On 9 August 2012 19:38, Venkat V <
venkat@xxxxxxxxxxxxxxxxxxx> wrote:
> Hi Edward,
>
>
> To make sure wx_python has issues I tried the following:
>
> I tried the earlier version of relax 1.3.16 via ssh and that seg faults.
> But relax version 1.3.16 works when use RDP and try it with the same
> wx_python.
>
>
> venkat
>
>
> On Thu, Aug 9, 2012 at 9:03 PM, Edward d'Auvergne <
edward@xxxxxxxxxxxxx>
> wrote:
>>
>> Hi,
>>
>> Those are very strange errors! It might be an indication that the
>> wxPython compilation failed. Does the version.py file that came with
>> the wxPython demos match the wxPython version you have installed? I
>> would suggest trying the 2.9 wxPython versions, or having a close look
>> at the compilation messages. In any case, your wxPython installation
>> does not appear to be in a healthy state.
>>
>> Regards,
>>
>> Edward
>>
>>
>>
>> On 9 August 2012 17:15, Venkat V <
venkat@xxxxxxxxxxxxxxxxxxx> wrote:
>> > Hi Edward,
>> >
>> > Here is the o/p of the wx tests.
>> >
>> > $ which python
>> > /programs/x86_64-linux/python/2.7.2/bin/python
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> > $ python run.py Ge
>> > GenericButtons.py GenericDirCtrl.py GetMouseState.py
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> > $ python run.py Gene
>> > GenericButtons.py GenericDirCtrl.py
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> > $ python run.py GenericButtons.py
>> > Python 2.7.2 (default, Oct 27 2011, 16:10:58)
>> > [GCC 4.1.2 20080704 (Red Hat 4.1.2-51)]
>> > wx.version: 2.8.12.1 (gtk2-unicode)
>> > pid: 32382
>> > Traceback (most recent call last):
>> > File "run.py", line 162, in <module>
>> > main(sys.argv)
>> > File "run.py", line 156, in main
>> > app = RunDemoApp(name, module, useShell)
>> > File "run.py", line 50, in __init__
>> > wx.App.__init__(self, redirect=False)
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7981, in __init__
>> > self._BootstrapApp()
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7555, in _BootstrapApp
>> > return _core_.PyApp__BootstrapApp(*args, **kwargs)
>> > File "run.py", line 57, in OnInit
>> > self.InitInspection() # for the InspectionMixin base class
>> > AttributeError: 'RunDemoApp' object has no attribute 'InitInspection'
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> > $ python run.py StaticBitmap.py
>> > Python 2.7.2 (default, Oct 27 2011, 16:10:58)
>> > [GCC 4.1.2 20080704 (Red Hat 4.1.2-51)]
>> > wx.version: 2.8.12.1 (gtk2-unicode)
>> > pid: 32429
>> > Traceback (most recent call last):
>> > File "run.py", line 162, in <module>
>> > main(sys.argv)
>> > File "run.py", line 156, in main
>> > app = RunDemoApp(name, module, useShell)
>> > File "run.py", line 50, in __init__
>> > wx.App.__init__(self, redirect=False)
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7981, in __init__
>> > self._BootstrapApp()
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7555, in _BootstrapApp
>> > return _core_.PyApp__BootstrapApp(*args, **kwargs)
>> > File "run.py", line 57, in OnInit
>> > self.InitInspection() # for the InspectionMixin base class
>> > AttributeError: 'RunDemoApp' object has no attribute 'InitInspection'
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> > $ python run.py ComboCtrl.py
>> > Python 2.7.2 (default, Oct 27 2011, 16:10:58)
>> > [GCC 4.1.2 20080704 (Red Hat 4.1.2-51)]
>> > wx.version: 2.8.12.1 (gtk2-unicode)
>> > pid: 32476
>> > Traceback (most recent call last):
>> > File "run.py", line 162, in <module>
>> > main(sys.argv)
>> > File "run.py", line 156, in main
>> > app = RunDemoApp(name, module, useShell)
>> > File "run.py", line 50, in __init__
>> > wx.App.__init__(self, redirect=False)
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7981, in __init__
>> > self._BootstrapApp()
>> > File
>> >
>> > "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_core.py",
>> > line 7555, in _BootstrapApp
>> > return _core_.PyApp__BootstrapApp(*args, **kwargs)
>> > File "run.py", line 57, in OnInit
>> > self.InitInspection() # for the InspectionMixin base class
>> > AttributeError: 'RunDemoApp' object has no attribute 'InitInspection'
>> > sbtest@vm-11 [centos-5-x86_64] ~/test/relax/wxtest/demo
>> >
>> >
>> > sincerely,
>> >
>> > Venkat
>> >
>> > On Thu, Aug 9, 2012 at 1:40 AM, Edward d'Auvergne <
edward@xxxxxxxxxxxxx>
>> > wrote:
>> >>
>> >> Hi,
>> >>
>> >> Do you have the wx demos? You can download them from
>> >>
>> >>
http://downloads.sourceforge.net/wxpython/wxPython-demo-2.8.12.1.tar.bz2
>> >> and run these directly. The results of the following tests are
>> >> important:
>> >>
>> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py
>> >> GenericButtons.py
>> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py StaticBitmap.py
>> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py ComboCtrl.py
>> >>
>> >> As you have compiled this version of wxPython and it seems to be
>> >> broken, I would recommend downloading the latest 2.9.4.0 version and
>> >> trying that. I have extensively tested with 2.9.3.1 and everything
>> >> works very nicely, and the Mac OS X distribution dmg file has this
>> >> version built in. Note that the 2.9 versions are much simpler to
>> >> compile and install. The 2.8 version I have tested is 2.8.11.0,
>> >> therefore I would suggest that wxPython has introduced a bug between
>> >> 2.8.11.0 and 2.8.12.1.
>> >>
>> >> Regards,
>> >>
>> >> Edward
>> >>
>> >>
>> >> P. S. If the 2.9 versions work, the report from the wxPython 2.8
>> >> demos would still be very useful for any other relax users who
>> >> encounter the same problem.
>> >>
>> >>
>> >>
>> >> On 8 August 2012 21:11, Venkat V <
venkat@xxxxxxxxxxxxxxxxxxx> wrote:
>> >> > Hi ,
>> >> >
>> >> > Here is how wx-python was installed.
>> >> >
>> >> > ./configure --prefix=/programs/x86_64-linux/wxpython/
2.8.12.1
>> >> > --enable-unicode --with-gtk --with-gnomeprint --with-opengl
>> >> > --with-libjpeg=builtin --with-libpng=builtin --with-libtiff=builtin
>> >> > --with-zlib=builtin --enable-optimize --enable-debug_flag
>> >> > --enable-rpath=/programs/x86_64-linux/wxpython/
2.8.12.1/lib
>> >> > make && make install
>> >> > cd contrib
>> >> > make && make install
>> >> > cd ../wxPython
>> >> > export PATH=programs/system/x86_64-linux/wxpython/
2.8.12.1/bin:$PATH
>> >> > python setup.py install
>> >> >
>> >> >
>> >> > Output of relax --info
>> >> >
>> >> > relax --info
>> >> >
>> >> >
>> >> >
>> >> > relax 2.1.0
>> >> >
>> >> > Molecular dynamics by NMR data analysis
>> >> >
>> >> > Copyright (C) 2001-2006 Edward
>> >> > d'Auvergne
>> >> > Copyright (C) 2006-2012 the relax
>> >> > development
>> >> > team
>> >> >
>> >> > This is free software which you are welcome to modify and
>> >> > redistribute
>> >> > under
>> >> > the conditions of the
>> >> > GNU General Public License (GPL). This program, including all
>> >> > modules,
>> >> > is
>> >> > licensed under the GPL
>> >> > and comes with absolutely no warranty. For details type 'GPL' within
>> >> > the
>> >> > relax prompt.
>> >> >
>> >> > Assistance in using the relax prompt and scripting interface can be
>> >> > accessed
>> >> > by typing 'help' within
>> >> > the prompt.
>> >> >
>> >> > Processor fabric: Uni-processor.
>> >> >
>> >> >
>> >> > Hardware information:
>> >> > Machine: x86_64
>> >> > Processor: x86_64
>> >> > Endianness: little
>> >> > Total RAM size: 2011 Mb
>> >> > Total swap size: 509 Mb
>> >> >
>> >> > Operating system information:
>> >> > System: Linux
>> >> > Release: 2.6.18-194.17.1.el5
>> >> > Version: #1 SMP Wed Sep 29 12:50:31 EDT 2010
>> >> > GNU/Linux version: CentOS 5.8 Final
>> >> > Distribution: redhat 5.8 Final
>> >> > Full platform string:
>> >> > Linux-2.6.18-194.17.1.el5-x86_64-with-redhat-5.8-Final
>> >> >
>> >> > Python information:
>> >> > Architecture: 64bit ELF
>> >> > Python version: 2.7.2
>> >> > Python branch:
>> >> > Python build: default, Oct 27 2011 16:10:58
>> >> > Python compiler: GCC 4.1.2 20080704 (Red Hat 4.1.2-51)
>> >> > Libc version: glibc 2.2.5
>> >> > Python implementation: CPython
>> >> > Python revision:
>> >> > Python executable:
>> >> > /programs/x86_64-linux/python/2.7.2/bin/python
>> >> > Python flags: sys.flags(debug=0, py3k_warning=0,
>> >> > division_warning=0, division_new=0, inspect=0, interactive=0,
>> >> > optimize=0,
>> >> > 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: ['/programs/x86_64-linux/relax/2.1.0',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/setuptools-0.6c11-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/pip-1.0.2-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/matplotlib-1.1.0-py2.7-linux-x86_64.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/yolk-0.4.1-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/MySQL_python-1.2.3-py2.7-linux-x86_64.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/VTK-5.6.1-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/MDAnalysis-0.7.5.1-py2.7-linux-x86_64.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/GridDataFormats-0.2.2-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/networkx-1.6-py2.7.egg',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/MDAnalysisTests-0.7.5.1-py2.7.egg',
>> >> > '/programs/x86_64-linux/ccp4/6.2.0/ccp4-6.2.0/share/python',
>> >> > '/programs/x86_64-linux/ccpnmr/2.2.1/ccpnmr2.2/python',
>> >> > '/programs/x86_64-linux/csrosetta/20120626/python',
>> >> > '/programs/x86_64-linux/eman/1.9/lib',
>> >> > '/programs/x86_64-linux/eman2/20120806/lib',
>> >> > '/programs/x86_64-linux/eman2/20120806/bin',
>> >> > '/programs/x86_64-linux/haddock/2.1',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python27.zip',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/plat-linux2',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/lib-tk',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/lib-old',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/lib-dynload',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages',
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/PIL',
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages',
>> >> >
>> >> >
>> >> > '/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode',
>> >> > '/programs/x86_64-linux/relax/2.1.0/extern/scientific_python/linux2']
>> >> >
>> >> > Python packages and modules (most are optional):
>> >> >
>> >> > Name Installed Version Path
>> >> > minfx True Unknown
>> >> > /programs/x86_64-linux/relax/2.1.0/minfx
>> >> > bmrblib True Unknown
>> >> > /programs/x86_64-linux/relax/2.1.0/bmrblib
>> >> > numpy True 1.6.1
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/numpy
>> >> > scipy True 0.10.0
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/scipy
>> >> > wxPython True 2.8.12.1 (gtk2-unicode)
>> >> >
>> >> >
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx
>> >> > mpi4py False
>> >> > epydoc False
>> >> > optparse True 1.5.3
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/optparse.pyc
>> >> > readline True
>> >> >
>> >> >
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/lib-dynload/readline.so
>> >> > profile True
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/profile.pyc
>> >> > bz2 True
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/lib-dynload/bz2.so
>> >> > gzip True
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/gzip.pyc
>> >> > os.devnull True
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/os.pyc
>> >> > xml True 0.8.4 (internal)
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/xml/__init__.pyc
>> >> > xml.dom.minidom True
>> >> > /programs/x86_64-linux/python/2.7.2/lib/python2.7/xml/dom/minidom.pyc
>> >> >
>> >> > relax information:
>> >> > Version: 2.1.0
>> >> > Processor fabric: Uni-processor.
>> >> >
>> >> > relax C modules:
>> >> >
>> >> > Module Compiled File type
>> >> > Path
>> >> > maths_fns.relax_fit True ELF 64-bit LSB shared object, AMD
>> >> > x86-64,
>> >> > version 1 (SYSV), not stripped
>> >> > /programs/x86_64-linux/relax/2.1.0/maths_fns/relax_fit.so
>> >> >
>> >> >
>> >> > Will get the wx_python o/p by tomorrow
>> >> >
>> >> > venkat
>> >> >
>> >> > On Wed, Aug 8, 2012 at 5:09 PM, Edward d'Auvergne
>> >> > <
edward@xxxxxxxxxxxxx>
>> >> > wrote:
>> >> >>
>> >> >> Hi Venkat,
>> >> >>
>> >> >> I have seen the log file attached to your bug report
>> >> >> (
https://gna.org/bugs/?19987). There seems to be two separate
>> >> >> issues
>> >> >> here. The first is the two failures in the system tests. As you
>> >> >> can
>> >> >> probably see, this is for Art Palmer's Modelfree4 program. From the
>> >> >> lower precision of the chi-squared values from your installed
>> >> >> version,
>> >> >> I would assume that you have a version much older than the current
>> >> >> (though still very old) 4.20 version which includes a number of
>> >> >> patches I sent to Art to fix bugs and to compile with GCC
>> >> >>
>> >> >>
>> >> >> (
http://biochemistry.hs.columbia.edu/labs/palmer/software/modelfree.html).
>> >> >> You can ignore these two failures.
>> >> >>
>> >> >> The second problem is in the GUI tests. I think these messages
>> >> >> clearly identify the problem. The important error message is the
>> >> >> very
>> >> >> first:
>> >> >>
>> >> >> Traceback (most recent call last):
>> >> >> File
>> >> >>
>> >> >>
>> >> >> "/programs/x86_64-linux/relax/2.1.0/test_suite/gui_tests/base_classes.py",
>> >> >> line 198, in setUp
>> >> >> self.app.gui = Main(parent=None, id=-1, title="")
>> >> >> File "/programs/x86_64-linux/relax/2.1.0/gui/relax_gui.py", line
>> >> >> 162, in __init__
>> >> >> self.add_start_screen()
>> >> >> File "/programs/x86_64-linux/relax/2.1.0/gui/relax_gui.py", line
>> >> >> 259, in add_start_screen
>> >> >> image = wx.StaticBitmap(self, -1,
>> >> >> bitmap_setup(paths.IMAGE_PATH+'ulysses_shadowless_400x168.png'))
>> >> >> File "/programs/x86_64-linux/relax/2.1.0/gui/misc.py", line 133,
>> >> >> in
>> >> >> bitmap_setup
>> >> >> bitmap.SetMaskColour(None)
>> >> >> File
>> >> >>
>> >> >>
>> >> >> "/programs/x86_64-linux/python/2.7.2/lib/python2.7/site-packages/wx-2.8-gtk2-unicode/wx/_gdi.py",
>> >> >> line 632, in SetMaskColour
>> >> >> return _gdi_.Bitmap_SetMaskColour(*args, **kwargs)
>> >> >> PyAssertionError: C++ assertion "Ok()" failed at
>> >> >> ./src/gtk/colour.cpp(146) in Blue(): invalid colour
>> >> >>
>> >> >> The second is just an error caused by the failure of the first test
>> >> >> -
>> >> >> nothing to worry about. You can then see that these two error
>> >> >> messages are alternatively repeated for all the GUI tests. The key
>> >> >> is
>> >> >> the failure of the setting of the mask
>> >> >> (
http://en.wikipedia.org/wiki/Mask_%28computing%29#Image_masks) for
>> >> >> the bitmap image. This clearly indicates that your wxPython install
>> >> >> is broken (for your sys admin - I'm guessing because of the linking
>> >> >> to
>> >> >> the GTK+ libraries). You might be able to test this with the
>> >> >> wxPython
>> >> >> demos for this wxPython version. Try the following and see if you
>> >> >> observe error messages:
>> >> >>
>> >> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py
>> >> >> GenericButtons.py
>> >> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py
>> >> >> StaticBitmap.py
>> >> >> $ /programs/x86_64-linux/python/2.7.2/bin/python run.py ComboCtrl.py
>> >> >>
>> >> >> These should all run fine. Note you need to be in the wx_demo
>> >> >> directory containing the run.py and other files. Could you copy and
>> >> >> paste the output of these tests. Also, I just noticed that your
>> >> >> information from:
>> >> >>
>> >> >> $ relax --info
>> >> >>
>> >> >> was accidentally not sent to the mailing lists. Could you copy and
>> >> >> paste that output as well for reference. Remember to click on
>> >> >> 'reply-to-all' rather than just 'reply' when responding. Other
>> >> >> information that would be useful is how is this wxPython installed?
>> >> >> Is it installed from the package management system, is it downloaded
>> >> >> binaries, or is it self compiled? Is it also installed locally or
>> >> >> on
>> >> >> an NFS share, for example?
>> >> >>
>> >> >> Cheers,
>> >> >>
>> >> >> Edward
>> >> >>
>> >> >>
>> >> >> P.S. To summarize, here is a check list of needed information:
>> >> >>
>> >> >> 1. wx_demo tests output.
>> >> >> 2. relax --info output.
>> >> >> 3. wxPython install info.
>> >> >>
>> >> >>
>> >> >>
>> >> >> On 8 August 2012 13:07, venkataraman <
venkat@xxxxxxxxxxxxxxxxxxx>
>> >> >> wrote:
>> >> >> > I had sent the error report as a text file for the o/p of
>> >> >> > relax --test-suite on x86_64-linux on centOS5.
>> >> >> >
>> >> >> >
>> >> >> >
>> >> >> > _______________________________________________
>> >> >> > relax (
http://www.nmr-relax.com)
>> >> >> >
>> >> >> > This is the relax-users mailing list
>> >> >> >
relax-users@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-users
>> >> >
>> >> >
>> >
>> >
>
>
Re: relax GUI