Mike Smith
| Snapshot Date: 2023-10-12 07:30:02 -0400 (Thu, 12 Oct 2023) |
| git_url: https://git.bioconductor.org/packages/DmelSGI |
| git_branch: RELEASE_3_17 |
| git_last_commit: b61640f |
| git_last_commit_date: 2023-04-25 10:37:38 -0400 (Tue, 25 Apr 2023) |
| Back to Build/check report for BioC 3.17 experimental data |
|
This page was generated on 2023-10-12 14:51:35 -0400 (Thu, 12 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| 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 97/421 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| DmelSGI 1.32.0 (landing page) Mike Smith
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | | |||||||
|
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. |
| Package: DmelSGI |
| Version: 1.32.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:DmelSGI.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings DmelSGI_1.32.0.tar.gz |
| StartedAt: 2023-10-12 11:14:42 -0400 (Thu, 12 Oct 2023) |
| EndedAt: 2023-10-12 11:19:56 -0400 (Thu, 12 Oct 2023) |
| EllapsedTime: 314.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DmelSGI.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:DmelSGI.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings DmelSGI_1.32.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-data-experiment/meat/DmelSGI.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘DmelSGI/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DmelSGI’ version ‘1.32.0’
* 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 138.5Mb
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 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 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 in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘DmelSGI.Rnw’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.17-data-experiment/meat/DmelSGI.Rcheck/00check.log’
for details.
DmelSGI.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL DmelSGI ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-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)
DmelSGI.Rcheck/DmelSGI-Ex.timings
| name | user | system | elapsed | |
| ChromatinSet-package | 3.703 | 0.068 | 3.770 | |
| DPiM | 0.015 | 0.000 | 0.014 | |
| FBgn2anno | 0.316 | 0.012 | 0.328 | |
| Features | 0.004 | 0.000 | 0.003 | |
| Interactions | 1.910 | 0.033 | 1.943 | |
| Intogen | 0.008 | 0.000 | 0.009 | |
| RohnEtAl | 0.002 | 0.000 | 0.002 | |
| SKDdata | 0.343 | 0.011 | 0.355 | |
| SelectedClusters | 0.002 | 0.000 | 0.002 | |
| SelectedClustersComplexes | 0.001 | 0.000 | 0.001 | |
| TID2HUGO | 0.006 | 0.000 | 0.005 | |
| applyDimensionReduction | 0.002 | 0.000 | 0.002 | |
| callInteractions | 0.001 | 0.000 | 0.001 | |
| datamatrix | 3.707 | 0.076 | 3.783 | |
| estimatePairwiseInteractions | 0.001 | 0.000 | 0.002 | |
| fitepistasis | 0.122 | 0.015 | 0.138 | |
| getBaseDir | 0.001 | 0.000 | 0.000 | |
| grid.spider | 0.002 | 0.001 | 0.002 | |
| hrNames | 0.000 | 0.000 | 0.001 | |
| learnCoComplexityFct | 0.001 | 0.000 | 0.001 | |
| mainEffects | 0.054 | 0.015 | 0.069 | |
| myHeatmap | 0.001 | 0.000 | 0.001 | |
| mymedpolish | 0.000 | 0.002 | 0.002 | |
| orderDim | 0.000 | 0.001 | 0.001 | |
| orderSpiderAxis | 0 | 0 | 0 | |
| pimatrix | 0.554 | 0.028 | 0.583 | |
| plot2Phenotypes | 0.002 | 0.001 | 0.002 | |
| plotHairballLabels | 0.000 | 0.001 | 0.000 | |
| qualityControlFeature | 0.001 | 0.002 | 0.003 | |
| qualityControlGene | 0.012 | 0.000 | 0.013 | |
| selectByStability | 0.001 | 0.000 | 0.001 | |
| stabilitySelection | 0.059 | 0.012 | 0.071 | |
| subSampleForStabilitySelection | 0.056 | 0.008 | 0.064 | |
| subSampleForStabilitySelectionFct | 0.001 | 0.001 | 0.001 | |
| toMatrix | 0.001 | 0.000 | 0.000 | |
| toRaster | 0.000 | 0.000 | 0.001 | |
| trsf | 0.000 | 0.000 | 0.001 | |