Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:42:53 -0400 (Thu, 12 Apr 2018).
Package 638/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
Harman 1.6.0 Jason Ross
| 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: Harman |
Version: 1.6.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings Harman_1.6.0.tar.gz |
StartedAt: 2018-04-12 04:58:40 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 05:00:04 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 83.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: Harman.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings Harman_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/Harman.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 ‘Harman/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘Harman’ version ‘1.6.0’ * 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 ‘Harman’ 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 ... OK * 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 line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... 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 ‘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: OK
Harman.Rcheck/00install.out
* installing *source* package ‘Harman’ ... ** libs clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -D_ARRAYALIGNEMT=4 -D_USE_RCPP=1 -I"/Library/Frameworks/R.framework/Versions/3.4/Resources/library/Rcpp/include" -I/usr/local/include `/Library/Frameworks/R.framework/Resources/bin/Rscript -e "Rcpp:::CxxFlags()"` -I. -fPIC -Wall -g -O2 -c Harman.cpp -o Harman.o In file included from Harman.cpp:182: ./CSelectRandom.h:392:11: warning: unused variable 'currindex' [-Wunused-variable] size_t currindex ; ^ ./CSelectRandom.h:639:11: warning: unused variable 'time1' [-Wunused-variable] double time1, time2 ; ^ ./CSelectRandom.h:639:18: warning: unused variable 'time2' [-Wunused-variable] double time1, time2 ; ^ ./CSelectRandom.h:638:25: warning: unused variable 'ts2' [-Wunused-variable] struct timespec ts1, ts2 ; ^ ./CSelectRandom.h:638:20: warning: unused variable 'ts1' [-Wunused-variable] struct timespec ts1, ts2 ; ^ ./CSelectRandom.h:1019:23: warning: unused variable 'randData2' [-Wunused-variable] size_t randData1, randData2 ; ^ 6 warnings generated. 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 Harman.so Harman.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.6-bioc/meat/Harman.Rcheck/Harman/libs ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (Harman)
Harman.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("Harman") RUNIT TEST PROTOCOL -- Thu Apr 12 04:59:59 2018 *********************************************** Number of test functions: 10 Number of errors: 0 Number of failures: 0 1 Test Suite : Harman RUnit Tests - 10 test functions, 0 errors, 0 failures Number of test functions: 10 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 34.122 0.764 35.583
Harman.Rcheck/Harman-Ex.timings
name | user | system | elapsed | |
arrowPlot | 0.775 | 0.039 | 0.828 | |
harman | 1.162 | 0.033 | 1.218 | |
harmanresults | 0.789 | 0.028 | 0.825 | |
pcaPlot | 0.610 | 0.037 | 0.665 | |
plot.harmanresults | 0.563 | 0.025 | 0.594 | |
prcompPlot | 0.309 | 0.032 | 0.351 | |
reconstructData | 0.694 | 0.041 | 0.738 | |
shiftBetas | 0.003 | 0.001 | 0.002 | |
summary.harmanresults | 0.677 | 0.030 | 0.715 | |