Hector Corrada Bravo
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/metavizr |
| Branch: RELEASE_3_6 |
| Last Commit: d33281a |
| Last Changed Date: 2018-02-06 06:04:12 -0400 (Tue, 06 Feb 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:29:47 -0400 (Thu, 12 Apr 2018).
| Package 829/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| metavizr 1.2.1 Hector Corrada Bravo
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: metavizr |
| Version: 1.2.1 |
| Command: rm -rf metavizr.buildbin-libdir metavizr.Rcheck && mkdir metavizr.buildbin-libdir metavizr.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=metavizr.buildbin-libdir metavizr_1.2.1.tar.gz >metavizr.Rcheck\00install.out 2>&1 && cp metavizr.Rcheck\00install.out metavizr-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=metavizr.buildbin-libdir --install="check:metavizr-install.out" --force-multiarch --no-vignettes --timings metavizr_1.2.1.tar.gz |
| StartedAt: 2018-04-12 01:18:24 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 01:31:53 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 808.4 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: metavizr.Rcheck |
| Warnings: 1 |
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###
### Running command:
###
### rm -rf metavizr.buildbin-libdir metavizr.Rcheck && mkdir metavizr.buildbin-libdir metavizr.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=metavizr.buildbin-libdir metavizr_1.2.1.tar.gz >metavizr.Rcheck\00install.out 2>&1 && cp metavizr.Rcheck\00install.out metavizr-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=metavizr.buildbin-libdir --install="check:metavizr-install.out" --force-multiarch --no-vignettes --timings metavizr_1.2.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/metavizr.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'metavizr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'metavizr' version '1.2.1'
* 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 'metavizr' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:5: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:21: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:18: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:30: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetavizStandalone.Rd:5: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetavizStandalone.Rd:22: missing file link 'MetavizApp'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/metavizr.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
** checking loading without being on the library search path ... 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 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
EpivizMetagenomicsData-class 17.47 0.36 17.85
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
EpivizMetagenomicsData-class 17.95 0.11 18.07
* 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-3.6-bioc/meat/metavizr.Rcheck/00check.log'
for details.
metavizr.Rcheck/00install.out
install for i386
* installing *source* package 'metavizr' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'metavizr'
finding HTML links ... done
EpivizMetagenomicsData-class html
MetavizApp-class html
MetavizGraph-class html
buildMetavizGraph html
generateSelection html
metavizControl html
register-MRexperiment-method html
register-phyloseq-method html
finding level-2 HTML links ... done
replaceNAFeatures html
setMetavizStandalone html
startMetaviz html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:5: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:21: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:18: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetaviz.Rd:30: missing file link 'MetavizApp'
startMetavizStandalone html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetavizStandalone.Rd:5: missing file link 'MetavizApp'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpCwazJN/R.INSTALL20787f4c304a/metavizr/man/startMetavizStandalone.Rd:22: missing file link 'MetavizApp'
validateObject html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'metavizr' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'metavizr' as metavizr_1.2.1.zip
* DONE (metavizr)
In R CMD INSTALL
In R CMD INSTALL
|
metavizr.Rcheck/tests_i386/testthat.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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(metavizr)
Loading required package: metagenomeSeq
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: limma
Attaching package: 'limma'
The following object is masked from 'package:BiocGenerics':
plotMA
Loading required package: glmnet
Loading required package: Matrix
Loading required package: foreach
Loaded glmnet 2.0-16
Loading required package: RColorBrewer
Loading required package: data.table
Loading required package: digest
>
> test_check("metavizr")
== testthat results ===========================================================
OK: 18 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
167.81 3.93 172.01
|
metavizr.Rcheck/tests_x64/testthat.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-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(metavizr)
Loading required package: metagenomeSeq
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: limma
Attaching package: 'limma'
The following object is masked from 'package:BiocGenerics':
plotMA
Loading required package: glmnet
Loading required package: Matrix
Loading required package: foreach
Loaded glmnet 2.0-16
Loading required package: RColorBrewer
Loading required package: data.table
Loading required package: digest
>
> test_check("metavizr")
== testthat results ===========================================================
OK: 18 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
208.79 3.51 212.21
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metavizr.Rcheck/examples_i386/metavizr-Ex.timings
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metavizr.Rcheck/examples_x64/metavizr-Ex.timings
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