Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:55:56 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE TimeSeriesExperiment PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1803/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
TimeSeriesExperiment 1.6.0 Lan Huong Nguyen
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ WARNINGS ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK |
Package: TimeSeriesExperiment |
Version: 1.6.0 |
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:TimeSeriesExperiment.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings TimeSeriesExperiment_1.6.0.tar.gz |
StartedAt: 2020-10-17 06:05:09 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 06:09:20 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 250.9 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: TimeSeriesExperiment.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:TimeSeriesExperiment.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings TimeSeriesExperiment_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/TimeSeriesExperiment.Rcheck’ * using R version 4.0.3 (2020-10-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘TimeSeriesExperiment/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘TimeSeriesExperiment’ 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 ‘TimeSeriesExperiment’ 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 ... NOTE Unexported object imported by a ':::' call: ‘S4Vectors:::selectSome’ See the note in ?`:::` about the use of this operator. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE clusterTimeSeries: no visible binding for global variable ‘freq’ clusterTimeSeries: no visible binding for global variable ‘.’ Undefined global functions or variables: . freq * 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 ... WARNING Documented arguments not in \usage in documentation object 'plotHeatmap': ‘...’ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * 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 (user + system) or elapsed time > 5s user system elapsed differentialExpression 14.317 0.004 14.322 * 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 WARNING, 2 NOTEs See ‘/home/biocbuild/bbs-3.11-bioc/meat/TimeSeriesExperiment.Rcheck/00check.log’ for details.
TimeSeriesExperiment.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL TimeSeriesExperiment ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘TimeSeriesExperiment’ ... ** 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 (TimeSeriesExperiment)
TimeSeriesExperiment.Rcheck/TimeSeriesExperiment-Ex.timings
name | user | system | elapsed | |
TimeSeriesExperiment | 0.309 | 0.004 | 0.313 | |
addLags | 0.623 | 0.024 | 0.648 | |
clusterAssignment | 0.661 | 0.008 | 0.670 | |
clusterData | 0.144 | 0.004 | 0.148 | |
clusterTimeSeries | 0.638 | 0.000 | 0.638 | |
colData | 0.078 | 0.004 | 0.081 | |
collapseReplicates | 0.177 | 0.000 | 0.177 | |
collapsed-data | 0.338 | 0.000 | 0.339 | |
dataToTimeSeries | 0.045 | 0.000 | 0.044 | |
differentialExpression | 14.317 | 0.004 | 14.322 | |
dimensionReduction | 0.081 | 0.000 | 0.081 | |
filterFeatures | 0.095 | 0.000 | 0.095 | |
groups | 0.027 | 0.000 | 0.027 | |
makeTimeSeries | 0.230 | 0.000 | 0.229 | |
makeTimeSeriesExperimentFromExpressionSet | 0.002 | 0.000 | 0.002 | |
makeTimeSeriesExperimentFromSummarizedExperiment | 0.256 | 0.000 | 0.256 | |
meltMatrix | 0.027 | 0.000 | 0.028 | |
normalizeData | 0.057 | 0.000 | 0.058 | |
pathwayEnrichment | 1.250 | 0.032 | 1.282 | |
pipe | 0.000 | 0.000 | 0.001 | |
plotEnrichment | 0.635 | 0.012 | 0.648 | |
plotHeatmap | 0.028 | 0.000 | 0.027 | |
plotSamplePCA | 0.255 | 0.004 | 0.258 | |
plotTimeSeries | 1.708 | 0.040 | 1.749 | |
plotTimeSeriesClusters | 1.695 | 0.016 | 1.710 | |
plotTimeSeriesPCA | 4.054 | 0.132 | 4.187 | |
replicates | 0.024 | 0.004 | 0.029 | |
rowData | 0.040 | 0.000 | 0.039 | |
row_and_colnames | 0.019 | 0.000 | 0.018 | |
runPCA | 0.082 | 0.000 | 0.083 | |
timeSeries | 0.513 | 0.080 | 0.593 | |
timepointDE | 0.091 | 0.000 | 0.091 | |
timepoints | 0.034 | 0.000 | 0.035 | |
trajectoryDE | 0.137 | 0.000 | 0.137 | |
varianceStabilization | 0.003 | 0.000 | 0.003 | |