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Package 181/467HostnameOS / ArchBUILDCHECKBUILD BIN
GeneSpring 2.26.0
Thon de Boer
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/GeneSpring
Last Changed Rev: 54800 / Revision: 59457
Last Changed Date: 2011-04-13 15:27:35 -0700 (Wed, 13 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  WARNINGS  OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS  OK 

Summary

Package: GeneSpring
Version: 2.26.0
Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch GeneSpring_2.26.0.tar.gz
StartedAt: 2011-10-20 14:31:26 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 14:31:51 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 24.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: GeneSpring.Rcheck
Warnings: 2

Command output

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/GeneSpring.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GeneSpring/DESCRIPTION' ... OK
* this is package 'GeneSpring' version '2.26.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GeneSpring' can be installed ... OK
* checking installed package size ... 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 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 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: GSload.exp.Rd:90-91: Dropping empty section \examples
prepare_Rd: GSload.genelist.Rd:70-71: Dropping empty section \seealso
prepare_Rd: GSload.int.Rd:78-79: Dropping empty section \examples
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'GSload.exp':
GSload.exp
  Code: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1)
  Docs: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1,
                 append = FALSE)
  Argument names in docs not in code:
    append
GSload.expBC
  Code: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1)
  Docs: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1,
                 append = TRUE)
  Argument names in docs not in code:
    append

Codoc mismatches from documentation object 'GSload.int':
GSload.int
  Code: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1)
  Docs: function(filename = "GS_R_in.txt")
  Argument names in code not in docs:
    EOF chunk
GSload.intBC
  Code: function(filename = "GS_R_in.txt", EOF = "///", chunk = 1)
  Docs: function(filename = "GS_R_in.txt", what = "nor")
  Argument names in code not in docs:
    EOF chunk
  Argument names in docs not in code:
    what
  Mismatches in argument names:
    Position: 2 Code: EOF Docs: what

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   GeneSpring.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There were 2 warnings, see
  'D:/biocbld/bbs-2.8-bioc/meat/GeneSpring.Rcheck/00check.log'
for details

GeneSpring.Rcheck/00install.out:

* installing *source* package 'GeneSpring' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (GeneSpring)

GeneSpring.Rcheck/GeneSpring-Ex.timings:

nameusersystemelapsed
GSint0.040.000.03
GSint2BC0.280.000.34
GSload.genelist0.020.000.02
GSsave.exp0.150.000.15