Back to Mac ARM64 build report for BioC 3.19 |
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This page was generated on 2024-05-07 11:32:30 -0400 (Tue, 07 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4461 |
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 248/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BubbleTree 2.34.0 (landing page) Todd Creasy
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the BubbleTree package: - 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: BubbleTree |
Version: 2.34.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BubbleTree.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BubbleTree_2.34.0.tar.gz |
StartedAt: 2024-05-06 20:05:18 -0400 (Mon, 06 May 2024) |
EndedAt: 2024-05-06 20:07:33 -0400 (Mon, 06 May 2024) |
EllapsedTime: 135.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BubbleTree.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BubbleTree.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BubbleTree_2.34.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/BubbleTree.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BubbleTree/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BubbleTree’ version ‘2.34.0’ * 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 ‘BubbleTree’ can be installed ... OK * checking installed package size ... NOTE installed size is 23.8Mb sub-directories of 1Mb or more: data 23.4Mb * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ...Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : It is recommended to use ‘given’ instead of ‘middle’. 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 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 annoByOverlap,Annotate: no visible binding for global variable 'queryHits' Undefined global functions or variables: queryHits * checking Rd files ... OK * checking Rd metadata ... NOTE Invalid package aliases in Rd file 'Annotate.Rd': ‘Annotate-package’ Invalid package aliases in Rd file 'BTreePlotter.Rd': ‘BTreePlotter-package’ Invalid package aliases in Rd file 'BTreePredictor.Rd': ‘BTreePredictor-package’ Invalid package aliases in Rd file 'RBD.Rd': ‘RBD-package’ Invalid package aliases in Rd file 'TrackPlotter.Rd': ‘TrackPlotter-package’ * 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 * 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/BubbleTree.Rcheck/00check.log’ for details.
BubbleTree.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL BubbleTree ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘BubbleTree’ ... ** using staged installation Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : It is recommended to use ‘given’ instead of ‘middle’. ** 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 (BubbleTree)
BubbleTree.Rcheck/BubbleTree-Ex.timings
name | user | system | elapsed | |
Annotate | 0 | 0 | 0 | |
BTreePlotter | 0.065 | 0.006 | 0.071 | |
BTreePredictor | 0.002 | 0.000 | 0.002 | |
RBD | 0 | 0 | 0 | |
RscoreTrack | 0.189 | 0.007 | 0.195 | |
TrackPlotter | 0 | 0 | 0 | |
annoByGenesAndCyto | 0.182 | 0.003 | 0.185 | |
bafTrack | 0.097 | 0.005 | 0.102 | |
btcompare | 0.000 | 0.000 | 0.001 | |
btpredict | 0.803 | 0.026 | 0.830 | |
drawBTree | 0.119 | 0.002 | 0.121 | |
drawBubbles | 0.122 | 0.003 | 0.124 | |
drawFeatures | 0.298 | 0.004 | 0.301 | |
getTracks | 0.644 | 0.021 | 0.665 | |
heteroLociTrack | 2.551 | 0.038 | 2.590 | |
info | 1.144 | 0.028 | 1.172 | |
loadRBD | 0.010 | 0.000 | 0.011 | |
makeRBD | 4.114 | 0.016 | 4.132 | |
saveXLS | 0.145 | 0.027 | 0.189 | |
trackBTree | 0.117 | 0.002 | 0.119 | |
xyTrack | 0.104 | 0.002 | 0.104 | |