ncdfFlow 1.5.27
M. Jiang
| Snapshot Date: 2013-03-23 17:02:20 -0700 (Sat, 23 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ncdfFlow | | Last Changed Rev: 74421 / Revision: 74756 | | Last Changed Date: 2013-03-15 15:05:11 -0700 (Fri, 15 Mar 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | N O T S U P P O R T E D |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | [ OK ] |
* installing *source* package 'ncdfFlow' ...
configure: search for hdf5 library in: /usr/lib
configure: found hdf5 library in: /usr/lib
configure: using bundled netcdf4 library
configure: 'found ' trimmed_netcdf-4.2.1.1 ' header sources and tar archive;using what is there.'
configure: Using the following compilation and linking flags for ncdfFlow
configure: PKG_CPPFLAGS=-I/usr/include
configure: PKG_LIBS=-L/usr/lib -lhdf5 -lhdf5_hl
configure: creating ./config.status
config.status: creating src/Makevars
** libs
/Library/Frameworks/R.framework/Resources/share/make/shlib.mk:6: warning: overriding commands for target `ncdfFlow.so'
Makevars:24: warning: ignoring old commands for target `ncdfFlow.so'
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c bitOps.c -o bitOps.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c init.c -o init.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c netCDF.c -o netCDF.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/liblib/stub.c -o trimmed_netcdf-4.2.1.1/liblib/stub.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/datt.c -o trimmed_netcdf-4.2.1.1/libdispatch/datt.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dattget.c -o trimmed_netcdf-4.2.1.1/libdispatch/dattget.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dattinq.c -o trimmed_netcdf-4.2.1.1/libdispatch/dattinq.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dattput.c -o trimmed_netcdf-4.2.1.1/libdispatch/dattput.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dcompound.c -o trimmed_netcdf-4.2.1.1/libdispatch/dcompound.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dcopy.c -o trimmed_netcdf-4.2.1.1/libdispatch/dcopy.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/ddim.c -o trimmed_netcdf-4.2.1.1/libdispatch/ddim.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/ddispatch.c -o trimmed_netcdf-4.2.1.1/libdispatch/ddispatch.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/denum.c -o trimmed_netcdf-4.2.1.1/libdispatch/denum.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/derror.c -o trimmed_netcdf-4.2.1.1/libdispatch/derror.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dfile.c -o trimmed_netcdf-4.2.1.1/libdispatch/dfile.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dgroup.c -o trimmed_netcdf-4.2.1.1/libdispatch/dgroup.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dnclog.c -o trimmed_netcdf-4.2.1.1/libdispatch/dnclog.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dopaque.c -o trimmed_netcdf-4.2.1.1/libdispatch/dopaque.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dparallel.c -o trimmed_netcdf-4.2.1.1/libdispatch/dparallel.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dstring.c -o trimmed_netcdf-4.2.1.1/libdispatch/dstring.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dsubstrate.c -o trimmed_netcdf-4.2.1.1/libdispatch/dsubstrate.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dtype.c -o trimmed_netcdf-4.2.1.1/libdispatch/dtype.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dutf8proc.c -o trimmed_netcdf-4.2.1.1/libdispatch/dutf8proc.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dv2i.c -o trimmed_netcdf-4.2.1.1/libdispatch/dv2i.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dvar.c -o trimmed_netcdf-4.2.1.1/libdispatch/dvar.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dvarget.c -o trimmed_netcdf-4.2.1.1/libdispatch/dvarget.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dvarinq.c -o trimmed_netcdf-4.2.1.1/libdispatch/dvarinq.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dvarput.c -o trimmed_netcdf-4.2.1.1/libdispatch/dvarput.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/dvlen.c -o trimmed_netcdf-4.2.1.1/libdispatch/dvlen.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/nc_uri.c -o trimmed_netcdf-4.2.1.1/libdispatch/nc_uri.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/ncaux.c -o trimmed_netcdf-4.2.1.1/libdispatch/ncaux.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/ncbytes.c -o trimmed_netcdf-4.2.1.1/libdispatch/ncbytes.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/nchashmap.c -o trimmed_netcdf-4.2.1.1/libdispatch/nchashmap.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/nclist.c -o trimmed_netcdf-4.2.1.1/libdispatch/nclist.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libdispatch/nctime.c -o trimmed_netcdf-4.2.1.1/libdispatch/nctime.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/attr.c -o trimmed_netcdf-4.2.1.1/libsrc/attr.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/dim.c -o trimmed_netcdf-4.2.1.1/libsrc/dim.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/lookup3.c -o trimmed_netcdf-4.2.1.1/libsrc/lookup3.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/memio.c -o trimmed_netcdf-4.2.1.1/libsrc/memio.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/nc.c -o trimmed_netcdf-4.2.1.1/libsrc/nc.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/nc3dispatch.c -o trimmed_netcdf-4.2.1.1/libsrc/nc3dispatch.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/ncio.c -o trimmed_netcdf-4.2.1.1/libsrc/ncio.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/nclistmgr.c -o trimmed_netcdf-4.2.1.1/libsrc/nclistmgr.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/ncx.c -o trimmed_netcdf-4.2.1.1/libsrc/ncx.o
trimmed_netcdf-4.2.1.1/libsrc/ncx.c:44:1: warning: "LONG_LONG_MAX" redefined
In file included from /usr/llvm-gcc-4.2/bin/../lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h:15,
from trimmed_netcdf-4.2.1.1/libsrc/ncx.c:33:
/Developer/usr/llvm-gcc-4.2/lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h:114:1: warning: this is the location of the previous definition
trimmed_netcdf-4.2.1.1/libsrc/ncx.c:45:1: warning: "LONG_LONG_MIN" redefined
/Developer/usr/llvm-gcc-4.2/lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h:112:1: warning: this is the location of the previous definition
trimmed_netcdf-4.2.1.1/libsrc/ncx.c:46:1: warning: "ULONG_LONG_MAX" redefined
/Developer/usr/llvm-gcc-4.2/lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h:118:1: warning: this is the location of the previous definition
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/posixio.c -o trimmed_netcdf-4.2.1.1/libsrc/posixio.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/putget.c -o trimmed_netcdf-4.2.1.1/libsrc/putget.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/v1hpg.c -o trimmed_netcdf-4.2.1.1/libsrc/v1hpg.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc/var.c -o trimmed_netcdf-4.2.1.1/libsrc/var.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/error4.c -o trimmed_netcdf-4.2.1.1/libsrc4/error4.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4attr.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4attr.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4dim.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4dim.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4dispatch.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4dispatch.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4file.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4file.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4grp.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4grp.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4hdf.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4hdf.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4internal.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4internal.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4type.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4type.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/nc4var.c -o trimmed_netcdf-4.2.1.1/libsrc4/nc4var.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/include -Itrimmed_netcdf-4.2.1.1/ -Itrimmed_netcdf-4.2.1.1/include -I/usr/local/include -fPIC -mtune=core2 -g -O2 -c trimmed_netcdf-4.2.1.1/libsrc4/ncfunc.c -o trimmed_netcdf-4.2.1.1/libsrc4/ncfunc.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 -o ncdfFlow.so bitOps.o init.o netCDF.o trimmed_netcdf-4.2.1.1/liblib/stub.o trimmed_netcdf-4.2.1.1/libdispatch/datt.o trimmed_netcdf-4.2.1.1/libdispatch/dattget.o trimmed_netcdf-4.2.1.1/libdispatch/dattinq.o trimmed_netcdf-4.2.1.1/libdispatch/dattput.o trimmed_netcdf-4.2.1.1/libdispatch/dcompound.o trimmed_netcdf-4.2.1.1/libdispatch/dcopy.o trimmed_netcdf-4.2.1.1/libdispatch/ddim.o trimmed_netcdf-4.2.1.1/libdispatch/ddispatch.o trimmed_netcdf-4.2.1.1/libdispatch/denum.o trimmed_netcdf-4.2.1.1/libdispatch/derror.o trimmed_netcdf-4.2.1.1/libdispatch/dfile.o trimmed_netcdf-4.2.1.1/libdispatch/dgroup.o trimmed_netcdf-4.2.1.1/libdispatch/dnclog.o trimmed_netcdf-4.2.1.1/libdispatch/dopaque.o trimmed_netcdf-4.2.1.1/libdispatch/dparallel.o trimmed_netcdf-4.2.1.1/libdispatch/dstring.o trimmed_netcdf-4.2.1.1/libdispatch/dsubstrate.o trimmed_netcdf-4.2.1.1/libdispatch/dtype.o trimmed_netcdf-4.2.1.1/libdispatch/dutf8proc.o trimmed_netcdf-4.2.1.1/libdispatch/dv2i.o trimmed_netcdf-4.2.1.1/libdispatch/dvar.o trimmed_netcdf-4.2.1.1/libdispatch/dvarget.o trimmed_netcdf-4.2.1.1/libdispatch/dvarinq.o trimmed_netcdf-4.2.1.1/libdispatch/dvarput.o trimmed_netcdf-4.2.1.1/libdispatch/dvlen.o trimmed_netcdf-4.2.1.1/libdispatch/nc_uri.o trimmed_netcdf-4.2.1.1/libdispatch/ncaux.o trimmed_netcdf-4.2.1.1/libdispatch/ncbytes.o trimmed_netcdf-4.2.1.1/libdispatch/nchashmap.o trimmed_netcdf-4.2.1.1/libdispatch/nclist.o trimmed_netcdf-4.2.1.1/libdispatch/nctime.o trimmed_netcdf-4.2.1.1/libsrc/attr.o trimmed_netcdf-4.2.1.1/libsrc/dim.o trimmed_netcdf-4.2.1.1/libsrc/lookup3.o trimmed_netcdf-4.2.1.1/libsrc/memio.o trimmed_netcdf-4.2.1.1/libsrc/nc.o trimmed_netcdf-4.2.1.1/libsrc/nc3dispatch.o trimmed_netcdf-4.2.1.1/libsrc/ncio.o trimmed_netcdf-4.2.1.1/libsrc/nclistmgr.o trimmed_netcdf-4.2.1.1/libsrc/ncx.o trimmed_netcdf-4.2.1.1/libsrc/posixio.o trimmed_netcdf-4.2.1.1/libsrc/putget.o trimmed_netcdf-4.2.1.1/libsrc/v1hpg.o trimmed_netcdf-4.2.1.1/libsrc/var.o trimmed_netcdf-4.2.1.1/libsrc4/error4.o trimmed_netcdf-4.2.1.1/libsrc4/nc4attr.o trimmed_netcdf-4.2.1.1/libsrc4/nc4dim.o trimmed_netcdf-4.2.1.1/libsrc4/nc4dispatch.o trimmed_netcdf-4.2.1.1/libsrc4/nc4file.o trimmed_netcdf-4.2.1.1/libsrc4/nc4grp.o trimmed_netcdf-4.2.1.1/libsrc4/nc4hdf.o trimmed_netcdf-4.2.1.1/libsrc4/nc4internal.o trimmed_netcdf-4.2.1.1/libsrc4/nc4type.o trimmed_netcdf-4.2.1.1/libsrc4/nc4var.o trimmed_netcdf-4.2.1.1/libsrc4/ncfunc.o -L/usr/lib -lhdf5 -lhdf5_hl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
cp ncdfFlow.so libncdfFlow.dylib
cp libncdfFlow.dylib ../inst/lib
rm libncdfFlow.dylib
installing to /Users/biocbuild/bbs-2.12-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
'ncdfFlow.Rnw'
** testing if installed package can be loaded
packaged installation of 'ncdfFlow' as 'ncdfFlow_1.5.27.tgz'
* DONE (ncdfFlow)