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 |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4259 |
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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 |
############################################################################## ############################################################################## ### ### Running 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 ### ############################################################################## ############################################################################## * 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 | |