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From: Sébastien M. <seb...@do...> - 2012-04-20 17:11:54
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Hi Ed, I download the DMG file 1.3.15_rc1 from http://download.gna.org/relax/ and could open relax without any problem. I tested a few buttons and got an error when requesting the user manual ("Help/relax user manual")... Should it be available only upon compilation ? Shouldn't it be available directly from the DMG file ? ============ The relax manual '/Volumes/relax/relax.app/ Contents/Resources/docs/relax.pdf' cannot be found. Please compile using the scons program. ============ Moreover, I tried to run the test suite ("Tools/Test suite") and got the following error: ============ Traceback (most recent call last): File "gui/relax_gui.pyc", line 467, in run_test_suite AttributeError: 'module' object has no attribute 'test_suite_runner' ============ I don't have time to perform analysis tests right now, but here is, at least, the printout of sys_info()... Cheers, Séb :) ============ relax> sys_info() Hardware information: Machine: i386 Processor: i386 Endianness: little Total RAM size: ? Mb Total swap size: ? Mb Operating system information: System: Darwin Release: 10.8.0 Version: Darwin Kernel Version 10.8.0: Tue Jun 7 16:33:36 PDT 2011; root:xnu-1504.15.3~1/RELEASE_I386 Mac version: 10.6.8 (, , ) i386 Distribution: Full platform string: Darwin-10.8.0-i386-64bit Python information: Architecture: 64bit Python version: 2.7.2 Python branch: Python build: default, Apr 5 2012 18:46:15 Python compiler: GCC 4.2.1 (Apple Inc. build 5666) (dot 3) Libc version: Python implementation: CPython Python revision: Python executable: /Volumes/relax/relax.app/Contents/MacOS/python Python flags: sys.flags(debug=0, py3k_warning=0, division_warning=0, division_new=0, inspect=0, interactive=0, optimize=1, dont_write_bytecode=0, no_user_site=0, no_site=0, ignore_environment=0, tabcheck=0, verbose=0, unicode=0, bytes_warning=0) Python float info: sys.float_info(max=1.7976931348623157e+308, max_exp=1024, max_10_exp=308, min=2.2250738585072014e-308, min_exp=-1021, min_10_exp=-307, dig=15, mant_dig=53, epsilon=2.220446049250313e-16, radix=2, rounds=1) Python module path: ['/Volumes/relax/relax.app/Contents/Resources/lib/python27.zip', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/plat-darwin', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/plat-mac', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/plat-mac/lib-scriptpackages', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/lib-tk', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/lib-old', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/lib-dynload', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages', '/Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/extern/scientific_python/darwin'] Python packages and modules (most are optional): Name Installed Version Path minfx True Unknown /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/minfx bmrblib True Unknown /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/bmrblib numpy True 1.6.1 /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/numpy scipy True 0.10.1 /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/scipy wxPython True 2.9.3.1 osx-cocoa (classic) /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/wx mpi4py True 1.2.2 /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/mpi4py epydoc True 3.0.1 /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/epydoc optparse True 1.5.3 /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/optparse.pyc readline False profile True /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/profile.pyc bz2 True /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/lib-dynload/bz2.so gzip True /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/gzip.pyc os.devnull True /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/site-packages.zip/os.pyc relax information: Version: 1.3.15_rc1 Processor fabric: Uni-processor. relax C modules: Module Compiled File type Path maths_fns.relax_fit True 3-way bundle (i386, ppc, x86_64) /Volumes/relax/relax.app/Contents/Resources/lib/python2.7/lib-dynload/maths_fns/relax_fit.so ============ On 12-04-20 4:09 PM, Edward d'Auvergne wrote: > Dear all, > > If you are a Mac OS X user, I would like to ask if you could help with > relax's support for Mac OS X? I have created a special relax > application which targets 10.5, 10.6, and 10.7 systems and which is a > 3-way universal binary build for ppc, i386, and x86_64 systems. It is > using a full Python 2.7 framework and the wxWidgets used to create the > graphical user interface is using Cocoa. Unfortunately I do not have > access to enough test systems covering all these OS versions and CPU > architectures to be able to comprehensively test the Mac support. I > have now successfully tested on real hardware (Intel x86_64) with both > Lion and Snow Leopard, but more testing would be useful, especially if > you have an old PPC system lying around. > > I have created a special relax version 1.3.15_rc1 release just for Mac > users. This can be found on the download page at > http://download.gna.org/relax/. This is a DMG file containing the > relax app. If you could download this 130 Mb file and see if relax > will simply open, taht would be very useful information. I have more > instructions below for performing full analyses using the data in the > relax test-suite, if are interested in helping to improve Mac OS X > support for relax. Any help would be appreciated! > > Cheers, > > Edward > > > > > P. S. Here are some instructions for extensively stress-testing > relax, which is also useful for learning how to use relax The data > from the test-suite is all truncated, and sometime randomised, but can > be used for a full analysis. > > > 1) Testing relax via analyses. If some value is not give below, then > it can be invented without consequence. All the data is in the > relax.app/Contents/Resources/test_suite folder. > > 1a) NOE analysis. > > There are two Sparky peak lists in > ./test_suite/shared_data/peak_lists/ called 'ref_ave.list' and > 'sat_ave.list'. To load the spin systems for these lists into relax, > the PDB file test_suite/shared_data/structures/Ap4Aase_res1-12.pdb can > be used. This is sufficient for a full analysis. > > > 1b) R2 analysis. > > A full set of Sparky peak lists for R2 data can be found in > ./test_suite/shared_data/curve_fitting/. The relevant sequence data > can be extracted from the test_suite/shared_data/Ap4Aase.seq file. > You can invent the delay times of these data sets for fun. > > > 1c) Model-free analysis. > > One of the many examples from the model-free shared data directories > is for a synthetic spherical diffusion model. The data can be found > at ./test_suite/shared_data/model_free/sphere. The PDB file and > relaxation files are all there, no other files are required. > > > 2) Stress testing. > > For this type of testing, randomly clicking everywhere and anywhere in > any order would be useful. Or throwing in any random data or files. > If relax responds with an error that is not a special 'RelaxError', > then this is a bug. The nastier you can break relax, the better! > > > 3) relax information > > Before reporting any problems, a copy of the relax information print > out would be incredibly useful (assuming you can open relax to start > with). You will find this under the Tools->System Information menu. > The output will go to the relax controller, and this text can be > copied and pasted. > > > 4) Reporting problems. > > If you notice any problems, could you please report this as a bug > report (https://gna.org/bugs/?func=additem&group=relax). Please try > to report all steps required to reproduce the problem, Include the > information print out, and copy and paste all error messages > (including most of the information before the error occurred). Note > that any strange behaviour outside of what you would expect is to be > considered a bug. Any suggestions would also be appreciated (though > if it involves months worth of work, it may not happen straight away > ;). Thank you very much! > > _______________________________________________ > relax (http://www.nmr-relax.com) > > This is the relax-users mailing list > rel...@do... > > 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 -- Sébastien Morin, Ph.D. Postdoctoral Fellow, S. Grzesiek NMR Laboratory Department of Structural Biology Biozentrum, Universität Basel Klingelbergstrasse 70 4056 Basel Switzerland ---- sebastien DOT morin AT unibas DOT ch ---- |
