Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-06-19 12:06 -0400 (Thu, 19 Jun 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4810 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" | 4548 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4528 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4493 |
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 1975/2309 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SIMAT 1.41.0 (landing page) M. R. Nezami Ranjbar
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.1 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: 2025-06-17 11:53:47 -0000 (Tue, 17 Jun 2025) |
EndedAt: 2025-06-17 11:55:13 -0000 (Tue, 17 Jun 2025) |
EllapsedTime: 86.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SIMAT.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### 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 -- Tue Jun 17 11:55:08 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 2.356 0.161 3.503
SIMAT.Rcheck/SIMAT-Ex.timings
name | user | system | elapsed | |
Library | 0.001 | 0.004 | 0.005 | |
RItable | 0.001 | 0.000 | 0.001 | |
Run | 0.056 | 0.008 | 0.065 | |
Targets | 0.001 | 0.000 | 0.002 | |
getEIC | 0.087 | 0.012 | 0.099 | |
getPeak | 0.540 | 0.048 | 0.589 | |
getPeakScore | 0.412 | 0.008 | 0.425 | |
getRI | 0.000 | 0.002 | 0.001 | |
getRIStandard | 0.002 | 0.002 | 0.010 | |
getScore | 0 | 0 | 0 | |
getTarget | 2.349 | 0.019 | 2.510 | |
getTargetTable | 0.003 | 0.000 | 0.004 | |
optFrag | 2.380 | 0.028 | 2.415 | |
plotEIC | 1.097 | 0.032 | 1.131 | |
plotTIC | 0.261 | 0.000 | 0.262 | |
putTargetTable | 0.002 | 0.000 | 0.002 | |
readCDF | 2.194 | 0.040 | 2.678 | |
readMSL | 0.015 | 0.000 | 0.020 | |
target.table | 0.001 | 0.000 | 0.001 | |
writeMSL | 0.000 | 0.004 | 0.003 | |
writeResult | 0.422 | 0.004 | 0.427 | |