Back to Multiple platform build/check report for BioC 3.17 |
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This page was generated on 2023-04-12 10:55:27 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | 4.3.0 alpha (2023-04-03 r84154) | 4547 |
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" | 4333 |
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 mirTarRnaSeq package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mirTarRnaSeq.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
Package 1241/2207 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
mirTarRnaSeq 1.7.0 (landing page) Mercedeh Movassagh
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | ERROR | |||||||||
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | ERROR | ||||||||||
Package: mirTarRnaSeq |
Version: 1.7.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings mirTarRnaSeq_1.7.0.tar.gz |
StartedAt: 2023-04-11 21:39:34 -0400 (Tue, 11 Apr 2023) |
EndedAt: 2023-04-11 21:40:24 -0400 (Tue, 11 Apr 2023) |
EllapsedTime: 50.2 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: mirTarRnaSeq.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:mirTarRnaSeq.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings mirTarRnaSeq_1.7.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/mirTarRnaSeq.Rcheck’ * using R version 4.3.0 alpha (2023-04-03 r84154) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.2 LTS * using session charset: UTF-8 * checking for file ‘mirTarRnaSeq/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mirTarRnaSeq’ version ‘1.7.0’ * 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 ‘mirTarRnaSeq’ 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 loading without being on the library search path ... OK * checking startup messages can be suppressed ... OK * checking dependencies in R code ... WARNING '::' or ':::' import not declared from: ‘viridis’ Package in Depends field not imported from: ‘ggplot2’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * 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 files in ‘vignettes’ ... OK * checking examples ... ERROR Running examples in ‘mirTarRnaSeq-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: mirRnaHeatmap > ### Title: mirRnaHeatmap pheatmap for miRTarRNASeq miRNA and mRNA > ### correlation > ### Aliases: mirRnaHeatmap > ### Keywords: color, correlation heatmap, pheatmap, plot,correlation_plot > > ### ** Examples > > x <- mirRnaHeatmap(corr_0) Error in loadNamespace(x) : there is no package called ‘viridis’ Calls: mirRnaHeatmap ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘mirTarRnaSeq.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... ERROR Error(s) in re-building vignettes: ... --- re-building ‘mirTarRnaSeq.Rmd’ using rmarkdown Quitting from lines 17-36 (mirTarRnaSeq.Rmd) Error: processing vignette 'mirTarRnaSeq.Rmd' failed with diagnostics: there is no package called 'viridis' --- failed re-building ‘mirTarRnaSeq.Rmd’ SUMMARY: processing the following file failed: ‘mirTarRnaSeq.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... OK * DONE Status: 2 ERRORs, 1 WARNING See ‘/home/biocbuild/bbs-3.17-bioc/meat/mirTarRnaSeq.Rcheck/00check.log’ for details.
mirTarRnaSeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL mirTarRnaSeq ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘mirTarRnaSeq’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (mirTarRnaSeq)
mirTarRnaSeq.Rcheck/mirTarRnaSeq-Ex.timings
name | user | system | elapsed | |
combiner | 0.008 | 0.000 | 0.008 | |
corMirnaRna | 0.046 | 0.012 | 0.058 | |
corMirnaRnaMiranda | 0.110 | 0.016 | 0.126 | |
downloadMirandaFile | 0 | 0 | 0 | |
drawCorPlot | 0.001 | 0.000 | 0.000 | |
drawInterPlots | 0.021 | 0.000 | 0.021 | |
fdrSig | 0.458 | 0.000 | 0.458 | |
finInterResult | 0.001 | 0.000 | 0.001 | |
geneVari | 0 | 0 | 0 | |
getInputSpecies | 0.215 | 0.014 | 0.231 | |
glm_gaussian | 0.000 | 0.000 | 0.001 | |
glm_multi | 0.000 | 0.000 | 0.001 | |
glm_nb | 0.000 | 0.000 | 0.001 | |
glm_poisson | 0 | 0 | 0 | |
glm_zeroinfl | 0.001 | 0.000 | 0.000 | |
glm_zeroinfl_negbin | 0.001 | 0.000 | 0.000 | |
glm_zeroinfl_poisson | 0 | 0 | 0 | |
importMirandaFile | 0 | 0 | 0 | |
makeFormulaRightSide | 0 | 0 | 0 | |
miRanComp | 0.025 | 0.000 | 0.025 | |
miRandaIntersect | 0.011 | 0.004 | 0.016 | |
mirRnaDensityCor | 0.018 | 0.008 | 0.027 | |
mirRnaDensityInter | 0 | 0 | 0 | |