Thomas Naake
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/MetNet |
| Branch: RELEASE_3_9 |
| Last Commit: c5f351b |
| Last Changed Date: 2019-05-02 11:54:13 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:42:10 -0400 (Wed, 16 Oct 2019).
| Package 989/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MetNet 1.2.0 Thomas Naake
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: MetNet |
| Version: 1.2.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MetNet.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings MetNet_1.2.0.tar.gz |
| StartedAt: 2019-10-16 05:10:42 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 05:14:54 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 251.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MetNet.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MetNet.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings MetNet_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/MetNet.Rcheck' * using R version 3.6.1 (2019-07-05) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'MetNet/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'MetNet' version '1.2.0' * 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 whether package 'MetNet' 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'runTests.R' OK ** running tests for arch 'x64' ... 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
MetNet.Rcheck/00install.out
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### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/MetNet_1.2.0.tar.gz && rm -rf MetNet.buildbin-libdir && mkdir MetNet.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MetNet.buildbin-libdir MetNet_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL MetNet_1.2.0.zip && rm MetNet_1.2.0.tar.gz MetNet_1.2.0.zip
###
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install for i386
* installing *source* package 'MetNet' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'MetNet'
finding HTML links ... done
MetNet-package html
addToList html
aracne html
bayes html
clr html
combineStructuralStatistical html
consensusAdjacency html
correlation html
createStatisticalAdjacency html
createStatisticalAdjacencyList html
createStructuralAdjacency html
lasso html
mat_test html
mat_test_z html
peaklist html
randomForest html
rtCorrection html
threeDotsCall html
x_test html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'MetNet' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MetNet' as MetNet_1.2.0.zip
* DONE (MetNet)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'MetNet' successfully unpacked and MD5 sums checked
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MetNet.Rcheck/tests_i386/runTests.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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.
> data("x_test", package = "MetNet")
> data("mat_test", package = "MetNet")
> library(stabs)
Loading required package: parallel
> library(rfPermute)
Loading required package: randomForest
randomForest 4.6-14
Type rfNews() to see new features/changes/bug fixes.
>
> BiocGenerics:::testPackage("MetNet")
Attaching package: 'MetNet'
The following object is masked from 'package:randomForest':
randomForest
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
RUNIT TEST PROTOCOL -- Wed Oct 16 05:14:16 2019
***********************************************
Number of test functions: 14
Number of errors: 0
Number of failures: 0
1 Test Suite :
MetNet RUnit Tests - 14 test functions, 0 errors, 0 failures
Number of test functions: 14
Number of errors: 0
Number of failures: 0
Warning messages:
1: In ppcor::pcor(t(x), method = method) :
The inverse of variance-covariance matrix is calculated using Moore-Penrose generalized matrix invers due to its determinant of zero.
2: In sqrt((n - 2 - gp)/(1 - pcor^2)) : NaNs produced
3: In ppcor::spcor(t(x), method = method) :
The inverse of variance-covariance matrix is calculated using Moore-Penrose generalized matrix invers due to its determinant of zero.
4: In sqrt((n - 2 - gp)/(1 - spcor^2)) : NaNs produced
5: In .aracne(mi, n, eps, 1) : NAs introduced by coercion
>
> proc.time()
user system elapsed
19.06 0.73 19.93
|
MetNet.Rcheck/tests_x64/runTests.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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.
> data("x_test", package = "MetNet")
> data("mat_test", package = "MetNet")
> library(stabs)
Loading required package: parallel
> library(rfPermute)
Loading required package: randomForest
randomForest 4.6-14
Type rfNews() to see new features/changes/bug fixes.
>
> BiocGenerics:::testPackage("MetNet")
Attaching package: 'MetNet'
The following object is masked from 'package:randomForest':
randomForest
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
[1] "clr finished."
[1] "aracne finished."
[1] "pearson finished."
[1] "spearman finished."
[1] "bayes finished."
RUNIT TEST PROTOCOL -- Wed Oct 16 05:14:40 2019
***********************************************
Number of test functions: 14
Number of errors: 0
Number of failures: 0
1 Test Suite :
MetNet RUnit Tests - 14 test functions, 0 errors, 0 failures
Number of test functions: 14
Number of errors: 0
Number of failures: 0
Warning messages:
1: In ppcor::pcor(t(x), method = method) :
The inverse of variance-covariance matrix is calculated using Moore-Penrose generalized matrix invers due to its determinant of zero.
2: In sqrt((n - 2 - gp)/(1 - pcor^2)) : NaNs produced
3: In ppcor::spcor(t(x), method = method) :
The inverse of variance-covariance matrix is calculated using Moore-Penrose generalized matrix invers due to its determinant of zero.
4: In sqrt((n - 2 - gp)/(1 - spcor^2)) : NaNs produced
5: In .aracne(mi, n, eps, 1) : NAs introduced by coercion
>
> proc.time()
user system elapsed
23.34 0.57 23.84
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MetNet.Rcheck/examples_i386/MetNet-Ex.timings
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MetNet.Rcheck/examples_x64/MetNet-Ex.timings
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