Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-16 11:48:27 -0400 (Tue, 16 Apr 2019).
Package 119/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
bgafun 1.44.0 Iain Wallace
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: bgafun |
Version: 1.44.0 |
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:bgafun.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings bgafun_1.44.0.tar.gz |
StartedAt: 2019-04-15 22:25:28 -0400 (Mon, 15 Apr 2019) |
EndedAt: 2019-04-15 22:26:10 -0400 (Mon, 15 Apr 2019) |
EllapsedTime: 42.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: bgafun.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:bgafun.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings bgafun_1.44.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/bgafun.Rcheck’ * using R version 3.5.3 (2019-03-11) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘bgafun/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘bgafun’ version ‘1.44.0’ * 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 ‘bgafun’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Description field: should contain one or more complete sentences. * 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 ... NOTE Packages in Depends field not imported from: ‘ade4’ ‘made4’ ‘seqinr’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE run_between_pca: no visible global function definition for ‘dudi.pca’ run_between_pca: no visible global function definition for ‘bca’ Undefined global functions or variables: bca dudi.pca * 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed add_pseudo_counts 10.572 0 10.591 * 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 ‘/home/biocbuild/bbs-3.8-bioc/meat/bgafun.Rcheck/00check.log’ for details.
bgafun.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL bgafun ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’ * installing *source* package ‘bgafun’ ... ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (bgafun)
bgafun.Rcheck/bgafun-Ex.timings
name | user | system | elapsed | |
Calculate_Row_Weights | 0.120 | 0.012 | 0.133 | |
add_pseudo_counts | 10.572 | 0.000 | 10.591 | |
average_cols_aap | 0.636 | 0.000 | 0.638 | |
bgafun | 2.476 | 0.012 | 2.490 | |
convert_aln_AAP | 0.612 | 0.000 | 0.615 | |
convert_aln_amino | 0.300 | 0.000 | 0.305 | |
create_profile_strings | 2.424 | 0.000 | 2.423 | |
remove_gaps_groups | 0.444 | 0.000 | 0.444 | |
run_between_pca | 0.560 | 0.000 | 0.561 | |
top_residues_2_groups | 2.328 | 0.000 | 2.329 | |