Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-06-11 15:40 -0400 (Tue, 11 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4679 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4414 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4441 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4394 |
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 914/2239 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
gypsum 1.1.4 (landing page) Aaron Lun
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the gypsum package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gypsum.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: gypsum |
Version: 1.1.4 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gypsum.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings gypsum_1.1.4.tar.gz |
StartedAt: 2024-06-10 03:44:16 -0400 (Mon, 10 Jun 2024) |
EndedAt: 2024-06-10 03:47:03 -0400 (Mon, 10 Jun 2024) |
EllapsedTime: 167.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: gypsum.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gypsum.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings gypsum_1.1.4.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/gypsum.Rcheck' * using R version 4.4.0 RC (2024-04-16 r86468 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 'gypsum/DESCRIPTION' ... OK * this is package 'gypsum' version '1.1.4' * 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 'gypsum' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... NOTE License stub is invalid DCF. * 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 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 * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.R' 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: 1 NOTE See 'F:/biocbuild/bbs-3.20-bioc/meat/gypsum.Rcheck/00check.log' for details.
gypsum.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL gypsum ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'gypsum' ... ** 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 (gypsum)
gypsum.Rcheck/tests/testthat.Rout
R version 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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(gypsum) > test_check("gypsum") [ FAIL 0 | WARN 4 | SKIP 17 | PASS 130 ] ══ Skipped tests (17) ══════════════════════════════════════════════════════════ • On Windows (4): 'test-cloneVersion.R:29:5', 'test-cloneVersion.R:45:5', 'test-prepareDirectoryUpload.R:29:5', 'test-prepareDirectoryUpload.R:50:5' • is.na(gh_token) is TRUE (13): 'test-accessToken.R:5:5', 'test-latest.R:5:5', 'test-permissions.R:5:5', 'test-probation.R:5:5', 'test-probation.R:28:5', 'test-quota.R:5:5', 'test-quota.R:23:5', 'test-remove.R:5:5', 'test-unlockProject.R:5:5', 'test-upload.R:5:5', 'test-upload.R:55:5', 'test-upload.R:89:5', 'test-upload.R:107:5' [ FAIL 0 | WARN 4 | SKIP 17 | PASS 130 ] > > proc.time() user system elapsed 3.85 4.15 23.46
gypsum.Rcheck/gypsum-Ex.timings
name | user | system | elapsed | |
abortUpload | 0 | 0 | 0 | |
accessToken | 0 | 0 | 0 | |
approveProbation | 0 | 0 | 0 | |
cacheDirectory | 0 | 0 | 0 | |
cloneVersion | 0.00 | 0.00 | 0.06 | |
completeUpload | 0 | 0 | 0 | |
createProject | 0 | 0 | 0 | |
fetchLatest | 0.01 | 0.10 | 0.38 | |
fetchManifest | 0 | 0 | 0 | |
fetchMetadataDatabase | 0.00 | 0.00 | 0.17 | |
fetchMetadataSchema | 0 | 0 | 0 | |
fetchPermissions | 0.00 | 0.01 | 0.17 | |
fetchQuota | 0.03 | 0.00 | 0.16 | |
fetchSummary | 0.00 | 0.02 | 0.01 | |
fetchUsage | 0.05 | 0.00 | 0.19 | |
formatObjectMetadata | 0.92 | 0.14 | 1.08 | |
listAssets | 0.01 | 0.02 | 0.23 | |
listFiles | 0.04 | 0.00 | 0.19 | |
listProjects | 0 | 0 | 0 | |
listVersions | 0.01 | 0.00 | 0.22 | |
prepareDirectoryUpload | 0.02 | 0.00 | 0.00 | |
publicS3Config | 0.02 | 0.01 | 0.05 | |
refreshLatest | 0 | 0 | 0 | |
refreshUsage | 0 | 0 | 0 | |
rejectProbation | 0 | 0 | 0 | |
removeAsset | 0 | 0 | 0 | |
removeProject | 0 | 0 | 0 | |
removeVersion | 0 | 0 | 0 | |
resolveLinks | 0.14 | 0.03 | 1.35 | |
restUrl | 0 | 0 | 0 | |
saveFile | 0.00 | 0.02 | 0.01 | |
saveVersion | 0 | 0 | 0 | |
searchMetadataText | 0.45 | 0.50 | 0.97 | |
setPermissions | 0 | 0 | 0 | |
setQuota | 0 | 0 | 0 | |
startUpload | 0 | 0 | 0 | |
unlockProject | 0 | 0 | 0 | |
uploadDirectory | 0 | 0 | 0 | |
uploadFiles | 0 | 0 | 0 | |
validateMetadata | 0.36 | 0.14 | 0.59 | |