Back to Build/check report for BioC 3.21 experimental data |
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This page was generated on 2025-02-27 15:01 -0500 (Thu, 27 Feb 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4700 |
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 364/430 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
signatureSearchData 1.21.0 (landing page) Brendan Gongol
| nebbiolo1 | Linux (Ubuntu 24.04.1 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: 1.21.0 |
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings signatureSearchData_1.21.0.tar.gz |
StartedAt: 2025-02-27 12:35:24 -0500 (Thu, 27 Feb 2025) |
EndedAt: 2025-02-27 12:36:23 -0500 (Thu, 27 Feb 2025) |
EllapsedTime: 58.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: signatureSearchData.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings signatureSearchData_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/signatureSearchData.Rcheck’ * using R Under development (unstable) (2025-02-19 r87757) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 * running under: Ubuntu 24.04.2 LTS * using session charset: UTF-8 * checking for file ‘signatureSearchData/DESCRIPTION’ ... OK * this is package ‘signatureSearchData’ version ‘1.21.0’ * 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 code 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 4.501 0.413 5.235 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.21-data-experiment/meat/signatureSearchData.Rcheck/00check.log’ for details.
signatureSearchData.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL signatureSearchData ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘signatureSearchData’ ... ** this is package ‘signatureSearchData’ version ‘1.21.0’ ** 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 | 4.501 | 0.413 | 5.235 | |
GO_DATA | 0.766 | 0.103 | 1.069 | |
GO_DATA_drug | 0.765 | 0.067 | 0.985 | |
cmap | 0.045 | 0.001 | 0.046 | |
cmap_expr | 0.044 | 0.000 | 0.044 | |
cmap_rank | 0.043 | 0.002 | 0.044 | |
combineNormRes | 0.001 | 0.000 | 0.001 | |
combineResults | 0.001 | 0.000 | 0.001 | |
dtlink_db_clue_sti | 0.728 | 0.062 | 0.985 | |
getCmapCEL | 0.000 | 0.000 | 0.001 | |
goAnno | 0.447 | 0.045 | 0.643 | |
goAnno_drug | 0.449 | 0.051 | 0.651 | |
inst_filter | 0.008 | 0.000 | 0.007 | |
lincs | 0.050 | 0.001 | 0.052 | |
lincs_expr | 0.047 | 0.003 | 0.050 | |
meanExpr | 0.046 | 0.001 | 0.048 | |
normalizeCel | 0.000 | 0.001 | 0.000 | |
probe2gene | 0.001 | 0.001 | 0.001 | |
runLimma | 1.964 | 0.237 | 2.201 | |
sampleList | 1.477 | 0.076 | 1.554 | |
sig_filter | 0.004 | 0.001 | 0.005 | |
signatureSearchData | 0.681 | 0.063 | 0.893 | |
taurefList | 0.401 | 0.057 | 0.608 | |