Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:47 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the nethet package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/nethet.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1264/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
nethet 1.24.0 (landing page) Nicolas Staedler
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: nethet |
Version: 1.24.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:nethet.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings nethet_1.24.0.tar.gz |
StartedAt: 2021-10-14 10:48:26 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 10:51:08 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 162.0 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: nethet.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:nethet.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings nethet_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/nethet.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘nethet/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘nethet’ version ‘1.24.0’ * 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 ‘nethet’ can be installed ... WARNING Found the following significant warnings: Warning: replacing previous import ‘mclust::dmvnorm’ by ‘mvtnorm::dmvnorm’ when loading ‘nethet’ Warning: replacing previous import ‘multtest::update’ by ‘stats::update’ when loading ‘nethet’ See ‘/home/biocbuild/bbs-3.13-bioc/meat/nethet.Rcheck/00install.out’ for details. * 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 ... OK * checking R code for possible problems ... NOTE screen_shrink: no visible global function definition for ‘performance.pcor’ Undefined global functions or variables: performance.pcor * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed het_cv_glasso 32.374 0.322 32.699 ggmgsa_multisplit 18.488 0.055 18.545 mixglasso 10.439 0.143 10.585 diffregr_multisplit 6.256 0.051 6.309 diffnet_multisplit 5.776 0.004 5.780 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ 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: 1 WARNING, 2 NOTEs See ‘/home/biocbuild/bbs-3.13-bioc/meat/nethet.Rcheck/00check.log’ for details.
nethet.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL nethet ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘nethet’ ... ** using staged installation ** libs gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c betamat_diffnet.c -o betamat_diffnet.o gcc -shared -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o nethet.so betamat_diffnet.o -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-nethet/00new/nethet/libs ** R ** inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘mclust::dmvnorm’ by ‘mvtnorm::dmvnorm’ when loading ‘nethet’ Warning: replacing previous import ‘multtest::update’ by ‘stats::update’ when loading ‘nethet’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: replacing previous import ‘mclust::dmvnorm’ by ‘mvtnorm::dmvnorm’ when loading ‘nethet’ Warning: replacing previous import ‘multtest::update’ by ‘stats::update’ when loading ‘nethet’ ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location Warning: replacing previous import ‘mclust::dmvnorm’ by ‘mvtnorm::dmvnorm’ when loading ‘nethet’ Warning: replacing previous import ‘multtest::update’ by ‘stats::update’ when loading ‘nethet’ ** testing if installed package keeps a record of temporary installation path * DONE (nethet)
nethet.Rcheck/tests/testthat.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) 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(nethet) Warning messages: 1: replacing previous import 'mclust::dmvnorm' by 'mvtnorm::dmvnorm' when loading 'nethet' 2: replacing previous import 'multtest::update' by 'stats::update' when loading 'nethet' > > test_check("nethet") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 18 ] > > proc.time() user system elapsed 6.819 0.225 7.032
nethet.Rcheck/nethet-Ex.timings
name | user | system | elapsed | |
aggpval | 0.004 | 0.000 | 0.004 | |
bwprun_mixglasso | 2.029 | 0.019 | 2.049 | |
diffnet_multisplit | 5.776 | 0.004 | 5.780 | |
diffnet_singlesplit | 2.985 | 0.001 | 2.985 | |
diffregr_multisplit | 6.256 | 0.051 | 6.309 | |
diffregr_singlesplit | 0.683 | 0.005 | 0.687 | |
dot_plot | 0.512 | 0.003 | 0.516 | |
export_network | 0.145 | 0.008 | 0.153 | |
generate_2networks | 0.034 | 0.000 | 0.034 | |
generate_inv_cov | 0.069 | 0.172 | 0.241 | |
ggmgsa_multisplit | 18.488 | 0.055 | 18.545 | |
gsea.iriz | 0.009 | 0.001 | 0.010 | |
het_cv_glasso | 32.374 | 0.322 | 32.699 | |
invcov2parcor | 0.001 | 0.000 | 0.001 | |
invcov2parcor_array | 0.006 | 0.000 | 0.006 | |
logratio | 0.001 | 0.000 | 0.001 | |
mixglasso | 10.439 | 0.143 | 10.585 | |
plot_2networks | 0.036 | 0.000 | 0.037 | |
scatter_plot | 1.155 | 0.028 | 1.183 | |
screen_aic.glasso | 1.295 | 0.000 | 1.295 | |
screen_bic.glasso | 1.329 | 0.000 | 1.330 | |
screen_cv.glasso | 2.093 | 0.000 | 2.093 | |
screen_cv1se.lasso | 0.109 | 0.000 | 0.108 | |
screen_cvfix.lasso | 0.112 | 0.000 | 0.113 | |
screen_cvmin.lasso | 0.126 | 0.000 | 0.126 | |
screen_cvsqrt.lasso | 0.119 | 0.000 | 0.118 | |
screen_cvtrunc.lasso | 0.124 | 0.000 | 0.124 | |
sim_mix | 0.000 | 0.007 | 0.007 | |
sim_mix_networks | 0.006 | 0.000 | 0.006 | |