Back to Build/check report for BioC 3.18 experimental data |
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This page was generated on 2024-04-16 14:51:29 -0400 (Tue, 16 Apr 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4676 |
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 |
Package 365/429 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
signatureSearchData 1.16.0 (landing page) Brendan Gongol
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ||||||||
To the developers/maintainers of the signatureSearchData package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: signatureSearchData |
Version: 1.16.0 |
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings signatureSearchData_1.16.0.tar.gz |
StartedAt: 2024-04-16 12:19:48 -0400 (Tue, 16 Apr 2024) |
EndedAt: 2024-04-16 12:20:54 -0400 (Tue, 16 Apr 2024) |
EllapsedTime: 66.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: signatureSearchData.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings signatureSearchData_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.18-data-experiment/meat/signatureSearchData.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘signatureSearchData/DESCRIPTION’ ... OK * this is package ‘signatureSearchData’ version ‘1.16.0’ * 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 ‘signatureSearchData’ 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 loading without being on the library search path ... OK * checking dependencies in R code ... NOTE Namespaces in Imports field not imported from: ‘ExperimentHub’ ‘rhdf5’ All declared Imports should be used. * 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed ES_NULL 5.328 0.511 6.241 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘signatureSearchData.Rmd’ using ‘UTF-8’... OK OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.18-data-experiment/meat/signatureSearchData.Rcheck/00check.log’ for details.
signatureSearchData.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD INSTALL signatureSearchData ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.18-bioc/R/site-library’ * installing *source* package ‘signatureSearchData’ ... ** using staged installation ** R ** 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 (signatureSearchData)
signatureSearchData.Rcheck/signatureSearchData-Ex.timings
name | user | system | elapsed | |
ES_NULL | 5.328 | 0.511 | 6.241 | |
GO_DATA | 0.710 | 0.090 | 0.981 | |
GO_DATA_drug | 0.73 | 0.02 | 0.93 | |
cmap | 0.042 | 0.000 | 0.042 | |
cmap_expr | 0.041 | 0.000 | 0.041 | |
cmap_rank | 0.043 | 0.008 | 0.051 | |
combineNormRes | 0.000 | 0.000 | 0.001 | |
combineResults | 0 | 0 | 0 | |
dtlink_db_clue_sti | 0.687 | 0.040 | 0.910 | |
getCmapCEL | 0.000 | 0.000 | 0.001 | |
goAnno | 0.421 | 0.028 | 0.632 | |
goAnno_drug | 0.453 | 0.020 | 0.695 | |
inst_filter | 0.007 | 0.000 | 0.008 | |
lincs | 0.042 | 0.000 | 0.042 | |
lincs_expr | 0.051 | 0.000 | 0.050 | |
meanExpr | 0.048 | 0.016 | 0.064 | |
normalizeCel | 0 | 0 | 0 | |
probe2gene | 0.001 | 0.000 | 0.002 | |
runLimma | 1.758 | 0.112 | 1.870 | |
sampleList | 1.695 | 0.020 | 1.715 | |
sig_filter | 0.005 | 0.000 | 0.005 | |
signatureSearchData | 1.061 | 0.096 | 1.338 | |
taurefList | 0.421 | 0.007 | 0.608 | |