Back to Mac ARM64 build report for BioC 3.17 |
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This page was generated on 2023-10-20 09:38:10 -0400 (Fri, 20 Oct 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson2 | macOS 12.6.1 Monterey | arm64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4347 |
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 1645/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RCASPAR 1.46.0 (landing page) Douaa Mugahid
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | OK | OK | OK | OK | ![]() | |||||||
To the developers/maintainers of the RCASPAR 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: RCASPAR |
Version: 1.46.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCASPAR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCASPAR_1.46.0.tar.gz |
StartedAt: 2023-10-18 17:29:03 -0400 (Wed, 18 Oct 2023) |
EndedAt: 2023-10-18 17:29:46 -0400 (Wed, 18 Oct 2023) |
EllapsedTime: 42.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RCASPAR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCASPAR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCASPAR_1.46.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/RCASPAR.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: aarch64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RCASPAR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCASPAR’ version ‘1.46.0’ * 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 ‘RCASPAR’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Title field: should not end in a period. * 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 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 kmplt_svrl: no visible global function definition for ‘lines’ kmplt_svrl: no visible global function definition for ‘legend’ logrnk: no visible global function definition for ‘pchisq’ pltprior: no visible global function definition for ‘persp’ weights_BLH: no visible global function definition for ‘optim’ Undefined global functions or variables: legend lines optim pchisq persp Consider adding importFrom("graphics", "legend", "lines", "persp") importFrom("stats", "optim", "pchisq") to your NAMESPACE file. * checking Rd files ... NOTE checkRd: (-1) STpredictor_BLH.Rd:21: Escaped LaTeX specials: \_ checkRd: (-1) STpredictor_BLH.Rd:39: Escaped LaTeX specials: \_ checkRd: (-1) STpredictor_BLH.Rd:78: Escaped LaTeX specials: \_ checkRd: (-1) STpredictor_BLH.Rd:79: Escaped LaTeX specials: \_ \_ checkRd: (-1) STpredictor_BLH.Rd:81: Escaped LaTeX specials: \_ \_ checkRd: (-1) STpredictor_BLH.Rd:82: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH.rd:41: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH.rd:45: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH.rd:46: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH_noprior.rd:17: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH_noprior.rd:36: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH_noprior.rd:40: Escaped LaTeX specials: \_ checkRd: (-1) deriv_weight_estimator_BLH_noprior.rd:41: Escaped LaTeX specials: \_ checkRd: (-1) logrnk.Rd:23: Escaped LaTeX specials: \_ \_ * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... 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-3.17-bioc-mac-arm64/meat/RCASPAR.Rcheck/00check.log’ for details.
RCASPAR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RCASPAR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’ * installing *source* package ‘RCASPAR’ ... ** using staged installation ** R ** data ** 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 (RCASPAR)
RCASPAR.Rcheck/RCASPAR-Ex.timings
name | user | system | elapsed | |
Bergamaschi | 0.015 | 0.004 | 0.027 | |
RCASPAR-package | 0.313 | 0.037 | 0.543 | |
STpredictor_BLH | 0.038 | 0.010 | 0.074 | |
STpredictor_xvBLH | 0.312 | 0.034 | 0.528 | |
deriv_weight_estimator_BLH | 0.003 | 0.002 | 0.007 | |
deriv_weight_estimator_BLH_noprior | 0.003 | 0.002 | 0.006 | |
kmplt | 0.003 | 0.001 | 0.006 | |
kmplt_svrl | 0.006 | 0.001 | 0.012 | |
logrnk | 0.001 | 0.000 | 0.004 | |
pltgamma | 0.002 | 0.000 | 0.005 | |
pltprior | 0.002 | 0.001 | 0.005 | |
simpson | 0.000 | 0.001 | 0.001 | |
survData | 0.002 | 0.001 | 0.004 | |
survivAURC | 0.098 | 0.005 | 0.154 | |
survivROC | 0.023 | 0.003 | 0.042 | |
trapezoid | 0 | 0 | 0 | |
weight_estimator_BLH | 0 | 0 | 0 | |
weight_estimator_BLH_noprior | 0.002 | 0.002 | 0.009 | |
weights_BLH | 0.014 | 0.003 | 0.028 | |
weights_xvBLH | 0.023 | 0.004 | 0.041 | |