Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:14:49 -0400 (Wed, 15 Apr 2020).
Package 120/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
bayNorm 1.4.14 Wenhao Tang
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: bayNorm |
Version: 1.4.14 |
Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:bayNorm.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings bayNorm_1.4.14.tar.gz |
StartedAt: 2020-04-15 06:04:53 -0400 (Wed, 15 Apr 2020) |
EndedAt: 2020-04-15 06:07:40 -0400 (Wed, 15 Apr 2020) |
EllapsedTime: 167.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: bayNorm.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:bayNorm.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings bayNorm_1.4.14.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/bayNorm.Rcheck’ * using R version 3.6.3 (2020-02-29) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘bayNorm/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘bayNorm’ version ‘1.4.14’ * 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 ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘bayNorm’ 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 ... 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 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 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 ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.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: 1 NOTE See ‘/home/biocbuild/bbs-3.10-bioc/meat/bayNorm.Rcheck/00check.log’ for details.
bayNorm.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL bayNorm ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘bayNorm’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/RcppProgress/include" -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/RcppProgress/include" -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c bayNorm_main.cpp -o bayNorm_main.o bayNorm_main.cpp: In function ‘Rcpp::List EstPrior_sprcpp(arma::sp_mat)’: bayNorm_main.cpp:1374:7: warning: variable ‘Nrows’ set but not used [-Wunused-but-set-variable] int Nrows; ^~~~~ bayNorm_main.cpp: In function ‘Rcpp::List EstPrior_rcpp(Rcpp::NumericMatrix)’: bayNorm_main.cpp:1427:7: warning: variable ‘Nrows’ set but not used [-Wunused-but-set-variable] int Nrows; ^~~~~ g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.10-bioc/R/lib -L/usr/local/lib -o bayNorm.so RcppExports.o bayNorm_main.o -fopenmp -L/home/biocbuild/bbs-3.10-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.10-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.10-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-bayNorm/00new/bayNorm/libs ** 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 from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bayNorm)
bayNorm.Rcheck/tests/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (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. > library(testthat) > library(bayNorm) > > test_check("bayNorm") | | | 0% | |======= | 10% | |============== | 20% | |===================== | 30% | |============================ | 40% | |=================================== | 50% | |========================================== | 60% | |================================================= | 70% | |======================================================== | 80% | |=============================================================== | 90% | |======================================================================| 100% 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |======= | 10% | |============== | 20% | |===================== | 30% | |============================ | 40% | |=================================== | 50% | |========================================== | 60% | |================================================= | 70% | |======================================================== | 80% | |=============================================================== | 90% | |======================================================================| 100% 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |======= | 10% | |============== | 20% | |===================== | 30% | |============================ | 40% | |=================================== | 50% | |========================================== | 60% | |================================================= | 70% | |======================================================== | 80% | |=============================================================== | 90% | |======================================================================| 100% 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| ══ testthat results ═══════════════════════════════════════════════════════════ [ OK: 2 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 8.328 0.400 8.747
bayNorm.Rcheck/bayNorm-Ex.timings
name | user | system | elapsed | |
AdjustSIZE_fun | 0.004 | 0.000 | 0.008 | |
BB_Fun | 0.524 | 0.000 | 0.541 | |
BetaFun | 0.016 | 0.000 | 0.015 | |
Check_input | 0.008 | 0.000 | 0.009 | |
DownSampling | 0.004 | 0.000 | 0.002 | |
EXAMPLE_DATA_list | 0.000 | 0.000 | 0.002 | |
EstPrior | 0.000 | 0.000 | 0.003 | |
EstPrior_rcpp | 0.004 | 0.000 | 0.002 | |
EstPrior_sprcpp | 0.000 | 0.000 | 0.001 | |
NOISY_FUN | 0.116 | 0.004 | 0.123 | |
Prior_fun | 0.052 | 0.004 | 0.053 | |
SyntheticControl | 0.004 | 0.000 | 0.004 | |
asMatrix | 0.004 | 0.000 | 0.002 | |
as_matrix | 0.000 | 0.000 | 0.002 | |
bayNorm | 0.056 | 0.000 | 0.058 | |
bayNorm_sup | 0.056 | 0.004 | 0.061 | |
noisy_gene_detection | 0.076 | 0.012 | 0.087 | |
t_sp | 0.004 | 0.000 | 0.002 | |