inSilicoDb 2.7.0
InSilico DB
| Snapshot Date: 2016-04-10 17:20:31 -0700 (Sun, 10 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/inSilicoDb | | Last Changed Rev: 109592 / Revision: 116093 | | Last Changed Date: 2015-10-13 12:59:53 -0700 (Tue, 13 Oct 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf inSilicoDb.buildbin-libdir inSilicoDb.Rcheck && mkdir inSilicoDb.buildbin-libdir inSilicoDb.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=inSilicoDb.buildbin-libdir inSilicoDb_2.7.0.tar.gz >inSilicoDb.Rcheck\00install.out 2>&1 && cp inSilicoDb.Rcheck\00install.out inSilicoDb-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=inSilicoDb.buildbin-libdir --install="check:inSilicoDb-install.out" --force-multiarch --no-vignettes --timings inSilicoDb_2.7.0.tar.gz
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* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/inSilicoDb.Rcheck'
* using R version 3.3.0 alpha (2016-03-28 r70390)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'inSilicoDb/DESCRIPTION' ... OK
* this is package 'inSilicoDb' version '2.7.0'
* 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 'inSilicoDb' 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:
'Biobase' 'RCurl' 'rjson'
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
checkBinary: no visible global function definition for 'fromJSON'
createPhenoFrame: no visible global function definition for 'new'
getInSilicoBinary: no visible global function definition for
'basicHeaderGatherer'
getInSilicoBinary: no visible global function definition for
'getCurlHandle'
getInSilicoBinary: no visible global function definition for
'getBinaryURL'
getInSilicoJSON: no visible global function definition for
'basicHeaderGatherer'
getInSilicoJSON: no visible global function definition for
'getCurlHandle'
getInSilicoJSON: no visible global function definition for 'postForm'
getInSilicoJSON: no visible global function definition for 'fromJSON'
writeInSilicoCache: no visible binding for global variable 'cache'
Undefined global functions or variables:
basicHeaderGatherer cache fromJSON getBinaryURL getCurlHandle new
postForm
Consider adding
importFrom("methods", "new")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [87s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
getDatasets 3.45 0.37 31.84
getDataset 0.79 0.01 11.53
getDatasetList 0.48 0.02 10.33
getDatasetPlatformList 0.45 0.03 11.64
getDatasetInfo 0.35 0.00 7.53
** running examples for arch 'x64' ... [73s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
getDatasets 4.48 0.35 21.13
getDataset 1.08 0.02 11.31
getDatasetList 0.62 0.00 10.31
getDatasetPlatformList 0.58 0.02 11.86
getDatasetInfo 0.40 0.00 6.93
* 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
'E:/biocbld/bbs-3.3-bioc/meat/inSilicoDb.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'inSilicoDb' ...
** R
** 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 'inSilicoDb' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'inSilicoDb' as inSilicoDb_2.7.0.zip
* DONE (inSilicoDb)