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BioC 2.13: CHECK report for gpls on moscato1

This page was generated on 2014-04-05 09:49:00 -0700 (Sat, 05 Apr 2014).

Package 322/750HostnameOS / ArchBUILDCHECKBUILD BIN
gpls 1.34.0
Bioconductor Package Maintainer
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/gpls
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: gpls
Version: 1.34.0
Command: rm -rf gpls.buildbin-libdir && mkdir gpls.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=gpls.buildbin-libdir gpls_1.34.0.tar.gz >gpls-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=gpls.buildbin-libdir --install="check:gpls-install.out" --force-multiarch --no-vignettes --timings gpls_1.34.0.tar.gz && mv gpls.buildbin-libdir/* gpls.Rcheck/ && rmdir gpls.buildbin-libdir
StartedAt: 2014-04-05 04:22:49 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 04:23:30 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 40.2 seconds
RetCode: 0
Status:  OK  
CheckDir: gpls.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/gpls.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'gpls/DESCRIPTION' ... OK
* this is package 'gpls' version '1.34.0'
* 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 'gpls' 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: glpls1a.Rd:26-28: Dropping empty section \details
prepare_Rd: glpls1a.Rd:47: Dropping empty section \note
prepare_Rd: glpls1a.cv.error.Rd:24-26: Dropping empty section \details
prepare_Rd: glpls1a.cv.error.Rd:42: Dropping empty section \note
prepare_Rd: glpls1a.logit.all.Rd:28-30: Dropping empty section \details
prepare_Rd: glpls1a.logit.all.Rd:45: Dropping empty section \note
prepare_Rd: glpls1a.mlogit.Rd:27-29: Dropping empty section \details
prepare_Rd: glpls1a.mlogit.Rd:47: Dropping empty section \note
prepare_Rd: glpls1a.mlogit.cv.error.Rd:24: Dropping empty section \details
prepare_Rd: glpls1a.mlogit.cv.error.Rd:40: Dropping empty section \note
prepare_Rd: glpls1a.train.test.error.Rd:27-29: Dropping empty section \details
prepare_Rd: glpls1a.train.test.error.Rd:46: Dropping empty section \note
* 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 for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
  'gpls.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [7s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
glpls1a.mlogit.cv.error 5.52      0    5.52
** running examples for arch 'x64' ... [8s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
glpls1a.mlogit.cv.error 6.03      0    6.03
* 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

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/gpls.Rcheck/00check.log'
for details.

gpls.Rcheck/00install.out:


install for i386

* installing *source* package 'gpls' ...
** 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 'gpls' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'gpls' as gpls_1.34.0.zip
* DONE (gpls)

gpls.Rcheck/examples_i386/gpls-Ex.timings:

nameusersystemelapsed
glpls1a0.130.000.12
glpls1a.cv.error0.290.000.30
glpls1a.logit.all0.100.000.09
glpls1a.mlogit0.280.000.28
glpls1a.mlogit.cv.error5.520.005.52
glpls1a.train.test.error0.030.000.03
gpls0.200.000.21
predict.gpls0.170.000.17

gpls.Rcheck/examples_x64/gpls-Ex.timings:

nameusersystemelapsed
glpls1a0.20.00.2
glpls1a.cv.error0.490.020.50
glpls1a.logit.all0.140.000.14
glpls1a.mlogit0.320.000.32
glpls1a.mlogit.cv.error6.030.006.03
glpls1a.train.test.error0.030.000.03
gpls0.190.000.19
predict.gpls0.180.000.18