Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:08:45 -0400 (Thu, 12 Apr 2018).
Package 169/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
BUS 1.34.0 Yuanhua Liu
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | ![]() | ||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | ![]() | ||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | ![]() |
Package: BUS |
Version: 1.34.0 |
Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings BUS_1.34.0.tar.gz |
StartedAt: 2018-04-11 21:56:52 -0400 (Wed, 11 Apr 2018) |
EndedAt: 2018-04-11 21:57:14 -0400 (Wed, 11 Apr 2018) |
EllapsedTime: 22.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BUS.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings BUS_1.34.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/BUS.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BUS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BUS’ version ‘1.34.0’ * 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 ‘BUS’ 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 loading without being on the library search path ... OK * checking dependencies in R code ... NOTE Package in Depends field not imported from: ‘minet’ 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 ... NOTE Call with DUP: .Call("MINempirical", mat, nat, N, n1, n2, DUP = FALSE) DUP is no longer supported and will be ignored. * checking R code for possible problems ... NOTE gene.pvalue : fi: warning in matrix(1:nrow(EXP), nc = 1): partial argument match of 'nc' to 'ncol' gene.pvalue: warning in matrix(1:nrow(EXP), nc = 1): partial argument match of 'nc' to 'ncol' gene.pvalue : fi: warning in matrix(1:ncol(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.pvalue: warning in matrix(1:nrow(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.pvalue : fi1: warning in matrix(1:ncol(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue: warning in matrix(0, nr = nrow(EXP), nc = nrow(trait)): partial argument match of 'nr' to 'nrow' gene.trait.pvalue: warning in matrix(0, nr = nrow(EXP), nc = nrow(trait)): partial argument match of 'nc' to 'ncol' gene.trait.pvalue : fi: warning in matrix(1:nrow(trait), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue: warning in matrix(1:nrow(EXP), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue : fi: warning in matrix(1:ncol(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue: warning in matrix(1:nrow(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue : fj: warning in matrix(1:nrow(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.trait.pvalue: warning in matrix(1:ncol(real), nc = 1): partial argument match of 'nc' to 'ncol' gene.pvalue: multiple local function definitions for ‘fi’ with different formal arguments gene.similarity : s.similarity: no visible global function definition for ‘build.mim’ gene.similarity : s.similarity: no visible global function definition for ‘mrnet’ gene.similarity : s.similarity: no visible global function definition for ‘aracne’ gene.similarity : s.similarity: no visible global function definition for ‘clr’ gene.trait.pvalue: multiple local function definitions for ‘fi’ with different formal arguments Undefined global functions or variables: aracne build.mim clr mrnet * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... 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 ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 3 NOTEs See ‘/home/biocbuild/bbs-3.6-bioc/meat/BUS.Rcheck/00check.log’ for details.
BUS.Rcheck/00install.out
* installing *source* package ‘BUS’ ... ** libs g++ -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c BUS.cpp -o BUS.o g++ -shared -L/home/biocbuild/bbs-3.6-bioc/R/lib -L/usr/local/lib -o BUS.so BUS.o -L/home/biocbuild/bbs-3.6-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.6-bioc/meat/BUS.Rcheck/BUS/libs ** R ** data ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (BUS)
BUS.Rcheck/BUS-Ex.timings
name | user | system | elapsed | |
BUS | 0.068 | 0.000 | 0.071 | |
gene.pvalue | 1.068 | 0.012 | 1.079 | |
gene.similarity | 0.000 | 0.000 | 0.003 | |
gene.trait.pvalue | 0.624 | 0.000 | 0.626 | |
gene.trait.similarity | 0.016 | 0.000 | 0.014 | |
pred.network | 0.684 | 0.000 | 0.685 | |
tumors.mRNA | 0.012 | 0.000 | 0.012 | |
tumors.miRNA | 0.000 | 0.000 | 0.002 | |