Nima Hejazi
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/biotmle |
| Branch: RELEASE_3_10 |
| Last Commit: d9a0a1f |
| Last Changed Date: 2019-10-29 16:41:28 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:28:21 -0400 (Wed, 15 Apr 2020).
| Package 179/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| biotmle 1.10.0 Nima Hejazi
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: biotmle |
| Version: 1.10.0 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:biotmle.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings biotmle_1.10.0.tar.gz |
| StartedAt: 2020-04-15 01:39:14 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 01:43:52 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 278.5 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biotmle.Rcheck |
| Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:biotmle.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings biotmle_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/biotmle.Rcheck' * using R version 3.6.3 (2020-02-29) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'biotmle/DESCRIPTION' ... OK * this is package 'biotmle' version '1.10.0' * 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 whether package 'biotmle' can be installed ... WARNING Found the following significant warnings: Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpKwbCGM/R.INSTALLfdc25b455bd/biotmle/man/biomarkertmle.Rd:44: file link 'BiocParallelParam' in package 'BiocParallel' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpKwbCGM/R.INSTALLfdc25b455bd/biotmle/man/biomarkertmle.Rd:46: file link 'DoparParam' in package 'BiocParallel' does not exist and so has been treated as a topic See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/biotmle.Rcheck/00install.out' for details. * 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 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 'testthat.R' OK ** running tests for arch 'x64' ... 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 WARNING See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/biotmle.Rcheck/00check.log' for details.
biotmle.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/biotmle_1.10.0.tar.gz && rm -rf biotmle.buildbin-libdir && mkdir biotmle.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=biotmle.buildbin-libdir biotmle_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL biotmle_1.10.0.zip && rm biotmle_1.10.0.tar.gz biotmle_1.10.0.zip
###
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install for i386
* installing *source* package 'biotmle' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'biotmle'
finding HTML links ... done
bioTMLE-class html
biomarkerTMLE_exposure html
biomarkertmle html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpKwbCGM/R.INSTALLfdc25b455bd/biotmle/man/biomarkertmle.Rd:44: file link 'BiocParallelParam' in package 'BiocParallel' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpKwbCGM/R.INSTALLfdc25b455bd/biotmle/man/biomarkertmle.Rd:46: file link 'DoparParam' in package 'BiocParallel' does not exist and so has been treated as a topic
data.frame_OR_EList-class html
eif html
heatmap_ic html
modtest_ic html
plot.bioTMLE html
rnaseq_ic html
toptable html
volcano_ic 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 'biotmle' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'biotmle' as biotmle_1.10.0.zip
* DONE (biotmle)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'biotmle' successfully unpacked and MD5 sums checked
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biotmle.Rcheck/tests_i386/testthat.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 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.
> library(testthat)
> library(biotmle)
biotmle v1.10.0: Targeted Learning with Moderated Statistics for Biomarker Discovery
>
> test_check("biotmle")
== testthat results ===========================================================
[ OK: 13 | SKIPPED: 0 | WARNINGS: 3 | FAILED: 0 ]
>
> proc.time()
user system elapsed
25.00 1.32 26.32
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biotmle.Rcheck/tests_x64/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-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.
> library(testthat)
> library(biotmle)
biotmle v1.10.0: Targeted Learning with Moderated Statistics for Biomarker Discovery
>
> test_check("biotmle")
== testthat results ===========================================================
[ OK: 13 | SKIPPED: 0 | WARNINGS: 3 | FAILED: 0 ]
>
> proc.time()
user system elapsed
22.76 0.89 23.64
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biotmle.Rcheck/examples_i386/biotmle-Ex.timings
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biotmle.Rcheck/examples_x64/biotmle-Ex.timings
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