Robert Castelo
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/GenomicScores |
| Branch: RELEASE_3_8 |
| Last Commit: 6644e90 |
| Last Changed Date: 2018-10-30 11:42:04 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:27:45 -0400 (Sat, 13 Apr 2019).
| Package 629/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| GenomicScores 1.6.0 Robert Castelo
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | ERROR | skipped | skipped |
| Package: GenomicScores |
| Version: 1.6.0 |
| Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GenomicScores.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings GenomicScores_1.6.0.tar.gz |
| StartedAt: 2019-04-13 02:33:18 -0400 (Sat, 13 Apr 2019) |
| EndedAt: 2019-04-13 02:42:03 -0400 (Sat, 13 Apr 2019) |
| EllapsedTime: 525.2 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: GenomicScores.Rcheck |
| Warnings: 1 |
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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:GenomicScores.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings GenomicScores_1.6.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/GenomicScores.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 'GenomicScores/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GenomicScores' version '1.6.0'
* package encoding: UTF-8
* 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'
OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
inst/gscores-template/inst/extdata/.gitkeep
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'GenomicScores' 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 ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in documentation object 'GScores-class.Rd':
'phastCons100way.UCSC.hg19'
Missing link or links in documentation object 'gscores.Rd':
'phastCons100way.UCSC.hg19' 'MafDb.1Kgenomes.phase1.hs37d5'
See section 'Cross-references' in the 'Writing R Extensions' manual.
* 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
gscores 16.46 2.97 38.69
GScores-class 6.08 0.70 56.89
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
gscores 16.34 3.57 21.97
GScores-class 6.00 0.39 30.66
* 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-3.8-bioc/meat/GenomicScores.Rcheck/00check.log'
for details.
GenomicScores.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/GenomicScores_1.6.0.tar.gz && rm -rf GenomicScores.buildbin-libdir && mkdir GenomicScores.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomicScores.buildbin-libdir GenomicScores_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL GenomicScores_1.6.0.zip && rm GenomicScores_1.6.0.tar.gz GenomicScores_1.6.0.zip
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install for i386
* installing *source* package 'GenomicScores' ...
** R
** inst
** byte-compile and prepare package for lazy loading
in method for 'score' with signature '"MafDb"': no definition for class "MafDb"
** help
*** installing help indices
converting help for package 'GenomicScores'
finding HTML links ... done
GScores-class html
finding level-2 HTML links ... done
GenomicScores-defunct html
GenomicScores-deprecated html
MafDb-class html
gscores html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'GenomicScores' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GenomicScores' as GenomicScores_1.6.0.zip
* DONE (GenomicScores)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'GenomicScores' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
GenomicScores.Rcheck/examples_i386/GenomicScores-Ex.timings
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GenomicScores.Rcheck/examples_x64/GenomicScores-Ex.timings
|