Simon G. Coetzee
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/FunciSNP |
| Branch: RELEASE_3_7 |
| Last Commit: 5b0453b |
| Last Changed Date: 2018-04-30 10:35:25 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:36:20 -0400 (Wed, 17 Oct 2018).
| Package 533/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| FunciSNP 1.24.0 Simon G. Coetzee
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: FunciSNP |
| Version: 1.24.0 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FunciSNP.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings FunciSNP_1.24.0.tar.gz |
| StartedAt: 2018-10-17 02:05:09 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 02:11:55 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 405.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: FunciSNP.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FunciSNP.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings FunciSNP_1.24.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/FunciSNP.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'FunciSNP/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'FunciSNP' version '1.24.0'
* 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 'FunciSNP' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
'ggplot2'
A package should be listed in only one of these fields.
* 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
AnnotateSummary: no visible global function definition for 'data'
AnnotateSummary: no visible binding for global variable
'TSS.human.GRCh37'
AnnotateSummary: no visible binding for global variable 'lincRNA'
AnnotateSummary: no visible binding for global variable 'refseqgenes'
ChiSquaredPvalue : <anonymous>: no visible global function definition
for 'fisher.test'
ChiSquaredPvalue: no visible global function definition for 'p.adjust'
CreateCorrelatedSNPs: no visible global function definition for
'timestamp'
CreatePopulations: no visible global function definition for
'read.delim'
FunciSNPbed: no visible global function definition for 'write.table'
FunciSNPplot: no visible binding for global variable 'R.squared'
FunciSNPplot: no visible global function definition for 'pdf'
FunciSNPplot: no visible global function definition for 'plot'
FunciSNPplot: no visible global function definition for 'abline'
FunciSNPplot: no visible global function definition for 'text'
FunciSNPplot: no visible global function definition for 'dev.off'
FunciSNPplot: no visible binding for global variable 'r.2'
FunciSNPplot: no visible binding for global variable
'distance.from.tag'
FunciSNPplot: no visible global function definition for 'as.dendrogram'
FunciSNPplot: no visible global function definition for 'hclust'
FunciSNPplot: no visible global function definition for 'dist'
FunciSNPplot: no visible global function definition for
'order.dendrogram'
FunciSNPplot: no visible binding for global variable 'sig'
FunciSNPplot: no visible binding for global variable 'variable'
FunciSNPplot: no visible binding for global variable 'value'
ReadRegionsFile: no visible global function definition for 'read.table'
bedColors: no visible global function definition for 'colorRampPalette'
bedColors: no visible global function definition for 'col2rgb'
bedColors: no visible global function definition for 'png'
bedColors: no visible global function definition for 'box'
bedColors: no visible global function definition for 'par'
bedColors: no visible global function definition for 'axis'
bedColors: no visible global function definition for 'dev.off'
Undefined global functions or variables:
R.squared TSS.human.GRCh37 abline as.dendrogram axis box col2rgb
colorRampPalette data dev.off dist distance.from.tag fisher.test
hclust lincRNA order.dendrogram p.adjust par pdf plot png r.2
read.delim read.table refseqgenes sig text timestamp value variable
write.table
Consider adding
importFrom("grDevices", "col2rgb", "colorRampPalette", "dev.off",
"pdf", "png")
importFrom("graphics", "abline", "axis", "box", "par", "plot", "text")
importFrom("stats", "as.dendrogram", "dist", "fisher.test", "hclust",
"order.dendrogram", "p.adjust")
importFrom("utils", "data", "read.delim", "read.table", "timestamp",
"write.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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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 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-3.7-bioc/meat/FunciSNP.Rcheck/00check.log'
for details.
FunciSNP.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/FunciSNP_1.24.0.tar.gz && rm -rf FunciSNP.buildbin-libdir && mkdir FunciSNP.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FunciSNP.buildbin-libdir FunciSNP_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL FunciSNP_1.24.0.zip && rm FunciSNP_1.24.0.tar.gz FunciSNP_1.24.0.zip
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install for i386
* installing *source* package 'FunciSNP' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'FunciSNP'
finding HTML links ... done
CorrelatedSNPs-class html
FunciSNP-package html
FunciSNPAnnotateSummary html
FunciSNPbed html
FunciSNPidsFromSummary html
FunciSNPplot html
FunciSNPsummaryOverlaps html
FunciSNPtable html
TSList-class html
TagSNP-class html
getFSNPs html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'FunciSNP' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FunciSNP' as FunciSNP_1.24.0.zip
* DONE (FunciSNP)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'FunciSNP' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
FunciSNP.Rcheck/examples_i386/FunciSNP-Ex.timings
|
FunciSNP.Rcheck/examples_x64/FunciSNP-Ex.timings
|