>>> I just installed relax on a Mac using fink. >>> relax-py26 1.3.4-2 Protein dynamics by NMR relax. data analysis >>> >>> I also installed the dependencies using fink. >>> minfx-py26 1.0.2-1 The minfx optimisation library >>> numpy-py26 [virtual package] >>> python26 1:2.6.4-101 Interpreted, object-oriented language >>> scientificpython-py26 2.8-1 Python modules for scientific >>> computing >>> scons 0.98.3-1 Python-based build tool >>> >>> I created a link in the relax directory pointing to the minfx directory: >>> minfx@ -> /sw/lib/python2.6/site-packages/minfx/ >>> >> >> This should not be necessary. If there are any strange optimisation >> issues, this should be the first place to look. >> >> > > In fact, if the link is not present, relax complains about minfx not being > installed...
Ah, this is an indication that there are 2 python versions present!!! I have just added a new command line option to relax to help work out what is happening. I'm guessing you have a repository copy from the 1.3 line? If so, update this copy (for those who don't know, you type): $ svn up and then run one of: $ relax -i $ relax --info This should tell you all you need to know about versions, etc.! I can add other useful info later on - i.e. modules installed or missing and their versions. >>> After, I launched relax but got the following warning: >>> >>> ======== >>> ImportError: dlopen(/sw/lib/relax-py26/maths_fns/relax_fit.so, 2): no >>> suitable image found. Did find: >>> /sw/lib/relax-py26/maths_fns/relax_fit.so: mach-o, but wrong >>> architecture >>> Relaxation curve fitting is unavailable, try compiling the C modules. >>> ======== >>> >> >> Try "scons clean_all" followed by "scons". Does the file >> /sw/lib/relax-py26/maths_fns/relax_fit.so exist? This will be a >> problem for curve-fitting! >> > > "scons clean_all" works fine and then, "scons" creates the "relax_fit.so" > executable. The file type (obtained from the command "file") is as follows: > "Mach-O bundle i386". > > Is it what it's supposed to be ? > (I am really new to Mac...) I really have no idea either. Maybe someone else on this list knows something? It could actually be a version issue again as maybe relax is running with an old python version but scons build the module for the 2.6 version? >>> Concerning the test-suite, there were nultiple errors: >>> System tests >>> 4 failures + 20 errors >>> Unit tests >>> 12 errors >>> >>> The unit tests errors were all the same: >>> >>> ====== >>> Traceback (most recent call last): >>> File >>> >>> "/sw/lib/relax-py26/test_suite/unit_tests/_generic_fns/_structure/test_scientific.py", >>> line 54, in setUp >>> self.data = Scientific_data() >>> File "/sw/lib/relax-py26/generic_fns/structure/scientific.py", line >>> 60, in __init__ >>> raise RelaxError, "The Scientific python PDB module >>> Scientific.IO.PDB could not be imported." >>> RelaxError: RelaxError: The Scientific python PDB module >>> Scientific.IO.PDB could not be imported. >>> ====== >>> >>> ... >>> >>> >>> I guess all these errors are not normal... >>> >>> Any idea to help me debug this issue ? >>> >>> Thank you !!! >>> >> >> This is normal as Scientific python is not installed. Maybe it would >> be good to add a new section to the test suite listing the installed >> and missing modules, and then disabling the relevant system and unit >> tests (scientific-python, relax curve-fitting C modules, etc.) if >> missing. This will be a bit of work though, hence why I haven't done >> it yet! I would guess that all the failures are due to these 2 >> missing pieces, but it's hard to tell. >> > > Scientific Python is installed... > scientificpython-py26 2.8-1 Python modules for scientific computing > > Maybe, yes, it would be good to simply give a warning for missing > dependencies and avoid the tests to be performed... > > Thanks for your insights ! This could be again related to Python versions, with Scientific Python installed for Python 2.6 but relax running with Python 1.5 (Mac Unix software versions are painfully old :P). I hope this helps. Regards, Edward _______________________________________________ relax (http://nmr-relax.com) This is the relax-users mailing list [email protected] To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-users
