| Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-02-27 02:34:43 -0000 (Mon, 27 Feb 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4259 |
| 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 | ||||
|
To the developers/maintainers of the singleCellTK package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/singleCellTK.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 1880/2169 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| singleCellTK 2.9.0 (landing page) Yichen Wang
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | TIMEOUT | |||||||||
| Package: singleCellTK |
| Version: 2.9.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:singleCellTK.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings singleCellTK_2.9.0.tar.gz |
| StartedAt: 2023-02-24 18:40:54 -0000 (Fri, 24 Feb 2023) |
| EndedAt: 2023-02-24 20:40:54 -0000 (Fri, 24 Feb 2023) |
| EllapsedTime: 7200.0 seconds |
| RetCode: None |
| Status: TIMEOUT |
| CheckDir: singleCellTK.Rcheck |
| Warnings: NA |
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### Running command:
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### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:singleCellTK.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings singleCellTK_2.9.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/singleCellTK.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘singleCellTK/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘singleCellTK’ version ‘2.9.0’
* 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 ‘singleCellTK’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 6.7Mb
sub-directories of 1Mb or more:
extdata 1.6Mb
shiny 2.9Mb
* 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 ...
singleCellTK.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL singleCellTK ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘singleCellTK’ ... ** using staged installation ** R ** data ** exec ** 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 (singleCellTK)
singleCellTK.Rcheck/singleCellTK-Ex.timings
| name | user | system | elapsed | |
| MitoGenes | 0.003 | 0.000 | 0.003 | |
| SEG | 0.001 | 0.002 | 0.003 | |
| calcEffectSizes | 0.232 | 0.009 | 0.241 | |
| combineSCE | 1.999 | 0.067 | 2.067 | |
| computeZScore | 0.339 | 0.020 | 0.360 | |
| convertSCEToSeurat | 4.013 | 0.220 | 4.233 | |
| convertSeuratToSCE | 0.530 | 0.000 | 0.531 | |
| dedupRowNames | 0.073 | 0.000 | 0.073 | |
| detectCellOutlier | 6.331 | 0.171 | 6.515 | |
| diffAbundanceFET | 0.049 | 0.008 | 0.057 | |
| discreteColorPalette | 0.001 | 0.008 | 0.009 | |
| distinctColors | 0.000 | 0.004 | 0.003 | |
| downSampleCells | 0.994 | 0.028 | 1.022 | |
| downSampleDepth | 0.754 | 0.004 | 0.758 | |
| expData-ANY-character-method | 0.412 | 0.040 | 0.452 | |
| expData-set-ANY-character-CharacterOrNullOrMissing-logical-method | 0.483 | 0.020 | 0.503 | |
| expData-set | 0.488 | 0.008 | 0.496 | |
| expData | 0.424 | 0.000 | 0.424 | |
| expDataNames-ANY-method | 0.454 | 0.007 | 0.461 | |
| expDataNames | 0.403 | 0.000 | 0.403 | |
| expDeleteDataTag | 0.049 | 0.000 | 0.050 | |
| expSetDataTag | 0.032 | 0.000 | 0.031 | |
| expTaggedData | 0.033 | 0.000 | 0.033 | |
| exportSCE | 0.03 | 0.00 | 0.03 | |
| exportSCEtoAnnData | 0.080 | 0.016 | 0.096 | |
| exportSCEtoFlatFile | 0.090 | 0.004 | 0.095 | |
| featureIndex | 0.046 | 0.000 | 0.046 | |
| generateSimulatedData | 0.050 | 0.004 | 0.054 | |
| getBiomarker | 0.060 | 0.000 | 0.061 | |
| getDEGTopTable | 1.134 | 0.040 | 1.180 | |
| getDiffAbundanceResults | 0.125 | 0.008 | 0.133 | |
| getEnrichRResult | 0.369 | 0.024 | 8.771 | |
| getFindMarkerTopTable | 4.465 | 0.268 | 4.733 | |
| getMSigDBTable | 0.004 | 0.000 | 0.004 | |
| getPathwayResultNames | 0.029 | 0.000 | 0.029 | |
| getSampleSummaryStatsTable | 0.437 | 0.008 | 0.447 | |
| getSoupX | 0.499 | 0.052 | 0.551 | |
| getTSCANResults | 2.443 | 0.064 | 2.517 | |
| getTopHVG | 1.037 | 0.072 | 1.112 | |
| importAnnData | 0.002 | 0.000 | 0.001 | |
| importBUStools | 0.411 | 0.008 | 0.421 | |
| importCellRanger | 1.444 | 0.051 | 1.500 | |
| importCellRangerV2Sample | 0.352 | 0.000 | 0.353 | |
| importCellRangerV3Sample | 0.563 | 0.028 | 0.591 | |
| importDropEst | 0.405 | 0.043 | 0.450 | |