Back to Mac ARM64 build report for BioC 3.19 |
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This page was generated on 2024-05-07 11:32:33 -0400 (Tue, 07 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4461 |
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 648/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
EnMCB 1.16.0 (landing page) Xin Yu
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the EnMCB package: - 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: EnMCB |
Version: 1.16.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:EnMCB.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings EnMCB_1.16.0.tar.gz |
StartedAt: 2024-05-06 21:18:45 -0400 (Mon, 06 May 2024) |
EndedAt: 2024-05-06 21:19:49 -0400 (Mon, 06 May 2024) |
EllapsedTime: 64.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: EnMCB.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:EnMCB.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings EnMCB_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/EnMCB.Rcheck’ * using R version 4.4.0 (2024-04-24) * 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 13.6.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘EnMCB/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘EnMCB’ version ‘1.16.0’ * 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 ‘EnMCB’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.2Mb sub-directories of 1Mb or more: data 4.9Mb * 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 ... 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed metricMCB.cv 5.805 1.097 6.913 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.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: 1 NOTE See ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/EnMCB.Rcheck/00check.log’ for details.
EnMCB.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL EnMCB ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘EnMCB’ ... ** 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 (EnMCB)
EnMCB.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 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. > library(testthat) > library(EnMCB) > > test_check("EnMCB") Start calculating the correlation, this may take a while... (or you can try to use IdentifyMCB_parallel function instead) | | | 0% | |################## | 25% | |################################### | 50% | |#################################################### | 75% | |######################################################################| 100% Now gathering the results, please wait ... Statistics ( 4 MCBs in total): chr2 : total MCBs: 1 Mean Length: 167 (Range: 167 167 ) chr6 : total MCBs: 1 Mean Length: 129 (Range: 129 129 ) chr8 : total MCBs: 2 Mean Length: 303.5 (Range: 181 426 ) [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] > > proc.time() user system elapsed 2.919 0.090 3.007
EnMCB.Rcheck/EnMCB-Ex.timings
name | user | system | elapsed | |
CompareMCB | 0.013 | 0.001 | 0.014 | |
DiffMCB | 0.043 | 0.002 | 0.046 | |
IdentifyMCB | 1.932 | 0.017 | 1.951 | |
IdentifyMCB_parallel | 1.542 | 0.013 | 1.555 | |
create_demo | 0.363 | 0.011 | 0.376 | |
draw_survival_curve | 0.599 | 0.035 | 0.637 | |
ensemble_model | 3.542 | 0.106 | 3.650 | |
ensemble_prediction | 3.380 | 0.101 | 3.481 | |
fast_roc_calculation | 2.151 | 0.545 | 2.702 | |
metricMCB | 0.176 | 0.004 | 0.179 | |
metricMCB.cv | 5.805 | 1.097 | 6.913 | |
multi_coxph | 0.016 | 0.001 | 0.017 | |
pre_process_methylation | 2.028 | 0.984 | 3.025 | |
univ_coxph | 0.038 | 0.004 | 0.042 | |