Christian M Page
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/DMRScan |
| Branch: RELEASE_3_6 |
| Last Commit: 31fa6dd |
| Last Changed Date: 2017-12-21 06:38:03 -0400 (Thu, 21 Dec 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:29:15 -0400 (Thu, 12 Apr 2018).
| Package 378/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DMRScan 1.4.6 Christian M Page
| 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: DMRScan |
| Version: 1.4.6 |
| Command: rm -rf DMRScan.buildbin-libdir DMRScan.Rcheck && mkdir DMRScan.buildbin-libdir DMRScan.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DMRScan.buildbin-libdir DMRScan_1.4.6.tar.gz >DMRScan.Rcheck\00install.out 2>&1 && cp DMRScan.Rcheck\00install.out DMRScan-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=DMRScan.buildbin-libdir --install="check:DMRScan-install.out" --force-multiarch --no-vignettes --timings DMRScan_1.4.6.tar.gz |
| StartedAt: 2018-04-11 23:34:22 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 23:42:44 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 501.6 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: DMRScan.Rcheck |
| Warnings: 1 |
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###
### Running command:
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### rm -rf DMRScan.buildbin-libdir DMRScan.Rcheck && mkdir DMRScan.buildbin-libdir DMRScan.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DMRScan.buildbin-libdir DMRScan_1.4.6.tar.gz >DMRScan.Rcheck\00install.out 2>&1 && cp DMRScan.Rcheck\00install.out DMRScan-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=DMRScan.buildbin-libdir --install="check:DMRScan-install.out" --force-multiarch --no-vignettes --timings DMRScan_1.4.6.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/DMRScan.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 'DMRScan/DESCRIPTION' ... OK
* this is package 'DMRScan' version '1.4.6'
* 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 'DMRScan' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/DMRScan_slidingWindow.Rd:12: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/DMRScan_slidingWindow.Rd:32: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/as.GRanges.Rd:20: missing file link 'GRanges'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/DMRScan.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 5.4Mb
sub-directories of 1Mb or more:
data 4.9Mb
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
DMRScan_slidingWindow 59.38 0.17 59.55
makeCpGregions 52.72 0.03 52.75
makeCpGgenes 51.75 0.04 51.80
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
DMRScan_slidingWindow 69.12 0.14 69.27
makeCpGregions 56.39 0.07 56.46
makeCpGgenes 52.63 0.04 52.67
* 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, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/DMRScan.Rcheck/00check.log'
for details.
DMRScan.Rcheck/00install.out
install for i386
* installing *source* package 'DMRScan' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'DMRScan'
finding HTML links ... done
DMRScan.methylationData html
DMRScan.phenotypes html
DMRScan_slidingWindow html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/DMRScan_slidingWindow.Rd:12: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/DMRScan_slidingWindow.Rd:32: missing file link 'GRanges'
Region-class html
Region-class_init html
RegionList-class html
RegionList-class_init html
Rt-methods html
St-methods html
as.GRanges html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpycpBlE/R.INSTALLf684d94d3f/DMRScan/man/as.GRanges.Rd:20: missing file link 'GRanges'
estimateThreshold html
getRegions html
head html
index html
index_list html
length html
makeCpGgenes html
makeCpGregions html
nCpG html
names html
pVal html
pos html
print html
range html
setRegion html
show html
sort html
tVal html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'DMRScan' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DMRScan' as DMRScan_1.4.6.zip
* DONE (DMRScan)
In R CMD INSTALL
In R CMD INSTALL
|
DMRScan.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(DMRScan)
>
> test_check("DMRScan")
== testthat results ===========================================================
OK: 1 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
3.40 0.15 3.56
|
DMRScan.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(DMRScan)
>
> test_check("DMRScan")
== testthat results ===========================================================
OK: 1 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
4.20 0.15 4.35
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DMRScan.Rcheck/examples_i386/DMRScan-Ex.timings
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DMRScan.Rcheck/examples_x64/DMRScan-Ex.timings
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