Back to Multiple platform build/check report for BioC 3.17 |
|
This page was generated on 2023-04-12 10:55:23 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | 4.3.0 alpha (2023-04-03 r84154) | 4547 |
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" | 4333 |
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 |
To the developers/maintainers of the Clomial package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Clomial.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
Package 356/2207 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Clomial 1.35.0 (landing page) Habil Zare
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||||
Package: Clomial |
Version: 1.35.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:Clomial.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings Clomial_1.35.0.tar.gz |
StartedAt: 2023-04-11 19:20:10 -0400 (Tue, 11 Apr 2023) |
EndedAt: 2023-04-11 19:22:22 -0400 (Tue, 11 Apr 2023) |
EllapsedTime: 132.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: Clomial.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:Clomial.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings Clomial_1.35.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/Clomial.Rcheck’ * using R version 4.3.0 alpha (2023-04-03 r84154) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.2 LTS * using session charset: UTF-8 * checking for file ‘Clomial/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘Clomial’ version ‘1.35.0’ * 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 ‘Clomial’ 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 R 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 ... NOTE Clomial: no visible global function definition for ‘runif’ Clomial.generate.data: no visible global function definition for ‘runif’ Clomial.generate.data: no visible global function definition for ‘rbinom’ Clomial.likelihood: no visible global function definition for ‘dbinom’ Phi: no visible global function definition for ‘dbinom’ choose.best: no visible global function definition for ‘tail’ compute.P.reparam : update.Wj: no visible global function definition for ‘optim’ compute.q: no visible global function definition for ‘dbinom’ Undefined global functions or variables: dbinom optim rbinom runif tail Consider adding importFrom("stats", "dbinom", "optim", "rbinom", "runif") importFrom("utils", "tail") 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 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 choose.best 26.302 5.448 31.751 Clomial 9.517 1.872 11.389 Clomial-package 9.173 2.196 11.370 compute.bic 6.180 1.152 7.332 Clomial.iterate 4.812 1.097 5.910 Clomial.likelihood 4.432 1.078 5.509 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘Clonal_decomposition_by_Clomial.Rnw’... OK OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.17-bioc/meat/Clomial.Rcheck/00check.log’ for details.
Clomial.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL Clomial ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘Clomial’ ... ** 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 (Clomial)
Clomial.Rcheck/Clomial-Ex.timings
name | user | system | elapsed | |
Clomial-package | 9.173 | 2.196 | 11.370 | |
Clomial | 9.517 | 1.872 | 11.389 | |
Clomial.generate.data | 0.033 | 0.000 | 0.034 | |
Clomial.iterate | 4.812 | 1.097 | 5.910 | |
Clomial.likelihood | 4.432 | 1.078 | 5.509 | |
Clomial1000 | 0.145 | 0.019 | 0.165 | |
breastCancer | 0.002 | 0.001 | 0.002 | |
choose.best | 26.302 | 5.448 | 31.751 | |
compute.bic | 6.180 | 1.152 | 7.332 | |
compute.errors | 2.660 | 0.547 | 3.208 | |