Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-02 12:05 -0400 (Sat, 02 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4796 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4535 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4578 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4519 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4517 |
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 1531/2313 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
PCAN 1.37.0 (landing page) Matthew Page
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | 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 PCAN package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PCAN.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: PCAN |
Version: 1.37.0 |
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:PCAN.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings PCAN_1.37.0.tar.gz |
StartedAt: 2025-08-02 01:17:59 -0400 (Sat, 02 Aug 2025) |
EndedAt: 2025-08-02 01:22:37 -0400 (Sat, 02 Aug 2025) |
EllapsedTime: 277.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: PCAN.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:PCAN.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings PCAN_1.37.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/PCAN.Rcheck’ * using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 * running under: Ubuntu 24.04.2 LTS * using session charset: UTF-8 * checking for file ‘PCAN/DESCRIPTION’ ... OK * this is package ‘PCAN’ version ‘1.37.0’ * 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 ‘PCAN’ 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 ... NOTE checkRd: (-1) hpGeneHeatmap.Rd:33: Lost braces 33 | \item{...}{parameters for the code{\link{heatmap}} function} | ^ * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: compareHPSets.Rd: BiocParallelParam, bpmapply Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed compareHPSets 58.922 0.655 64.808 hpGeneListComp 55.935 0.021 55.967 hpGeneHeatmap 47.533 0.037 47.572 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.22-bioc/meat/PCAN.Rcheck/00check.log’ for details.
PCAN.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL PCAN ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’ * installing *source* package ‘PCAN’ ... ** this is package ‘PCAN’ version ‘1.37.0’ ** 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 (PCAN)
PCAN.Rcheck/PCAN-Ex.timings
name | user | system | elapsed | |
calcHpSim | 1.679 | 0.047 | 1.726 | |
compareHPSets | 58.922 | 0.655 | 64.808 | |
computeHpIC | 1.441 | 0.052 | 1.493 | |
geneByHp | 1.248 | 0.002 | 1.250 | |
geneByTrait | 0.038 | 0.001 | 0.040 | |
geneDef | 2.095 | 0.003 | 2.099 | |
hpByTrait | 2.082 | 0.004 | 2.086 | |
hpDef | 1.503 | 0.009 | 1.511 | |
hpGeneHeatmap | 47.533 | 0.037 | 47.572 | |
hpGeneListComp | 55.935 | 0.021 | 55.967 | |
hpSetCompBestMatch | 2.686 | 0.015 | 2.701 | |
hpSetCompSummary | 2.730 | 0.004 | 2.734 | |
hp_ancestors | 1.969 | 0.001 | 1.971 | |
hp_class | 0.044 | 0.003 | 0.047 | |
hp_descendants | 1.591 | 0.001 | 1.592 | |
hqStrNw | 0 | 0 | 0 | |
hsEntrezByRPath | 0 | 0 | 0 | |
rPath | 0 | 0 | 0 | |
traitDef | 2.404 | 0.008 | 2.413 | |