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This page was generated on 2024-05-20 11:32:23 -0400 (Mon, 20 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.6 Venturaarm644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4381
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Package 2220/2233HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Xeva 1.21.0  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2024-05-18 09:00:01 -0400 (Sat, 18 May 2024)
git_url: https://git.bioconductor.org/packages/Xeva
git_branch: devel
git_last_commit: 97baee8
git_last_commit_date: 2024-04-30 11:12:48 -0400 (Tue, 30 Apr 2024)
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for Xeva on kjohnson1


To the developers/maintainers of the Xeva package:
- 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: 1.21.0
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: 2024-05-20 06:30:04 -0400 (Mon, 20 May 2024)
EndedAt: 2024-05-20 06:34:53 -0400 (Mon, 20 May 2024)
EllapsedTime: 288.8 seconds
RetCode: 0
Status:   OK  
CheckDir: Xeva.Rcheck
Warnings: 0

Command output

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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_1.21.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc-mac-arm64/meat/Xeva.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* 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 13.6.6
* 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-mac-arm64/meat/Xeva.Rcheck/00check.log’
for details.


Installation output

Xeva.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL Xeva
###
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* 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)

Tests output


Example timings

Xeva.Rcheck/Xeva-Ex.timings

nameusersystemelapsed
ABC0.0050.0010.006
AUC0.0190.0010.022
TGI0.0010.0010.001
addExperimentalDesign0.1280.0030.131
angle0.0080.0020.010
batchInfo0.1350.0030.138
createXevaSet0.1040.0190.125
dosePlot0.3450.0130.360
downloadXevaSet0.0270.0091.198
drugInform0.1530.0040.158
drugSensitivitySig0.5030.0100.515
getExperiment0.1620.0070.171
getMolecularProfiles0.1180.0020.121
lmm0.0870.0040.091
mRECIST0.0020.0000.002
modelInfo1.0640.0051.072
plotPDX1.2890.0591.362
plotmRECIST1.7800.0381.827
response0.1600.0040.164
selectModelIds0.1710.0040.175
sensitivity0.1250.0040.129
setResponse1.9420.0251.986
slope0.0140.0010.016
subsetXeva0.2280.0030.230
summarizeMolecularProfiles0.1670.0020.171
summarizeResponse0.2160.0030.220
waterfall0.8530.0090.865