Hi Seb, Could you paste the output of 'relax -i'? This will help in working out what is happening and will be useful to have on record.
Cheers, Edward On 22 February 2010 18:30, Edward d'Auvergne <[email protected]> wrote: >>>> 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
