Re: [matplotlib-devel] Mac binary for 1.3.0rc2; more errors than usual in the unit tests

[Michael D. <md...@st...>]

On 05/30/2013 06:06 PM, Russell E. Owen wrote:
> I uploaded a binary installer for MacOS X, 64-bit python.org python 2.7.
> I built it using numpy 1.7.1. This version does not include pytz,
> dateutil or six, but the included ReadMe says they are prerequisites and
> suggests installing them with pip.
>
> The tests showed more problems than usual. I have appended the whole set.
>
> A few questions:
> - Why does setupext.py's dateutil finder have this:
>     return ['python_dateutil']
> when the package is called python-dateutil (hyphen instead of
> underscore)? If it is intentional, it might be worth noting with a
> comment.

Thanks for noticing that.  You are correct, and that underscore should 
be replaced with a hyphen.  However, I think in practice it's making no 
difference.  distribute automatically replaces underscores with hyphens 
before it does the PyPI lookup.  In any event, I've fixed this in e2e89eb.

> - Why include licenses for pytz and dateutil?

I just forgot to remove those during the refactor.  They have been 
removed in 441fe10.

As for the tests:  The warnings are all normal (it would be great to 
hide them, but I haven't invested much time to investigate that).

The first two failures are related to the PGF backend, and I suspect are 
failing because of a missing package in your LaTeX installation.  I've 
created issue #2097 and Cc'd you and Peter Wurtz (the PGF backend 
author) who may have some insight.

The last failure is a puzzler -- for some reason, the 
test_coding_standards test module isn't importing, though it was found.  
I'll let you know if there's more information I need from you about 
that, but at this point I'm not even sure how to investigate that one.

Thanks for working on this,
Mike

>
> -- Russell
>
> Here is the test log:
>
> localhost$ python -c "import matplotlib as m ; m.test(verbosity=1)"
> .........................................................................
> .........................................................................
> .........................................................................
> ..........kpathsea: Invalid fontname `Bitstream Vera Serif', contains ' '
> Ekpathsea: Invalid fontname `Bitstream Vera Serif', contains ' '
> EK.....K.................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> .........................................................................
> ...................................../Library/Frameworks/Python.framework
> /Versions/2.7/lib/python2.7/site-packages/numpy/ma/core.py:777:
> RuntimeWarning: invalid value encountered in absolute
>    return umath.absolute(a) * self.tolerance >= umath.absolute(b)
> /Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pack
> ages/numpy/ma/core.py:3791: UserWarning: Warning: converting a masked
> element to nan.
>    warnings.warn("Warning: converting a masked element to nan.")
> .........................................../Library/Frameworks/Python.fra
> mework/Versions/2.7/lib/python2.7/site-packages/matplotlib/gridspec.py:29
> 8: UserWarning: This figure includes Axes that are not compatible with
> tight_layout, so its results might be incorrect.
>    warnings.warn("This figure includes Axes that are not "
> ............................................/Library/Frameworks/Python.fr
> amework/Versions/2.7/lib/python2.7/site-packages/numpy/testing/utils.py:8
> 07: RuntimeWarning: invalid value encountered in absolute
>    z = abs(x-y)
> ........E
> ======================================================================
> ERROR: matplotlib.tests.test_backend_pgf.test_pathclip
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/nose/case.py", line 197, in runTest
>      self.test(*self.arg)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/tests/test_backend_pgf.py", line 45, in backend_switcher
>      result = func(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/tests/test_backend_pgf.py", line 145, in test_pathclip
>      plt.savefig(os.path.join(result_dir, "pgf_pathclip.pdf"))
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/pyplot.py", line 561, in savefig
>      return fig.savefig(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/figure.py", line 1410, in savefig
>      self.canvas.print_figure(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backend_bases.py", line 2220, in print_figure
>      **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 864, in print_pdf
>      self._print_pdf_to_fh(fh, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 822, in _print_pdf_to_fh
>      self.print_pgf(fname_pgf, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 804, in print_pgf
>      self._print_pgf_to_fh(fh, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 784, in _print_pgf_to_fh
>      RendererPgf(self.figure, fh),
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 409, in __init__
>      self.latexManager = LatexManagerFactory.get_latex_manager()
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 223, in get_latex_manager
>      new_inst = LatexManager()
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 309, in __init__
>      raise LatexError("LaTeX returned an error, probably missing font or
> error in preamble:\n%s" % stdout)
> LatexError: LaTeX returned an error, probably missing font or error in
> preamble:
> This is XeTeX, Version 3.1415926-2.4-0.9998 (TeX Live 2012)
>   restricted \write18 enabled.
> **entering extended mode
> LaTeX2e <2011/06/27>
> Babel <v3.8m> and hyphenation patterns for english, dumylang,
> nohyphenation, ge
> rman-x-2012-05-30, ngerman-x-2012-05-30, afrikaans, ancientgreek,
> ibycus, arabi
> c, armenian, basque, bulgarian, catalan, pinyin, coptic, croatian,
> czech, danis
> h, dutch, ukenglish, usenglishmax, esperanto, estonian, ethiopic, farsi,
> finnis
> h, french, friulan, galician, german, ngerman, swissgerman, monogreek,
> greek, h
> ungarian, icelandic, assamese, bengali, gujarati, hindi, kannada,
> malayalam, ma
> rathi, oriya, panjabi, tamil, telugu, indonesian, interlingua, irish,
> italian,
> kurmanji, latin, latvian, lithuanian, mongolian, mongolianlmc, bokmal,
> nynorsk,
>   polish, portuguese, romanian, romansh, russian, sanskrit, serbian,
> serbianc, s
> lovak, slovenian, spanish, swedish, turkish, turkmen, ukrainian,
> uppersorbian,
> welsh, loaded.
>
> *(/usr/local/texlive/2012/texmf-dist/tex/latex/base/minimal.cls
> Document Class: minimal 2001/05/25 Standard LaTeX minimal class
> )
> (Please type a command or say `\end')
> *
> *(/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/expl3.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3names.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3bootstrap.sty))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/etex-pkg/etex.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/color.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/latexconfig/color.cfg)
> (/usr/local/texlive/2012/texmf-dist/tex/xelatex/xetex-def/xetex.def))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/graphics.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/trig.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/latexconfig/graphics.cfg))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3basics.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3expan.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3tl.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3seq.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3int.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3quark.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3prg.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3clist.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3token.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3prop.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3msg.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3file.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3skip.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3keys.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3fp.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3box.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3coffins.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3color.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3luatex.sty))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3packages/xparse/xparse.st
> y)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec-patches.s
> ty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/base/fixltx2e.sty)
> *************************************************
> * LaTeX warning: "xparse/redefine-command"
> *
> * Redefining document command \oldstylenums with arg. spec. 'm' on line
> 107.
> *************************************************
> )
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec-xetex.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/base/fontenc.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1enc.def)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1lmr.fd))
> (/usr/local/texlive/2012/texmf-dist/tex/xelatex/xunicode/xunicode.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/tipa/t3enc.def
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1lmss.fd))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/graphicx.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/keyval.sty)))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec.cfg)))
>
> !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
> !
> ! fontspec error: "font-not-found"
> !
> ! The font "Bitstream Vera Serif" cannot be found.
> !
> ! See the fontspec documentation for further information.
> !
> ! For immediate help type H <return>.
> !...............................................
>                                                    
> <*> \setmainfont{Bitstream Vera Serif}
>                                        
> No pages of output.
> Transcript written on texput.log.
>
>
> ======================================================================
> ERROR: matplotlib.tests.test_backend_pgf.test_mixedmode
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/nose/case.py", line 197, in runTest
>      self.test(*self.arg)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/tests/test_backend_pgf.py", line 45, in backend_switcher
>      result = func(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/tests/test_backend_pgf.py", line 157, in test_mixedmode
>      compare_figure('pgf_mixedmode.pdf')
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/tests/test_backend_pgf.py", line 56, in compare_figure
>      plt.savefig(actual)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/pyplot.py", line 561, in savefig
>      return fig.savefig(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/figure.py", line 1410, in savefig
>      self.canvas.print_figure(*args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backend_bases.py", line 2220, in print_figure
>      **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 864, in print_pdf
>      self._print_pdf_to_fh(fh, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 822, in _print_pdf_to_fh
>      self.print_pgf(fname_pgf, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 804, in print_pgf
>      self._print_pgf_to_fh(fh, *args, **kwargs)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 784, in _print_pgf_to_fh
>      RendererPgf(self.figure, fh),
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 409, in __init__
>      self.latexManager = LatexManagerFactory.get_latex_manager()
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 223, in get_latex_manager
>      new_inst = LatexManager()
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/matplotlib/backends/backend_pgf.py", line 309, in __init__
>      raise LatexError("LaTeX returned an error, probably missing font or
> error in preamble:\n%s" % stdout)
> LatexError: LaTeX returned an error, probably missing font or error in
> preamble:
> This is XeTeX, Version 3.1415926-2.4-0.9998 (TeX Live 2012)
>   restricted \write18 enabled.
> **entering extended mode
> LaTeX2e <2011/06/27>
> Babel <v3.8m> and hyphenation patterns for english, dumylang,
> nohyphenation, ge
> rman-x-2012-05-30, ngerman-x-2012-05-30, afrikaans, ancientgreek,
> ibycus, arabi
> c, armenian, basque, bulgarian, catalan, pinyin, coptic, croatian,
> czech, danis
> h, dutch, ukenglish, usenglishmax, esperanto, estonian, ethiopic, farsi,
> finnis
> h, french, friulan, galician, german, ngerman, swissgerman, monogreek,
> greek, h
> ungarian, icelandic, assamese, bengali, gujarati, hindi, kannada,
> malayalam, ma
> rathi, oriya, panjabi, tamil, telugu, indonesian, interlingua, irish,
> italian,
> kurmanji, latin, latvian, lithuanian, mongolian, mongolianlmc, bokmal,
> nynorsk,
>   polish, portuguese, romanian, romansh, russian, sanskrit, serbian,
> serbianc, s
> lovak, slovenian, spanish, swedish, turkish, turkmen, ukrainian,
> uppersorbian,
> welsh, loaded.
>
> *(/usr/local/texlive/2012/texmf-dist/tex/latex/base/minimal.cls
> Document Class: minimal 2001/05/25 Standard LaTeX minimal class
> )
> (Please type a command or say `\end')
> *
> *(/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/expl3.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3names.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3bootstrap.sty))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/etex-pkg/etex.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/color.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/latexconfig/color.cfg)
> (/usr/local/texlive/2012/texmf-dist/tex/xelatex/xetex-def/xetex.def))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/graphics.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/trig.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/latexconfig/graphics.cfg))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3basics.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3expan.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3tl.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3seq.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3int.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3quark.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3prg.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3clist.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3token.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3prop.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3msg.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3file.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3skip.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3keys.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3fp.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3box.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3coffins.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3color.sty)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3kernel/l3luatex.sty))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/l3packages/xparse/xparse.st
> y)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec-patches.s
> ty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/base/fixltx2e.sty)
> *************************************************
> * LaTeX warning: "xparse/redefine-command"
> *
> * Redefining document command \oldstylenums with arg. spec. 'm' on line
> 107.
> *************************************************
> )
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec-xetex.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/base/fontenc.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1enc.def)
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1lmr.fd))
> (/usr/local/texlive/2012/texmf-dist/tex/xelatex/xunicode/xunicode.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/tipa/t3enc.def
> (/usr/local/texlive/2012/texmf-dist/tex/latex/euenc/eu1lmss.fd))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/graphicx.sty
> (/usr/local/texlive/2012/texmf-dist/tex/latex/graphics/keyval.sty)))
> (/usr/local/texlive/2012/texmf-dist/tex/latex/fontspec/fontspec.cfg)))
>
> !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
> !
> ! fontspec error: "font-not-found"
> !
> ! The font "Bitstream Vera Serif" cannot be found.
> !
> ! See the fontspec documentation for further information.
> !
> ! For immediate help type H <return>.
> !...............................................
>                                                    
> <*> \setmainfont{Bitstream Vera Serif}
>                                        
> No pages of output.
> Transcript written on texput.log.
>
>
> ======================================================================
> ERROR: Failure: AttributeError ('module' object has no attribute
> 'test_coding_standards')
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/nose/loader.py", line 379, in loadTestsFromName
>      module = resolve_name(addr.module)
>    File
> "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pac
> kages/nose/util.py", line 331, in resolve_name
>      obj = getattr(obj, part)
> AttributeError: 'module' object has no attribute 'test_coding_standards'
>
> ----------------------------------------------------------------------
> Ran 1458 tests in 833.661s
>
> FAILED (KNOWNFAIL=2, errors=3)
> /Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-pack
> ages/matplotlib/__init__.py:1141: UserWarning:  This call to
> matplotlib.use() has no effect
> because the the backend has already been chosen;
> matplotlib.use() must be called *before* pylab, matplotlib.pyplot,
> or matplotlib.backends is imported for the first time.
>
>    warnings.warn(_use_error_msg)
> localhost$
>
>
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