Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes: From 'python setup.py build': Rich src/_ns_backend_gdk.c:17:25: pygtk/pygtk.h: No such file or Rich directory RichHowever, ... Rich [EMAIL PROTECTED] ~]$ locate pygtk.h Rich /usr/local/pygtk-2.8.6/gtk/pygtk.h Rich /usr/local/include/pygtk-2.0/pygtk/pygtk.h RichDo I need to add /usr/local/include/pygtk-2.0/ somewhere Rich in setup.py? In your build environment, see if these directories show up with pkg-config --cflags-only-I pygtk-2.0 That is what mpl uses to find your pygtk headers. If not, set your PKG_CONFIG_PATH environment variable accordingly, and make sure there is a pygtk-2.0.pc file in that directory. On my system it is in /usr/lib/pkgconfig/pygtk-2.0.pc and yours will probably be /usr/local/lib/pkgconfig It looks like you did a local install of pygtk, but did not update the pkg-config path to point to it. JDH - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: In your build environment, see if these directories show up with pkg-config --cflags-only-I pygtk-2.0 John, Nobody's home. That is what mpl uses to find your pygtk headers. If not, set your PKG_CONFIG_PATH environment variable accordingly, and make sure there is a pygtk-2.0.pc file in that directory. On my system it is in /usr/lib/pkgconfig/pygtk-2.0.pc and yours will probably be /usr/local/lib/pkgconfig Yes. That's just where it is. It looks like you did a local install of pygtk, but did not update the pkg-config path to point to it. Since I work on the main server/workstation, 'local' is a relative term. :-) Regardless, I added 'export PKG_CONFIG_PATH=/usr/local/lib/pkgconfig/' to .bash_profile and sourced that file. Did the same for root's .bash_profile. Now it's building. Many thanks, Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes: RichRegardless, I added 'export Rich PKG_CONFIG_PATH=/usr/local/lib/pkgconfig/' to .bash_profile Rich and sourced that file. Did the same for root's Rich .bash_profile. Now it's building. You may also want to append /usr/local/pkgconfig/ to that path... Glad it's working for you. JDH - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: You may also want to append /usr/local/pkgconfig/ to that path... John, pkgconfig is only in /usr/local/lib. Glad it's working for you. Well, let's not be too hasty. I replaced ~/.matplotlib/matplotlibrc with the newer copy from today's installation. Then I tried the simple script at the top of the tutorial: [EMAIL PROTECTED] ~]$ ipython Python 2.4.1 (#1, Apr 20 2005, 11:40:53) Type copyright, credits or license for more information. IPython 0.7.2 -- An enhanced Interactive Python. ? - Introduction to IPython's features. %magic - Information about IPython's 'magic' % functions. help- Python's own help system. object? - Details about 'object'. ?object also works, ?? prints more. In [1]: from pylab import * In [2]: plot([1,2,3,4]) Out[2]: [matplotlib.lines.Line2D instance at 0x4271874c] In [3]: show() Segmentation fault So, I must be missing something that's throwing an exception. Might you have suggestions where I should start looking? Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes: Rich In [3]: show() Segmentation fault sudo rm -rf your build dir and site-packages/matplotlib and rebuild/reinstall. JDH - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: sudo rm -rf your build dir and site-packages/matplotlib and rebuild/reinstall. John, Rats! That did not change the result. Is matplotlib-0.87.7 dependent on specific versions of gcc or glibc? Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Perhaps you have a second installation that you are not aware of. On Jan 11, 2007, at 12:18 PM, Rich Shepard wrote: On Thu, 11 Jan 2007, John Hunter wrote: sudo rm -rf your build dir and site-packages/matplotlib and rebuild/reinstall. John, Rats! That did not change the result. Is matplotlib-0.87.7 dependent on specific versions of gcc or glibc? Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 -- --- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php? page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes: RichIs matplotlib-0.87.7 dependent on specific versions of Rich gcc or glibc? Not that I know of... I'm pasting in our SEGFAULTS instructions below, which are located in the svn repository # How to diagnose where a segfault is occurring First thing to try is simply rm -rf the site-packages/matplotlib and build subdirs and get a clean install. Installing a new version over a pretty old version has been known to cause trouble, segfault, etc. Try importing these packages individually import matplotlib._image import matplotlib._transforms #one of these three depending on which numerix package you are using import matplotlib.backends._na_backend_agg # for numarray import matplotlib.backends._nc_backend_agg # for Numeric import matplotlib.backends._ns_backend_agg # for numpy import matplotlib.backends._tkagg import matplotlib._agg If the last two work and the others don't, it is likely you need to upgrade your gcc, because on some platforms (OS X for sure) old versions of gcc cannot compile new versions of pycxx, which matplotlib uses for building some but not all of it's extensions. Report back which if any work or segfault or raise tracebacks, If that shed additional light, again flush the build and install dirs, and try setting VERBOSE=True in setup.py before doing a clean install. The VERBOSE setting will generate lots of extra output and may help indicate where the segfault is occurring - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, Simson Garfinkel wrote: Perhaps you have a second installation that you are not aware of. Good thought, Simon. I have the new /usr/local/matplotlib-0.87.7, /usr/share/matplotlib (with images and fonts), and another directory with docs and examples. That's all. There are no other copies of matplotlib except in the build directory and in ../site-packages/. Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: # How to diagnose where a segfault is occurring Try importing these packages individually [EMAIL PROTECTED] ~]$ ipython In [1]: import matplotlib._image In [2]: import matplotlib._transforms In [3]: import matplotlib.backends._ns_backend_agg In [4]: import matplotlib.backends._tkagg In [5]: import matplotlib._agg So far, so good. If that shed additional light, again flush the build and install dirs, and try setting VERBOSE=True in setup.py before doing a clean install. The VERBOSE setting will generate lots of extra output and may help indicate where the segfault is occurring Will do. Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: If that shed additional light, again flush the build and install dirs, and try setting VERBOSE=True in setup.py before doing a clean install. The VERBOSE setting will generate lots of extra output and may help indicate where the segfault is occurring Nothing different. No errors, but the same warnings that _POSIX_C_SOURCE is redefined, for example: gcc: src/_ns_image.cpp In file included from /usr/include/python2.4/Python.h:8, from src/_ns_image.cpp:8: /usr/include/python2.4/pyconfig.h:835:1: warning: _POSIX_C_SOURCE redefined In file included from /usr/include/c++/3.3.6/i486-slackware-linux/bits/os_defines.h:39, from /usr/include/c++/3.3.6/i486-slackware-linux/bits/c++config.h:35, from /usr/include/c++/3.3.6/iostream:44, from src/_ns_image.cpp:2: /usr/include/features.h:150:1: warning: this is the location of the previous definition Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: # How to diagnose where a segfault is occurring Try importing these packages individually import matplotlib._image import matplotlib._transforms import matplotlib.backends._ns_backend_agg # for numpy import matplotlib.backends._tkagg import matplotlib._agg All import without complaint. If that shed additional light, again flush the build and install dirs, and try setting VERBOSE=True in setup.py before doing a clean install. The VERBOSE setting will generate lots of extra output and may help indicate where the segfault is occurring No extra messages indicating any problems. I did discover that there were two pkgconfig/ directories. I moved the few newer *.pc files from /usr/local/lib/pkgconfig/ to /usr/lib/pkgconfig/, removed the now empty directory, and rebuilt/installed from the source tarball. No joy. It still segfaults when I try to 'show()' the plot. Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes: If that shed additional light, again flush the build and install dirs, and try setting VERBOSE=True in setup.py before doing a clean install. The VERBOSE setting will generate lots of extra output and may help indicate where the segfault is occurring RichNo extra messages indicating any problems. RichI did discover that there were two pkgconfig/ Rich directories. I moved the few newer *.pc files from Rich /usr/local/lib/pkgconfig/ to /usr/lib/pkgconfig/, removed Rich the now empty directory, and rebuilt/installed from the Rich source tarball. RichNo joy. It still segfaults when I try to 'show()' the Rich plot. If you recompiled cleanly (ie removed the build subdir) with VERBOSE=True as instructed, you should be getting tons and tons of output whenever you run a script (eg can you run simple_plot.py?). If you are not getting the output, you are probably not running the matplotlib you think you are. If you do get the output, post it along with the script and the command line. Also, try running with different backends, eg, PS, Agg. DO both segfault? JDH - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: If you recompiled cleanly (ie removed the build subdir) with VERBOSE=True as instructed, you should be getting tons and tons of output whenever you run a script (eg can you run simple_plot.py?). John, I was looking for verbose output during the build rather than when the script ran. Now I'm on the same page as you are. If you do get the output, post it along with the script and the command line. Also, try running with different backends, eg, PS, Agg. DO both segfault? simple_plot.py and the output (matplot.log) are attached. It is when the show() command is run that the problem appears. How do I specify the backend for a run of the script? Thanks, Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
Rich == Rich Shepard [EMAIL PROTECTED] writes:
Richsimple_plot.py and the output (matplot.log) are
Rich attached. It is when the show() command is run that the
Rich problem appears.
I didn't see the attachment.
Rich How do I specify the backend for a run of the script?
Create a minimal script:
from pylab import plot, savefig, show
plot([1,2,3])
savefig('test')
show()
and run it with
python myscript.py --verbose-debug -dAgg runagg.out
python myscript.py --verbose-debug -dPS runps.out
python myscript.py --verbose-debug -dGTK rungtk.out
You may want to move this conversation over to the devel list.
JDH
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Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: I didn't see the attachment. John, Mea culpa! I forgot to stick them on. python myscript.py --verbose-debug -dAgg runagg.out python myscript.py --verbose-debug -dPS runps.out python myscript.py --verbose-debug -dGTK rungtk.out You may want to move this conversation over to the devel list. I just returned the subscription confirmation, and will append the output files in a response to that list. Quick summary: the first two above just ran; the third ran and displayed a window with the plot. No segfaults on any of them. Then I ran simple_plot.py a fourth time -- using WXAgg. That generated the segfault. Many thanks, Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] matplotlib-0.87.7 Build Failure
On Thu, 11 Jan 2007, John Hunter wrote: Hmm, what version of wx are you using? wxPython-2.6.3.2-i486-1asz (on Slackware) Rich -- Richard B. Shepard, Ph.D. |The Environmental Permitting Applied Ecosystem Services, Inc.| Accelerator(TM) http://www.appl-ecosys.com Voice: 503-667-4517 Fax: 503-667-8863 - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys - and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
