| Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:05:00 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| 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 | ||||
|
To the developers/maintainers of the CeTF package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CeTF.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 292/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| CeTF 1.10.2 (landing page) Carlos Alberto Oliveira de Biagi Junior
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: CeTF |
| Version: 1.10.2 |
| Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:CeTF.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings CeTF_1.10.2.tar.gz |
| StartedAt: 2023-04-10 19:36:59 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 19:43:33 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 393.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: CeTF.Rcheck |
| Warnings: 0 |
##############################################################################
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### Running command:
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### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:CeTF.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings CeTF_1.10.2.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/CeTF.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘CeTF/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CeTF’ version ‘1.10.2’
* package encoding: UTF-8
* 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 ‘CeTF’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.5Mb
sub-directories of 1Mb or more:
data 1.5Mb
libs 3.4Mb
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘CeTF.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.16-bioc/meat/CeTF.Rcheck/00check.log’
for details.
CeTF.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL CeTF ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’ * installing *source* package ‘CeTF’ ... ** using staged installation ** libs g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -c PCIT.cpp -o PCIT.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -shared -L/home/biocbuild/bbs-3.16-bioc/R/lib -L/usr/local/lib -o CeTF.so PCIT.o RcppExports.o -L/home/biocbuild/bbs-3.16-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.16-bioc/R/site-library/00LOCK-CeTF/00new/CeTF/libs ** R ** data *** moving datasets to lazyload DB ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (CeTF)
CeTF.Rcheck/tests/testthat.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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.
> library("testthat")
> library("CeTF")
========================================
CeTF version 1.10.2
Bioconductor page: http://bioconductor.org/packages/CeTF/
Github page: https://github.com/cbiagii/CeTF or https://cbiagii.github.io/CeTF/
Documentation: http://bioconductor.org/packages/CeTF/
If you use it in published research, please cite:
Carlos Alberto Oliveira de Biagi Junior, Ricardo Perecin Nociti, Breno Osvaldo
Funicheli, Patricia de Cassia Ruy, Joao Paulo Bianchi Ximenez, Wilson A Silva Jr.
CeTF: an R package to Coexpression for Transcription Factors using Regulatory
Impact Factors (RIF) and Partial Correlation and Information (PCIT) analysis.
bioRxiv. 2020, DOI: 10.1101/2020.03.30.015784
========================================
> test_check("CeTF")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 43 ]
>
> proc.time()
user system elapsed
13.838 0.768 14.592
CeTF.Rcheck/CeTF-Ex.timings
| name | user | system | elapsed | |
| CeTFdemo | 0.003 | 0.000 | 0.002 | |
| CircosTargets | 0 | 0 | 0 | |
| InputData-methods | 0.047 | 0.000 | 0.048 | |
| NetworkData-methods | 0.014 | 0.004 | 0.018 | |
| OutputData-methods | 0.027 | 0.000 | 0.027 | |
| PCIT | 0.016 | 0.000 | 0.016 | |
| RIF | 0.005 | 0.000 | 0.004 | |
| RIFPlot | 0.608 | 0.004 | 0.612 | |
| RIF_input | 0.000 | 0.000 | 0.001 | |
| SmearPlot | 2.055 | 0.083 | 2.139 | |
| TFs | 0.001 | 0.000 | 0.001 | |
| bivar.awk | 0.001 | 0.001 | 0.001 | |
| clustCoef | 0.025 | 0.003 | 0.029 | |
| clustCoefPercentage | 0.04 | 0.00 | 0.04 | |
| densityPlot | 1.250 | 0.029 | 1.278 | |
| diffusion | 0 | 0 | 0 | |
| enrichPlot | 0.597 | 0.012 | 0.608 | |
| enrichdemo | 0.001 | 0.000 | 0.001 | |
| expDiff | 0.304 | 0.003 | 0.308 | |
| getDE-methods | 0.016 | 0.000 | 0.016 | |
| getData-methods | 0.032 | 0.003 | 0.036 | |
| getEnrich | 0 | 0 | 0 | |
| getGroupGO | 0 | 0 | 0 | |
| heatPlot | 1.025 | 0.009 | 1.033 | |
| histPlot | 0.319 | 0.000 | 0.319 | |
| netConditionsPlot | 1.186 | 0.019 | 1.207 | |
| netGOTFPlot | 0.000 | 0.000 | 0.001 | |
| normExp | 0.152 | 0.020 | 0.172 | |
| pcitC | 0.026 | 0.000 | 0.026 | |
| refGenes | 0.001 | 0.000 | 0.001 | |
| runAnalysis | 1.236 | 0.044 | 1.281 | |
| simCounts | 0.001 | 0.000 | 0.001 | |
| simNorm | 0.001 | 0.000 | 0.001 | |
| tolerance | 0.000 | 0.000 | 0.001 | |