Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

error on data.plot() #22

Open
aburgasser opened this issue Feb 23, 2018 · 1 comment
Open

error on data.plot() #22

aburgasser opened this issue Feb 23, 2018 · 1 comment

Comments

@aburgasser
Copy link
Collaborator

Got the following error when trying to plot a spectrum:

ap.download('2M00034394+8606422', type='aspcap')
data = ap.Spectrum(id='2M00034394+8606422', type='aspcap')

check

data.wave
array([15152.21067174, 15152.42000872, 15152.62934858, ...,
16943.06589879, 16943.29997751, 16943.53405947])
data.plot()

error below - it seems there is an issue with running LaTeX, somewhere the string b'lp' is being fed in....?

RuntimeError Traceback (most recent call last)
in ()
----> 1 data.plot()

/Users/adam/python_codes/apogee_tools/apogee_tools/core.py in plot(self, **kwargs)
369 if title != None:
370 plt.title(title, fontsize=20)
--> 371 plt.tight_layout()
372
373 if save == True:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/pyplot.py in tight_layout(pad, h_pad, w_pad, rect)
1385
1386 fig = gcf()
-> 1387 fig.tight_layout(pad=pad, h_pad=h_pad, w_pad=w_pad, rect=rect)
1388
1389

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/figure.py in tight_layout(self, renderer, pad, h_pad, w_pad, rect)
1750 renderer,
1751 pad=pad, h_pad=h_pad, w_pad=w_pad,
-> 1752 rect=rect)
1753
1754 self.subplots_adjust(**kwargs)

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/tight_layout.py in get_tight_layout_figure(fig, axes_list, subplotspec_list, renderer, pad, h_pad, w_pad, rect)
347 subplot_list=subplot_list,
348 ax_bbox_list=ax_bbox_list,
--> 349 pad=pad, h_pad=h_pad, w_pad=w_pad)
350
351 if rect is not None:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/tight_layout.py in auto_adjust_subplotpars(fig, renderer, nrows_ncols, num1num2_list, subplot_list, ax_bbox_list, pad, h_pad, w_pad, rect)
124 ax_bbox_list,
125 num1num2_list):
--> 126 tight_bbox_raw = union([ax.get_tightbbox(renderer) for ax in subplots])
127 tight_bbox = TransformedBbox(tight_bbox_raw,
128 fig.transFigure.inverted())

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/tight_layout.py in (.0)
124 ax_bbox_list,
125 num1num2_list):
--> 126 tight_bbox_raw = union([ax.get_tightbbox(renderer) for ax in subplots])
127 tight_bbox = TransformedBbox(tight_bbox_raw,
128 fig.transFigure.inverted())

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axes/_base.py in get_tightbbox(self, renderer, call_axes_locator)
3672 bb.append(self._right_title.get_window_extent(renderer))
3673
-> 3674 bb_xaxis = self.xaxis.get_tightbbox(renderer)
3675 if bb_xaxis:
3676 bb.append(bb_xaxis)

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in get_tightbbox(self, renderer)
1075 ticks_to_draw = self._update_ticks(renderer)
1076 ticklabelBoxes, ticklabelBoxes2 = self._get_tick_bboxes(ticks_to_draw,
-> 1077 renderer)
1078
1079 self._update_label_position(ticklabelBoxes, ticklabelBoxes2)

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in _get_tick_bboxes(self, ticks, renderer)
1058 for tick in ticks:
1059 if tick.label1On and tick.label1.get_visible():
-> 1060 extent = tick.label1.get_window_extent(renderer)
1061 ticklabelBoxes.append(extent)
1062 if tick.label2On and tick.label2.get_visible():

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in get_window_extent(self, renderer, dpi)
959 raise RuntimeError('Cannot get window extent w/o renderer')
960
--> 961 bbox, info, descent = self._get_layout(self._renderer)
962 x, y = self.get_unitless_position()
963 x, y = self.get_transform().transform_point((x, y))

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in _get_layout(self, renderer)
350 tmp, lp_h, lp_bl = renderer.get_text_width_height_descent('lp',
351 self._fontproperties,
--> 352 ismath=False)
353 offsety = (lp_h - lp_bl) * self._linespacing
354

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in get_text_width_height_descent(self, s, prop, ismath)
227 fontsize = prop.get_size_in_points()
228 w, h, d = texmanager.get_text_width_height_descent(s, fontsize,
--> 229 renderer=self)
230 return w, h, d
231

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in get_text_width_height_descent(self, tex, fontsize, renderer)
673 else:
674 # use dviread. It sometimes returns a wrong descent.
--> 675 dvifile = self.make_dvi(tex, fontsize)
676 dvi = dviread.Dvi(dvifile, 72 * dpi_fraction)
677 try:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in make_dvi(self, tex, fontsize)
420 'string:\n%s\nHere is the full report generated by '
421 'LaTeX: \n\n' % repr(tex.encode('unicode_escape')) +
--> 422 report))
423 else:
424 mpl.verbose.report(report, 'debug')

RuntimeError: LaTeX was not able to process the following string:
b'lp'
Here is the full report generated by LaTeX:

This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded format=latex)
restricted \write18 enabled.
entering extended mode
(./d5924ddf5eca094d188857522ec37f30.tex
LaTeX2e <2014/05/01>
Babel <3.9k> and hyphenation patterns for 78 languages loaded.

! LaTeX Error: File `article.cls' not found.

Type X to quit or to proceed,
or enter new name. (Default extension: cls)

Enter file name:
! Emergency stop.
<read *>

l.2 \usepackage
{type1cm}^^M
No pages of output.
Transcript written on d5924ddf5eca094d188857522ec37f30.log.

Error in callback <function install_repl_displayhook..post_execute at 0x11cb9c268> (for post_execute):

RuntimeError Traceback (most recent call last)
/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/pyplot.py in post_execute()
146 def post_execute():
147 if matplotlib.is_interactive():
--> 148 draw_all()
149
150 # IPython >= 2

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/_pylab_helpers.py in draw_all(cls, force)
148 for f_mgr in cls.get_all_fig_managers():
149 if force or f_mgr.canvas.figure.stale:
--> 150 f_mgr.canvas.draw_idle()
151
152 atexit.register(Gcf.destroy_all)

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backend_bases.py in draw_idle(self, *args, **kwargs)
2024 if not self._is_idle_drawing:
2025 with self._idle_draw_cntx():
-> 2026 self.draw(*args, **kwargs)
2027
2028 def draw_cursor(self, event):

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in draw(self)
472
473 try:
--> 474 self.figure.draw(self.renderer)
475 finally:
476 RendererAgg.lock.release()

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/figure.py in draw(self, renderer)
1157 dsu.sort(key=itemgetter(0))
1158 for zorder, a, func, args in dsu:
-> 1159 func(*args)
1160
1161 renderer.close_group('figure')

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axes/_base.py in draw(self, renderer, inframe)
2317
2318 for zorder, a in dsu:
-> 2319 a.draw(renderer)
2320
2321 renderer.close_group('axes')

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in draw(self, renderer, *args, **kwargs)
1108 ticks_to_draw = self._update_ticks(renderer)
1109 ticklabelBoxes, ticklabelBoxes2 = self._get_tick_bboxes(ticks_to_draw,
-> 1110 renderer)
1111
1112 for tick in ticks_to_draw:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in _get_tick_bboxes(self, ticks, renderer)
1058 for tick in ticks:
1059 if tick.label1On and tick.label1.get_visible():
-> 1060 extent = tick.label1.get_window_extent(renderer)
1061 ticklabelBoxes.append(extent)
1062 if tick.label2On and tick.label2.get_visible():

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in get_window_extent(self, renderer, dpi)
959 raise RuntimeError('Cannot get window extent w/o renderer')
960
--> 961 bbox, info, descent = self._get_layout(self._renderer)
962 x, y = self.get_unitless_position()
963 x, y = self.get_transform().transform_point((x, y))

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in _get_layout(self, renderer)
350 tmp, lp_h, lp_bl = renderer.get_text_width_height_descent('lp',
351 self._fontproperties,
--> 352 ismath=False)
353 offsety = (lp_h - lp_bl) * self._linespacing
354

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in get_text_width_height_descent(self, s, prop, ismath)
227 fontsize = prop.get_size_in_points()
228 w, h, d = texmanager.get_text_width_height_descent(s, fontsize,
--> 229 renderer=self)
230 return w, h, d
231

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in get_text_width_height_descent(self, tex, fontsize, renderer)
673 else:
674 # use dviread. It sometimes returns a wrong descent.
--> 675 dvifile = self.make_dvi(tex, fontsize)
676 dvi = dviread.Dvi(dvifile, 72 * dpi_fraction)
677 try:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in make_dvi(self, tex, fontsize)
420 'string:\n%s\nHere is the full report generated by '
421 'LaTeX: \n\n' % repr(tex.encode('unicode_escape')) +
--> 422 report))
423 else:
424 mpl.verbose.report(report, 'debug')

RuntimeError: LaTeX was not able to process the following string:
b'lp'
Here is the full report generated by LaTeX:

This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded format=latex)
restricted \write18 enabled.
entering extended mode
(./d5924ddf5eca094d188857522ec37f30.tex
LaTeX2e <2014/05/01>
Babel <3.9k> and hyphenation patterns for 78 languages loaded.

! LaTeX Error: File `article.cls' not found.

Type X to quit or to proceed,
or enter new name. (Default extension: cls)

Enter file name:
! Emergency stop.
<read *>

l.2 \usepackage
{type1cm}^^M
No pages of output.
Transcript written on d5924ddf5eca094d188857522ec37f30.log.

RuntimeError Traceback (most recent call last)
/Users/adam/anaconda3/lib/python3.5/site-packages/IPython/core/formatters.py in call(self, obj)
305 pass
306 else:
--> 307 return printer(obj)
308 # Finally look for special method names
309 method = get_real_method(obj, self.print_method)

/Users/adam/anaconda3/lib/python3.5/site-packages/IPython/core/pylabtools.py in (fig)
225
226 if 'png' in formats:
--> 227 png_formatter.for_type(Figure, lambda fig: print_figure(fig, 'png', **kwargs))
228 if 'retina' in formats or 'png2x' in formats:
229 png_formatter.for_type(Figure, lambda fig: retina_figure(fig, **kwargs))

/Users/adam/anaconda3/lib/python3.5/site-packages/IPython/core/pylabtools.py in print_figure(fig, fmt, bbox_inches, **kwargs)
117
118 bytes_io = BytesIO()
--> 119 fig.canvas.print_figure(bytes_io, **kw)
120 data = bytes_io.getvalue()
121 if fmt == 'svg':

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backend_bases.py in print_figure(self, filename, dpi, facecolor, edgecolor, orientation, format, **kwargs)
2178 orientation=orientation,
2179 dryrun=True,
-> 2180 **kwargs)
2181 renderer = self.figure._cachedRenderer
2182 bbox_inches = self.figure.get_tightbbox(renderer)

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in print_png(self, filename_or_obj, *args, **kwargs)
525
526 def print_png(self, filename_or_obj, *args, **kwargs):
--> 527 FigureCanvasAgg.draw(self)
528 renderer = self.get_renderer()
529 original_dpi = renderer.dpi

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in draw(self)
472
473 try:
--> 474 self.figure.draw(self.renderer)
475 finally:
476 RendererAgg.lock.release()

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/figure.py in draw(self, renderer)
1157 dsu.sort(key=itemgetter(0))
1158 for zorder, a, func, args in dsu:
-> 1159 func(*args)
1160
1161 renderer.close_group('figure')

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axes/_base.py in draw(self, renderer, inframe)
2317
2318 for zorder, a in dsu:
-> 2319 a.draw(renderer)
2320
2321 renderer.close_group('axes')

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
60 def draw_wrapper(artist, renderer, *args, **kwargs):
61 before(artist, renderer)
---> 62 draw(artist, renderer, *args, **kwargs)
63 after(artist, renderer)
64

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in draw(self, renderer, *args, **kwargs)
1108 ticks_to_draw = self._update_ticks(renderer)
1109 ticklabelBoxes, ticklabelBoxes2 = self._get_tick_bboxes(ticks_to_draw,
-> 1110 renderer)
1111
1112 for tick in ticks_to_draw:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/axis.py in _get_tick_bboxes(self, ticks, renderer)
1058 for tick in ticks:
1059 if tick.label1On and tick.label1.get_visible():
-> 1060 extent = tick.label1.get_window_extent(renderer)
1061 ticklabelBoxes.append(extent)
1062 if tick.label2On and tick.label2.get_visible():

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in get_window_extent(self, renderer, dpi)
959 raise RuntimeError('Cannot get window extent w/o renderer')
960
--> 961 bbox, info, descent = self._get_layout(self._renderer)
962 x, y = self.get_unitless_position()
963 x, y = self.get_transform().transform_point((x, y))

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/text.py in _get_layout(self, renderer)
350 tmp, lp_h, lp_bl = renderer.get_text_width_height_descent('lp',
351 self._fontproperties,
--> 352 ismath=False)
353 offsety = (lp_h - lp_bl) * self._linespacing
354

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/backends/backend_agg.py in get_text_width_height_descent(self, s, prop, ismath)
227 fontsize = prop.get_size_in_points()
228 w, h, d = texmanager.get_text_width_height_descent(s, fontsize,
--> 229 renderer=self)
230 return w, h, d
231

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in get_text_width_height_descent(self, tex, fontsize, renderer)
673 else:
674 # use dviread. It sometimes returns a wrong descent.
--> 675 dvifile = self.make_dvi(tex, fontsize)
676 dvi = dviread.Dvi(dvifile, 72 * dpi_fraction)
677 try:

/Users/adam/anaconda3/lib/python3.5/site-packages/matplotlib/texmanager.py in make_dvi(self, tex, fontsize)
420 'string:\n%s\nHere is the full report generated by '
421 'LaTeX: \n\n' % repr(tex.encode('unicode_escape')) +
--> 422 report))
423 else:
424 mpl.verbose.report(report, 'debug')

RuntimeError: LaTeX was not able to process the following string:
b'lp'
Here is the full report generated by LaTeX:

This is pdfTeX, Version 3.14159265-2.6-1.40.15 (TeX Live 2014) (preloaded format=latex)
restricted \write18 enabled.
entering extended mode
(./d5924ddf5eca094d188857522ec37f30.tex
LaTeX2e <2014/05/01>
Babel <3.9k> and hyphenation patterns for 78 languages loaded.

! LaTeX Error: File `article.cls' not found.

Type X to quit or to proceed,
or enter new name. (Default extension: cls)

Enter file name:
! Emergency stop.
<read *>

l.2 \usepackage
{type1cm}^^M
No pages of output.
Transcript written on d5924ddf5eca094d188857522ec37f30.log.

<matplotlib.figure.Figure at 0x1b03a34a8>
@aburgasser
Copy link
Collaborator Author

FOLLOW UP:

This may be a LateX/Apple version conflict. Current version of MacTeX is for OS 10 and higher, and I'm running OS 9.5. If I set the following command at the top of my code:

from matplotlib import rc
rc("text", usetex=False)

everything runs swimmingly.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@aburgasser