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Package 10/467HostnameOS / ArchBUILDCHECKBUILD BIN
ADaCGH2 1.2.0
Ramon Diaz-Uriarte
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/ADaCGH2
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  WARNINGS  OK 

Summary

Package: ADaCGH2
Version: 1.2.0
Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch ADaCGH2_1.2.0.tar.gz
StartedAt: 2011-10-20 12:41:16 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 12:43:36 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 139.9 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: ADaCGH2.Rcheck
Warnings: 1

Command output

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/ADaCGH2.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 'ADaCGH2/DESCRIPTION' ... OK
* this is package 'ADaCGH2' version '1.2.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Packages which this enhances but not available for checking:
  Rmpi multicore
* checking if this is a source package ... OK
* checking whether package 'ADaCGH2' 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 ... NOTE
mpi.clean.quit.Web: no visible global function definition for
  'mpi.comm.size'
mpi.clean.quit.Web: no visible global function definition for
  'mpi.close.Rslaves'
mpi.clean.quit.Web: no visible global function definition for
  'mpi.exit'
snowfallInit: no visible global function definition for
  'mpi.universe.size'
* 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 use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   ADaCGH2.Rnw

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

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/ADaCGH2.Rcheck/00check.log'
for details

ADaCGH2.Rcheck/00install.out:

* installing *source* package 'ADaCGH2' ...
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.8-B/R/include"          -O2 -Wall  -std=gnu99 -c r_haarseg.c -o r_haarseg.o
r_haarseg.c: In function 'ad_HaarConv':
r_haarseg.c:65:12: warning: unused variable 'totalNorm'
r_haarseg.c: In function 'ad_FindLocalPeaks':
r_haarseg.c:152:8: warning: "/*" within comment
r_haarseg.c:176:8: warning: "/*" within comment
r_haarseg.c:128:9: warning: unused variable 'j'
r_haarseg.c: In function 'ad_HaarConv':
r_haarseg.c:59:12: warning: 'lowWeightSum' may be used uninitialized in this function
r_haarseg.c:60:12: warning: 'highWeightSum' may be used uninitialized in this function
r_haarseg.c:63:12: warning: 'lowNonNormed' may be used uninitialized in this function
r_haarseg.c:64:12: warning: 'highNonNormed' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o ADaCGH2.dll tmp.def r_haarseg.o -LD:/biocbld/BBS-2˜1.8-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.8-bioc/meat/ADaCGH2.Rcheck/ADaCGH2/libs/x64
** R
** data
** inst
** preparing package for lazy loading
Setting adacgh_changepoints to DNAcopy:::changepoints
Setting adacgh_trimmed.variance to DNAcopy:::trimmed.variance
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (ADaCGH2)

ADaCGH2.Rcheck/ADaCGH2-Ex.timings:

nameusersystemelapsed
inputDataToADaCGHData0.570.005.64
outputToCGHregions 1.25 0.0111.22
pChromPlot 0.69 0.0010.11
pSegment 1.16 0.1314.80
snowfallInit0.060.007.30