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This page was generated on 2024-10-17 14:51 -0400 (Thu, 17 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4763
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 97/430HostnameOS / ArchINSTALLBUILDCHECK
DmelSGI 1.36.0  (landing page)
Mike Smith
Snapshot Date: 2024-10-17 07:30 -0400 (Thu, 17 Oct 2024)
git_url: https://git.bioconductor.org/packages/DmelSGI
git_branch: RELEASE_3_19
git_last_commit: ade0469
git_last_commit_date: 2024-04-30 10:43:26 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for DmelSGI on nebbiolo1

To the developers/maintainers of the DmelSGI 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: DmelSGI
Version: 1.36.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:DmelSGI.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings DmelSGI_1.36.0.tar.gz
StartedAt: 2024-10-17 11:17:29 -0400 (Thu, 17 Oct 2024)
EndedAt: 2024-10-17 11:22:04 -0400 (Thu, 17 Oct 2024)
EllapsedTime: 275.2 seconds
RetCode: 0
Status:   OK  
CheckDir: DmelSGI.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:DmelSGI.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings DmelSGI_1.36.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/DmelSGI.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.5 LTS
* using session charset: UTF-8
* checking for file ‘DmelSGI/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DmelSGI’ version ‘1.36.0’
* 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 ‘DmelSGI’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 138.6Mb
  sub-directories of 1Mb or more:
    data  137.5Mb
* 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 ... 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 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.19-data-experiment/meat/DmelSGI.Rcheck/00check.log’
for details.


Installation output

DmelSGI.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL DmelSGI
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘DmelSGI’ ...
** 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 (DmelSGI)

Tests output


Example timings

DmelSGI.Rcheck/DmelSGI-Ex.timings

nameusersystemelapsed
ChromatinSet-package3.7200.0923.811
DPiM0.0150.0000.014
FBgn2anno0.3170.0150.332
Features0.0040.0010.004
Interactions1.9090.0641.973
Intogen0.0090.0000.009
RohnEtAl0.0020.0000.002
SKDdata0.3480.0120.361
SelectedClusters0.0020.0000.002
SelectedClustersComplexes0.0010.0000.001
TID2HUGO0.0010.0030.005
applyDimensionReduction0.0020.0010.002
callInteractions0.0000.0010.001
datamatrix3.7430.0753.816
estimatePairwiseInteractions0.0000.0010.002
fitepistasis0.1200.0180.137
getBaseDir0.0010.0000.001
grid.spider0.0000.0020.002
hrNames000
learnCoComplexityFct0.0010.0010.001
mainEffects0.0640.0040.068
myHeatmap0.0010.0000.001
mymedpolish0.0020.0000.002
orderDim0.0010.0000.001
orderSpiderAxis000
pimatrix0.5540.0280.582
plot2Phenotypes0.0020.0000.002
plotHairballLabels0.0010.0000.001
qualityControlFeature0.0030.0000.003
qualityControlGene0.0120.0000.012
selectByStability0.0020.0000.001
stabilitySelection0.0600.0080.068
subSampleForStabilitySelection0.0560.0080.063
subSampleForStabilitySelectionFct0.0010.0000.001
toMatrix000
toRaster000
trsf0.0000.0000.001