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This page was generated on 2025-06-19 12:03 -0400 (Thu, 19 Jun 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4810
palomino8Windows Server 2022 Datacenterx644.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" 4548
kjohnson3macOS 13.7.1 Venturaarm644.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" 4528
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4493
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 2296/2309HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Xeva 1.25.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2025-06-18 13:25 -0400 (Wed, 18 Jun 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 24.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 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: 2025-06-19 04:39:05 -0400 (Thu, 19 Jun 2025)
EndedAt: 2025-06-19 04:43:43 -0400 (Thu, 19 Jun 2025)
EllapsedTime: 278.0 seconds
RetCode: 0
Status:   OK  
CheckDir: Xeva.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### 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 4.5.0 (2025-04-11)
* 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 ‘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
ABC0.0040.0000.004
AUC0.0140.0050.019
TGI0.0000.0000.001
addExperimentalDesign0.0960.0070.104
angle0.0050.0020.008
batchInfo0.1660.0330.200
createXevaSet0.1060.0130.122
dosePlot0.2810.0010.282
drugInform0.0970.0000.096
drugSensitivitySig0.2960.0000.295
getExperiment0.1350.0010.136
getMolecularProfiles0.0920.0010.094
lmm0.0700.0030.073
mRECIST0.0010.0000.002
modelInfo0.0970.0000.097
plotPDX1.2880.0031.291
plotmRECIST2.5100.0012.511
response0.1310.0000.132
selectModelIds0.1480.0000.149
sensitivity0.0970.0010.099
setResponse2.1570.1372.296
slope0.0090.0010.010
subsetXeva0.1630.0010.165
summarizeMolecularProfiles0.1300.0020.133
summarizeResponse0.1720.0010.173
waterfall0.7640.0000.766