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Package 288/462HostnameOS / ArchBUILDCHECKBUILD BIN
mgsa 1.1.1
Sebastian Bauer
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/mgsa
Last Changed Rev: 55122 / Revision: 55359
Last Changed Date: 2011-04-28 04:32:25 -0700 (Thu, 28 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: mgsa
Version: 1.1.1
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings mgsa_1.1.1.tar.gz
StartedAt: 2011-05-09 14:35:58 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 14:36:53 -0700 (Mon, 09 May 2011)
EllapsedTime: 55.2 seconds
RetCode: 0
Status:  OK  
CheckDir: mgsa.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/mgsa.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'mgsa/DESCRIPTION' ... OK
* this is package 'mgsa' version '1.1.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'mgsa' 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... NOTE
readGAF: no visible binding for global variable 'aspect.code'
readGAF: no visible binding for global variable 'evidence.code'
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

mgsa.Rcheck/00install.out:

* installing *source* package 'mgsa' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -c mgsa.c -o mgsa.o
mgsa.c: In function 'ts_R_alloc':
mgsa.c:57:0: warning: ignoring #pragma omp critical
mgsa.c: In function 'mgsa_mcmc':
mgsa.c:1432:0: warning: ignoring #pragma omp parallel
mgsa.c:1438:0: warning: ignoring #pragma omp critical
gcc -shared -s -static-libgcc -o mgsa.dll tmp.def mgsa.o -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/mgsa.Rcheck/mgsa/libs/i386
** R
** data
** inst
** preparing package for lazy loading
Loading required package: gtools
Loading required package: gdata
gdata: read.xls support for 'XLS' (Excel 97-2004) files ENABLED.

gdata: read.xls support for 'XLSX' (Excel 2007+) files ENABLED.

Attaching package: 'gdata'

The following object(s) are masked from 'package:stats':

    nobs

The following object(s) are masked from 'package:utils':

    object.size

Loading required package: caTools
Loading required package: bitops
Loading required package: grid

Attaching package: 'gplots'

The following object(s) are masked from 'package:stats':

    lowess

Creating a new generic function for "plot" in "mgsa"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'mgsa.Rnw' 
** testing if installed package can be loaded

* DONE (mgsa)

mgsa.Rcheck/mgsa-Ex.timings:

nameusersystemelapsed
MgsaSets-class0.020.000.02
mgsa-methods12.84 0.0012.92
readGAF2.160.042.86