Eitan Halper-Stromberg
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/ArrayTV |
| Branch: RELEASE_3_6 |
| Last Commit: 44900ce |
| Last Changed Date: 2017-10-30 12:40:07 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:23:17 -0400 (Thu, 12 Apr 2018).
| Package 70/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ArrayTV 1.16.0 Eitan Halper-Stromberg
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: ArrayTV |
| Version: 1.16.0 |
| Command: rm -rf ArrayTV.buildbin-libdir ArrayTV.Rcheck && mkdir ArrayTV.buildbin-libdir ArrayTV.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ArrayTV.buildbin-libdir ArrayTV_1.16.0.tar.gz >ArrayTV.Rcheck\00install.out 2>&1 && cp ArrayTV.Rcheck\00install.out ArrayTV-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ArrayTV.buildbin-libdir --install="check:ArrayTV-install.out" --force-multiarch --no-vignettes --timings ArrayTV_1.16.0.tar.gz |
| StartedAt: 2018-04-11 22:16:12 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 22:20:19 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 247.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ArrayTV.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### rm -rf ArrayTV.buildbin-libdir ArrayTV.Rcheck && mkdir ArrayTV.buildbin-libdir ArrayTV.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ArrayTV.buildbin-libdir ArrayTV_1.16.0.tar.gz >ArrayTV.Rcheck\00install.out 2>&1 && cp ArrayTV.Rcheck\00install.out ArrayTV-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ArrayTV.buildbin-libdir --install="check:ArrayTV-install.out" --force-multiarch --no-vignettes --timings ArrayTV_1.16.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ArrayTV.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 'ArrayTV/DESCRIPTION' ... OK
* this is package 'ArrayTV' version '1.16.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'doMC'
* 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 'ArrayTV' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 ... NOTE
.rescaleGC: no visible global function definition for 'mad'
CorrectM: no visible global function definition for 'mad'
CorrectM: no visible binding for global variable 'mad'
CorrectM: no visible global function definition for 'GRanges'
CorrectM: no visible global function definition for 'IRanges'
CorrectM: no visible global function definition for 'acf'
CorrectM: no visible binding for global variable 'median'
calctvScore: no visible global function definition for 'quantile'
gcFracOneRange: no visible global function definition for
'letterFrequencyInSlidingView'
gcModel: no visible global function definition for 'rowData'
gcModel: no visible global function definition for
'letterFrequencyInSlidingView'
gcModelSeq: no visible global function definition for 'genome'
gcModelSeq: no visible global function definition for 'rowData'
gcModelSeq: no visible global function definition for
'letterFrequencyInSlidingView'
priorFracs: no visible global function definition for 'quantile'
priorFracsRestOfGenome: no visible global function definition for
'letterFrequencyInSlidingView'
priorFracsRestOfGenome: no visible global function definition for
'quantile'
Undefined global functions or variables:
GRanges IRanges acf genome letterFrequencyInSlidingView mad median
quantile rowData
Consider adding
importFrom("stats", "acf", "mad", "median", "quantile")
to your NAMESPACE file.
* 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
** 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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/ArrayTV.Rcheck/00check.log'
for details.
ArrayTV.Rcheck/00install.out
install for i386
* installing *source* package 'ArrayTV' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'ArrayTV'
finding HTML links ... done
ArrayTV-package html
gcCorrect-methods html
finding level-2 HTML links ... done
gcCorrectMain html
methods-computeGC html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'ArrayTV' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ArrayTV' as ArrayTV_1.16.0.zip
* DONE (ArrayTV)
In R CMD INSTALL
In R CMD INSTALL
|
ArrayTV.Rcheck/tests_i386/runTests.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.
> BiocGenerics:::testPackage("ArrayTV")
Loading required package: doParallel
Loading required package: foreach
Loading required package: iterators
Loading required package: parallel
Loading required package: BSgenome
Loading required package: BiocGenerics
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
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: Biostrings
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Loading required package: rtracklayer
RUNIT TEST PROTOCOL -- Wed Apr 11 22:19:44 2018
***********************************************
Number of test functions: 1
Number of errors: 0
Number of failures: 0
1 Test Suite :
ArrayTV RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
7.98 0.39 33.15
|
ArrayTV.Rcheck/tests_x64/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-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.
> BiocGenerics:::testPackage("ArrayTV")
Loading required package: doParallel
Loading required package: foreach
Loading required package: iterators
Loading required package: parallel
Loading required package: BSgenome
Loading required package: BiocGenerics
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
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: Biostrings
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
Loading required package: rtracklayer
RUNIT TEST PROTOCOL -- Wed Apr 11 22:20:15 2018
***********************************************
Number of test functions: 1
Number of errors: 0
Number of failures: 0
1 Test Suite :
ArrayTV RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
10.09 0.34 30.84
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ArrayTV.Rcheck/examples_i386/ArrayTV-Ex.timings
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ArrayTV.Rcheck/examples_x64/ArrayTV-Ex.timings
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