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Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro
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From: |
Michael Braun |
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Subject: |
Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro |
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Date: |
Tue, 10 Feb 2009 14:12:19 -0500 |
OK, we're getting closer. Here's the full output. It looks like
the package is compiling, but something is going on with the indices.
BRAUNM2: ~/Downloads $ R CMD INSTALL --preclean igraph
* Installing to library '/Library/Frameworks/R.framework/Resources/
library'
* Installing *source* package 'igraph' ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for fmemopen... no
checking for open_memstream... no
checking for rintf... yes
checking for finite... yes
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... rm: conftest.dSYM: is a directory
rm: conftest.dSYM: is a directory
yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking sys/times.h usability... yes
checking sys/times.h presence... yes
checking for sys/times.h... yes
checking for xml2-config... /usr/bin/xml2-config
checking for xmlSAXUserParseFile in -lxml2... yes
checking libxml/parser.h usability... yes
checking libxml/parser.h presence... yes
checking for libxml/parser.h... yes
checking for __gmpz_add in -lgmp... no
configure: creating ./config.status
config.status: creating src/config.h
config.status: creating R/config.R
config.status: creating src/Makevars
** libs
** arch - x86_64
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c DensityGrid.cpp -o DensityGrid.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c NetDataTypes.cpp -o NetDataTypes.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c NetRoutines.cpp -o NetRoutines.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c adjlist.c -o adjlist.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c arpack.c -o arpack.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c array.c -o array.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c atlas.c -o atlas.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c attributes.c -o attributes.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c basic_query.c -o basic_query.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c bfgs.c -o bfgs.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss.cc -o bliss.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_eqrefhash.cc -o
bliss_eqrefhash.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_graph.cc -o bliss_graph.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_heap.cc -o bliss_heap.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_orbit.cc -o bliss_orbit.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_partition.cc -o
bliss_partition.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_timer.cc -o bliss_timer.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c bliss_utils.cc -o bliss_utils.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c cattributes.c -o cattributes.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c centrality.c -o centrality.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c cliques.c -o cliques.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c clustertool.cpp -o clustertool.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c cocitation.c -o cocitation.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c community.c -o community.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c components.c -o components.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c conversion.c -o conversion.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c cores.c -o cores.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c d_lg10.c -o d_lg10.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c d_sign.c -o d_sign.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dasum.c -o dasum.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c daxpy.c -o daxpy.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dcopy.c -o dcopy.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c ddot.c -o ddot.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dgemv.c -o dgemv.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dgeqr2.c -o dgeqr2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dger.c -o dger.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dgetv0.c -o dgetv0.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlabad.c -o dlabad.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlacon.c -o dlacon.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlacpy.c -o dlacpy.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dladiv.c -o dladiv.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlae2.c -o dlae2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaev2.c -o dlaev2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaexc.c -o dlaexc.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlahqr.c -o dlahqr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaln2.c -o dlaln2.o
gcc-4.2 -arch x86_64 -std=gnu99 -Wall -O3 -g -p -pg -DHAVE_INLINE -
fPIC -ffloat-store -c dlamch.c
dlamch.c: In function ‘dlamc2_’:
dlamch.c:656: warning: format ‘%8i’ expects type ‘int’, but argument 2
has type ‘integer’
dlamch.c: At top level:
dlamch.c:398: warning: ‘c__1’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlange.c -o dlange.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlanhs.c -o dlanhs.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlanst.c -o dlanst.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlanv2.c -o dlanv2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlapy2.c -o dlapy2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaqrb.c -o dlaqrb.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlarf.c -o dlarf.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlarfg.c -o dlarfg.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlarfx.c -o dlarfx.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlarnv.c -o dlarnv.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlartg.c -o dlartg.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaruv.c -o dlaruv.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlascl.c -o dlascl.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlaset.c -o dlaset.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlasr.c -o dlasr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlasrt.c -o dlasrt.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlassq.c -o dlassq.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dlasy2.c -o dlasy2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dmout.c -o dmout.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnaitr.c -o dnaitr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnapps.c -o dnapps.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnaup2.c -o dnaup2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnaupd.c -o dnaupd.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnconv.c -o dnconv.o
dnconv.c:23: warning: ‘debug_’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dneigh.c -o dneigh.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dneupd.c -o dneupd.o
dneupd.c:33: warning: ‘timing_’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dngets.c -o dngets.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dnrm2.c -o dnrm2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dorm2r.c -o dorm2r.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dqueue.c -o dqueue.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c drl_graph.cpp -o drl_graph.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c drl_layout.cpp -o drl_layout.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c drl_parse.cpp -o drl_parse.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c drot.c -o drot.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsaitr.c -o dsaitr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsapps.c -o dsapps.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsaup2.c -o dsaup2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsaupd.c -o dsaupd.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dscal.c -o dscal.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsconv.c -o dsconv.o
dsconv.c:23: warning: ‘debug_’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dseigt.c -o dseigt.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsesrt.c -o dsesrt.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dseupd.c -o dseupd.o
dseupd.c:33: warning: ‘timing_’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsgets.c -o dsgets.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsortc.c -o dsortc.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsortr.c -o dsortr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dstatn.c -o dstatn.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dstats.c -o dstats.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dsteqr.c -o dsteqr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dstqrb.c -o dstqrb.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dswap.c -o dswap.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dtrevc.c -o dtrevc.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dtrexc.c -o dtrexc.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dtrmm.c -o dtrmm.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dtrsen.c -o dtrsen.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dtrsyl.c -o dtrsyl.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c dvout.c -o dvout.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c error.c -o error.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c etime_.c -o etime_.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c evolver_cit.c -o evolver_cit.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c fast_community.c -o fast_community.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c flow.c -o flow.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-gml-lexer.c -o foreign-gml-lexer.o
foreign-gml-lexer.c:1182: warning: ‘yyunput’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-gml-parser.c -o foreign-gml-parser.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-graphml.c -o foreign-graphml.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-lgl-lexer.c -o foreign-lgl-lexer.o
foreign-lgl-lexer.c:1142: warning: ‘yyunput’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-lgl-parser.c -o foreign-lgl-parser.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-ncol-lexer.c -o foreign-ncol-lexer.o
foreign-ncol-lexer.c:1136: warning: ‘yyunput’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-ncol-parser.c -o foreign-ncol-parser.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-pajek-lexer.c -o foreign-pajek-lexer.o
foreign-pajek-lexer.c:1594: warning: ‘yyunput’ defined but not used
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign-pajek-parser.c -o foreign-pajek-parser.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c foreign.c -o foreign.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c forestfire.c -o forestfire.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c games.c -o games.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_box_list.cpp -o
gengraph_box_list.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_degree_sequence.cpp -o
gengraph_degree_sequence.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_graph_molloy_hash.cpp -o
gengraph_graph_molloy_hash.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c
gengraph_graph_molloy_optimized.cpp -o gengraph_graph_molloy_optimized.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_mr-connected.cpp -o
gengraph_mr-connected.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_powerlaw.cpp -o
gengraph_powerlaw.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c gengraph_random.cpp -o
gengraph_random.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c gml_tree.c -o gml_tree.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c heap.c -o heap.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c i_dnnt.c -o i_dnnt.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c idamax.c -o idamax.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_buckets.c -o igraph_buckets.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_grid.c -o igraph_grid.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_hashtable.c -o igraph_hashtable.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_heap.c -o igraph_heap.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_psumtree.c -o igraph_psumtree.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_set.c -o igraph_set.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_stack.c -o igraph_stack.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_strvector.c -o igraph_strvector.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c igraph_trie.c -o igraph_trie.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c interrupt.c -o interrupt.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c iterators.c -o iterators.o
iterators.c: In function ‘igraph_ess_all’:
iterators.c:848: warning: ‘es.type’ may be used uninitialized in this
function
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c ivout.c -o ivout.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c layout.c -o layout.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c lsame.c -o lsame.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c math.c -o math.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c matrix.c -o matrix.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c measure_dynamics.c -o measure_dynamics.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c memory.c -o memory.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c motifs.c -o motifs.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c operators.c -o operators.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c other.c -o other.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c pottsmodel_2.cpp -o pottsmodel_2.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c pow_dd.c -o pow_dd.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c pow_di.c -o pow_di.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c progress.c -o progress.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c random.c -o random.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c revolver_cit.c -o revolver_cit.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c revolver_grow.c -o revolver_grow.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c revolver_ml_cit.c -o revolver_ml_cit.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c rinterface.c -o rinterface.o
rinterface.c: In function ‘R_igraph_attribute_init’:
rinterface.c:104: warning: enumeration value
‘IGRAPH_ATTRIBUTE_DEFAULT’ not handled in switch
rinterface.c:104: warning: enumeration value
‘IGRAPH_ATTRIBUTE_PY_OBJECT’ not handled in switch
rinterface.c: In function ‘R_SEXP_to_igraph_arpack_options’:
rinterface.c:1343: warning: unused variable ‘tmp’
rinterface.c: In function ‘R_igraph_write_graph_edgelist’:
rinterface.c:3735: warning: unused variable ‘size’
rinterface.c:3734: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_gml’:
rinterface.c:3768: warning: unused variable ‘size’
rinterface.c:3767: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_dot’:
rinterface.c:3805: warning: unused variable ‘size’
rinterface.c:3804: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_pajek’:
rinterface.c:3839: warning: unused variable ‘size’
rinterface.c:3838: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_ncol’:
rinterface.c:3908: warning: unused variable ‘size’
rinterface.c:3907: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_lgl’:
rinterface.c:3981: warning: unused variable ‘size’
rinterface.c:3980: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_write_graph_graphml’:
rinterface.c:4816: warning: unused variable ‘size’
rinterface.c:4815: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_grg_game’:
rinterface.c:4973: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_write_graph_dimacs’:
rinterface.c:5111: warning: unused variable ‘size’
rinterface.c:5110: warning: unused variable ‘bp’
rinterface.c: In function ‘R_igraph_empty’:
rinterface.c:8331: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_vcount’:
rinterface.c:8360: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_full_citation’:
rinterface.c:8389: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_lcf_vector’:
rinterface.c:8422: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_adjlist’:
rinterface.c:8456: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_forest_fire_game’:
rinterface.c:8494: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_closeness_estimate’:
rinterface.c:8531: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_betweenness_estimate’:
rinterface.c:8571: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_edge_betweenness_estimate’:
rinterface.c:8610: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_pagerank_old’:
rinterface.c:8651: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_is_simple’:
rinterface.c:8795: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_is_mutual’:
rinterface.c:9026: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_articulation_points’:
rinterface.c:9118: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_layout_drl’:
rinterface.c:9209: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_similarity_jaccard’:
rinterface.c:9249: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_similarity_dice’:
rinterface.c:9289: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_similarity_inverse_log_weighted’:
rinterface.c:9328: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_modularity’:
rinterface.c:9417: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_triad_census’:
rinterface.c:9673: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_isoclass’:
rinterface.c:9706: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_isomorphic’:
rinterface.c:9735: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_isoclass_subgraph’:
rinterface.c:9765: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_isoclass_create’:
rinterface.c:9796: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_count_isomorphisms_vf2’:
rinterface.c:9888: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_get_isomorphisms_vf2’:
rinterface.c:9918: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_count_subisomorphisms_vf2’:
rinterface.c:10012: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_get_subisomorphisms_vf2’:
rinterface.c:10042: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_isomorphic_34’:
rinterface.c:10077: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_permute_vertices’:
rinterface.c:10153: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_automorphisms’:
rinterface.c:10260: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_revolver_ml_ADE_dpareto_evalf’:
rinterface.c:11702: warning: unused variable ‘names’
rinterface.c: In function ‘R_igraph_read_graph_dimacs’:
rinterface.c:5053: warning: ‘result’ may be used uninitialized in this
function
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c s_cmp.c -o s_cmp.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c s_copy.c -o s_copy.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c second.c -o second.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c spectral_properties.c -o spectral_properties.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c spmatrix.c -o spmatrix.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c structural_properties.c -o
structural_properties.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c structure_generators.c -o structure_generators.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c topology.c -o topology.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c type_indexededgelist.c -o type_indexededgelist.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c vector.c -o vector.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c vector_ptr.c -o vector_ptr.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c visitors.c -o visitors.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c walktrap.cpp -o walktrap.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c walktrap_communities.cpp -o
walktrap_communities.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c walktrap_graph.cpp -o
walktrap_graph.o
g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/
usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include -DUSING_R -fPIC -g -O2 -c walktrap_heap.cpp -o
walktrap_heap.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c xerbla.c -o xerbla.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/
Resources/include -I/Library/Frameworks/R.framework/Resources/include/
x86_64 -I/usr/local/include -I/usr/local/include/apophenia -I/usr/
local/include -Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g
-p -pg -DHAVE_INLINE -c zeroin.c -o zeroin.o
g++-4.2 -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -
undefined dynamic_lookup -single_module -multiply_defined suppress -L/
usr/local/lib -o igraph.so DensityGrid.o NetDataTypes.o NetRoutines.o
adjlist.o arpack.o array.o atlas.o attributes.o basic_query.o bfgs.o
bliss.o bliss_eqrefhash.o bliss_graph.o bliss_heap.o bliss_orbit.o
bliss_partition.o bliss_timer.o bliss_utils.o cattributes.o
centrality.o cliques.o clustertool.o cocitation.o community.o
components.o conversion.o cores.o d_lg10.o d_sign.o dasum.o daxpy.o
dcopy.o ddot.o dgemv.o dgeqr2.o dger.o dgetv0.o dlabad.o dlacon.o
dlacpy.o dladiv.o dlae2.o dlaev2.o dlaexc.o dlahqr.o dlaln2.o dlamch.o
dlange.o dlanhs.o dlanst.o dlanv2.o dlapy2.o dlaqrb.o dlarf.o dlarfg.o
dlarfx.o dlarnv.o dlartg.o dlaruv.o dlascl.o dlaset.o dlasr.o dlasrt.o
dlassq.o dlasy2.o dmout.o dnaitr.o dnapps.o dnaup2.o dnaupd.o dnconv.o
dneigh.o dneupd.o dngets.o dnrm2.o dorm2r.o dqueue.o drl_graph.o
drl_layout.o drl_parse.o drot.o dsaitr.o dsapps.o dsaup2.o dsaupd.o
dscal.o dsconv.o dseigt.o dsesrt.o dseupd.o dsgets.o dsortc.o dsortr.o
dstatn.o dstats.o dsteqr.o dstqrb.o dswap.o dtrevc.o dtrexc.o dtrmm.o
dtrsen.o dtrsyl.o dvout.o error.o etime_.o evolver_cit.o
fast_community.o flow.o foreign-gml-lexer.o foreign-gml-parser.o
foreign-graphml.o foreign-lgl-lexer.o foreign-lgl-parser.o foreign-
ncol-lexer.o foreign-ncol-parser.o foreign-pajek-lexer.o foreign-pajek-
parser.o foreign.o forestfire.o games.o gengraph_box_list.o
gengraph_degree_sequence.o gengraph_graph_molloy_hash.o
gengraph_graph_molloy_optimized.o gengraph_mr-connected.o
gengraph_powerlaw.o gengraph_random.o gml_tree.o heap.o i_dnnt.o
idamax.o igraph_buckets.o igraph_grid.o igraph_hashtable.o
igraph_heap.o igraph_psumtree.o igraph_set.o igraph_stack.o
igraph_strvector.o igraph_trie.o interrupt.o iterators.o ivout.o
layout.o lsame.o math.o matrix.o measure_dynamics.o memory.o motifs.o
operators.o other.o pottsmodel_2.o pow_dd.o pow_di.o progress.o
random.o revolver_cit.o revolver_grow.o revolver_ml_cit.o rinterface.o
s_cmp.o s_copy.o second.o spectral_properties.o spmatrix.o
structural_properties.o structure_generators.o topology.o
type_indexededgelist.o vector.o vector_ptr.o visitors.o walktrap.o
walktrap_communities.o walktrap_graph.o walktrap_heap.o xerbla.o
zeroin.o -L/usr/local/lib -lapophenia -lgsl -F/Library/Frameworks/
R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'igraph'
Formats: text html latex example
aaa-igraph-package text html latex
aging.prefatt.game text html latex example
alpha.centrality text html latex example
arpack text html latex example
articulation.points text html latex example
as.directed text html latex example
attributes text html latex example
ba.game text html latex example
betweenness text html latex example
biconnected.components text html latex example
bonpow text html latex example
canonical.permutation text html latex example
cliques text html latex example
closeness text html latex example
clusters text html latex example
cocitation text html latex example
cohesive.blocks text html latex example
community.edge.betweenness text html latex example
community.structure text html latex example
components text html latex example
constraint text html latex example
conversion text html latex example
decompose.graph text html latex example
degree text html latex example
degree.sequence.game text html latex example
diameter text html latex example
dyad.census text html latex example
edge.connectivity text html latex example
erdos.renyi.game text html latex example
evcent text html latex example
evolver text html latex
fastgreedy.community text html latex example
forest.fire.game text html latex example
get.adjlist text html latex example
girth text html latex example
graph.adjacency text html latex example
graph.adjlist text html latex example
graph.automorphisms text html latex example
graph.constructors text html latex example
graph.data.frame text html latex example
graph.de.bruijn text html latex example
graph.density text html latex example
graph.famous text html latex example
graph.formula text html latex example
graph.graphdb text html latex example
graph.isomorphism text html latex example
graph.kautz text html latex example
graph.kcores text html latex example
Note: removing empty section \value
graph.laplacian text html latex example
graph.lcf text html latex example
graph.maxflow text html latex example
graph.motifs text html latex example
graph.structure text html latex example
graphNEL text html latex example
grg.game text html latex example
growing.random.game text html latex example
igraph.par text html latex example
igraph.sample text html latex example
igraph.vertex.shapes text html latex example
independent.sets text html latex example
is.graph text html latex example
is.multiple text html latex example
is.mutual text html latex example
iterators text html latex example
kleinberg text html latex example
layout text html latex example
layout.drl text html latex example
layout.merge text html latex example
leading.eigenvector text html latex example
line.graph text html latex example
measure.dynamics text html latex
minimum.spanning.tree text html latex example
modularity text html latex example
neighborhood text html latex example
operators text html latex example
page.rank text html latex example
permute.vertices text html latex example
plot.bgraph text html latex example
plot.common text html latex example
plot.graph text html latex example
power.law.fit text html latex example
Note: removing empty section \value
preference.game text html latex example
print.graph text html latex example
read.graph text html latex
reciprocity text html latex example
rewire text html latex example
rewire.edges text html latex example
rglplot text html latex example
running.mean text html latex example
shortest.paths text html latex example
similarity text html latex example
simplify text html latex example
spinglass.community text html latex example
structure.info text html latex example
subgraph text html latex example
tkplot text html latex example
topological.sort text html latex example
traits text html latex example
transitivity text html latex example
triad.census text html latex example
undocumented text html latex
vertex.connectivity text html latex example
walktrap.community text html latex example
watts.strogatz.game text html latex example
write.graph text html latex example
write.pajek.bgraph text html latex
** building package indices ...
Error in Rdinfo(RdFiles[i]) :
missing/empty \name field in '/Users/braunm/Downloads/igraph/man/
igraph.Rd.gz'
Rd files must have a non-empty \name.
See chapter 'Writing R documentation' in manual 'Writing R Extensions'.
Calls: <Anonymous> ... .install_package_Rd_indices -> Rdcontents ->
Rdinfo
Execution halted
ERROR: installing package indices failed
** Removing '/Library/Frameworks/R.framework/Resources/library/igraph'
On Feb 10, 2009, at 1:44 PM, Gábor Csárdi wrote:
Add
#define HAVE_EXPM1 1
#define HAVE_RINT 1
to the beginning of random.c
G.
On Tue, Feb 10, 2009 at 7:36 PM, Michael Braun <address@hidden> wrote:
Thanks. I added the #define statement as you suggested. Now,
compilation
halts at the following error:
gcc-4.2 -arch x86_64 -std=gnu99
-I/Library/Frameworks/R.framework/Resources/include
-I/Library/Frameworks/R.framework/Resources/include/x86_64
-I/usr/local/include -I/usr/local/include/apophenia -I/usr/local/
include
-Wall -O3 -g -p -pg -DHAVE_INLINE -fPIC -Wall -O3 -g -p -pg -
DHAVE_INLINE
-c random.c -o random.o
random.c:36: error: static declaration of 'expm1' follows non-static
declaration
random.c:64: error: static declaration of 'rint' follows non-static
declaration
make: *** [random.o] Error 1
chmod:
/Library/Frameworks/R.framework/Resources/library/igraph/libs/
x86_64/*: No
such file or directory
ERROR: compilation failed for package 'igraph'
** Removing '/Library/Frameworks/R.framework/Resources/library/
igraph'
** Restoring previous
'/Library/Frameworks/R.framework/Resources/library/igraph'
On Feb 10, 2009, at 1:23 PM, Gábor Csárdi wrote:
On Tue, Feb 10, 2009 at 6:55 PM, Michael Braun <address@hidden>
wrote:
Gabor:
As requested, here is the complete output. I did try installing
the
precompiled binary from CRAN, but got a message "Error: package
'igraph'
is
not installed for 'arch=x86_64' " when trying to load the library
(of
course, it works fine on a 32-bit build).
I mean, install the binary that you mentioned in your first email.
And
then check that it links to GMP correctly.
Or do the workaround below.
[...]
foreign.c: In function 'igraph_write_graph_gml':
foreign.c:2367: error: 'PACKAGE_VERSION' undeclared (first use in
this
function)
foreign.c:2367: error: (Each undeclared identifier is reported
only once
foreign.c:2367: error: for each function it appears in.)
foreign.c: In function 'igraph_write_graph_dot':
foreign.c:2603: error: 'PACKAGE_VERSION' undeclared (first use in
this
function)
This should be in config.h, generated by configure from config.h.in.
Anyway, just add
#define PACKAGE_VERSION "0.6"
to the beginning of foreign.c
and that should do it.
Gabor
[...]
--
Gabor Csardi <address@hidden> UNIL DGM
-------------------------------------------
Michael Braun
Homer A. Burnell Career Development Professor, and
Assistant Professor of Management Science (Marketing Group)
MIT Sloan School of Management
One Amherst St., E40-169
Cambridge, MA 02142
address@hidden
617-253-3436
--
Gabor Csardi <address@hidden> UNIL DGM
-------------------------------------------
Michael Braun
Homer A. Burnell Career Development Professor, and
Assistant Professor of Management Science (Marketing Group)
MIT Sloan School of Management
One Amherst St., E40-169
Cambridge, MA 02142
address@hidden
617-253-3436
- [igraph] Problem installing igraph R package on 64-bit Mac Pro, Michael Braun, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Tamas Nepusz, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10
- Message not available
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Tamas Nepusz, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Michael Braun, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Michael Braun, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro,
Michael Braun <=
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10
- Message not available
- Re: [igraph] Problem installing igraph R package on 64-bit Mac Pro, Gábor Csárdi, 2009/02/10