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Package 227/319HostnameOS / ArchBUILDCHECKBUILD BIN
pickgene 1.16.0
Brian S. Yandell
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/pickgene
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: pickgene
Version: 1.16.0
Command: E:\biocbld\bbs-2.4-bioc\R\bin\R.exe CMD check --no-vignettes pickgene_1.16.0.tar.gz
StartedAt: 2009-10-20 18:01:08 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 18:01:39 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 31.4 seconds
RetCode: 0
Status: OK
CheckDir: pickgene.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.4-bioc/meat/pickgene.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'pickgene/DESCRIPTION' ... OK
* this is package 'pickgene' version '1.16.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'pickgene' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking for unstated 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
lod.plot: possible error in oddsplot(exp(data[[x]]), exp(data[[y]]),
  theta, col = col, xlab = xlab, ylab = ylab, chip = ""): unused
  argument(s) (chip = "")
nloglik: no visible binding for global variable '.fit.xx'
nloglik: no visible binding for global variable '.fit.yy'
nploglik: no visible binding for global variable '.fit.xx'
nploglik: no visible binding for global variable '.fit.yy'
nploglik: no visible binding for global variable '.fit.zz'
s.check1: no visible global function definition for 'lod'
s.marg: no visible binding for global variable 'x'
shrinkplot: no visible global function definition for 's.fits'
shrinkplot: no visible binding for global variable 'lims'
* checking Rd files ... OK
* checking Rd files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

pickgene.Rcheck/00install.out:

* Installing *source* package 'pickgene' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
 >>> Building/Updating help pages for package 'pickgene'
     Formats: text html latex example chm 
Note: ignoring empty \keyword entries in file 'Simulation.pickgene.Rd'
Note: removing empty section \usage in file 'Simulation.pickgene.Rd'
Note: removing empty section \details in file 'Simulation.pickgene.Rd'
Note: ignoring empty \keyword entries in file 'Simulation.pickgene.Rd'
Note: removing empty section \usage in file 'Simulation.pickgene.Rd'
Note: removing empty section \details in file 'Simulation.pickgene.Rd'
  Simulation.pickgene               text    html    latex   example chm
  em.ggb                            text    html    latex   example chm
  model.pickgene                    text    html    latex   example chm
  oddsplot                          text    html    latex   example chm
  pickgene-internal                 text    html    latex           chm
  pickgene                          text    html    latex   example chm
  robustscale                       text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\BBS-2~1.4-B\meat\PICKGE~1.RCH\00_PKG~1\pickgene\chm\pickgene.chm


Compile time: 0 minutes, 0 seconds
8	Topics
16	Local links
0	Internet links
1	Graphic


Created e:\biocbld\BBS-2~1.4-B\meat\PICKGE~1.RCH\00_PKG~1\pickgene\chm\pickgene.chm, 30,365 bytes
Compression decreased file by 5,617 bytes.
** building package indices ...
** MD5 sums
* DONE (pickgene)