Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:07 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 1188/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MEIGOR 1.40.0 (landing page) Jose A. Egea
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the MEIGOR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MEIGOR.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: MEIGOR |
Version: 1.40.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MEIGOR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MEIGOR_1.40.0.tar.gz |
StartedAt: 2024-12-21 00:23:45 -0500 (Sat, 21 Dec 2024) |
EndedAt: 2024-12-21 00:25:22 -0500 (Sat, 21 Dec 2024) |
EllapsedTime: 97.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MEIGOR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MEIGOR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MEIGOR_1.40.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/MEIGOR.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MEIGOR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MEIGOR’ version ‘1.40.0’ * 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 ‘MEIGOR’ 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 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 CeSSR: no visible global function definition for ‘sd’ CeSSR: no visible binding for global variable ‘sd’ between_chain_variances: no visible global function definition for ‘var’ essR: no visible global function definition for ‘combn’ essR: no visible global function definition for ‘runif’ essR_multistart: no visible global function definition for ‘runif’ essR_multistart: no visible global function definition for ‘hist’ estimate: no visible global function definition for ‘runif’ generate_new_position: no visible global function definition for ‘rnorm’ initialize: no visible global function definition for ‘runif’ initialize_and_pool: no visible binding for global variable ‘mulichain’ nls_fobj: no visible binding for global variable ‘fobj_global’ nls_fobj: no visible binding for '<<-' assignment to ‘n_fun_eval’ nls_fobj: no visible binding for global variable ‘n_fun_eval’ optim_fobj: no visible binding for global variable ‘fobj_global’ optim_fobj: no visible binding for '<<-' assignment to ‘n_fun_eval’ optim_fobj: no visible binding for global variable ‘n_fun_eval’ runBayesFit : prior: no visible binding for global variable ‘prior_mean’ runBayesFit : prior: no visible binding for global variable ‘prior_var’ rvnds_hamming: no visible global function definition for ‘runif’ solnp_eq: no visible binding for global variable ‘fobj_global’ solnp_eq: no visible binding for '<<-' assignment to ‘n_fun_eval’ solnp_eq: no visible binding for global variable ‘n_fun_eval’ solnp_eq: no visible binding for global variable ‘neq_global’ solnp_fobj: no visible binding for global variable ‘fobj_global’ solnp_fobj: no visible binding for '<<-' assignment to ‘n_fun_eval’ solnp_fobj: no visible binding for global variable ‘n_fun_eval’ solnp_ineq: no visible binding for global variable ‘fobj_global’ solnp_ineq: no visible binding for '<<-' assignment to ‘n_fun_eval’ solnp_ineq: no visible binding for global variable ‘n_fun_eval’ solnp_ineq: no visible binding for global variable ‘neq_global’ solnp_ineq: no visible binding for global variable ‘nconst_global’ ssm_beyond: no visible global function definition for ‘runif’ ssm_localsolver: no visible binding for '<<-' assignment to ‘n_fun_eval’ ssm_localsolver: no visible binding for '<<-' assignment to ‘fobj_global’ ssm_localsolver: no visible binding for '<<-' assignment to ‘neq_global’ ssm_localsolver: no visible binding for '<<-' assignment to ‘nconst_global’ ssm_localsolver: no visible binding for '<<-' assignment to ‘extra_args’ ssm_localsolver: no visible global function definition for ‘optim’ ssm_localsolver: no visible binding for global variable ‘n_fun_eval’ ssm_localsolver: no visible global function definition for ‘nls’ ssm_localsolver: no visible binding for global variable ‘extra_args’ ssm_localsolver: no visible global function definition for ‘coef’ within_chain_variances: no visible global function definition for ‘var’ Undefined global functions or variables: coef combn extra_args fobj_global hist mulichain n_fun_eval nconst_global neq_global nls optim prior_mean prior_var rnorm runif sd var Consider adding importFrom("graphics", "hist") importFrom("stats", "coef", "nls", "optim", "rnorm", "runif", "sd", "var") importFrom("utils", "combn") to your NAMESPACE file. * checking Rd files ... OK * checking Rd metadata ... NOTE Invalid package aliases in Rd file 'BayesFit.Rd': ‘BayesFit-package’ Invalid package aliases in Rd file 'essR-MEIGOR.Rd': ‘essR-package’ * 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 ... NOTE Argument items with no description in Rd file 'vns_defaults.Rd': ‘\dots’ * 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 essR 9.120 0.158 9.284 cur_params 7.473 0.449 7.976 runBayesFit 7.208 0.433 7.701 * 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 ‘/Users/biocbuild/bbs-3.20-bioc/meat/MEIGOR.Rcheck/00check.log’ for details.
MEIGOR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL MEIGOR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘MEIGOR’ ... ** 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 (MEIGOR)
MEIGOR.Rcheck/MEIGOR-Ex.timings
name | user | system | elapsed | |
CeSSR | 0.085 | 0.030 | 4.637 | |
MEIGO | 0.045 | 0.004 | 0.050 | |
cur_params | 7.473 | 0.449 | 7.976 | |
essR | 9.120 | 0.158 | 9.284 | |
runBayesFit | 7.208 | 0.433 | 7.701 | |
rvnds_hamming | 0.038 | 0.003 | 0.042 | |