MSGFplus 1.0.5
Thomas Lin Pedersen
| 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/MSGFplus | | Last Changed Rev: 98993 / Revision: 102249 | | Last Changed Date: 2015-02-03 00:52:21 -0800 (Tue, 03 Feb 2015) |
| zin1 | Linux (Ubuntu 12.04.4 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 |
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### Running command:
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### rm -rf MSGFplus.buildbin-libdir MSGFplus.Rcheck && mkdir MSGFplus.buildbin-libdir MSGFplus.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MSGFplus.buildbin-libdir MSGFplus_1.0.5.tar.gz >MSGFplus.Rcheck\00install.out 2>&1 && cp MSGFplus.Rcheck\00install.out MSGFplus-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=MSGFplus.buildbin-libdir --install="check:MSGFplus-install.out" --force-multiarch --no-vignettes --timings MSGFplus_1.0.5.tar.gz
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* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/MSGFplus.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 'MSGFplus/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MSGFplus' version '1.0.5'
* 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 'MSGFplus' 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
'library' or 'require' call to 'gWidgets' in package code.
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
msgfParGUI: no visible global function definition for 'gwindow'
msgfParGUI: no visible global function definition for 'glayout'
msgfParGUI: no visible global function definition for 'gfilebrowse'
msgfParGUI: no visible global function definition for 'ggroup'
msgfParGUI: no visible global function definition for 'gedit'
msgfParGUI: no visible global function definition for 'size'
msgfParGUI: no visible global function definition for 'size<-'
msgfParGUI: no visible global function definition for 'gcombobox'
msgfParGUI: no visible global function definition for 'gspinbutton'
msgfParGUI: no visible global function definition for 'svalue<-'
msgfParGUI: no visible global function definition for 'glabel'
msgfParGUI: no visible global function definition for 'gcheckbox'
msgfParGUI: no visible global function definition for 'gbutton'
msgfParGUI: no visible global function definition for 'addSpace'
msgfParGUI: no visible global function definition for 'gtable'
msgfParGUI: no visible global function definition for 'addSpring'
msgfParGUI: no visible global function definition for
'addHandlerClicked'
msgfParGUI : <anonymous>: no visible global function definition for
'gbasicdialog'
msgfParGUI : <anonymous> : <anonymous>: no visible binding for global
variable 'svalue'
msgfParGUI : <anonymous>: no visible global function definition for
'glayout'
msgfParGUI : <anonymous>: no visible global function definition for
'gedit'
msgfParGUI : <anonymous>: no visible global function definition for
'gcombobox'
msgfParGUI : <anonymous>: no visible global function definition for
'visible'
msgfParGUI : <anonymous>: no visible global function definition for
'svalue'
msgfParGUI : <anonymous>: no visible global function definition for
'dispose'
msgfParGUI: no visible global function definition for
'addHandlerUnrealize'
msgfParGUI: no visible global function definition for 'visible<-'
* 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' ... [2s] OK
** running examples for arch 'x64' ... [2s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'test-all.R' [2s]
[2s] OK
** running tests for arch 'x64' ...
Running 'test-all.R' [3s]
[3s] 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
NOTE: There were 2 notes.
See
'D:/biocbld/bbs-3.0-bioc/meat/MSGFplus.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'MSGFplus' ...
** 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 'MSGFplus' ...
** testing if installed package can be loaded
Warning in fun(libname, pkgname) :
Java need to be at least version 1.7 for MS-GF+ to work. Please upgrade.
* MD5 sums
packaged installation of 'MSGFplus' as MSGFplus_1.0.5.zip
* DONE (MSGFplus)