PSICQUIC 1.2.1
Paul Shannon
| Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/PSICQUIC | | Last Changed Rev: 92369 / Revision: 95116 | | Last Changed Date: 2014-07-10 09:16:47 -0700 (Thu, 10 Jul 2014) |
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ WARNINGS ] | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | WARNINGS | OK |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | WARNINGS | OK |
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### Running command:
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### rm -rf PSICQUIC.buildbin-libdir && mkdir PSICQUIC.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PSICQUIC.buildbin-libdir PSICQUIC_1.2.1.tar.gz >PSICQUIC-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=PSICQUIC.buildbin-libdir --install="check:PSICQUIC-install.out" --force-multiarch --no-vignettes --timings PSICQUIC_1.2.1.tar.gz
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* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/PSICQUIC.Rcheck'
* using R version 3.1.1 (2014-07-10)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PSICQUIC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PSICQUIC' version '1.2.1'
* 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 for portable file names ... OK
* checking whether package 'PSICQUIC' 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 ... NOTE
.translate.geneSymbol: no visible binding for global variable
'tbl.refseq'
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
'addStandardNames'
Undocumented S4 methods:
generic 'addStandardNames' and siglist 'IDMapper'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'IDMapper-class':
\S4method{addGeneInfo}{IDMapper}
Code: function(object, tbl)
Docs: function(object, tbl.interactions)
Argument names in code not in docs:
tbl
Argument names in docs not in code:
tbl.interactions
Mismatches in argument names:
Position: 2 Code: tbl Docs: tbl.interactions
* 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' ... [48s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
PSICQUIC-class 1.06 0.03 28.27
interactions 0.56 0.03 11.70
** running examples for arch 'x64' ... [47s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
PSICQUIC-class 1.03 0.07 27.42
interactions 0.53 0.04 11.17
* 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
WARNING: There were 2 warnings.
NOTE: There was 1 note.
See
'E:/biocbld/bbs-2.14-bioc/meat/PSICQUIC.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'PSICQUIC' ...
** 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 'PSICQUIC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PSICQUIC' as PSICQUIC_1.2.1.zip
* DONE (PSICQUIC)