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Package 251/319HostnameOS / ArchBUILDCHECKBUILD BIN
reb 1.18.0
Karl J. Dykema
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/reb
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK [ OK ] OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: reb
Version: 1.18.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes reb_1.18.0.tar.gz
StartedAt: 2009-10-20 18:42:36 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 18:44:28 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 112.0 seconds
RetCode: 0
Status: OK
CheckDir: reb.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/reb.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49419)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'reb/DESCRIPTION' ... OK
* this is package 'reb' version '1.18.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'reb' 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 name space can be loaded with stated dependencies ... 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 files against version 2 parser ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... 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

reb.Rcheck/00install.out:

* Installing *source* package ‘reb’ ...
** libs
** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -c movbin.c -o movbin.o
movbin.c: In function ‘bscore’:
movbin.c:48: warning: implicit declaration of function ‘sqrt’
movbin.c:48: warning: incompatible implicit declaration of built-in function ‘sqrt’
gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o reb.so movbin.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -c movbin.c -o movbin.o
movbin.c: In function ‘bscore’:
movbin.c:48: warning: implicit declaration of function ‘sqrt’
movbin.c:48: warning: incompatible implicit declaration of built-in function ‘sqrt’
gcc -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o reb.so movbin.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: annotate
Loading required package: AnnotationDbi
Loading required package: plotrix
Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: .rwb
Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: .usedChromExprs
Warning in namespaceImportFrom(self, asNamespace(ns)) :
  replacing previous import: idiogram
** help
*** installing help indices
 >>> Building/Updating help pages for package 'reb'
     Formats: text html latex example 
  Hs.arms                           text    html    latex
  absMax                            text    html    latex   example
  buildChromCytoband                text    html    latex   example
  buildChromMap                     text    html    latex   example
  cset2band                         text    html    latex   example
  fromRevIsh                        text    html    latex   example
Note: removing empty section \value in file 'isAbnormal.Rd'
  isAbnormal                        text    html    latex   example
  mcr.eset                          text    html    latex   example
Note: removing empty section \note in file 'movbin.Rd'
  movbin                            text    html    latex   example
  movt                              text    html    latex   example
  naMean                            text    html    latex   example
Note: removing empty section \value in file 'regmap.Rd'
Note: removing empty section \note in file 'regmap.Rd'
Note: removing empty section \references in file 'regmap.Rd'
  regmap                            text    html    latex   example
  revish                            text    html    latex   example
  rmAmbigMappings                   text    html    latex   example
  smoothByRegion                    text    html    latex   example
Note: removing empty section \note in file 'summarizeByRegion.Rd'
  summarizeByRegion                 text    html    latex   example
  tBinomTest                        text    html    latex   example
  writeGFF3                         text    html    latex   example
** building package indices ...
* DONE (reb)