gwascat 1.3.1
VJ Carey
| Snapshot Date: 2012-12-17 17:02:33 -0800 (Mon, 17 Dec 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gwascat | | Last Changed Rev: 70319 / Revision: 72011 | | Last Changed Date: 2012-10-08 17:18:55 -0700 (Mon, 08 Oct 2012) |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | OK | [ WARNINGS ] | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | WARNINGS | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | WARNINGS | |
* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/gwascat.Rcheck’
* using R Under development (unstable) (2012-10-31 r61060)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘gwascat/DESCRIPTION’ ... OK
* this is package ‘gwascat’ version ‘1.3.1’
* 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 whether package ‘gwascat’ can be installed ... WARNING
Found the following significant warnings:
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
See ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/gwascat.Rcheck/00install.out’ for details.
* checking installed package size ... NOTE
installed size is 23.7Mb
sub-directories of 1Mb or more:
data 20.4Mb
obo 1.3Mb
tab 1.1Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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 for unstated 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
chklocs: no visible global function definition for ‘getSNPlocs’
snpGenos: no visible global function definition for ‘getSNPlocs’
traitsManh: no visible binding for global variable ‘Pvalue_mlog’
traitsManh: no visible binding for global variable ‘Trait’
* 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 examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
riskyAlleleCount 18.825 0.136 18.965
gwcex2gviz 12.657 0.204 13.115
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
‘/loc/home/biocbuild/bbs-2.12-bioc/meat/gwascat.Rcheck/00check.log’
for details.
* installing *source* package ‘gwascat’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
** help
*** installing help indices
** building package indices
** installing vignettes
‘gwascat.Rnw’
** testing if installed package can be loaded
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘duplicated’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘sort’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
Warning: found an S4 version of ‘unique’ so it has not been imported correctly
NOTE: input data had non-ASCII characters replaced by '*'.
* DONE (gwascat)