[mira_talk] Install Mira on 10.7.5
- From: George Tsiamis <gtsiamis1@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Tue, 23 Oct 2012 09:18:17 +0300
Dear all,
I am trying to install Mira stable version 3.4.0.2 on my Mac running Lion
10.7.5. I have used macports to install gcc4.7, boost, expat, and flex.
The commands that I give are:
./configure --with-tcmalloc=yes
At the end of the configure I get
--------------------------------------------------------------------------------
Summary of MIRA configuration
--------------------------------------------------------------------------------
Linking against tcmalloc is disabled!
Note that is the default for OS X, but you might want to try switching
it on like this: --with-tcmalloc
Building version .................................
3.4.0.2_prod_darwin11.4.2_x86_64_dynamic
Production or development version?................ production
We are building on ............................... Darwin
CPU supports 64 bit? ......... ................... yes
Compiler ......................................... gcc
Compiler optimisation flags used ................. -O3 -funroll-loops
Do we compile in 64 bit? ......................... yes
Building completely static? ...................... no
BOOST expected to compile and link?............... yes
Linking with TCmalloc library?.................... no
Can MIRA be built on this system? ................ yes
Using CFLAGS : -mmacosx-version-min=10.5 -O3 -funroll-loops
-I/usr/local/include
Using CXXFLAGS : -DPUBLICQUIET -mmacosx-version-min=10.5 -O3 -funroll-loops
-I/usr/local/include -pthread -I/opt/local/include
Using LDFLAGS : -L/opt/local/lib -lboost_thread-mt -lboost_regex-mt
Looks good, we do not expect compilation problems.
--------------------------------------------------------------------------------
Type 'make' to make the binaries
and then 'make install' to install them.
But then when I type "make" I get
Undefined symbols for architecture x86_64:
"boost::system::system_category()", referenced from:
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein mira_101.o
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein libmira.a(assembly.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(assembly_io.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(newpathfinder.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein libmira.a(skim.o)
boost::mutex::lock() in libmira.a(skim.o)
boost::unique_lock<boost::mutex>::lock() in libmira.a(skim.o)
...
"boost::system::generic_category()", referenced from:
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein mira_101.o
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein libmira.a(assembly.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(assembly_io.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(newpathfinder.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein libmira.a(skim.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(assembly_swalign.o)
global constructors keyed to _ZN12_GLOBAL__N_12_1Ein
libmira.a(assembly_reduceskimhits.o)
...
ld: symbol(s) not found for architecture x86_64
collect2: ld returned 1 exit status
make[2]: *** [mira_101] Error 1
make[1]: *** [all-recursive] Error 1
make: *** [all-recursive] Error 1
and I am stuck here.
I do not know what I can try next to overcome this….
Any suggestions?
Thanks in advance
George
George Tsiamis, Ph.D.
Lecturer in Environmental Microbiology
Department of Environmental and Natural Resources Management
University of Western Greece
2 Seferi str., Agrinio
30100, Greece
e-mail: gtsiamis@xxxxxxxxx, gtsiamis1@xxxxxxxxx, gtsiamis@xxxxxx
tel. +302641074149, fax. +302641074171
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