matplotlib-users Mailing List for matplotlib

Hey all
how to plot a point coordinates in matplotlib?
 I want for example to plot the point of
 coordinates x=1.2,y=2.5
Cheers
 

To matplotusers:
I want to create a plot that has an image and overplots contours, but
the contours are defined relative to different data from that plotted in
the image. Is there a way to save contour line data rather than plot
it. 
It just occurred to me a way of creating the plot -- but I'm still
interested in a way to save contour data.
Jon
-- 
______________________________________________________________
Jonathan D. Slavin Harvard-Smithsonian CfA
js...@cf... 60 Garden Street, MS 83
phone: (617) 496-7981 Cambridge, MA 02138-1516
 cell: (781) 363-0035 USA
______________________________________________________________

Thanks Reinier,
Yes, upgrading to 0.99.1 seems to have fixed the problem.
One slight oddity: the package I downloaded from the SF page linked at
[2] had a filename of matplotlib-0.99.1.2.tar.gz however inside the
tarball is a directory named matplotlib-0.99.1.1 and the PKG-INFO file
also says 0.99.1.1
Perhaps a packaging bug?
thanks again,
-Derek
On Wed, Jan 27, 2010 at 2:59 AM, Reinier Heeres <re...@he...> wrote:
> Hi Derek,
>
> I just tried your program with the latest svn version and that seems
> to work fine, so I'd suggest you try that as well [1]. It looks to me
> like the fix should be present in 0.99.1-2 too [2].
>
> Please let me know if you still run into the same problem.
>
> Cheers,
> Reinier
>
> [1] http://matplotlib.sourceforge.net/faq/installing_faq.html#install-from-svn
> [2] http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/
>
> On Wed, Jan 27, 2010 at 3:08 AM, Derek Schuff <ds...@pu...> wrote:
>> Hi all,
>> I'm getting strange errors trying to use the bar3d method in mplot3d
>> (I'm using matplotlib 0.99.0 in Ubuntu 9.10 and Python 2.6).
>> I'm doing something roughly like the example at
>> http://matplotlib.sourceforge.net/examples/mplot3d/hist3d_demo.html
>> I've pasted my sample program below, which has 2 cases: In case 1, you
>> see just what you would expect: 2 rows of bars with increasing size in
>> the y direction. if you uncomment case 2 (for different bar heights),
>> you get the following error:
>>
>> Traceback (most recent call last):
>> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtk.py",
>> line 352, in expose_event
>>  self._render_figure(self._pixmap, w, h)
>> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtkagg.py",
>> line 75, in _render_figure
>>  FigureCanvasAgg.draw(self)
>> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_agg.py",
>> line 314, in draw
>>  self.figure.draw(self.renderer)
>> File "/usr/lib/pymodules/python2.6/matplotlib/artist.py", line 46,
>> in draw_wrapper
>>  draw(artist, renderer, *kl)
>> File "/usr/lib/pymodules/python2.6/matplotlib/figure.py", line 774, in draw
>>  for a in self.axes: a.draw(renderer)
>> File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/axes3d.py",
>> line 135, in draw
>>  for col in self.collections]
>> File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/art3d.py",
>> line 334, in do_3d_projection
>>  z_segments_2d.sort(reverse=True)
>> ValueError: The truth value of an array with more than one element is
>> ambiguous. Use a.any() or a.all()
>>
>> This error gets thrown any time the 2 bars in the same y position have
>> exactly the same z value: in the sample program the (0,0) value and
>> (0,1) value are both 1 but it works for any of the 4 pairs. The error
>> is particularly confusing. even looking at the source of the sort line
>> in the backtrace, it's not clear where any arrays are being used as
>> truth values. (just compared for the sort). This can be worked around
>> by adding a tiny delta to the z values in one of the rows: it only
>> errors when the corresponding z values match exactly.
>> Am I doing something wrong here? or is this some kind of bug in the
>> drawing code?
>> thanks,
>> -Derek
>>
>> the program:
>> #!/usr/bin/env python2.6
>> import matplotlib.pyplot as plot
>> import mpl_toolkits.mplot3d
>> import numpy
>> fig2 = plot.figure()
>> ax2 = mpl_toolkits.mplot3d.Axes3D(fig2)
>> xpos = numpy.asarray([0, 1, 2, 4, 0, 1, 2, 4])
>> ypos = numpy.asarray([0, 0, 0, 0, 1, 1, 1, 1])
>> zpos = numpy.zeros_like(xpos)
>> dx = 0.05 * numpy.ones_like(zpos)
>> dy = numpy.ones_like(zpos)
>> #case 1
>> dz = numpy.asarray([1,2,3,4,5,6,7,8])
>> #case 2
>> #dz = numpy.asarray([1,2,3,4,1,6,7,8])
>> ax2.bar3d(ypos, xpos, zpos, dy, dx, dz, color='b')
>> ax2.set_xlabel('X')
>> ax2.set_ylabel('Y')
>> ax2.set_zlabel('Z')
>> plot.show()
>>
>> ------------------------------------------------------------------------------
>> The Planet: dedicated and managed hosting, cloud storage, colocation
>> Stay online with enterprise data centers and the best network in the business
>> Choose flexible plans and management services without long-term contracts
>> Personal 24x7 support from experience hosting pros just a phone call away.
>> http://p.sf.net/sfu/theplanet-com
>> _______________________________________________
>> Matplotlib-users mailing list
>> Mat...@li...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>>
>
>
>
> --
> Reinier Heeres
> Tel: +31 6 10852639
>

Hi Derek,
I just tried your program with the latest svn version and that seems
to work fine, so I'd suggest you try that as well [1]. It looks to me
like the fix should be present in 0.99.1-2 too [2].
Please let me know if you still run into the same problem.
Cheers,
Reinier
[1] http://matplotlib.sourceforge.net/faq/installing_faq.html#install-from-svn
[2] http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/
On Wed, Jan 27, 2010 at 3:08 AM, Derek Schuff <ds...@pu...> wrote:
> Hi all,
> I'm getting strange errors trying to use the bar3d method in mplot3d
> (I'm using matplotlib 0.99.0 in Ubuntu 9.10 and Python 2.6).
> I'm doing something roughly like the example at
> http://matplotlib.sourceforge.net/examples/mplot3d/hist3d_demo.html
> I've pasted my sample program below, which has 2 cases: In case 1, you
> see just what you would expect: 2 rows of bars with increasing size in
> the y direction. if you uncomment case 2 (for different bar heights),
> you get the following error:
>
> Traceback (most recent call last):
> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtk.py",
> line 352, in expose_event
>  self._render_figure(self._pixmap, w, h)
> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtkagg.py",
> line 75, in _render_figure
>  FigureCanvasAgg.draw(self)
> File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_agg.py",
> line 314, in draw
>  self.figure.draw(self.renderer)
> File "/usr/lib/pymodules/python2.6/matplotlib/artist.py", line 46,
> in draw_wrapper
>  draw(artist, renderer, *kl)
> File "/usr/lib/pymodules/python2.6/matplotlib/figure.py", line 774, in draw
>  for a in self.axes: a.draw(renderer)
> File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/axes3d.py",
> line 135, in draw
>  for col in self.collections]
> File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/art3d.py",
> line 334, in do_3d_projection
>  z_segments_2d.sort(reverse=True)
> ValueError: The truth value of an array with more than one element is
> ambiguous. Use a.any() or a.all()
>
> This error gets thrown any time the 2 bars in the same y position have
> exactly the same z value: in the sample program the (0,0) value and
> (0,1) value are both 1 but it works for any of the 4 pairs. The error
> is particularly confusing. even looking at the source of the sort line
> in the backtrace, it's not clear where any arrays are being used as
> truth values. (just compared for the sort). This can be worked around
> by adding a tiny delta to the z values in one of the rows: it only
> errors when the corresponding z values match exactly.
> Am I doing something wrong here? or is this some kind of bug in the
> drawing code?
> thanks,
> -Derek
>
> the program:
> #!/usr/bin/env python2.6
> import matplotlib.pyplot as plot
> import mpl_toolkits.mplot3d
> import numpy
> fig2 = plot.figure()
> ax2 = mpl_toolkits.mplot3d.Axes3D(fig2)
> xpos = numpy.asarray([0, 1, 2, 4, 0, 1, 2, 4])
> ypos = numpy.asarray([0, 0, 0, 0, 1, 1, 1, 1])
> zpos = numpy.zeros_like(xpos)
> dx = 0.05 * numpy.ones_like(zpos)
> dy = numpy.ones_like(zpos)
> #case 1
> dz = numpy.asarray([1,2,3,4,5,6,7,8])
> #case 2
> #dz = numpy.asarray([1,2,3,4,1,6,7,8])
> ax2.bar3d(ypos, xpos, zpos, dy, dx, dz, color='b')
> ax2.set_xlabel('X')
> ax2.set_ylabel('Y')
> ax2.set_zlabel('Z')
> plot.show()
>
> ------------------------------------------------------------------------------
> The Planet: dedicated and managed hosting, cloud storage, colocation
> Stay online with enterprise data centers and the best network in the business
> Choose flexible plans and management services without long-term contracts
> Personal 24x7 support from experience hosting pros just a phone call away.
> http://p.sf.net/sfu/theplanet-com
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>
-- 
Reinier Heeres
Tel: +31 6 10852639

Great, that worked.
Michael
On 1/26/2010 2:35 PM, Jae-Joon Lee wrote:
> There are a few ways to make ticks invisible.
>
> ax = subplot(111, frame_on=False)
> ax.xaxis.set_ticks_position("none")
> ax.yaxis.set_ticks_position("none")
>
> regards,
>
> -JJ
>
>
> On Tue, Jan 26, 2010 at 5:28 PM, Michael Cohen<mc...@ca...> wrote:
>> Sorry, I should be clearer.
>> Inside the plot, I have made a shape, say a circle.
>> However, when I save it to eps, the circle is surrounded by a rectangular
>> box and tick marks, though I have managed to get the numbers that go with
>> those tick marks to stop showing up.
>> I am looking for a way to make the bounding rectangle with the tick marks
>> disappear.
>> What you suggest here does in fact remove the bounding rectangle. Now, how
>> can I get rid of the tick marks?
>>
>> Cheers
>> Michael
>>
>> On 01/26/2010 02:18 PM, Jae-Joon Lee wrote:
>>>
>>> You mean removing the the axes frame?
>>>
>>> subplot(111, frame_on=False)
>>>
>>> I'm sorry but it is not clear what you want.
>>>
>>> Regards,
>>>
>>> -JJ
>>>
>>> On Tue, Jan 26, 2010 at 4:18 AM, Michael Cohen<mc...@ca...> wrote:
>>>>
>>>> Hi all,
>>>> Thanks for the help so far. One more question -
>>>> How do I completely remove the axes?
>>>> I currently have a plot where a square hatching of lines is deformed to
>>>> create a sky projection, so the square block of axes actually gets in
>>>> the way. How do I remove it?
>>>>
>>>> Cheers
>>>> Michael
>>>>
>>>>
>>>> ------------------------------------------------------------------------------
>>>> The Planet: dedicated and managed hosting, cloud storage, colocation
>>>> Stay online with enterprise data centers and the best network in the
>>>> business
>>>> Choose flexible plans and management services without long-term contracts
>>>> Personal 24x7 support from experience hosting pros just a phone call
>>>> away.
>>>> http://p.sf.net/sfu/theplanet-com
>>>> _______________________________________________
>>>> Matplotlib-users mailing list
>>>> Mat...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>>>>
>>
>>

*bbox_transform* expects a Transform instance.
ax = subplot(111)
ax2 = inset_axes(ax, width=3, height=2, loc=3,
 bbox_to_anchor=(0.1, 0.1),
 bbox_transform=ax.figure.transFigure)
Note that, bbox_to_anchor with a tuple of two numbers creates a bbox
with width=height=0, and something like width="30%" won't work.
Regards,
-JJ
>
> i am using mpl_toolkits.axes_grid.inset_locator.inset_axes to plot an
> inset axes inside my figure, as follows:
>
> inset = inset_axes(s,
>            width="30%", # width = 30% of parent_bbox
>            height=.5, # height : 1 inch
>            loc=4
> )
>
> i am trying to use the bbox_transform keyword argument to reposition
> this within the figure -- i want to use figure coordinates rather than
> the loc= keyword.
>
> if i try the following:
>
>  inset = inset_axes(s,
>            width="30%", # width = 30% of parent_bbox
>            height=.5, # height : 1 inch
>            bbox_transform=(0.1, 0.1))
>
> then i get the error:
>
> File "/Library/Python/2.6/site-packages/matplotlib-1.0.svn_r7892-py2.6-macosx-10.6-universal.egg/matplotlib/offsetbox.py",
> line 910, in get_bbox_to_anchor
>  transform)
> File "/Library/Python/2.6/site-packages/matplotlib-1.0.svn_r7892-py2.6-macosx-10.6-universal.egg/matplotlib/transforms.py",
> line 974, in __init__
>  assert isinstance(transform, Transform)
> AssertionError
>
> any idea how i can reposition the inset axes? thanks very much for your help.
>
> ------------------------------------------------------------------------------
> The Planet: dedicated and managed hosting, cloud storage, colocation
> Stay online with enterprise data centers and the best network in the business
> Choose flexible plans and management services without long-term contracts
> Personal 24x7 support from experience hosting pros just a phone call away.
> http://p.sf.net/sfu/theplanet-com
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>

Another way to solve this problem is to not use the figsize keyword when
creating the Figure. Instead only adjust the dpi. For example:
w,h=fig.get_size_inches()
target_width_pix=300
dpi=target_width_pix/w
canvas.print_figure(fname1,dpi=dpi)
-- 
View this message in context: http://old.nabble.com/png-is-clipped-tp27327004p27333529.html
Sent from the matplotlib - users mailing list archive at Nabble.com.

hi all,
i am using mpl_toolkits.axes_grid.inset_locator.inset_axes to plot an
inset axes inside my figure, as follows:
 inset = inset_axes(s,
		 width="30%", # width = 30% of parent_bbox
		 height=.5, # height : 1 inch
 loc=4
)
i am trying to use the bbox_transform keyword argument to reposition
this within the figure -- i want to use figure coordinates rather than
the loc= keyword.
if i try the following:
 inset = inset_axes(s,
		 width="30%", # width = 30% of parent_bbox
		 height=.5, # height : 1 inch
		 bbox_transform=(0.1, 0.1))
then i get the error:
 File "/Library/Python/2.6/site-packages/matplotlib-1.0.svn_r7892-py2.6-macosx-10.6-universal.egg/matplotlib/offsetbox.py",
line 910, in get_bbox_to_anchor
 transform)
 File "/Library/Python/2.6/site-packages/matplotlib-1.0.svn_r7892-py2.6-macosx-10.6-universal.egg/matplotlib/transforms.py",
line 974, in __init__
 assert isinstance(transform, Transform)
AssertionError
any idea how i can reposition the inset axes? thanks very much for your help.

Jae-Joon Lee wrote:
> 
> savefig("somename.png", bbox_inches="tight")
> 
I tried it and it did NOT solve the problem. The
"fig.subplots_adjust(bottom=0.2)" solution did solve the problem.
-- 
View this message in context: http://old.nabble.com/png-is-clipped-tp27327004p27333507.html
Sent from the matplotlib - users mailing list archive at Nabble.com.

Hi all,
I'm getting strange errors trying to use the bar3d method in mplot3d
(I'm using matplotlib 0.99.0 in Ubuntu 9.10 and Python 2.6).
I'm doing something roughly like the example at
http://matplotlib.sourceforge.net/examples/mplot3d/hist3d_demo.html
I've pasted my sample program below, which has 2 cases: In case 1, you
see just what you would expect: 2 rows of bars with increasing size in
the y direction. if you uncomment case 2 (for different bar heights),
you get the following error:
Traceback (most recent call last):
 File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtk.py",
line 352, in expose_event
 self._render_figure(self._pixmap, w, h)
 File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_gtkagg.py",
line 75, in _render_figure
 FigureCanvasAgg.draw(self)
 File "/usr/lib/pymodules/python2.6/matplotlib/backends/backend_agg.py",
line 314, in draw
 self.figure.draw(self.renderer)
 File "/usr/lib/pymodules/python2.6/matplotlib/artist.py", line 46,
in draw_wrapper
 draw(artist, renderer, *kl)
 File "/usr/lib/pymodules/python2.6/matplotlib/figure.py", line 774, in draw
 for a in self.axes: a.draw(renderer)
 File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/axes3d.py",
line 135, in draw
 for col in self.collections]
 File "/usr/lib/pymodules/python2.6/mpl_toolkits/mplot3d/art3d.py",
line 334, in do_3d_projection
 z_segments_2d.sort(reverse=True)
ValueError: The truth value of an array with more than one element is
ambiguous. Use a.any() or a.all()
This error gets thrown any time the 2 bars in the same y position have
exactly the same z value: in the sample program the (0,0) value and
(0,1) value are both 1 but it works for any of the 4 pairs. The error
is particularly confusing. even looking at the source of the sort line
in the backtrace, it's not clear where any arrays are being used as
truth values. (just compared for the sort). This can be worked around
by adding a tiny delta to the z values in one of the rows: it only
errors when the corresponding z values match exactly.
Am I doing something wrong here? or is this some kind of bug in the
drawing code?
thanks,
-Derek
the program:
#!/usr/bin/env python2.6
import matplotlib.pyplot as plot
import mpl_toolkits.mplot3d
import numpy
fig2 = plot.figure()
ax2 = mpl_toolkits.mplot3d.Axes3D(fig2)
xpos = numpy.asarray([0, 1, 2, 4, 0, 1, 2, 4])
ypos = numpy.asarray([0, 0, 0, 0, 1, 1, 1, 1])
zpos = numpy.zeros_like(xpos)
dx = 0.05 * numpy.ones_like(zpos)
dy = numpy.ones_like(zpos)
#case 1
dz = numpy.asarray([1,2,3,4,5,6,7,8])
#case 2
#dz = numpy.asarray([1,2,3,4,1,6,7,8])
ax2.bar3d(ypos, xpos, zpos, dy, dx, dz, color='b')
ax2.set_xlabel('X')
ax2.set_ylabel('Y')
ax2.set_zlabel('Z')
plot.show()