Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:39:49 -0400 (Thu, 12 Apr 2018).
Package 300/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
COSNet 1.12.0 Marco Frasca
| 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: COSNet |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings COSNet_1.12.0.tar.gz |
StartedAt: 2018-04-12 02:16:13 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 02:16:58 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 44.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: COSNet.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings COSNet_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/COSNet.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘COSNet/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘COSNet’ version ‘1.12.0’ * 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 ‘COSNet’ 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE File ‘COSNet/R/COSNet.R’: .onAttach calls: cat("COSNet: Cost-Sensitive algorithm for binary classification in graphs.\n") Package startup functions should use ‘packageStartupMessage’ to generate messages. See section ‘Good practice’ in '?.onAttach'. generate_labels: no visible global function definition for ‘runif’ Undefined global functions or variables: runif Consider adding importFrom("stats", "runif") 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 ... 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 File ‘COSNet/libs/COSNet.so’: Found ‘_rand’, possibly from ‘rand’ (C) Object: ‘COSNet.o’ Found ‘_srand’, possibly from ‘srand’ (C) Object: ‘COSNet.o’ Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs. See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed cosnet.cross.validation 20.39 1.349 22.065 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.6-bioc/meat/COSNet.Rcheck/00check.log’ for details.
COSNet.Rcheck/00install.out
* installing *source* package ‘COSNet’ ... ** libs clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c COSNet.c -o COSNet.o clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o COSNet.so COSNet.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.6-bioc/meat/COSNet.Rcheck/COSNet/libs ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded COSNet: Cost-Sensitive algorithm for binary classification in graphs. * DONE (COSNet)
COSNet.Rcheck/tests/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin15.6.0 (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. > BiocGenerics:::testPackage("COSNet") COSNet: Cost-Sensitive algorithm for binary classification in graphs. 0.482 RUNIT TEST PROTOCOL -- Thu Apr 12 02:16:54 2018 *********************************************** Number of test functions: 9 Number of errors: 0 Number of failures: 0 1 Test Suite : COSNet RUnit Tests - 9 test functions, 0 errors, 0 failures Number of test functions: 9 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 1.432 0.068 1.504
COSNet.Rcheck/COSNet-Ex.timings
name | user | system | elapsed | |
COSNet | 0.742 | 0.053 | 0.800 | |
cosnet.cross.validation | 20.390 | 1.349 | 22.065 | |
find.division.not.strat | 0.002 | 0.001 | 0.002 | |
find.division.strat | 0.001 | 0.000 | 0.001 | |
generate_labels | 0.002 | 0.000 | 0.001 | |
generate_points | 0.001 | 0.001 | 0.002 | |
optimize_pos_above | 0.508 | 0.054 | 0.564 | |
optimizep | 0.413 | 0.008 | 0.436 | |
reg_data | 0.553 | 0.075 | 0.640 | |
runSubnet | 0.527 | 0.046 | 0.578 | |