seqLogo 1.32.1
Oliver Bembom
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/seqLogo | | Last Changed Rev: 96121 / Revision: 102249 | | Last Changed Date: 2014-10-28 11:33:55 -0700 (Tue, 28 Oct 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ WARNINGS ] | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | WARNINGS | OK |
| oaxaca | 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 seqLogo.buildbin-libdir seqLogo.Rcheck && mkdir seqLogo.buildbin-libdir seqLogo.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=seqLogo.buildbin-libdir seqLogo_1.32.1.tar.gz >seqLogo.Rcheck\00install.out 2>&1 && cp seqLogo.Rcheck\00install.out seqLogo-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=seqLogo.buildbin-libdir --install="check:seqLogo-install.out" --force-multiarch --no-vignettes --timings seqLogo_1.32.1.tar.gz
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* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/seqLogo.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'seqLogo/DESCRIPTION' ... OK
* this is package 'seqLogo' version '1.32.1'
* 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 'seqLogo' can be installed ... WARNING
Found the following significant warnings:
Warning: replacing previous import by 'graphics::plot' when loading 'seqLogo'
See 'D:/biocbld/bbs-3.0-bioc/meat/seqLogo.Rcheck/00install.out' for details.
* 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
'library' or 'require' call to 'methods' which was already attached by Depends.
Please remove these calls from your code.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File 'seqLogo/R/zzz.R':
.onLoad calls:
require(methods)
Package startup functions should not change the search path.
See section 'Good practice' in '?.onAttach'.
* checking Rd files ... NOTE
prepare_Rd: makePWM.Rd:17-18: Dropping empty section \details
prepare_Rd: makePWM.Rd:25-26: Dropping empty section \seealso
prepare_Rd: pwm-class.Rd:49: Dropping empty section \note
prepare_Rd: pwm-class.Rd:46: Dropping empty section \references
prepare_Rd: pwm-class.Rd:52-53: Dropping empty section \seealso
prepare_Rd: pwm-class.Rd:54-55: Dropping empty section \examples
prepare_Rd: seqLogo.Rd:34: Dropping empty section \note
prepare_Rd: seqLogo.Rd:32: Dropping empty section \references
prepare_Rd: seqLogo.Rd:36: Dropping empty section \seealso
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
generic 'plot' and siglist 'pwm,ANY'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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' ... [1s] OK
** running examples for arch 'x64' ... [1s] 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
WARNING: There were 2 warnings.
NOTE: There were 3 notes.
See
'D:/biocbld/bbs-3.0-bioc/meat/seqLogo.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'seqLogo' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import by 'graphics::plot' when loading 'seqLogo'
Creating a generic function for 'plot' from package 'graphics' in package 'seqLogo'
Creating a generic function for 'print' from package 'base' in package 'seqLogo'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::plot' when loading 'seqLogo'
install for x64
* installing *source* package 'seqLogo' ...
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::plot' when loading 'seqLogo'
* MD5 sums
packaged installation of 'seqLogo' as seqLogo_1.32.1.zip
* DONE (seqLogo)