Re: [IMP-dev] Problem compiling IMP trunk on a Mac with Lion
To: List for IMP development <>
Subject: Re: [IMP-dev] Problem compiling IMP trunk on a Mac with Lion
From: Daniel Russel <>
Date: Tue, 4 Oct 2011 08:39:05 -0700
Reply-to: List for IMP development <>
Your svn copy is somehow not updating properly then. Line 30 of Score.h is part of a comment in svn head. I'd "rm -rf" any directories that you haven't modified and do svn update again. Every once in a while svn gets confused.
On Oct 4, 2011, at 8:13 AM, Davide Baù wrote:
> Yes, the directory modules/kernel is present.
> I have tried to compile the same version on a linux machine. It does not compile either, but with a different error:
>
>> g++ -o build/src/imp_misc_all.os -c -isystem /usr/src/imp/trunk -Wall -Wextra -Wno-deprecated -Winit-self -Wstrict-aliasing=2 -Wcast-align -fno-operator-names -Wmissing-declarations -Wundef -Woverloaded-virtual -O3 -fexpensive-optimizations -ffast-math -ftree-vectorize -ffinite-math-only -fstrict-aliasing -fno-trapping-math -fno-signaling-nans -fno-float-store -Wno-unused -funsafe-loop-optimizations -fno-signed-zeros -freciprocal-math -fassociative-math -fvisibility=hidden -fPIC -DBOOST_ALL_NO_LIB -DIMPMISC_EXPORTS -DGCC_VISIBILITY -Ibuild/include -Ibuild/src build/src/imp_misc_all.cpp
>> scons: *** [build/src/imp_restrainer_all.os] Error 1
>> /usr/src/imp/trunk/build/include/IMP/saxs/Score.h:30: Warning(401): Nothing known about base class 'RefCounted'. Ignored.
>> scons: building terminated because of errors.
>
>
>
> On Oct 4, 2011, at 4:48 PM, Daniel Russel wrote:
>
>> For some reason scons isn't finding most of the module source (at the bottom it thinks there are no modules it can build). Are you sure there is a directory modules/kernel?
>>
>> On Oct 4, 2011, at 4:48 AM, Davide Baù wrote:
>>
>>> Hi all,
>>>
>>> I have a problem trying to compile the latest IMP build (r11272) on a MBP updated to Lion.
>>>
>>> I got the latest version of IMP (svn co http://svn.salilab.org/imp/trunk) but I'm not able to compile it (Errors building: tools/imppy.sh).
>>>
>>> Does anyone knows if it depends on the IMP version I'm trying to compile?
>>> Davide
>>>
>>>> scons: *** [tools/imppy.sh] KeyError : 'kernel'
>>>> Traceback (most recent call last):
>>>> File "/opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/scons-2.0.1/SCons/Action.py", line 1046, in execute
>>>> result = self.execfunction(target=target, source=rsources, env=env)
>>>> File "/usr/src/imp/r11272/scons_tools/imppy.py", line 61, in builder_script_file
>>>> if data.get(env).modules['kernel'].external:
>>>> KeyError: 'kernel'
>>>> scons: building terminated because of errors.
>>>>
>>>>
>>>> IMP configuration:
>>>> boost ='yes'
>>>> boostlibs =''
>>>> boostversion ='104601'
>>>> boostlibsuffix ='-mt'
>>>> endian ='little'
>>>> boost_programoptions='yes'
>>>> boost_programoptionslibs='boost_program_options-mt'
>>>> build ='fast'
>>>> prefix ='/usr'
>>>> local ='True'
>>>> pythonpath ='/usr/src/imp/r11272'
>>>> libpath ='/opt/local/lib'
>>>> ldlibpath ='/usr/src/imp/r11272'
>>>> swigpath ='/usr/src/imp/r11272'
>>>> datapath ='/usr/src/imp/r11272'
>>>> cxxcompiler ='g++'
>>>> cxxflags='-isystem /opt/local/include -Os -fno-common -arch i386 -arch x86_64 -Wall -Wextra -Wno-deprecated -Winit-self -Wstrict-aliasing=2 -Wcast-align -fno-operator-names -Wmissing-prototypes -Wundef -Woverloaded-virtual -O3 -fexpensive-optimizations -ffast-math -ftree-vectorize -ffinite-math-only -fstrict-aliasing -fno-trapping-math -fno-signaling-nans -fno-float-store -Wno-unused -funsafe-loop-optimizations'
>>>> pythoncxxflags ='-isystem /opt/local/include -Os -fno-common -arch i386 -arch x86_64 -Wno-deprecated -Winit-self -Wcast-align -fno-operator-names -Wundef -Woverloaded-virtual -fexpensive-optimizations -ffast-math -ftree-vectorize -ffinite-math-only -fstrict-aliasing -fno-trapping-math -fno-signaling-nans -fno-float-store -Wno-unused -funsafe-loop-optimizations'
>>>> bincxxflags='-isystem /opt/local/include -Os -fno-common -arch i386 -arch x86_64 -Wall -Wextra -Wno-deprecated -Winit-self -Wstrict-aliasing=2 -Wcast-align -fno-operator-names -Wundef -Woverloaded-virtual -O3 -fexpensive-optimizations -ffast-math -ftree-vectorize -ffinite-math-only -fstrict-aliasing -fno-trapping-math -fno-signaling-nans -fno-float-store -Wno-unused -funsafe-loop-optimizations'
>>>> shliblinkflags =' -dynamiclib -headerpad_max_install_names'
>>>> arliblinkflags =''
>>>> binlinkflags ='-headerpad_max_install_names'
>>>> pythonlinkflags =' -bundle -bundle -flat_namespace -undefined suppress -headerpad_max_install_names'
>>>> rpath ='True'
>>>> static ='False'
>>>> pythonsosuffix ='.so'
>>>> pkgconfig ='True'
>>>> path ="/opt/local/bin:/opt/local/sbin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/X11/bin:/opt/local/bin:/usr/local/git/bin:/Users/dbau/Work/scripts:/Users/dbau/Work/scripts/ucsf:/Users/dbau/Work/scripts/tools:/Users/dbau/Work/scripts/IMP:/Users/dbau/Scripts:/opt/local/bin:/usr/bin:/bin:/usr/local/git/bin:/usr/src/android-sdk-mac_x86/platforms:/usr/src/android-sdk-mac_x86/tools:/usr/src/android-sdk-mac_x86/platform-tools"
>>>> python ="python"
>>>>
>>>>
>>>> Enabled dependencies: Boost, Boost.ProgramOptions
>>>>
>>>> Disabled modules: em, core, container, saxs, multifit, modules, example_system_local, rmf, atom, em2d
>>>>
>>>> Disabled applications: rmf_tools, ligand_score, saxs_tools, Groel, nup84, multifit, em_tools, example_system, rnapii, foxs
>>>>
>>>> Errors building:
>>>> tools/imppy.sh
>>>
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