rosetta 3.2.1 installation on fedora core 6

[Anonymous]

Hi,

I am getting the floowing errors after executing the “scons bin mode=release” command:-
===========================================================================================
scons: Reading SConscript files …
svn: ‘.’ is not a working copy

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta-3.2.1/rosetta_source/SConscript”, line 40, in
scons: done reading SConscript files.
scons: Building targets …
g++ -o build/src/release/linux/2.6/32/x86/gcc/protocols/init.os -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -malign-double -march=pentium4 -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -fPIC -DNDEBUG -Isrc -Iexternal/include -Isrc/platform/linux/32/gcc -Isrc/platform/linux/32 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include src/protocols/init.cc
src/numeric/MathVector.hh:108: error: parse error in template argument list
src/numeric/MathMatrix.hh:127: error: parse error in template argument list
scons: *** [build/src/release/linux/2.6/32/x86/gcc/protocols/init.os] Error 1
scons: building terminated because of errors.
=============================================================================

thanks in advance for help

BHARAT

[Anonymous]

Unfortunately this isn’t an error I’ve seen elsewhere, and it is one I cannot duplicate. My best advice is to try a different version of GCC.

[Anonymous]

The o: command not solved bug is due to SCons failing to find your compiler. This was how another user got it fixed:

http://www.rosettacommons.org/content/problems-installing-rosetta-centos-fixed#comment-1999

We can explore other methods if that post doesn’t work.

[Anonymous]

What does “which g++” return?

It may help to copy tools/build/site.settings.topsail to site.settings. This increases the number of places SCons looks when trying to find commands.

[Anonymous]

Finally Rosetta build success.
Fedora 14 64bit gcc 4.5
thank you all

[Anonymous]

I have tried the installation on Fedora 14 which is having gcc 4.5.1.. but I am still getting the following error after executing the scons command :-

scons: Reading SConscript files …
Traceback (most recent call last):
File “/root/Documents/rosetta-3.2.1/rosetta_source/SConstruct”, line
139, in main
build = SConscript(“tools/build/setup.py”)
File “/usr/lib/scons/SCons/Script/SConscript.py”, line 614, in __call__
return method(*args, **kw)
File “/usr/lib/scons/SCons/Script/SConscript.py”, line 551, in SConscript
return _SConscript(self.fs, *files, **subst_kw)
File “/usr/lib/scons/SCons/Script/SConscript.py”, line 260, in _SConscript
exec _file_ in call_stack[-1].globals
File “/root/Documents/rosetta-3.2.1/rosetta_source/tools/build/setup.py”,
line 411, in
build = setup()
File “/root/Documents/rosetta-3.2.1/rosetta_source/tools/build/setup.py”,
line 402, in setup
build.options_requested, build.options = setup_build_options()
File “/root/Documents/rosetta-3.2.1/rosetta_source/tools/build/setup.py”,
line 108, in setup_build_options
supported, actual.cxx, requested.cxx_ver
File “/root/Documents/rosetta-3.2.1/rosetta_source/tools/build/setup_platforms.py”,
line 83, in select_compiler_version
(actual, compiler)
KeyError: “Unknown version number 4.5 for compiler ‘gcc'”
scons: done reading SConscript files.
scons: Building targets …
scons: `bin’ is up to date.
scons: done building targets.

[Anonymous]

Either of these solutions will fix that problem:

http://www.rosettacommons.org/node/2269#comment-2795

http://www.rosettacommons.org/node/2264

[Anonymous]

I tried with options.settings file … But then also I am getting the following error :-
sh: o: command not found
gcc -o build/src/release/linux/2.6/32/x86/gcc/libdevel.so -shared -Llib -Lexternal/lib -Lbuild/src/release/linux/2.6/32/x86/gcc -Lsrc -L/usr/local/lib -L/usr/lib -lprotocols -lcore -lnumeric -lutility -lObjexxFCL -lz
/usr/bin/ld: cannot find -lprotocols
/usr/bin/ld: cannot find -lcore
/usr/bin/ld: cannot find -lnumeric
/usr/bin/ld: cannot find -lutility
/usr/bin/ld: cannot find -lObjexxFCL
/usr/bin/ld: cannot find -lz
collect2: ld returned 1 exit status
scons: *** [build/src/release/linux/2.6/32/x86/gcc/libdevel.so] Error 1
scons: building terminated because of errors.

[Anonymous]

After overriding for cc and cxx …and executing the scons command – I am getting the following error:-

scons: Reading SConscript files …
sh: svnversion: command not found
sh: svn: command not found

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in

scons: warning: The build_dir keyword has been deprecated; use the variant_dir keyword instead.
File “/usr/local/rosetta_source/SConscript”, line 40, in
scons: done reading SConscript files.
scons: Building targets …
g++ -o build/src/release/linux/2.6/32/x86/gcc/apps/public/AbinitioRelax.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -malign-double -march=pentium4 -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Isrc -Iexternal/include -Isrc/platform/linux/32/gcc -Isrc/platform/linux/32 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include src/apps/public/AbinitioRelax.cc
sh: g++: command not found
scons: *** [build/src/release/linux/2.6/32/x86/gcc/apps/public/AbinitioRelax.o] Error 127
scons: building terminated because of errors.

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