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This page was generated on 2024-03-28 11:32:21 -0400 (Thu, 28 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4376
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 892/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gpls 1.74.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2024-03-26 09:00:03 -0400 (Tue, 26 Mar 2024)
git_url: https://git.bioconductor.org/packages/gpls
git_branch: RELEASE_3_18
git_last_commit: 85e2138
git_last_commit_date: 2023-10-24 09:32:24 -0400 (Tue, 24 Oct 2023)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

CHECK results for gpls on kjohnson1


To the developers/maintainers of the gpls 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: gpls
Version: 1.74.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:gpls.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings gpls_1.74.0.tar.gz
StartedAt: 2024-03-27 15:19:06 -0400 (Wed, 27 Mar 2024)
EndedAt: 2024-03-27 15:19:29 -0400 (Wed, 27 Mar 2024)
EllapsedTime: 23.2 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: gpls.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:gpls.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings gpls_1.74.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/gpls.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-apple-darwin20 (64-bit)
* 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 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘gpls/DESCRIPTION’ ... OK
* this is package ‘gpls’ version ‘1.74.0’
* 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 ‘gpls’ can be installed ... WARNING
Found the following significant warnings:
  Note: break used in wrong context: no loop is visible 
See ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/gpls.Rcheck/00install.out’ for details.
Information on the location(s) of code generating the ‘Note’s can be
obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
to ‘yes’.
* 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 R 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
prepare_Rd: glpls1a.Rd:26-28: Dropping empty section \details
prepare_Rd: glpls1a.Rd:47: Dropping empty section \note
prepare_Rd: glpls1a.cv.error.Rd:24-26: Dropping empty section \details
prepare_Rd: glpls1a.cv.error.Rd:42: Dropping empty section \note
prepare_Rd: glpls1a.logit.all.Rd:28-30: Dropping empty section \details
prepare_Rd: glpls1a.logit.all.Rd:45: Dropping empty section \note
prepare_Rd: glpls1a.mlogit.Rd:27-29: Dropping empty section \details
prepare_Rd: glpls1a.mlogit.Rd:47: Dropping empty section \note
prepare_Rd: glpls1a.mlogit.cv.error.Rd:24: Dropping empty section \details
prepare_Rd: glpls1a.mlogit.cv.error.Rd:40: Dropping empty section \note
prepare_Rd: glpls1a.train.test.error.Rd:27-29: Dropping empty section \details
prepare_Rd: glpls1a.train.test.error.Rd:46: Dropping empty section \note
* 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 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 in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/gpls.Rcheck/00check.log’
for details.



Installation output

gpls.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL gpls
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘gpls’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Note: break used in wrong context: no loop is visible 
Note: break used in wrong context: no loop is visible 
** 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 (gpls)

Tests output


Example timings

gpls.Rcheck/gpls-Ex.timings

nameusersystemelapsed
glpls1a0.0170.0010.018
glpls1a.cv.error0.0640.0020.066
glpls1a.logit.all0.0130.0000.013
glpls1a.mlogit0.0400.0030.043
glpls1a.mlogit.cv.error1.4850.0221.509
glpls1a.train.test.error0.0090.0010.009
gpls0.1200.0070.127
predict.gpls0.1250.0070.133