Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-06-04 14:36:32 -0400 (Tue, 04 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4669 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4404 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4431 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4384 |
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 2220/2233 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Xeva 1.21.0 (landing page) Benjamin Haibe-Kains
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
To the developers/maintainers of the Xeva package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Xeva.git to reflect on this report. See Troubleshooting Build Report for more information. - 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: Xeva |
Version: 1.21.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Xeva.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Xeva_1.21.0.tar.gz |
StartedAt: 2024-06-03 12:12:12 -0400 (Mon, 03 Jun 2024) |
EndedAt: 2024-06-03 12:20:23 -0400 (Mon, 03 Jun 2024) |
EllapsedTime: 490.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: Xeva.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Xeva.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Xeva_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/Xeva.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘Xeva/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘Xeva’ 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 ‘Xeva’ 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 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 ... NOTE checkRd: (-1) drugInform.Rd:7: Lost braces; missing escapes or markup? 7 | Get the drug information slot from a {XevaSet} object.} | ^ checkRd: (-1) drugInform.Rd:21: Lost braces; missing escapes or markup? 21 | Get the drug information slot from a {XevaSet} object. | ^ * 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 ... NOTE Note: found 31 marked UTF-8 strings * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/Users/biocbuild/bbs-3.20-bioc/meat/Xeva.Rcheck/00check.log’ for details.
Xeva.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL Xeva ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘Xeva’ ... ** using staged installation ** R ** data ** 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 (Xeva)
Xeva.Rcheck/Xeva-Ex.timings
name | user | system | elapsed | |
ABC | 0.004 | 0.002 | 0.006 | |
AUC | 0.023 | 0.002 | 0.026 | |
TGI | 0.000 | 0.000 | 0.001 | |
addExperimentalDesign | 0.147 | 0.003 | 0.151 | |
angle | 0.014 | 0.002 | 0.016 | |
batchInfo | 0.135 | 0.003 | 0.139 | |
createXevaSet | 0.131 | 0.022 | 0.155 | |
dosePlot | 0.468 | 0.018 | 0.487 | |
downloadXevaSet | 0.033 | 0.008 | 0.825 | |
drugInform | 0.164 | 0.007 | 0.171 | |
drugSensitivitySig | 0.581 | 0.012 | 0.594 | |
getExperiment | 0.172 | 0.009 | 0.182 | |
getMolecularProfiles | 0.103 | 0.002 | 0.106 | |
lmm | 0.152 | 0.005 | 0.157 | |
mRECIST | 0.003 | 0.001 | 0.003 | |
modelInfo | 0.727 | 0.003 | 0.731 | |
plotPDX | 2.116 | 0.116 | 2.235 | |
plotmRECIST | 3.146 | 0.051 | 3.203 | |
response | 0.175 | 0.003 | 0.178 | |
selectModelIds | 0.246 | 0.005 | 0.251 | |
sensitivity | 0.155 | 0.005 | 0.161 | |
setResponse | 3.567 | 0.054 | 3.627 | |
slope | 0.011 | 0.001 | 0.013 | |
subsetXeva | 0.215 | 0.004 | 0.218 | |
summarizeMolecularProfiles | 0.172 | 0.003 | 0.174 | |
summarizeResponse | 0.308 | 0.003 | 0.312 | |
waterfall | 1.322 | 0.010 | 1.334 | |