Re: [bug #7670] scons compile issue -- November 08, 2006

I worked out some settings so that I no longer receive the error. The steps I used are outlined below:

(1) grabbed a clean 1.3 source via svn

(2) changed the first in the 'relax' file to read: #! /usr/bin/env python which by default will use /sw/bin/python instead of /usr/bin/python on my system

(3) edited the gnulink.py in the scons distribution (line 49): elif env['PLATFORM'] == 'darwin': #env['SHLINKFLAGS'] = SCons.Util.CLVar('$LINKFLAGS - dynamiclib') env['SHLINKFLAGS'] = SCons.Util.CLVar('$LINKFLAGS')

(4) invoked 'scons' in the main directory

(5) moved 'maths_fns/relax_fit.dylib' to 'maths_fns/relax_fit.so' to match the file name that is present after linux complication


Would it be possible to change the
     #! /usr/bin/env python
line in relax to
     #! /usr/bin/env python
or would that break functionality?

Doug

On Nov 8, 2006, at 11:07 AM, Edward d'Auvergne wrote:

I wonder if it is the file 'maths_fns/relax_fit.dylib' which should
have a different extension?  As relax hides the importing error
messages and prints 'ImportError: relaxation curve fitting is
unavailable, try compiling the C modules.' instead, you can get the
true error message by typing the following at the relax prompt:
from maths_fns.relax_fit import setup, func, dfunc, d2func, back_calc_I
Does typing this give any useful messages?
Edward
On 11/9/06, Douglas Kojetin <douglas.kojetin@xxxxxxxxx> wrote:
Hi Edward-
The following worked without error:
gcc -bundle -bundle_loader /sw/bin/python -dynamic -o maths_fns/relax_fit.dylib maths_fns/c_chi2.os maths_fns/ exponential.os maths_fns/relax_fit.os
but invoking relax afterwards suggests the relaxation curve fitting
is still not available:
% ./relax --test
ImportError: relaxation curve fitting is unavailible, try compiling
the C modules.
Is there anything else I need to do or should try?
Thanks,
Doug
On Nov 8, 2006, at 9:30 AM, Edward d'Auvergne wrote: > Hi, > > I have to warn you first that the 'tensor_pdb' branch is very unstable > code at the moment and I'm constantly breaking things as the code > shapes up. There may be times when it won't even run. These aren't > related to this bug though. > > I've had a look at the 'sconstruct' script in the base relax directory > and one thing which is apparent is the '-dynamiclib' flag being passed > into 'gcc'. The script has been specifically modified for OS X to > compile the shared objects to be loaded by python, hence the > '-bundle', etc. flags. However '-dynamiclib' is not one of the > options in the script so it must be SCons adding that. If you type > the following gcc line at the prompt, do get the same > 'powerpc-apple-darwin8-gcc-4.0.1' error message or does the code > compile? > > gcc -bundle -bundle_loader /sw/bin/python -dynamic -o > maths_fns/relax_fit.dylib maths_fns/c_chi2.os maths_fns/ exponential.os > maths_fns/relax_fit.os > > If we can work out how to compile the C modules on the command line, > then the SCons script can be subsequently updated to pass the correct > options to gcc. > > Cheers, > > Edward > > > On 11/8/06, anonymous <NO-REPLY.INVALID-ADDRESS@xxxxxxx> wrote: >> >> URL: >> <http://gna.org/bugs/?7670> >> >> Summary: scons compile issue >> Project: relax >> Submitted by: None >> Submitted on: Wednesday 11/08/2006 at 13:52 CET >> Category: Scons build system >> Priority: 5 - Normal >> Severity: 4 - Important >> Status: None >> Privacy: Public >> Assigned to: None >> Originator Name: doug >> Originator Email: >> Open/Closed: Open >> Release: 1.2.7 >> Operating System: Mac OS X >> >> _______________________________________________________ >> >> Details: >> >> I'm using the tensor_pdb version (svn co >> svn://svn.gna.org/svn/relax/branches/tensor_pdb) and running Mac >> OS X 10.4.8 >> w/ gcc version 4.0.1 (PowerPC version). >> >> I tried to install relax using the directions in the relax.pdf >> section 1.2.1 >> using the 'scons' program under OS X. I am seeing the following >> error (even >> after trying to execute 'scons' a few times, which is shown below): >> >> % scons clean >> scons: Reading SConscript files ... >> scons: done reading SConscript files. >> scons: Building targets ... >> clean_temp_files(["clean_temp"], []) >> >> ############################### >> # Cleaning up temporary files # >> ############################### >> >> >> >> Removing the files ending in ['pyc', 'bak', 'o', 'os', 'obj', >> 'exp', 'lib']. >> >> >> >> >> >> clean_manual_files(["manual_clean"], []) >> >> ########################################## >> # Cleaning up the temporary manual files # >> ########################################## >> >> >> >> >> >> >> clean_files(["clean"], []) >> >> ############### >> # Cleaning up # >> ############### >> >> >> >> Removing the files ending in ['so', 'sconsign', 'dll']. >> >> >> >> >> >> scons: done building targets. >> >> >> >> % scons >> scons: Reading SConscript files ... >> scons: done reading SConscript files. >> scons: Building targets ... >> >> >> >> >> ########################### >> # Compiling the C modules # >> ########################### >> >> >> Building the relaxation curve fitting module 'maths_fns/ >> relax_fit.dylib' >> >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/c_chi2.os >> maths_fns/c_chi2.c >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/exponential.os >> maths_fns/exponential.c >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/relax_fit.os >> maths_fns/relax_fit.c >> gcc -bundle -bundle_loader /sw/bin/python -dynamic -dynamiclib -o >> maths_fns/relax_fit.dylib maths_fns/c_chi2.os maths_fns/ >> exponential.os >> maths_fns/relax_fit.os >> powerpc-apple-darwin8-gcc-4.0.1: -bundle not allowed with - dynamiclib >> scons: *** [maths_fns/relax_fit.dylib] Error 1 >> scons: building terminated because of errors. >> >> >> >> >> I blindly tried removing the -bundle and -bundle_loader flags, but >> that did >> not help. >> >> >> >> _______________________________________________________ >> >> Follow-up Comments: >> >> >> ------------------------------------------------------- >> Date: Wednesday 11/08/2006 at 13:52 CETBy: Anonymous >> I'm using the tensor_pdb version (svn co >> svn://svn.gna.org/svn/relax/branches/tensor_pdb) and running Mac >> OS X 10.4.8 >> w/ gcc version 4.0.1 (PowerPC version). >> >> I tried to install relax using the directions in the relax.pdf >> section 1.2.1 >> using the 'scons' program under OS X. I am seeing the following >> error (even >> after trying to execute 'scons' a few times, which is shown below): >> >> % scons clean >> scons: Reading SConscript files ... >> scons: done reading SConscript files. >> scons: Building targets ... >> clean_temp_files(["clean_temp"], []) >> >> ############################### >> # Cleaning up temporary files # >> ############################### >> >> >> >> Removing the files ending in ['pyc', 'bak', 'o', 'os', 'obj', >> 'exp', 'lib']. >> >> >> >> >> >> clean_manual_files(["manual_clean"], []) >> >> ########################################## >> # Cleaning up the temporary manual files # >> ########################################## >> >> >> >> >> >> >> clean_files(["clean"], []) >> >> ############### >> # Cleaning up # >> ############### >> >> >> >> Removing the files ending in ['so', 'sconsign', 'dll']. >> >> >> >> >> >> scons: done building targets. >> >> >> >> % scons >> scons: Reading SConscript files ... >> scons: done reading SConscript files. >> scons: Building targets ... >> >> >> >> >> ########################### >> # Compiling the C modules # >> ########################### >> >> >> Building the relaxation curve fitting module 'maths_fns/ >> relax_fit.dylib' >> >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/c_chi2.os >> maths_fns/c_chi2.c >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/exponential.os >> maths_fns/exponential.c >> gcc -I/sw/include/python2.4 -fPIC -c -o maths_fns/relax_fit.os >> maths_fns/relax_fit.c >> gcc -bundle -bundle_loader /sw/bin/python -dynamic -dynamiclib -o >> maths_fns/relax_fit.dylib maths_fns/c_chi2.os maths_fns/ >> exponential.os >> maths_fns/relax_fit.os >> powerpc-apple-darwin8-gcc-4.0.1: -bundle not allowed with - dynamiclib >> scons: *** [maths_fns/relax_fit.dylib] Error 1 >> scons: building terminated because of errors. >> >> >> >> >> I blindly tried removing the -bundle and -bundle_loader flags, but >> that did >> not help. >> >> >> >> >> >> >> >> >> >> >> _______________________________________________________ >> >> Reply to this item at: >> >> <http://gna.org/bugs/?7670> >> >> _______________________________________________ >> Message sent via/by Gna! >> http://gna.org/ >> >> >> _______________________________________________ >> relax (http://nmr-relax.com) >> >> This is the relax-devel mailing list >> relax-devel@xxxxxxx >> >> 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-devel >>

Re: [bug #7670] scons compile issue

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