| Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:08:55 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
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To the developers/maintainers of the TimeSeriesExperiment package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TimeSeriesExperiment.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1959/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| TimeSeriesExperiment 1.12.0 (landing page) Lan Huong Nguyen
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: TimeSeriesExperiment |
| Version: 1.12.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TimeSeriesExperiment.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TimeSeriesExperiment_1.12.0.tar.gz |
| StartedAt: 2022-04-12 19:24:26 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 19:30:31 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 364.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: TimeSeriesExperiment.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TimeSeriesExperiment.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TimeSeriesExperiment_1.12.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/TimeSeriesExperiment.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (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 ‘1.12.0’
* 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 ... 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
differentialExpression 22.135 0.484 22.637
plotTimeSeriesPCA 9.097 0.613 9.788
* 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: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.14-bioc/meat/TimeSeriesExperiment.Rcheck/00check.log’
for details.
TimeSeriesExperiment.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL TimeSeriesExperiment ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/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 | 0.595 | 0.004 | 0.600 | |
| addLags | 0.892 | 0.038 | 0.931 | |
| clusterAssignment | 1.198 | 0.026 | 1.224 | |
| clusterData | 0.244 | 0.007 | 0.251 | |
| clusterTimeSeries | 0.857 | 0.028 | 0.885 | |
| colData | 0.067 | 0.003 | 0.069 | |
| collapseReplicates | 0.172 | 0.005 | 0.177 | |
| collapsed-data | 0.469 | 0.010 | 0.479 | |
| dataToTimeSeries | 0.076 | 0.002 | 0.077 | |
| differentialExpression | 22.135 | 0.484 | 22.637 | |
| dimensionReduction | 0.120 | 0.003 | 0.123 | |
| filterFeatures | 0.156 | 0.004 | 0.159 | |
| groups | 0.034 | 0.003 | 0.037 | |
| makeTimeSeries | 0.358 | 0.018 | 0.376 | |
| makeTimeSeriesExperimentFromExpressionSet | 0.002 | 0.001 | 0.002 | |
| makeTimeSeriesExperimentFromSummarizedExperiment | 0.546 | 0.002 | 0.550 | |
| meltMatrix | 0.028 | 0.001 | 0.029 | |
| normalizeData | 0.089 | 0.004 | 0.093 | |
| pathwayEnrichment | 1.125 | 0.071 | 1.219 | |
| pipe | 0.000 | 0.001 | 0.001 | |
| plotEnrichment | 1.161 | 0.022 | 1.188 | |
| plotHeatmap | 0.069 | 0.003 | 0.072 | |
| plotSamplePCA | 0.424 | 0.005 | 0.429 | |
| plotTimeSeries | 2.967 | 0.046 | 3.087 | |
| plotTimeSeriesClusters | 2.882 | 0.031 | 2.915 | |
| plotTimeSeriesPCA | 9.097 | 0.613 | 9.788 | |
| replicates | 0.037 | 0.002 | 0.040 | |
| rowData | 0.079 | 0.003 | 0.082 | |
| row_and_colnames | 0.033 | 0.002 | 0.035 | |
| runPCA | 0.121 | 0.002 | 0.123 | |
| timeSeries | 0.683 | 0.482 | 1.166 | |
| timepointDE | 0.231 | 0.003 | 0.234 | |
| timepoints | 0.059 | 0.003 | 0.062 | |
| trajectoryDE | 0.269 | 0.015 | 0.284 | |
| varianceStabilization | 0.004 | 0.001 | 0.004 | |