Mac binary for 1.3.0rc2; more errors than usual in the unit tests

_Russell_E_Owen4 · May 30, 2013, 10:06pm

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.
- Why include licenses for pytz and dateutil?

-- 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.................................................................
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.........................................................................
...................................../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$

Michael_Droettboom · May 31, 2013, 12:57am

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.
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

···

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.

- Why include licenses for pytz and dateutil?


-- 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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