| Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-04-02 19:35 -0400 (Wed, 02 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4764 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4495 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4522 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4449 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4426 |
| 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 2275/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Xeva 1.22.1 (landing page) Benjamin Haibe-Kains
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
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: 1.22.1 |
| 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_1.22.1.tar.gz |
| StartedAt: 2025-04-02 12:50:22 -0400 (Wed, 02 Apr 2025) |
| EndedAt: 2025-04-02 12:55:06 -0400 (Wed, 02 Apr 2025) |
| EllapsedTime: 284.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Xeva.Rcheck |
| Warnings: 0 |
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### 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_1.22.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/Xeva.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: aarch64-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 Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Xeva/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Xeva’ version ‘1.22.1’
* 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 ... 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 ... 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: 3 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-arm64/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 | 0.005 | 0.001 | 0.005 | |
| AUC | 0.020 | 0.004 | 0.024 | |
| TGI | 0.000 | 0.001 | 0.000 | |
| addExperimentalDesign | 0.132 | 0.006 | 0.138 | |
| angle | 0.009 | 0.001 | 0.010 | |
| batchInfo | 0.135 | 0.007 | 0.143 | |
| createXevaSet | 0.098 | 0.026 | 0.128 | |
| dosePlot | 0.367 | 0.018 | 0.392 | |
| drugInform | 0.123 | 0.004 | 0.127 | |
| drugSensitivitySig | 0.470 | 0.016 | 0.502 | |
| getExperiment | 0.167 | 0.008 | 0.190 | |
| getMolecularProfiles | 0.121 | 0.002 | 0.123 | |
| lmm | 0.984 | 0.014 | 1.033 | |
| mRECIST | 0.002 | 0.000 | 0.002 | |
| modelInfo | 0.067 | 0.002 | 0.072 | |
| plotPDX | 1.261 | 0.077 | 1.357 | |
| plotmRECIST | 1.743 | 0.049 | 1.807 | |
| response | 0.167 | 0.005 | 0.185 | |
| selectModelIds | 0.183 | 0.005 | 0.219 | |
| sensitivity | 0.126 | 0.005 | 0.158 | |
| setResponse | 1.999 | 0.036 | 2.118 | |
| slope | 0.013 | 0.001 | 0.017 | |
| subsetXeva | 0.239 | 0.004 | 0.267 | |
| summarizeMolecularProfiles | 0.171 | 0.004 | 0.183 | |
| summarizeResponse | 0.216 | 0.003 | 0.223 | |
| waterfall | 0.855 | 0.012 | 0.965 | |