Back to Multiple platform build/check report for BioC 3.22:   simplified   long
ABCDEFGHIJKLMNOPQRSTUVW[X]YZ

This page was generated on 2025-09-22 12:04 -0400 (Mon, 22 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4814
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4603
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4547
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4553
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 2320/2333HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Xeva 1.25.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2025-09-21 13:45 -0400 (Sun, 21 Sep 2025)
git_url: https://git.bioconductor.org/packages/Xeva
git_branch: devel
git_last_commit: 0311650
git_last_commit_date: 2025-04-15 11:41:41 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for Xeva on nebbiolo2

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.

raw results


Summary

Package: Xeva
Version: 1.25.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:Xeva.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings Xeva_1.25.0.tar.gz
StartedAt: 2025-09-22 05:37:12 -0400 (Mon, 22 Sep 2025)
EndedAt: 2025-09-22 05:42:10 -0400 (Mon, 22 Sep 2025)
EllapsedTime: 297.6 seconds
RetCode: 0
Status:   OK  
CheckDir: Xeva.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:Xeva.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings Xeva_1.25.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/Xeva.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* 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 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘Xeva/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Xeva’ version ‘1.25.0’
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘downloader’
  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 ... 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 ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.22-bioc/meat/Xeva.Rcheck/00check.log’
for details.


Installation output

Xeva.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL Xeva
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘Xeva’ ...
** this is package ‘Xeva’ version ‘1.25.0’
** 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)

Tests output


Example timings

Xeva.Rcheck/Xeva-Ex.timings

nameusersystemelapsed
ABC0.0040.0000.003
AUC0.0170.0000.016
TGI0.0010.0010.000
addExperimentalDesign0.0950.0030.098
angle0.0070.0000.007
batchInfo0.9330.0550.988
createXevaSet0.0790.0070.089
dosePlot0.5420.0650.606
drugInform0.0940.0040.098
drugSensitivitySig0.3050.0180.323
getExperiment0.1320.0010.133
getMolecularProfiles0.0900.0010.091
lmm0.0680.0010.069
mRECIST0.0010.0000.001
modelInfo0.0940.0010.096
plotPDX1.7700.1211.891
plotmRECIST1.8090.0771.887
response0.1310.0000.131
selectModelIds0.1500.0000.149
sensitivity0.0990.0120.112
setResponse3.0540.1353.190
slope0.0090.0000.011
subsetXeva0.1650.0000.166
summarizeMolecularProfiles0.1260.0010.128
summarizeResponse0.1760.0020.178
waterfall0.8510.0270.879