Jianhong Ou
| Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024) |
| git_url: https://git.bioconductor.org/packages/trackViewer |
| git_branch: RELEASE_3_18 |
| git_last_commit: 9e62ddd |
| git_last_commit_date: 2024-03-18 15:25:13 -0400 (Mon, 18 Mar 2024) |
| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2024-04-17 11:37:25 -0400 (Wed, 17 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4676 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4414 |
| merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4437 |
| 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 2157/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| trackViewer 1.38.2 (landing page) Jianhong Ou
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the trackViewer package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/trackViewer.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: trackViewer |
| Version: 1.38.2 |
| Command: F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:trackViewer.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings trackViewer_1.38.2.tar.gz |
| StartedAt: 2024-04-16 05:55:11 -0400 (Tue, 16 Apr 2024) |
| EndedAt: 2024-04-16 06:04:08 -0400 (Tue, 16 Apr 2024) |
| EllapsedTime: 536.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: trackViewer.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:trackViewer.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings trackViewer_1.38.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.18-bioc/meat/trackViewer.Rcheck'
* using R version 4.3.3 (2024-02-29 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
gcc.exe (GCC) 12.3.0
GNU Fortran (GCC) 12.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'trackViewer/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'trackViewer' version '1.38.2'
* 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 whether package 'trackViewer' 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 ... 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
trackViewer-package 24.03 0.36 24.39
browseTracks 17.90 0.15 18.27
parseWIG 17.59 0.08 17.67
viewTracks 16.26 0.14 16.40
geneModelFromTxdb 6.51 0.22 6.78
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'runTests.R'
OK
* 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: OK
trackViewer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL trackViewer ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.18-bioc/R/library' * installing *source* package 'trackViewer' ... ** using staged installation ** R ** 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 (trackViewer)
trackViewer.Rcheck/tests/runTests.Rout
R version 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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.
> require("trackViewer") || stop("unable to load Package:trackViewer")
Loading required package: trackViewer
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following object is masked from 'package:utils':
findMatches
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: GenomeInfoDb
Loading required package: grid
[1] TRUE
> require("RUnit") || stop("unable to load Package:RUnit")
Loading required package: RUnit
[1] TRUE
> BiocGenerics:::testPackage("trackViewer")
RUNIT TEST PROTOCOL -- Tue Apr 16 06:03:58 2024
***********************************************
Number of test functions: 2
Number of errors: 0
Number of failures: 0
1 Test Suite :
trackViewer RUnit Tests - 2 test functions, 0 errors, 0 failures
Number of test functions: 2
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
19.32 1.07 20.40
trackViewer.Rcheck/trackViewer-Ex.timings
| name | user | system | elapsed | |
| ARA | 3.42 | 0.08 | 3.51 | |
| GIoperator | 0.40 | 0.02 | 0.41 | |
| GRoperator | 2.50 | 0.10 | 2.61 | |
| addArrowMark | 0.02 | 0.02 | 0.03 | |
| addGuideLine | 0 | 0 | 0 | |
| addInteractionAnnotation | 0.75 | 0.02 | 0.78 | |
| browseTracks | 17.90 | 0.15 | 18.27 | |
| coverageGR | 0.32 | 0.00 | 0.31 | |
| dandelion.plot | 2.50 | 0.03 | 2.53 | |
| geneModelFromTxdb | 6.51 | 0.22 | 6.78 | |
| geneTrack | 2.16 | 0.03 | 2.19 | |
| getCurTrackViewport | 0 | 0 | 0 | |
| getGeneIDsFromTxDb | 1.12 | 0.05 | 1.17 | |
| getLocation | 2.06 | 0.06 | 3.33 | |
| gi2track | 0.05 | 0.00 | 0.05 | |
| gieStain | 0 | 0 | 0 | |
| ideogramPlot | 0 | 0 | 0 | |
| importBam | 0.31 | 0.00 | 0.33 | |
| importData | 2.93 | 0.01 | 2.94 | |
| importGInteractions | 0.46 | 0.00 | 0.48 | |
| importScSeqScore | 0 | 0 | 0 | |
| importScore | 0.52 | 0.02 | 0.54 | |
| listChromosomes | 0.53 | 0.00 | 0.53 | |
| listResolutions | 0.02 | 0.00 | 0.01 | |
| loadIdeogram | 0 | 0 | 0 | |
| lolliplot | 1.28 | 0.00 | 1.28 | |
| optimizeStyle | 0.73 | 0.00 | 0.75 | |
| parse2GRanges | 0.02 | 0.00 | 0.02 | |
| parseWIG | 17.59 | 0.08 | 17.67 | |
| plotGInteractions | 1.42 | 0.03 | 1.47 | |
| plotGRanges | 1.50 | 0.01 | 1.51 | |
| plotIdeo | 0 | 0 | 0 | |
| plotOneIdeo | 0 | 0 | 0 | |
| trackStyle-class | 0.05 | 0.00 | 0.05 | |
| trackViewer-package | 24.03 | 0.36 | 24.39 | |
| trackViewerStyle-class | 0 | 0 | 0 | |
| viewGene | 4.91 | 0.08 | 4.99 | |
| viewTracks | 16.26 | 0.14 | 16.40 | |