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Package 259/436HostnameOS / ArchBUILDCHECKBUILD BIN
MEDIPS 1.1.2
Lukas Chavez
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MEDIPS
Last Changed Rev: 50434 / Revision: 53255
Last Changed Date: 2010-10-25 03:13:33 -0700 (Mon, 25 Oct 2010)
lamb2 Linux (openSUSE 11.2) / 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  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK  OK  OK 

Summary

Package: MEDIPS
Version: 1.1.2
Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings MEDIPS_1.1.2.tar.gz
StartedAt: 2011-02-24 21:12:54 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 21:20:42 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 467.6 seconds
RetCode: 0
Status:  OK 
CheckDir: MEDIPS.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/MEDIPS.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MEDIPS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MEDIPS’ version ‘1.1.2’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘MEDIPS’ can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

MEDIPS.Rcheck/00install.out:

* installing *source* package ‘MEDIPS’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c annotate.c -o annotate.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c calibration.c -o calibration.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c coupling.c -o coupling.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c profile.c -o profile.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c roiprofile.c -o roiprofile.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o MEDIPS.so annotate.o calibration.o coupling.o profile.o roiprofile.o -L/home/biocbuild/bbs-2.8-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.8-bioc/meat/MEDIPS.Rcheck/MEDIPS/libs
** R
** inst
** preparing package for lazy loading
Loading required package: IRanges

Attaching package: 'IRanges'

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

    Map, cbind, eval, intersect, mapply, order, paste, pmax, pmax.int,
    pmin, pmin.int, rbind, rep.int, setdiff, table, union

Loading required package: GenomicRanges
Loading required package: Biostrings
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (MEDIPS)

MEDIPS.Rcheck/MEDIPS-Ex.timings:

nameusersystemelapsed
MEDIPS.CpGenrich90.125 5.81299.640
MEDIPS.annotate0.0280.0000.029
MEDIPS.calibrationCurve4.5810.3124.909
MEDIPS.couplingVector3.6080.1923.803
MEDIPS.coverageAnalysis8.6840.0729.172
MEDIPS.exportWIG4.0570.0884.310
MEDIPS.genomeVector2.6400.0202.692
MEDIPS.getPositions2.0760.0442.122
MEDIPS.mergeFrames0.0040.0000.004
MEDIPS.methylProfiling8.2690.0648.338
MEDIPS.normalize5.7800.1525.977
MEDIPS.plotCalibrationPlot7.6080.2327.944
MEDIPS.plotCoverage8.1930.0528.816
MEDIPS.plotSaturation46.631 0.00847.602
MEDIPS.readAlignedSequences1.4920.0201.509
MEDIPS.saturationAnalysis47.083 0.02047.162
MEDIPS.selectSignificants111.047 1.040112.464
MEDIPSset-class0.0040.0000.002