| Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-03-01 07:38:48 -0000 (Wed, 01 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4266 |
| 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 RCASPAR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RCASPAR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1600/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RCASPAR 1.45.0 (landing page) Douaa Mugahid
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: RCASPAR |
| Version: 1.45.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:RCASPAR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings RCASPAR_1.45.0.tar.gz |
| StartedAt: 2023-02-28 12:28:48 -0000 (Tue, 28 Feb 2023) |
| EndedAt: 2023-02-28 12:29:15 -0000 (Tue, 28 Feb 2023) |
| EllapsedTime: 27.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: RCASPAR.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:RCASPAR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings RCASPAR_1.45.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/RCASPAR.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-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 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘RCASPAR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RCASPAR’ version ‘1.45.0’
* 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 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 ...
‘RCASPAR.Rnw’... OK
OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/RCASPAR.Rcheck/00check.log’
for details.
RCASPAR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL RCASPAR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 | 0.013 | 0.005 | 0.017 | |
| RCASPAR-package | 0.383 | 0.008 | 0.391 | |
| STpredictor_BLH | 0.046 | 0.000 | 0.046 | |
| STpredictor_xvBLH | 0.421 | 0.019 | 0.441 | |
| deriv_weight_estimator_BLH | 0.002 | 0.001 | 0.003 | |
| deriv_weight_estimator_BLH_noprior | 0.000 | 0.002 | 0.002 | |
| kmplt | 0.002 | 0.001 | 0.003 | |
| kmplt_svrl | 0.007 | 0.000 | 0.007 | |
| logrnk | 0.002 | 0.000 | 0.002 | |
| pltgamma | 0.002 | 0.000 | 0.002 | |
| pltprior | 0.002 | 0.000 | 0.002 | |
| simpson | 0.001 | 0.000 | 0.001 | |
| survData | 0.000 | 0.001 | 0.002 | |
| survivAURC | 0.114 | 0.006 | 0.120 | |
| survivROC | 0.031 | 0.007 | 0.038 | |
| trapezoid | 0.001 | 0.001 | 0.000 | |
| weight_estimator_BLH | 0 | 0 | 0 | |
| weight_estimator_BLH_noprior | 0.003 | 0.000 | 0.002 | |
| weights_BLH | 0.001 | 0.003 | 0.005 | |
| weights_xvBLH | 0.029 | 0.003 | 0.033 | |