msmsTests 1.7.0
Josep Gregori i Font
| Snapshot Date: 2015-08-19 16:24:33 -0700 (Wed, 19 Aug 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/msmsTests | | Last Changed Rev: 102594 / Revision: 107602 | | Last Changed Date: 2015-04-16 13:02:44 -0700 (Thu, 16 Apr 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] | OK | |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf msmsTests.buildbin-libdir msmsTests.Rcheck && mkdir msmsTests.buildbin-libdir msmsTests.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=msmsTests.buildbin-libdir msmsTests_1.7.0.tar.gz >msmsTests.Rcheck\00install.out 2>&1 && cp msmsTests.Rcheck\00install.out msmsTests-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=msmsTests.buildbin-libdir --install="check:msmsTests-install.out" --force-multiarch --no-vignettes --timings msmsTests_1.7.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/msmsTests.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'msmsTests/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'msmsTests' version '1.7.0'
* 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 'msmsTests' 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 ... NOTE
Packages in Depends field not imported from:
'MSnbase' 'msmsEDA'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
msms.edgeR: no visible global function definition for 'exprs'
msms.edgeR: no visible global function definition for 'pData'
msms.glm.pois: no visible global function definition for 'exprs'
msms.glm.pois: no visible global function definition for 'pData'
msms.glm.qlll: no visible global function definition for 'exprs'
msms.glm.qlll: no visible global function definition for 'pData'
test.results: no visible global function definition for 'exprs'
* 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' ... [57s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
res.volcanoplot 10.92 0.00 10.92
test.results 10.05 0.00 10.05
msms.glm.pois 9.70 0.00 9.72
msms.glm.qlll 9.63 0.00 9.62
pval.by.fc 8.27 0.03 8.31
** running examples for arch 'x64' ... [71s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
res.volcanoplot 13.55 0.00 13.54
msms.glm.qlll 13.00 0.00 12.99
test.results 12.81 0.00 12.81
msms.glm.pois 11.25 0.00 11.25
pval.by.fc 10.43 0.01 10.45
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'xtable'
* 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: 3 NOTEs
See
'D:/biocbld/bbs-3.2-bioc/meat/msmsTests.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'msmsTests' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'msmsTests' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'msmsTests' as msmsTests_1.7.0.zip
* DONE (msmsTests)