Thanks for all replies.
I got a solution by copying some files from SVN trunk revision 6155. I did
as follow:
svn co
https://matplotlib.svn.sourceforge.net/svnroot/matplotlib/trunk/matplotlib
sudo cp
-b matplotlib/lib/matplotlib/backends/backend_pdf.py
/sw/lib/python2.5/site-packages/matplotlib/backends
sudo cp
-b matplotlib/lib/matplotlib/config/mplconfig.py
/sw/lib/python2.5/site-packages/matplotlib/config
sudo cp
-b matplotlib/lib/matplotlib/mlab.py /sw/lib/python2.5/site-packages/matplotlib/
sudo cp
-b matplotlib/lib/matplotlib/path.py /sw/lib/python2.5/site-packages/matplotlib
sudo cp
-b matplotlib/lib/matplotlib/rcsetup.py
/sw/lib/python2.5/site-packages/matplotlib
Cheers,
Alan
On Fri, Oct 3, 2008 at 1:21 PM, Michael Droettboom <[EMAIL PROTECTED]> wrote:
> Are you perhaps trying to plot data containing NaN or Inf? If so, this is
> a known bug in 0.98.3 that has seen been corrected on SVN trunk.
>
> A workaround is to pass masked arrays (where the NaNs and Infs are masked
> out) to matplotlib instead.
>
> But this bug should be gone in the next release of matplotlib. If you're
> comfortable building from SVN, you could even try that now.
>
> Cheers,
> Mike
>
>
> Alan wrote:
>
>> Dear all,
>>
>> I don't know much how to express this issue I am having but I will try.
>>
>> We are developing an application (CING: cing.googlecodes.com) and we
>> have some routines to test the sanity of our code.
>>
>> I am developing in python, on a mac book pro with Mac OSX tiger and FINK.
>>
>> So when we were using matplotlib 0.90.1 and numpy 1.0.4 the routine
>> below was running fine.
>>
>> Then I updated all from Fink, having now mtplib 0.98.3 and numpy 1.1.1
>> and problems started to appear.
>>
>> I could solve all (e.g. replace verify_intervals()) but one, as shown
>> below.
>>
>> I don't have much idea at moment how to debug it better, but it seems
>> that I cannot generate the PDFs because mtplib functions don't guess a
>> finite number of pages.
>>
>> I hope someone can give any idea.
>>
>> Many thanks in advance.
>>
>> Alan
>>
>> ======================================================================
>> ERROR: testMoleculePlot (cing.Libs.test.test_NTMoleculePlot.AllChecks)
>> ----------------------------------------------------------------------
>> Traceback (most recent call last):
>> File
>> "/Users/alan/workspace/cingWork/python/cing/Libs/test/test_NTMoleculePlot.py",
>> line 178, in testMoleculePlot
>> createPngCopyToo=True )
>> File "/Users/alan/workspace/cingWork/python/cing/Libs/NTmoleculePlot.py",
>> line 176, in renderMoleculePlotSet
>> if ps.hardcopy(fileNameList[r-1]):
>> File "/Users/alan/workspace/cingWork/python/cing/Libs/NTplot.py",
>> line 1201, in hardcopy
>> savefig(fileName)
>> File "/sw/lib/python2.5/site-packages/matplotlib/pyplot.py", line
>> 342, in savefig
>> return fig.savefig(*args, **kwargs)
>> File "/sw/lib/python2.5/site-packages/matplotlib/figure.py", line
>> 964, in savefig
>> self.canvas.print_figure(*args, **kwargs)
>> File "/sw/lib/python2.5/site-packages/matplotlib/backend_bases.py",
>> line 1310, in print_figure
>> **kwargs)
>> File "/sw/lib/python2.5/site-packages/matplotlib/backend_bases.py",
>> line 1204, in print_pdf
>> return pdf.print_pdf(*args, **kwargs)
>> File
>> "/sw/lib/python2.5/site-packages/matplotlib/backends/backend_pdf.py",
>> line 1864, in print_pdf
>> self.figure.draw(renderer)
>> File "/sw/lib/python2.5/site-packages/matplotlib/figure.py", line 759, in
>> draw
>> for a in self.axes: a.draw(renderer)
>> File "/sw/lib/python2.5/site-packages/matplotlib/axes.py", line 1523, in
>> draw
>> a.draw(renderer)
>> File "/sw/lib/python2.5/site-packages/matplotlib/lines.py", line 437, in
>> draw
>> markerFunc(renderer, gc, tpath, affine.frozen())
>> File "/sw/lib/python2.5/site-packages/matplotlib/lines.py", line
>> 885, in _draw_plus
>> path, path_trans)
>> File
>> "/sw/lib/python2.5/site-packages/matplotlib/backends/backend_pdf.py",
>> line 1253, in draw_markers
>> marker, Op.use_xobject)
>> File
>> "/sw/lib/python2.5/site-packages/matplotlib/backends/backend_pdf.py",
>> line 451, in output
>> self.write(fill(map(pdfRepr, data)))
>> File
>> "/sw/lib/python2.5/site-packages/matplotlib/backends/backend_pdf.py",
>> line 124, in pdfRepr
>> raise ValueError, "Can only output finite numbers in PDF"
>> ValueError: Can only output finite numbers in PDF
>>
>> ----------------------------------------------------------------------
>>
>>
>
> --
> Michael Droettboom
> Science Software Branch
> Operations and Engineering Division
> Space Telescope Science Institute
> Operated by AURA for NASA
>
>
--
Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate
Department of Biochemistry, University of Cambridge.
80 Tennis Court Road, Cambridge CB2 1GA, UK.
>>http://www.bio.cam.ac.uk/~awd28<<
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