| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-10-21 12:07 -0400 (Tue, 21 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4887 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4677 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4622 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4642 |
| 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 2011/2353 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SIMAT 1.41.0 (landing page) M. R. Nezami Ranjbar
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the SIMAT package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SIMAT.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: SIMAT |
| Version: 1.41.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:SIMAT.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SIMAT_1.41.0.tar.gz |
| StartedAt: 2025-10-17 13:42:07 -0000 (Fri, 17 Oct 2025) |
| EndedAt: 2025-10-17 13:43:44 -0000 (Fri, 17 Oct 2025) |
| EllapsedTime: 97.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SIMAT.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:SIMAT.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SIMAT_1.41.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SIMAT.Rcheck’
* using R version 4.5.0 (2025-04-11)
* 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)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SIMAT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SIMAT’ version ‘1.41.0’
* 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 ‘SIMAT’ 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 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 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 ‘tests’ ... OK
* checking tests ...
Running ‘runTests.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: OK
SIMAT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SIMAT ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘SIMAT’ ... ** this is package ‘SIMAT’ version ‘1.41.0’ ** using staged installation ** 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 (SIMAT)
SIMAT.Rcheck/tests/runTests.Rout
R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
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.
> ## function for RUnit tests
>
> BiocGenerics:::testPackage("SIMAT")
RUNIT TEST PROTOCOL -- Fri Oct 17 13:43:39 2025
***********************************************
Number of test functions: 16
Number of errors: 0
Number of failures: 0
1 Test Suite :
SIMAT RUnit Tests - 16 test functions, 0 errors, 0 failures
Number of test functions: 16
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
2.629 0.108 2.982
SIMAT.Rcheck/SIMAT-Ex.timings
| name | user | system | elapsed | |
| Library | 0.002 | 0.003 | 0.005 | |
| RItable | 0.001 | 0.000 | 0.001 | |
| Run | 0.065 | 0.000 | 0.065 | |
| Targets | 0.002 | 0.000 | 0.002 | |
| getEIC | 0.075 | 0.016 | 0.115 | |
| getPeak | 0.421 | 0.124 | 0.671 | |
| getPeakScore | 0.425 | 0.048 | 0.477 | |
| getRI | 0.002 | 0.000 | 0.002 | |
| getRIStandard | 0.005 | 0.000 | 0.011 | |
| getScore | 0 | 0 | 0 | |
| getTarget | 2.421 | 0.016 | 2.984 | |
| getTargetTable | 0.003 | 0.000 | 0.008 | |
| optFrag | 2.466 | 0.015 | 2.982 | |
| plotEIC | 1.810 | 0.032 | 1.872 | |
| plotTIC | 0.426 | 0.004 | 0.433 | |
| putTargetTable | 0.002 | 0.000 | 0.002 | |
| readCDF | 2.199 | 0.088 | 2.418 | |
| readMSL | 0.014 | 0.000 | 0.016 | |
| target.table | 0.001 | 0.000 | 0.001 | |
| writeMSL | 0.003 | 0.000 | 0.003 | |
| writeResult | 0.421 | 0.000 | 0.423 | |