.null(metadata(sce)$color) isn't false. test_cellCellFunctions.R:23: failure: (unknown) is.null(metadata(sce)$label) isn't false. ──────────────────────────────────────────────────────────────────────────────── ══ Results ═════════════════════════════════════════════════════════════════════ Duration: 2.6 s OK: 3 Failed: 3 Warnings: 0 Skipped: 0 > test_file("testthat/test_CCSParamsFunctions.R") ✔ | OK F W S | Context ⠏ | 0 | CCSParamsFunctions ✔ | 11 | CCSParamsFunctions ══ Results ═════════════════════════════════════════════════════════════════════ OK: 11 Failed: 0 Warnings: 0 Skipped: 0 You are a coding rockstar! > test_file("testthat/test_convertToNCBIGeneID.R") ✔ | OK F W S | Context ⠏ | 0 | convertToNCBIGeneID ✔ | 4 | convertToNCBIGeneID ══ Results ═════════════════════════════════════════════════════════════════════ OK: 4 Failed: 0 Warnings: 0 Skipped: 0 > > proc.time() user system elapsed 36.896 5.221 43.357
scTensor.Rcheck/scTensor-Ex.timings
name | user | system | elapsed | |
GermMale | 0.034 | 0.004 | 0.037 | |
cellCellDecomp | 0.018 | 0.002 | 0.020 | |
cellCellRanks | 0.015 | 0.002 | 0.017 | |
cellCellReport | 0.024 | 0.003 | 0.027 | |
cellCellSetting | 0.015 | 0.001 | 0.016 | |
cellCellSimulate | 0.015 | 0.001 | 0.016 | |
convertToNCBIGeneID | 0.038 | 0.005 | 0.042 | |
getParam | 0.054 | 0.007 | 0.059 | |
labelGermMale | 0.017 | 0.003 | 0.020 | |
m | 0.018 | 0.003 | 0.021 | |
newCCSParams | 0.014 | 0.001 | 0.016 | |
scTensor-package | 0.016 | 0.002 | 0.017 | |
setParam | 0.053 | 0.005 | 0.057 | |
tsneGermMale | 0.017 | 0.003 | 0.020 | |
v | 0.016 | 0.003 | 0.019 | |