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Package 400/467HostnameOS / ArchBUILDCHECKBUILD BIN
Rtreemix 1.14.0
Jasmina Bogojeska
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/Rtreemix
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 [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: Rtreemix
Version: 1.14.0
Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings Rtreemix_1.14.0.tar.gz
StartedAt: 2011-10-20 14:24:44 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 14:26:22 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 98.0 seconds
RetCode: 0
Status:  OK 
CheckDir: Rtreemix.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/Rtreemix.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rtreemix/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rtreemix’ version ‘1.14.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘Rtreemix’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 14.1Mb
  sub-directories of 1Mb or more:
    libs  13.0Mb
* 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 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 ... 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

Rtreemix.Rcheck/00install.out:

* installing *source* package ‘Rtreemix’ ...
** libs
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c Rtreemix.cc -o Rtreemix.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c WrapGraph.cc -o WrapGraph.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c cfunctions.cc -o cfunctions.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c kmeans.cc -o kmeans.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c max_weight_branch.cc -o max_weight_branch.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c mtree.cc -o mtree.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c mtreemix.cc -o mtreemix.o
g++ -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c replaceleda.cc -o replaceleda.o
g++ -shared -L/usr/local/lib64 -o Rtreemix.so Rtreemix.o WrapGraph.o cfunctions.o kmeans.o max_weight_branch.o mtree.o mtreemix.o replaceleda.o -lm -L/home/biocbuild/bbs-2.8-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.8-bioc/meat/Rtreemix.Rcheck/Rtreemix/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for "print" in "Rtreemix"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Rtreemix)

Rtreemix.Rcheck/Rtreemix-Ex.timings:

nameusersystemelapsed
L1.dist0.0040.0000.002
L2.norm000
Pval.dist0.0000.0000.001
RtreemixData-class0.0240.0040.028
RtreemixGPS-class000
RtreemixModel-class0.8400.0360.885
RtreemixSim-class0.0280.0040.033
RtreemixStats-class0.0560.0160.071
bootstrap-methods0.0000.0000.001
comp.models0.1280.0000.129
comp.trees0.0280.0040.033
confIntGPS-methods000
distribution-methods0.0480.0040.049
fit-methods0.9880.0041.011
generate-methods0.0040.0000.006
get.tree.levels0.0040.0000.004
gps-methods0.0000.0000.001
hiv.data0.0040.0040.006
kullback.leibler0.0000.0000.001
likelihoods-methods0.0320.0000.032
plot-methods0.2000.0000.199
sim-methods0.0280.0000.026
stability.sim000