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BioC 2.12: BUILD BIN report for CGEN on petty

This page was generated on 2013-10-09 09:39:53 -0700 (Wed, 09 Oct 2013).

Package 107/671HostnameOS / ArchBUILDCHECKBUILD BIN
CGEN 2.2.0
William Wheeler
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/CGEN
Last Changed Rev: 75263 / Revision: 81334
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  WARNINGS 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  WARNINGS [ OK ]

Summary

Package: CGEN
Version: 2.2.0
Command: rm -rf CGEN.buildbin-libdir && mkdir CGEN.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CGEN_2.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CGEN.buildbin-libdir
StartedAt: 2013-10-09 00:49:32 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 00:49:59 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 26.5 seconds
RetCode: 0
Status:  OK 
PackageFile: CGEN_2.2.0.tgz
PackageFileSize: 728.1 KiB

Command output

>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CGEN.buildbin-libdir CGEN_2.2.0.tar.gz'
>>>>>>> 

* installing *source* package 'CGEN' ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c Additive.c -o Additive.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c CML.c -o CML.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c ccl.c -o ccl.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c csclust.f -o csclust.o
Warning: Nonconforming tab character in column 1 of line 46
Warning: Nonconforming tab character in column 1 of line 83
Warning: Nonconforming tab character in column 1 of line 190
Warning: Nonconforming tab character in column 1 of line 203
Warning: Nonconforming tab character in column 1 of line 205
Warning: Nonconforming tab character in column 1 of line 207
Warning: Nonconforming tab character in column 1 of line 270
Warning: Nonconforming tab character in column 1 of line 271
Warning: Nonconforming tab character in column 1 of line 275
Warning: Nonconforming tab character in column 1 of line 276
Warning: Nonconforming tab character in column 1 of line 277
Warning: Nonconforming tab character in column 1 of line 278
Warning: Nonconforming tab character in column 1 of line 282
Warning: Nonconforming tab character in column 1 of line 283
Warning: Nonconforming tab character in column 1 of line 286
Warning: Nonconforming tab character in column 1 of line 287
Warning: Nonconforming tab character in column 1 of line 288
Warning: Nonconforming tab character in column 1 of line 289
Warning: Nonconforming tab character in column 1 of line 290
Warning: Nonconforming tab character in column 1 of line 291
Warning: Nonconforming tab character in column 1 of line 292
Warning: Nonconforming tab character in column 1 of line 293
Warning: Nonconforming tab character in column 1 of line 294
Warning: Nonconforming tab character in column 1 of line 295
Warning: Nonconforming tab character in column 1 of line 296
Warning: Nonconforming tab character in column 1 of line 306
Warning: Nonconforming tab character in column 1 of line 307
Warning: Nonconforming tab character in column 1 of line 309
Warning: Nonconforming tab character in column 1 of line 310
Warning: Nonconforming tab character in column 1 of line 311
Warning: Nonconforming tab character in column 1 of line 312
Warning: Nonconforming tab character in column 1 of line 313
Warning: Nonconforming tab character in column 1 of line 314
Warning: Nonconforming tab character in column 1 of line 315
Warning: Nonconforming tab character in column 1 of line 316
Warning: Nonconforming tab character in column 1 of line 317
Warning: Nonconforming tab character in column 1 of line 319
Warning: Nonconforming tab character in column 1 of line 320
Warning: Nonconforming tab character in column 1 of line 321
Warning: Nonconforming tab character in column 1 of line 329
csclust.f:222.3:

650   RETURN                                                            
  1
Warning: Label 650 at (1) defined but not used
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c fsclust.c -o fsclust.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c hcl.c -o hcl.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c pmatch.c -o pmatch.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o CGEN.so Additive.o CML.o ccl.o csclust.o fsclust.o hcl.o pmatch.o -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64 -L/usr/local/lib/x86_64 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3 -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/CGEN.buildbin-libdir/CGEN/libs
** R
** data
** exec
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CGEN)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "CGEN.buildbin-libdir/CGEN/libs//CGEN.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "CGEN.buildbin-libdir/CGEN/libs//CGEN.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "CGEN.buildbin-libdir/CGEN/libs//CGEN.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "CGEN.buildbin-libdir/CGEN/libs//CGEN.so"