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This page was generated on 2023-10-20 09:38:05 -0400 (Fri, 20 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm644.3.1 (2023-06-16) -- "Beagle Scouts" 4347
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 1121/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
maSigPro 1.72.0  (landing page)
Maria Jose Nueda
Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/maSigPro
git_branch: RELEASE_3_17
git_last_commit: f2e9764
git_last_commit_date: 2023-04-25 09:42:37 -0400 (Tue, 25 Apr 2023)
kjohnson2macOS 12.6.1 Monterey / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for maSigPro on kjohnson2


To the developers/maintainers of the maSigPro 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: maSigPro
Version: 1.72.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maSigPro_1.72.0.tar.gz
StartedAt: 2023-10-18 04:50:01 -0400 (Wed, 18 Oct 2023)
EndedAt: 2023-10-18 04:54:28 -0400 (Wed, 18 Oct 2023)
EllapsedTime: 267.2 seconds
RetCode: 0
Status:   OK  
CheckDir: maSigPro.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maSigPro.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maSigPro_1.72.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/maSigPro.Rcheck’
* using R version 4.3.1 (2023-06-16)
* 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 Monterey 12.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘maSigPro/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘maSigPro’ version ‘1.72.0’
* 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 ‘maSigPro’ 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 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 ... OK
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
getDS         13.709  0.178  19.735
IsoModel      13.581  0.186  20.874
getDSPatterns 13.579  0.176  20.989
tableDS       13.492  0.174  20.328
PodiumChange  13.491  0.168  20.488
IsoPlot       13.457  0.177  20.084
ISOdata       13.317  0.213  20.743
seeDS         13.357  0.172  20.648
ISOdesign     13.319  0.184  18.415
T.fit          6.604  0.078   9.312
* 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: OK


Installation output

maSigPro.Rcheck/00install.out

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL maSigPro
###
##############################################################################
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘maSigPro’ ...
** 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 (maSigPro)

Tests output


Example timings

maSigPro.Rcheck/maSigPro-Ex.timings

nameusersystemelapsed
ISOdata13.317 0.21320.743
ISOdesign13.319 0.18418.415
IsoModel13.581 0.18620.874
IsoPlot13.457 0.17720.084
NBdata0.0010.0020.005
NBdesign0.0010.0020.002
PlotGroups0.0380.0030.063
PlotProfiles0.0050.0010.010
PodiumChange13.491 0.16820.488
T.fit6.6040.0789.312
average.rows0.0020.0010.003
data.abiotic0.0040.0020.007
edesign.abiotic0.0020.0020.006
edesignCT0.0010.0010.004
edesignDR0.0010.0010.002
get.siggenes3.0140.0313.639
getDS13.709 0.17819.735
getDSPatterns13.579 0.17620.989
i.rank0.0000.0010.000
maSigProUsersGuide0.0040.0060.026
make.design.matrix0.0050.0080.025
p.vector2.0160.0333.177
position0.0010.0000.001
reg.coeffs0.0000.0000.001
see.genes0.6250.0290.993
seeDS13.357 0.17220.648
stepback0.0240.0010.037
stepfor0.1070.0020.168
suma2Venn0.0190.0020.030
tableDS13.492 0.17420.328
two.ways.stepback0.0960.0020.151
two.ways.stepfor0.1160.0020.177