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Package 316/483HostnameOS / ArchBUILDCHECKBUILD BIN
netresponse 1.5.12
Leo Lahti
Snapshot Date: 2011-07-16 19:22:50 -0700 (Sat, 16 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/netresponse
Last Changed Rev: 56461 / Revision: 56778
Last Changed Date: 2011-06-29 11:27:43 -0700 (Wed, 29 Jun 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  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: netresponse
Version: 1.5.12
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch netresponse_1.5.12.tar.gz
StartedAt: 2011-07-17 08:57:21 -0700 (Sun, 17 Jul 2011)
EndedAt: 2011-07-17 08:59:49 -0700 (Sun, 17 Jul 2011)
EllapsedTime: 148.6 seconds
RetCode: 0
Status:  OK  
CheckDir: netresponse.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/netresponse.Rcheck'
* using R Under development (unstable) (2011-07-06 r56301)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'netresponse/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'netresponse' version '1.5.12'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'netresponse' 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 ... 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using tools::resaveRdaFiles() or R CMD build --resave-data
           old_size new_size compress
  dna.rda     271Kb    181Kb       xz
  osmo.rda    577Kb    416Kb       xz
* 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 tests ... OK
* checking tests ...
  Running 'ICMg.test.R'
  Running 'test.R'
  Running 'vdpmixture.R'
  Running 'visualization.R'
 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

netresponse.Rcheck/00install.out:

* installing *source* package 'netresponse' ...
** libs
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c netresponse.c -o netresponse.o
netresponse.c: In function 'mHPpost':
netresponse.c:264:15: warning: unused variable 'prior_fields'
netresponse.c: In function 'mLogLambda':
netresponse.c:655:11: warning: 'Mumu' may be used uninitialized in this function
netresponse.c:655:18: warning: 'S2mu' may be used uninitialized in this function
netresponse.c:655:25: warning: 'Mubar' may be used uninitialized in this function
netresponse.c:655:33: warning: 'Mutilde' may be used uninitialized in this function
netresponse.c:656:6: warning: 'AlphaKsi' may be used uninitialized in this function
netresponse.c:656:17: warning: 'BetaKsi' may be used uninitialized in this function
netresponse.c:656:27: warning: 'KsiAlpha' may be used uninitialized in this function
netresponse.c:656:38: warning: 'KsiBeta' may be used uninitialized in this function
netresponse.c:656:48: warning: 'U_p' may be used uninitialized in this function
gcc -shared -s -static-libgcc -o netresponse.dll tmp.def netresponse.o -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/netresponse.Rcheck/netresponse/libs/i386
** R
** data
** inst
** preparing package for lazy loading

Attaching package: 'graph'

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

    degree

Loading required package: infotheo
Loading Tcl/Tk interface ... done
Note: no visible global function definition for 'mk.qOFz' 
Note: no visible global function definition for 'mk.E.log.q.p.eta.c' 
Note: no visible global function definition for 'mk.log.lambda' 
Note: no visible global function definition for 'split.qofz.c' 
Note: no visible global function definition for 'mk.hp.posterior' 
Note: no visible global function definition for 'updatePosterior.c' 
Note: no visible global function definition for 'mk.log.lambda' 
Note: no visible global function definition for 'mk.E.log.q.p.eta.c' 
Note: no visible global function definition for 'mk.free.energy.c' 
Note: no visible global function definition for 'mk.hp.posterior' 
Note: no visible global function definition for 'mk.free.energy.c' 
Note: no visible global function definition for 'mk.qOFz' 
Note: no visible global function definition for 'mk.hp.posterior' 
Note: no visible global function definition for 'mk.E.log.q.p.eta.c' 
Note: no visible global function definition for 'mk.log.lambda' 
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'netresponse.Rnw' 
** testing if installed package can be loaded

netresponse Copyright (C) 2008-2011 Leo Lahti.
This program comes with ABSOLUTELY NO WARRANTY.
This is free software, and you are welcome to redistribute it under GNU GPL >=2, see the licensing terms for details.

* DONE (netresponse)

netresponse.Rcheck/netresponse-Ex.timings:

nameusersystemelapsed
ICMg.combined.sampler62.53 0.0262.80
ICMg.links.sampler4.720.004.73
NetResponseModel-class000
add.ellipse000
detect.responses6.470.006.61
dna0.030.000.03
find.similar.features0.450.000.45
get.dat000
get.model.parameters000
get.qofz000
get.subnets0.020.000.02
list.significant.responses000
mixture.densities000
model.stats000
netresponse-package3.750.003.80
order.responses000
osmo0.040.010.06
plot.associations000
plot.pca000
read.network000
response.enrichment000
response2sample000
sample2response000
toydata0.020.000.02
vdp.mixt0.040.000.05
write.netresponse.results000