Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:29:31 -0400 (Thu, 06 May 2021).
To the developers/maintainers of the trio package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1899/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
trio 3.28.0 (landing page) Holger Schwender
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: trio |
Version: 3.28.0 |
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:trio.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings trio_3.28.0.tar.gz |
StartedAt: 2021-05-06 06:49:36 -0400 (Thu, 06 May 2021) |
EndedAt: 2021-05-06 06:53:00 -0400 (Thu, 06 May 2021) |
EllapsedTime: 204.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: trio.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:trio.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings trio_3.28.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/trio.Rcheck’ * using R version 4.0.5 (2021-03-31) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘trio/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘trio’ version ‘3.28.0’ * 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 ‘trio’ 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 dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... NOTE Foreign function call to a different package: .C("clogreg", ..., PACKAGE = "LogicReg") See chapter ‘System and foreign language interfaces’ in the ‘Writing R Extensions’ manual. * 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed print.trioFS 9.384 0.060 9.478 trioFS 8.140 0.096 8.249 trio.permTest 7.328 0.072 7.406 colGxGPerms 5.932 0.000 5.946 plot.trioLR 4.976 0.096 5.104 * 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: 1 NOTE See ‘/home/biocbuild/bbs-3.12-bioc/meat/trio.Rcheck/00check.log’ for details.
trio.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL trio ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’ * installing *source* package ‘trio’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ‘trio.Rnw’ ** 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 (trio)
trio.Rcheck/trio-Ex.timings
name | user | system | elapsed | |
allelicTDT | 0.024 | 0.000 | 0.025 | |
colEMlrt | 0.096 | 0.000 | 0.096 | |
colGxE | 0.008 | 0.000 | 0.009 | |
colGxGPerms | 5.932 | 0.000 | 5.946 | |
colPOlrt | 0.016 | 0.000 | 0.015 | |
colTDTmaxTest | 0.040 | 0.004 | 0.042 | |
colTDTsam | 0.036 | 0.000 | 0.035 | |
findLDblocks | 0.028 | 0.000 | 0.031 | |
getLD | 0.012 | 0.004 | 0.016 | |
getMatPseudo | 0.008 | 0.000 | 0.009 | |
lrControl | 0 | 0 | 0 | |
ped2geno | 0.000 | 0.000 | 0.001 | |
plot.LDblocks | 0.052 | 0.004 | 0.055 | |
plot.getLD | 0.032 | 0.000 | 0.029 | |
plot.trioLR | 4.976 | 0.096 | 5.104 | |
poly4root | 0.000 | 0.000 | 0.001 | |
print.colGxE | 0.088 | 0.000 | 0.089 | |
print.trioFS | 9.384 | 0.060 | 9.478 | |
print.trioLR | 3.936 | 0.004 | 3.958 | |
probTDT | 0.068 | 0.000 | 0.071 | |
read.pedfile | 0 | 0 | 0 | |
removeSNPs | 0.008 | 0.000 | 0.009 | |
scoreTDT | 0.028 | 0.000 | 0.028 | |
tdt | 0.036 | 0.000 | 0.036 | |
tdtGxG | 2.572 | 0.004 | 2.578 | |
trio.check | 1.108 | 0.028 | 1.138 | |
trio.data | 0.008 | 0.000 | 0.008 | |
trio.permTest | 7.328 | 0.072 | 7.406 | |
trio.power | 0.020 | 0.000 | 0.021 | |
trio.prepare | 3.376 | 0.004 | 3.383 | |
trio.sim | 0.480 | 0.000 | 0.483 | |
trioFS | 8.140 | 0.096 | 8.249 | |
trioLR | 2.824 | 0.004 | 2.834 | |