Jia Meng
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/Guitar |
| Branch: RELEASE_3_8 |
| Last Commit: a8093ea |
| Last Changed Date: 2019-01-04 13:35:27 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:25:56 -0400 (Sat, 13 Apr 2019).
| Package 700/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Guitar 1.20.1 Jia Meng
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: Guitar |
| Version: 1.20.1 |
| Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Guitar.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings Guitar_1.20.1.tar.gz |
| StartedAt: 2019-04-13 02:57:10 -0400 (Sat, 13 Apr 2019) |
| EndedAt: 2019-04-13 03:03:47 -0400 (Sat, 13 Apr 2019) |
| EllapsedTime: 397.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Guitar.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Guitar.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings Guitar_1.20.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/Guitar.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Guitar/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Guitar' version '1.20.1'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
NOTE
Depends: includes the non-default packages:
'Rsamtools' 'GenomicFeatures' 'rtracklayer' 'GenomicAlignments'
'GenomicRanges' 'ggplot2' 'grid' 'IRanges'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'Guitar' 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 ... NOTE
.makeFigure_fill: no visible global function definition for 'pdf'
.makeFigure_fill: no visible global function definition for 'dev.off'
.makeFigure_nofill: no visible global function definition for 'pdf'
.makeFigure_nofill: no visible global function definition for 'dev.off'
BED12toGRangesList: no visible global function definition for
'read.table'
BED12toGRangesList: no visible global function definition for 'head'
narrowPeaktoGRanges: no visible global function definition for
'read.table'
Undefined global functions or variables:
dev.off head pdf read.table
Consider adding
importFrom("grDevices", "dev.off", "pdf")
importFrom("utils", "head", "read.table")
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
combinedGuitarPlot 14.88 0.28 15.15
GuitarPlot 11.62 0.42 12.05
Guitar-package 11.57 0.13 14.20
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
combinedGuitarPlot 16.50 0.01 16.52
GuitarPlot 14.05 0.00 14.05
Guitar-package 12.80 0.07 12.86
* 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.8-bioc/meat/Guitar.Rcheck/00check.log'
for details.
Guitar.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/Guitar_1.20.1.tar.gz && rm -rf Guitar.buildbin-libdir && mkdir Guitar.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Guitar.buildbin-libdir Guitar_1.20.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL Guitar_1.20.1.zip && rm Guitar_1.20.1.tar.gz Guitar_1.20.1.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
13 2310k 13 320k 0 0 7962k 0 --:--:-- --:--:-- --:--:-- 8648k
100 2310k 100 2310k 0 0 27.1M 0 --:--:-- --:--:-- --:--:-- 28.2M
install for i386
* installing *source* package 'Guitar' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'Guitar'
finding HTML links ... done
BED12toGRangesList html
Guitar-package html
GuitarPlot html
combinedGuitarPlot html
getNeighborhood html
makeGuitarCoordsFromGRangesList html
makeGuitarCoordsFromTxDb html
narrowPeaktoGRanges html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'Guitar' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Guitar' as Guitar_1.20.1.zip
* DONE (Guitar)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'Guitar' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
Guitar.Rcheck/examples_i386/Guitar-Ex.timings
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Guitar.Rcheck/examples_x64/Guitar-Ex.timings
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