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BioC 3.1: BUILD BIN report for ADaCGH2 on morelia

This page was generated on 2015-10-09 09:39:31 -0700 (Fri, 09 Oct 2015).

Package 11/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ADaCGH2 2.8.1
Ramon Diaz-Uriarte
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/ADaCGH2
Last Changed Rev: 104391 / Revision: 109384
Last Changed Date: 2015-05-30 14:01:13 -0700 (Sat, 30 May 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: ADaCGH2
Version: 2.8.1
Command: rm -rf ADaCGH2.buildbin-libdir && mkdir ADaCGH2.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ADaCGH2_2.8.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ADaCGH2.buildbin-libdir
StartedAt: 2015-10-09 07:29:49 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 07:30:03 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 13.8 seconds
RetCode: 0
Status:  OK 
PackageFile: ADaCGH2_2.8.1.tgz
PackageFileSize: 1.069 MiB

Command output

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###
### Running command:
###
###   rm -rf ADaCGH2.buildbin-libdir && mkdir ADaCGH2.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ADaCGH2_2.8.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ADaCGH2.buildbin-libdir
###
##############################################################################
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ADaCGH2.buildbin-libdir ADaCGH2_2.8.1.tar.gz'
>>>>>>> 

* installing *source* package ‘ADaCGH2’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c init.c -o init.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c r_haarseg.c -o r_haarseg.o
r_haarseg.c:65:12: warning: unused variable 'totalNorm' [-Wunused-variable]
    double totalNorm;
           ^
r_haarseg.c:152:8: warning: '/*' within block comment [-Wcomment]
                                         }/* for j */
                                          ^
r_haarseg.c:176:8: warning: '/*' within block comment [-Wcomment]
                                         }/* for j */
                                          ^
r_haarseg.c:128:9: warning: unused variable 'j' [-Wunused-variable]
         int k,j;
               ^
4 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ADaCGH2.so init.o r_haarseg.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.1-bioc/meat/ADaCGH2.buildbin-libdir/ADaCGH2/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
Warning in namespaceImportMethods(ns, loadNamespace(j <- imp[[1L]], c(lib.loc,  :
  No generic function found corresponding to requested imported methods for "as.list" from package "multtest" (malformed exports?)
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
Warning in namespaceImportMethods(ns, loadNamespace(j <- imp[[1L]], c(lib.loc,  :
  No generic function found corresponding to requested imported methods for "as.list" from package "multtest" (malformed exports?)
* DONE (ADaCGH2)


>>>>>>> 
>>>>>>> FIXING LINKS FOR ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "ADaCGH2.buildbin-libdir/ADaCGH2/libs//ADaCGH2.so"