Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:49 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the PrInCE package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PrInCE.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 1431/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
PrInCE 1.8.0 (landing page) Michael Skinnider
| 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: PrInCE |
Version: 1.8.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:PrInCE.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings PrInCE_1.8.0.tar.gz |
StartedAt: 2021-10-14 11:05:55 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 11:08:50 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 174.7 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: PrInCE.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:PrInCE.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings PrInCE_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/PrInCE.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 ‘PrInCE/DESCRIPTION’ ... OK * this is package ‘PrInCE’ version ‘1.8.0’ * 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 ... NOTE Found the following hidden files and directories: .lintr These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘PrInCE’ 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 ... OK * checking R code for possible problems ... NOTE calculate_features: no visible global function definition for ‘quantile’ Undefined global functions or variables: quantile Consider adding importFrom("stats", "quantile") to your NAMESPACE file. * 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 ... WARNING Undocumented arguments in documentation object 'calculate_autocorrelation' ‘min_replicates’ Undocumented arguments in documentation object 'calculate_features' ‘n_pairs’ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * 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 calculate_precision 5.067 0.06 5.126 * 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/PrInCE.Rcheck/00check.log’ for details.
PrInCE.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL PrInCE ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘PrInCE’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help Loading required namespace: PrInCE Registered S3 method overwritten by 'quantmod': method from as.zoo.data.frame zoo *** 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 (PrInCE)
PrInCE.Rcheck/PrInCE-Ex.timings
name | user | system | elapsed | |
PrInCE | 4.460 | 0.112 | 4.573 | |
adjacency_matrix_from_data_frame | 0.001 | 0.000 | 0.001 | |
adjacency_matrix_from_list | 0.656 | 0.011 | 0.667 | |
build_gaussians | 0.424 | 0.016 | 0.440 | |
calculate_precision | 5.067 | 0.060 | 5.126 | |
check_gaussians | 0.103 | 0.001 | 0.102 | |
choose_gaussians | 0.162 | 0.004 | 0.166 | |
clean_profile | 0.043 | 0.000 | 0.043 | |
clean_profiles | 0.044 | 0.000 | 0.044 | |
co_apex | 0.103 | 0.000 | 0.102 | |
detect_complexes | 0.105 | 0.000 | 0.105 | |
filter_profiles | 0.243 | 0.003 | 0.247 | |
fit_curve | 0.141 | 0.001 | 0.141 | |
fit_gaussians | 0.126 | 0.000 | 0.127 | |
impute_neighbors | 0.044 | 0.000 | 0.044 | |
is_unweighted | 1.190 | 0.007 | 1.198 | |
is_weighted | 0.658 | 0.003 | 0.663 | |
make_initial_conditions | 0.050 | 0.008 | 0.058 | |
make_labels | 0.647 | 0.004 | 0.651 | |
match_matrix_dimensions | 0.950 | 0.008 | 0.958 | |
predict_ensemble | 4.230 | 0.036 | 4.267 | |
predict_interactions | 4.681 | 0.047 | 4.729 | |
threshold_precision | 3.943 | 0.024 | 3.967 | |