| Back to Multiple platform build/check report for BioC 3.21: simplified long | 
 | 
This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs | 
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 | 
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 | 
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 | 
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 | 
| 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 1179/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| maser 1.26.0  (landing page) Diogo F.T. Veiga 
 | nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK |  | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK |  | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
| To the developers/maintainers of the maser package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maser.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. | 
| Package: maser | 
| Version: 1.26.0 | 
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:maser.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings maser_1.26.0.tar.gz | 
| StartedAt: 2025-10-14 10:48:01 -0000 (Tue, 14 Oct 2025) | 
| EndedAt: 2025-10-14 10:56:56 -0000 (Tue, 14 Oct 2025) | 
| EllapsedTime: 535.4 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: maser.Rcheck | 
| Warnings: 0 | 
##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:maser.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings maser_1.26.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/maser.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘maser/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘maser’ version ‘1.26.0’
* 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 ‘maser’ 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 loading without being on the library search path ... 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
availableFeaturesUniprotKB: no visible global function definition for
  'read.csv'
availableFeaturesUniprotKB: no visible binding for global variable
  'Category'
availableFeaturesUniprotKB: no visible binding for global variable
  'Name'
filterByIds: no visible binding for global variable 'ID'
mapTranscriptsA3SSevent: no visible global function definition for
  'subjectHits'
mapTranscriptsA5SSevent: no visible global function definition for
  'subjectHits'
mapTranscriptsMXEevent: no visible global function definition for
  'subjectHits'
mapTranscriptsRIevent: no visible global function definition for
  'subjectHits'
mapTranscriptsSEevent: no visible global function definition for
  'subjectHits'
overlappingFeatures: no visible global function definition for
  'subjectHits'
urlTracksUniprotKB: no visible global function definition for
  'read.csv'
Undefined global functions or variables:
  Category ID Name read.csv subjectHits
Consider adding
  importFrom("utils", "read.csv")
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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                            user system elapsed
plotTranscripts            9.227  0.304   9.553
plotUniprotKBFeatures      8.434  0.226  15.740
mapProteinFeaturesToEvents 4.559  0.191  12.390
* 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
  ‘/home/biocbuild/bbs-3.21-bioc/meat/maser.Rcheck/00check.log’
for details.
maser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL maser ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘maser’ ... ** this is package ‘maser’ version ‘1.26.0’ ** 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 (maser)
maser.Rcheck/maser-Ex.timings
| name | user | system | elapsed | |
| PSI-Maser-character-method | 0.824 | 0.008 | 0.844 | |
| PSI | 0.789 | 0.012 | 0.804 | |
| annotation-Maser-method | 0.654 | 0.007 | 0.663 | |
| availableFeaturesUniprotKB | 0.078 | 0.016 | 0.598 | |
| boxplot_PSI_levels | 3.753 | 0.346 | 4.110 | |
| counts-Maser-method | 0.658 | 0.012 | 0.672 | |
| display | 1.883 | 0.235 | 2.129 | |
| dotplot | 1.798 | 0.136 | 1.939 | |
| filterByCoverage | 2.506 | 0.283 | 2.796 | |
| filterByEventId | 1.037 | 0.016 | 1.056 | |
| geneEvents | 1.086 | 0.068 | 1.157 | |
| granges-Maser-method | 0.792 | 0.032 | 0.826 | |
| mapProteinFeaturesToEvents | 4.559 | 0.191 | 12.390 | |
| mapTranscriptsToEvents | 2.194 | 0.060 | 2.261 | |
| maser | 0.679 | 0.004 | 0.684 | |
| pca | 1.667 | 0.052 | 1.721 | |
| plotGenePSI | 2.612 | 0.095 | 2.714 | |
| plotTranscripts | 9.227 | 0.304 | 9.553 | |
| plotUniprotKBFeatures | 8.434 | 0.226 | 15.740 | |
| splicingDistribution | 1.747 | 0.024 | 1.776 | |
| summary-Maser-method | 0.907 | 0.004 | 0.913 | |
| topEvents | 1.223 | 0.012 | 1.238 | |
| volcano | 1.620 | 0.000 | 1.624 | |