| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-04-02 19:29 -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: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:Xeva.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings Xeva_1.22.1.tar.gz |
| StartedAt: 2025-04-01 03:21:59 -0400 (Tue, 01 Apr 2025) |
| EndedAt: 2025-04-01 03:26:21 -0400 (Tue, 01 Apr 2025) |
| EllapsedTime: 262.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Xeva.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:Xeva.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings Xeva_1.22.1.tar.gz
###
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##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/Xeva.Rcheck’
* using R version 4.4.3 (2025-02-28)
* 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 ‘1.22.1’
* 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 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 ... NOTE
Note: found 31 marked UTF-8 strings
* 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: 3 NOTEs
See
‘/home/biocbuild/bbs-3.20-bioc/meat/Xeva.Rcheck/00check.log’
for details.
Xeva.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL Xeva ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-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 | 0.000 | 0.004 | |
| AUC | 0.013 | 0.005 | 0.018 | |
| TGI | 0 | 0 | 0 | |
| addExperimentalDesign | 0.092 | 0.010 | 0.102 | |
| angle | 0.007 | 0.001 | 0.008 | |
| batchInfo | 0.100 | 0.008 | 0.109 | |
| createXevaSet | 0.076 | 0.016 | 0.096 | |
| dosePlot | 0.289 | 0.011 | 0.300 | |
| drugInform | 0.091 | 0.001 | 0.092 | |
| drugSensitivitySig | 0.352 | 0.001 | 0.353 | |
| getExperiment | 0.129 | 0.000 | 0.131 | |
| getMolecularProfiles | 0.088 | 0.000 | 0.090 | |
| lmm | 0.807 | 0.038 | 0.845 | |
| mRECIST | 0.001 | 0.000 | 0.001 | |
| modelInfo | 0.095 | 0.000 | 0.097 | |
| plotPDX | 1.103 | 0.122 | 1.226 | |
| plotmRECIST | 1.640 | 0.024 | 1.665 | |
| response | 0.123 | 0.000 | 0.123 | |
| selectModelIds | 0.141 | 0.000 | 0.140 | |
| sensitivity | 0.091 | 0.001 | 0.091 | |
| setResponse | 1.904 | 0.062 | 1.967 | |
| slope | 0.008 | 0.000 | 0.009 | |
| subsetXeva | 0.166 | 0.002 | 0.167 | |
| summarizeMolecularProfiles | 0.121 | 0.000 | 0.121 | |
| summarizeResponse | 0.161 | 0.000 | 0.161 | |
| waterfall | 0.715 | 0.033 | 0.748 | |