Maren Sitte
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/pwOmics |
| Branch: RELEASE_3_9 |
| Last Commit: 6a98568 |
| Last Changed Date: 2019-05-02 11:53:55 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:55:43 -0400 (Wed, 16 Oct 2019).
| Package 1281/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| pwOmics 1.16.0 Maren Sitte
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: pwOmics |
| Version: 1.16.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:pwOmics.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings pwOmics_1.16.0.tar.gz |
| StartedAt: 2019-10-16 05:51:59 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 06:01:17 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 557.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: pwOmics.Rcheck |
| Warnings: 0 |
##############################################################################
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### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:pwOmics.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings pwOmics_1.16.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/pwOmics.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘pwOmics/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘pwOmics’ version ‘1.16.0’
* 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 ‘pwOmics’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
identifyPWTFTGs: no visible binding for global variable ‘upreg’
identifyPWTFTGs: no visible binding for global variable ‘phosphoeffect’
infoConsensusGraph: no visible global function definition for ‘from’
Undefined global functions or variables:
from phosphoeffect upreg
* 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 examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
temp_correlations 350.983 2.683 358.004
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.R’
OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/Users/biocbuild/bbs-3.9-bioc/meat/pwOmics.Rcheck/00check.log’
for details.
pwOmics.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL pwOmics ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘pwOmics’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 (pwOmics)
pwOmics.Rcheck/tests/runTests.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> BiocGenerics:::testPackage("pwOmics")
RUNIT TEST PROTOCOL -- Wed Oct 16 06:01:05 2019
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
pwOmics RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
8.170 0.768 8.884
pwOmics.Rcheck/pwOmics-Ex.timings
| name | user | system | elapsed | |
| clusterTimeProfiles | 0.000 | 0.001 | 0.001 | |
| consDynamicNet | 0.001 | 0.001 | 0.001 | |
| findSignalingAxes | 0.000 | 0.001 | 0.001 | |
| generate_DSSignalingBase | 0.001 | 0.001 | 0.001 | |
| getBiopaxModel | 0.001 | 0.000 | 0.000 | |
| getDS_PWs | 0 | 0 | 0 | |
| getDS_TFs | 0.000 | 0.001 | 0.001 | |
| getDS_TGs | 0.000 | 0.001 | 0.001 | |
| getGenesIntersection | 0.000 | 0.001 | 0.001 | |
| getOmicsDataset | 0.001 | 0.000 | 0.000 | |
| getOmicsTimepoints | 0 | 0 | 0 | |
| getOmicsallGeneIDs | 0.001 | 0.001 | 0.000 | |
| getOmicsallProteinIDs | 0.001 | 0.000 | 0.001 | |
| getProteinIntersection | 0.001 | 0.001 | 0.001 | |
| getTFIntersection | 0.000 | 0.001 | 0.001 | |
| getUS_PWs | 0.000 | 0.001 | 0.001 | |
| getUS_TFs | 0.000 | 0.001 | 0.001 | |
| getUS_regulators | 0.001 | 0.001 | 0.001 | |
| get_matching_transcripts | 0.001 | 0.001 | 0.001 | |
| gettpIntersection | 0.000 | 0.001 | 0.001 | |
| identifyPR | 0.000 | 0.001 | 0.001 | |
| identifyPWTFTGs | 0.001 | 0.000 | 0.000 | |
| identifyPWs | 0.000 | 0.001 | 0.001 | |
| identifyRsofTFs | 0.000 | 0.000 | 0.001 | |
| identifyTFs | 0.000 | 0.000 | 0.001 | |
| infoConsensusGraph | 0.001 | 0.001 | 0.000 | |
| plotConsDynNet | 0.001 | 0.000 | 0.000 | |
| plotConsensusGraph | 0.000 | 0.000 | 0.001 | |
| plotConsensusProfiles | 0.000 | 0.001 | 0.001 | |
| plotTimeProfileClusters | 0.000 | 0.000 | 0.001 | |
| readOmics | 0.000 | 0.000 | 0.001 | |
| readPWdata | 0.000 | 0.001 | 0.000 | |
| readPhosphodata | 0.000 | 0.000 | 0.001 | |
| readTFdata | 0 | 0 | 0 | |
| staticConsensusNet | 0.001 | 0.000 | 0.001 | |
| temp_correlations | 350.983 | 2.683 | 358.004 | |