Arman Shahrisa
| Snapshot Date: 2025-11-12 13:40 -0500 (Wed, 12 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/cbaf |
| git_branch: devel |
| git_last_commit: a0e1959 |
| git_last_commit_date: 2025-10-29 10:41:05 -0500 (Wed, 29 Oct 2025) |
| Back to Build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-11-13 11:32 -0500 (Thu, 13 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4013 |
| 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 285/2325 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cbaf 1.33.0 (landing page) Arman Shahrisa
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | |||||||
|
To the developers/maintainers of the cbaf package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cbaf.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: cbaf |
| Version: 1.33.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cbaf.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cbaf_1.33.0.tar.gz |
| StartedAt: 2025-11-12 18:13:49 -0500 (Wed, 12 Nov 2025) |
| EndedAt: 2025-11-12 18:16:08 -0500 (Wed, 12 Nov 2025) |
| EllapsedTime: 138.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: cbaf.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cbaf.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cbaf_1.33.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/cbaf.Rcheck’
* using R Under development (unstable) (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cbaf/DESCRIPTION’ ... OK
* this is package ‘cbaf’ version ‘1.33.0’
* 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 ‘cbaf’ 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) automatedStatistics.Rd:75-81: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) automatedStatistics.Rd:75-81: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) automatedStatistics.Rd:75-81: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) automatedStatistics.Rd:75-81: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) automatedStatistics.Rd:75-81: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) availableData.Rd:30-36: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) availableData.Rd:30-36: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) availableData.Rd:30-36: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) availableData.Rd:30-36: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) availableData.Rd:30-36: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) cleanDatabase.Rd:21-27: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) cleanDatabase.Rd:21-27: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) cleanDatabase.Rd:21-27: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) cleanDatabase.Rd:21-27: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) cleanDatabase.Rd:21-27: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) heatmapOutput.Rd:95-101: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) heatmapOutput.Rd:95-101: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) heatmapOutput.Rd:95-101: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) heatmapOutput.Rd:95-101: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) heatmapOutput.Rd:95-101: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) obtainMultipleStudies.Rd:56-62: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) obtainMultipleStudies.Rd:56-62: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) obtainMultipleStudies.Rd:56-62: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) obtainMultipleStudies.Rd:56-62: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) obtainMultipleStudies.Rd:56-62: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) obtainOneStudy.Rd:54-60: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) obtainOneStudy.Rd:54-60: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) obtainOneStudy.Rd:54-60: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) obtainOneStudy.Rd:54-60: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) obtainOneStudy.Rd:54-60: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) processMultipleStudies.Rd:176-182: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) processMultipleStudies.Rd:176-182: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) processMultipleStudies.Rd:176-182: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) processMultipleStudies.Rd:176-182: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) processMultipleStudies.Rd:176-182: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) processOneStudy.Rd:170-176: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) processOneStudy.Rd:170-176: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) processOneStudy.Rd:170-176: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) processOneStudy.Rd:170-176: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) processOneStudy.Rd:170-176: Only 5 columns allowed in this table (row 5 has 2)
checkRd: (-1) xlsxOutput.Rd:27-33: Only 5 columns allowed in this table (row 1 has 2)
checkRd: (-1) xlsxOutput.Rd:27-33: Only 5 columns allowed in this table (row 2 has 2)
checkRd: (-1) xlsxOutput.Rd:27-33: Only 5 columns allowed in this table (row 3 has 2)
checkRd: (-1) xlsxOutput.Rd:27-33: Only 5 columns allowed in this table (row 4 has 2)
checkRd: (-1) xlsxOutput.Rd:27-33: Only 5 columns allowed in this table (row 5 has 2)
* 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 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
‘/Users/biocbuild/bbs-3.23-bioc/meat/cbaf.Rcheck/00check.log’
for details.
cbaf.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL cbaf ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library’ * installing *source* package ‘cbaf’ ... ** this is package ‘cbaf’ version ‘1.33.0’ ** 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 (cbaf)
cbaf.Rcheck/cbaf-Ex.timings
| name | user | system | elapsed | |
| automatedStatistics | 0.402 | 0.043 | 0.468 | |
| cleanDatabase | 0.001 | 0.001 | 0.001 | |
| heatmapOutput | 0.920 | 0.250 | 1.238 | |
| obtainMultipleStudies | 0.150 | 0.010 | 0.165 | |
| obtainOneStudy | 0.177 | 0.013 | 0.207 | |
| processMultipleStudies | 1.518 | 0.299 | 1.887 | |
| processOneStudy | 1.896 | 0.303 | 2.314 | |
| xlsxOutput | 0.841 | 0.075 | 0.974 | |