Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:50 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the RIPAT package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RIPAT.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1586/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RIPAT 1.2.0 (landing page) Min-Jeong Baek
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: RIPAT |
Version: 1.2.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:RIPAT.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings RIPAT_1.2.0.tar.gz |
StartedAt: 2021-10-14 11:20:25 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 11:21:42 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 76.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RIPAT.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:RIPAT.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings RIPAT_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/RIPAT.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RIPAT/DESCRIPTION’ ... OK * this is package ‘RIPAT’ version ‘1.2.0’ * 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 ‘RIPAT’ 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 ... NOTE annoByCpG: no visible global function definition for ‘hist’ annoByCpG: no visible binding for global variable ‘Range’ annoByCpG: no visible binding for global variable ‘Freq’ annoByCpG: no visible binding for global variable ‘Group’ annoByGene: no visible global function definition for ‘hist’ annoByGene: no visible binding for global variable ‘Range’ annoByGene: no visible binding for global variable ‘Freq’ annoByGene: no visible binding for global variable ‘Group’ annoByRepeat: no visible global function definition for ‘hist’ annoByRepeat: no visible binding for global variable ‘all_dist_dup_m’ annoByRepeat: no visible binding for global variable ‘Range’ annoByRepeat: no visible binding for global variable ‘Freq’ annoByRepeat: no visible binding for global variable ‘Group’ annoByVar: no visible global function definition for ‘hist’ annoByVar: no visible binding for global variable ‘Range’ annoByVar: no visible binding for global variable ‘Freq’ annoByVar: no visible binding for global variable ‘Group’ makeDocument : <anonymous>: no visible global function definition for ‘hist’ makeDocument: no visible binding for global variable ‘group’ makeDocument: no visible binding for global variable ‘type’ makeDocument: no visible binding for global variable ‘convert_p’ makeDocument: no visible global function definition for ‘par’ Undefined global functions or variables: Freq Group Range all_dist_dup_m convert_p group hist par type Consider adding importFrom("graphics", "hist", "par") to your NAMESPACE file. * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed drawingKaryo 11.981 1.047 13.032 makeData 6.515 0.292 8.606 * 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: 1 NOTE See ‘/home/biocbuild/bbs-3.13-bioc/meat/RIPAT.Rcheck/00check.log’ for details.
RIPAT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL RIPAT ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘RIPAT’ ... ** 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 (RIPAT)
RIPAT.Rcheck/RIPAT-Ex.timings
name | user | system | elapsed | |
annoByCpG | 4.090 | 0.167 | 4.258 | |
annoByGene | 1.461 | 0.029 | 1.488 | |
annoByRepeat | 1.296 | 0.020 | 1.316 | |
annoByVar | 0.770 | 0.011 | 0.782 | |
blast_gene | 0.065 | 0.000 | 0.065 | |
blast_obj | 0.001 | 0.000 | 0.002 | |
cpg_exam_db | 0.009 | 0.000 | 0.009 | |
drawingKaryo | 11.981 | 1.047 | 13.032 | |
gene_exam_db | 0.036 | 0.000 | 0.036 | |
makeData | 6.515 | 0.292 | 8.606 | |
makeDocument | 4.255 | 0.088 | 4.343 | |
makeInputObj | 0.477 | 0.048 | 0.528 | |
makeInputObj2 | 0.494 | 0.032 | 0.526 | |
micro_exam_db | 0.005 | 0.000 | 0.004 | |
repeat_exam_db | 0.003 | 0.004 | 0.007 | |
tss_exam_db | 0.023 | 0.000 | 0.023 | |
var_exam_db | 0.069 | 0.000 | 0.068 | |