Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:47 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 1675/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RCSL 1.15.0 (landing page) Qinglin Mei
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | 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 | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the RCSL package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RCSL.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: RCSL |
Version: 1.15.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:RCSL.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings RCSL_1.15.0.tar.gz |
StartedAt: 2024-12-24 10:15:47 -0000 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 10:28:06 -0000 (Tue, 24 Dec 2024) |
EllapsedTime: 739.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RCSL.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:RCSL.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings RCSL_1.15.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/RCSL.Rcheck’ * using R Under development (unstable) (2024-11-24 r87369) * 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 ‘RCSL/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCSL’ version ‘1.15.0’ * 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 ‘RCSL’ 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 ... NOTE Namespaces in Imports field not imported from: ‘MatrixGenerics’ ‘Rcpp’ ‘SingleCellExperiment’ All declared Imports should be used. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE PlotMST: no visible binding for global variable ‘X1’ PlotMST: no visible binding for global variable ‘X2’ PlotMST: no visible binding for global variable ‘label’ PlotMST: no visible binding for global variable ‘from.x’ PlotMST: no visible binding for global variable ‘to.x’ PlotMST: no visible binding for global variable ‘from.y’ PlotMST: no visible binding for global variable ‘to.y’ PlotMST: no visible binding for global variable ‘V1’ PlotMST: no visible binding for global variable ‘V2’ PlotPseudoTime: no visible binding for global variable ‘x’ PlotPseudoTime: no visible binding for global variable ‘y’ PlotPseudoTime: no visible binding for global variable ‘Timepoint’ PlotTrajectory: no visible binding for global variable ‘X1’ PlotTrajectory: no visible binding for global variable ‘X2’ PlotTrajectory: no visible binding for global variable ‘label’ PlotTrajectory: no visible binding for global variable ‘x’ PlotTrajectory: no visible binding for global variable ‘y’ Undefined global functions or variables: Timepoint V1 V2 X1 X2 from.x from.y label to.x to.y x y * checking Rd files ... NOTE checkRd: (-1) BDSM.Rd:6: Lost braces; missing escapes or markup? 6 | min_{B>=0, B*1=1, F'*F=I} ||B - A||_1 + r*||B||^2 + 2*lambda*trace(F'*L*F)} | ^ checkRd: (-1) BDSM.Rd:22: Lost braces; missing escapes or markup? 22 | min_{B>=0, B*1=1, F'*F=I} ||B - A||_1 + r*||B||^2 + 2*lambda*trace(F'*L*F) | ^ * 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 LazyData ... 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 BDSM 70.239 0.264 71.270 PlotMST 69.892 0.104 70.160 TrajectoryAnalysis 68.075 0.016 68.230 PlotTrajectory 67.850 0.040 68.041 EstClusters 67.560 0.048 67.761 NeigRepresent 66.555 0.124 66.835 getLineage 65.817 0.008 65.973 PlotPseudoTime 65.269 0.028 65.457 SimS 64.621 0.039 64.790 GenesFilter 59.732 0.095 59.969 RCSL 15.074 0.144 15.252 * 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: 3 NOTEs See ‘/home/biocbuild/bbs-3.21-bioc/meat/RCSL.Rcheck/00check.log’ for details.
RCSL.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL RCSL ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’ * installing *source* package ‘RCSL’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (RCSL)
RCSL.Rcheck/RCSL-Ex.timings
name | user | system | elapsed | |
BDSM | 70.239 | 0.264 | 71.270 | |
EstClusters | 67.560 | 0.048 | 67.761 | |
GenesFilter | 59.732 | 0.095 | 59.969 | |
NeigRepresent | 66.555 | 0.124 | 66.835 | |
PlotMST | 69.892 | 0.104 | 70.160 | |
PlotPseudoTime | 65.269 | 0.028 | 65.457 | |
PlotTrajectory | 67.850 | 0.040 | 68.041 | |
RCSL | 15.074 | 0.144 | 15.252 | |
SimS | 64.621 | 0.039 | 64.790 | |
TrajectoryAnalysis | 68.075 | 0.016 | 68.230 | |
getLineage | 65.817 | 0.008 | 65.973 | |