| Back to Build/check report for BioC 3.16 experimental data |
|
This page was generated on 2023-04-11 14:50:27 -0400 (Tue, 11 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| 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 signatureSearchData package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 355/416 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| signatureSearchData 1.12.0 (landing page) Brendan Gongol
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||
| Package: signatureSearchData |
| Version: 1.12.0 |
| Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings signatureSearchData_1.12.0.tar.gz |
| StartedAt: 2023-04-11 12:18:46 -0400 (Tue, 11 Apr 2023) |
| EndedAt: 2023-04-11 12:19:35 -0400 (Tue, 11 Apr 2023) |
| EllapsedTime: 49.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: signatureSearchData.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings signatureSearchData_1.12.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-data-experiment/meat/signatureSearchData.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘signatureSearchData/DESCRIPTION’ ... OK
* this is package ‘signatureSearchData’ 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 ‘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 4.827 0.245 5.594
* 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
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.16-data-experiment/meat/signatureSearchData.Rcheck/00check.log’
for details.
signatureSearchData.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL signatureSearchData ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-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 | 4.827 | 0.245 | 5.594 | |
| GO_DATA | 0.478 | 0.032 | 0.709 | |
| GO_DATA_drug | 0.481 | 0.015 | 0.788 | |
| cmap | 0.033 | 0.000 | 0.033 | |
| cmap_expr | 0.03 | 0.00 | 0.03 | |
| cmap_rank | 0.031 | 0.000 | 0.031 | |
| combineNormRes | 0.001 | 0.000 | 0.000 | |
| combineResults | 0 | 0 | 0 | |
| dtlink_db_clue_sti | 0.474 | 0.016 | 0.721 | |
| getCmapCEL | 0 | 0 | 0 | |
| goAnno | 0.274 | 0.020 | 0.495 | |
| goAnno_drug | 0.301 | 0.024 | 0.613 | |
| inst_filter | 0.005 | 0.000 | 0.006 | |
| lincs | 0.029 | 0.004 | 0.033 | |
| lincs_expr | 0.032 | 0.000 | 0.032 | |
| meanExpr | 0.032 | 0.000 | 0.032 | |
| normalizeCel | 0 | 0 | 0 | |
| probe2gene | 0.001 | 0.000 | 0.001 | |
| runLimma | 1.530 | 0.092 | 1.622 | |
| sampleList | 1.159 | 0.000 | 1.159 | |
| sig_filter | 0.003 | 0.000 | 0.004 | |
| signatureSearchData | 0.473 | 0.024 | 0.699 | |
| taurefList | 0.285 | 0.016 | 0.592 | |