Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-08-13 17:40 -0400 (Tue, 13 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4758 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4493 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4522 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4471 |
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 1047/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
interactiveDisplay 1.42.0 (landing page) Bioconductor Package Maintainer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the interactiveDisplay package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/interactiveDisplay.git to reflect on this report. See Troubleshooting Build Report for more information. - 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: interactiveDisplay |
Version: 1.42.0 |
Command: E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:interactiveDisplay.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings interactiveDisplay_1.42.0.tar.gz |
StartedAt: 2024-08-12 02:10:39 -0400 (Mon, 12 Aug 2024) |
EndedAt: 2024-08-12 02:13:59 -0400 (Mon, 12 Aug 2024) |
EllapsedTime: 200.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: interactiveDisplay.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:interactiveDisplay.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings interactiveDisplay_1.42.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'E:/biocbuild/bbs-3.19-bioc/meat/interactiveDisplay.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'interactiveDisplay/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'interactiveDisplay' version '1.42.0' * checking package namespace information ... OK * checking package dependencies ... NOTE Package which this enhances but not available for checking: 'rstudio' * 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 whether package 'interactiveDisplay' 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 code 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 whether startup messages can be suppressed ... 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 .altgr : <anonymous>: no visible global function definition for 'elementMetadata' .altgr : <anonymous>: no visible global function definition for 'seqlevels<-' .bicgo : <anonymous>: no visible binding for global variable 'GO.db' .bicgo : <anonymous>: no visible global function definition for 'exprs' .bicgo : <anonymous>: no visible global function definition for 'cutree' .bicgo : <anonymous>: no visible global function definition for 'hclust' .bicgo : <anonymous>: no visible global function definition for 'dist' .bicgo : <anonymous>: no visible global function definition for 'cim' .choose_gen: no visible global function definition for 'ucscGenomes' .simplenet : <anonymous>: no visible global function definition for 'cutree' .simplenet : <anonymous>: no visible global function definition for 'rainbow' .simplenet : <anonymous> : hc: no visible global function definition for 'hclust' .simplenet : <anonymous> : hc: no visible global function definition for 'dist' .simplenet : <anonymous> : dm: no visible global function definition for 'dist' .usePackage: no visible global function definition for 'installed.packages' ggheat: no visible global function definition for 'colorRampPalette' ggheat: no visible binding for global variable 'Var2' ggheat: no visible binding for global variable 'Var1' ggheat: no visible binding for global variable 'value' ggheat: no visible global function definition for 'coord_flip' grid2jssvg: no visible global function definition for 'png' grid2jssvg: no visible global function definition for 'dev.off' subgr: no visible global function definition for 'seqnames' subgr: no visible global function definition for 'seqlevels<-' subgr: no visible global function definition for 'ranges' subgr2: no visible global function definition for 'seqnames' subgr2: no visible global function definition for 'seqlevels<-' subgr2: no visible global function definition for 'ranges' display,ExpressionSet : <anonymous>: no visible global function definition for 'exprs' display,ExpressionSet : <anonymous>: no visible global function definition for 'experimentData' display,ExpressionSet : <anonymous>: no visible binding for global variable 'GO.db' display,ExpressionSet : <anonymous>: no visible global function definition for 'cutree' display,ExpressionSet : <anonymous>: no visible global function definition for 'rainbow' display,ExpressionSet : <anonymous> : hc: no visible global function definition for 'hclust' display,ExpressionSet : <anonymous> : hc: no visible global function definition for 'dist' display,ExpressionSet : <anonymous> : dm: no visible global function definition for 'dist' display,ExpressionSet : <anonymous>: no visible global function definition for 'as.dendrogram' display,ExpressionSet : <anonymous> : <local> : <anonymous>: no visible global function definition for 'is.leaf' display,ExpressionSet : <anonymous>: no visible global function definition for 'dendrapply' display,GRanges: no visible global function definition for 'mcols' display,GRanges : <anonymous>: no visible global function definition for 'AnnotationTrack' display,GRanges : <anonymous>: no visible global function definition for 'GenomeAxisTrack' display,GRanges : <anonymous>: no visible global function definition for 'IdeogramTrack' display,GRanges : <anonymous>: no visible global function definition for 'plotTracks' display,GRanges : <anonymous>: no visible global function definition for 'layout_circle' display,GRanges : <anonymous>: no visible binding for global variable 'seqnames' display,GRanges : <anonymous>: no visible global function definition for 'seqnames' display,GRanges : <anonymous>: no visible global function definition for 'ranges' display,GRanges : <anonymous>: no visible global function definition for 'ucscGenomes' display,GRanges : <anonymous>: no visible global function definition for 'GRanges' display,GRanges : <anonymous>: no visible global function definition for 'IRanges' display,GRanges : <anonymous>: no visible global function definition for 'seqlengths<-' display,GRanges : <anonymous>: no visible global function definition for 'seqlengths' display,GRangesList : <anonymous>: no visible global function definition for 'mcols' display,GRangesList : <anonymous>: no visible global function definition for 'AnnotationTrack' display,GRangesList : <anonymous>: no visible global function definition for 'GenomeAxisTrack' display,GRangesList : <anonymous>: no visible global function definition for 'IdeogramTrack' display,GRangesList : <anonymous>: no visible global function definition for 'plotTracks' display,GRangesList : <anonymous>: no visible global function definition for 'layout_circle' display,GRangesList : <anonymous>: no visible binding for global variable 'seqnames' display,GRangesList : <anonymous>: no visible global function definition for 'seqnames' display,GRangesList : <anonymous>: no visible global function definition for 'ranges' display,GRangesList : <anonymous>: no visible global function definition for 'ucscGenomes' display,GRangesList : <anonymous>: no visible global function definition for 'GRanges' display,GRangesList : <anonymous>: no visible global function definition for 'IRanges' display,GRangesList : <anonymous>: no visible global function definition for 'seqlengths<-' display,GRangesList : <anonymous>: no visible global function definition for 'seqlengths' display,GRangesList : <anonymous>: no visible global function definition for 'GRangesList' display,MRexperiment : <anonymous>: no visible global function definition for 'MRcounts' display,MRexperiment : <anonymous>: no visible global function definition for 'pData' display,MRexperiment : <anonymous>: no visible global function definition for 'colorRampPalette' display,MRexperiment : <anonymous>: no visible global function definition for 'legend' display,MRexperiment : <anonymous>: no visible global function definition for 'plotFeature' display,MRexperiment : <anonymous>: no visible global function definition for 'plotOrd' display,MRexperiment : <anonymous>: no visible global function definition for 'libSize' display,MRexperiment : <anonymous>: no visible global function definition for 'fData' display,RangedSummarizedExperiment : <anonymous>: no visible global function definition for 'seqnames' display,RangedSummarizedExperiment : <anonymous>: no visible global function definition for 'rowRanges' display,RangedSummarizedExperiment : <anonymous>: no visible global function definition for 'assays' display,RangedSummarizedExperiment : <anonymous>: no visible global function definition for 'colorRampPalette' display,RangedSummarizedExperiment : <anonymous>: no visible binding for global variable 'Var1' display,RangedSummarizedExperiment : <anonymous>: no visible binding for global variable 'Var2' display,RangedSummarizedExperiment : <anonymous>: no visible binding for global variable 'value' Undefined global functions or variables: AnnotationTrack GO.db GRanges GRangesList GenomeAxisTrack IRanges IdeogramTrack MRcounts Var1 Var2 as.dendrogram assays cim colorRampPalette coord_flip cutree dendrapply dev.off dist elementMetadata experimentData exprs fData hclust installed.packages is.leaf layout_circle legend libSize mcols pData plotFeature plotOrd plotTracks png rainbow ranges rowRanges seqlengths seqlengths<- seqlevels<- seqnames ucscGenomes value Consider adding importFrom("grDevices", "colorRampPalette", "dev.off", "png", "rainbow") importFrom("graphics", "legend") importFrom("stats", "as.dendrogram", "cutree", "dendrapply", "dist", "hclust", "is.leaf") importFrom("utils", "installed.packages") 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 sizes of PDF files under 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'E:/biocbuild/bbs-3.19-bioc/meat/interactiveDisplay.Rcheck/00check.log' for details.
interactiveDisplay.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL interactiveDisplay ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.19-bioc/R/library' * installing *source* package 'interactiveDisplay' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading in method for 'display' with signature 'object="GRanges"': no definition for class "GRanges" in method for 'display' with signature 'object="GRangesList"': no definition for class "GRangesList" in method for 'display' with signature 'object="RangedSummarizedExperiment"': no definition for class "RangedSummarizedExperiment" in method for 'display' with signature 'object="MRexperiment"': no definition for class "MRexperiment" ** 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 (interactiveDisplay)
interactiveDisplay.Rcheck/interactiveDisplay-Ex.timings
name | user | system | elapsed | |
altgr | 0 | 0 | 0 | |
bicgo | 0 | 0 | 0 | |
expr | 0.00 | 0.01 | 0.02 | |
gridsvgjs | 0 | 0 | 0 | |
gridtweak | 0 | 0 | 0 | |
interactiveDisplay-methods | 0 | 0 | 0 | |
mmgr | 0 | 0 | 0 | |
mmgrl | 0.00 | 0.01 | 0.02 | |
se | 0.08 | 0.00 | 0.08 | |
simplenet | 0 | 0 | 0 | |