matplotlib-users Mailing List for matplotlib

jas...@cr... wrote:
> John Hunter wrote:
>> We could probably supervise a student who was interested in this. We 
>> haven't brought it up for 2009, though we did mentor a student several 
>> years ago. Do you have someone in mind who would be interested in this?
Don't wait for an interested student to register -- if you have a couple 
people that have the time and inclination to mentor -- apply, students 
will come, and if no good ones do, you don't have to do it.
I recommend it -- mentoring is fun and rewarding, and you can get some 
good work done.
Maybe a SciPY application would make sense, and then we could accept 
proposals for numpy, MPL, SAGE, etc...
-Chris
-- 
Christopher Barker, Ph.D.
Oceanographer
Emergency Response Division
NOAA/NOS/OR&R (206) 526-6959 voice
7600 Sand Point Way NE (206) 526-6329 fax
Seattle, WA 98115 (206) 526-6317 main reception
Chr...@no...

I have no idea whether this is related with the GIL. Anyhow, you may
work around this by running the blocking function in a separate
thread, although I only tested this with Gtk backends. Here is a
related post.
http://sourceforge.net/mailarchive/forum.php?thread_name=6e8d907b0803101609s7bd8fecaj851a6ecf1ab2a316%40mail.gmail.com&forum_name=matplotlib-devel
It is based on the old version of mpl but still seems to work.
The recent version of the mpl have better support for this
(blocking_input.py) and the code should be reimplemented.
-JJ
On Mon, Mar 9, 2009 at 4:32 PM, Jonathan Taylor
<jon...@ut...> wrote:
> Yes I already use this, but I think the problem is that the other
> toolkits need the GIL to update but raw_input() also grabs the GIL so
> you cannot examine your plot in a pause (i.e. raw_input()). I think
> that TK is able to avoid this problem as a side effect of being in a
> "C thread" instead of a python thread which is a side effect of being
> part of the python distribution. I think.
>
> Jon.
>
> On Mon, Mar 9, 2009 at 4:13 PM, Sandro Tosi <mo...@de...> wrote:
>> On Sun, Mar 8, 2009 at 21:03, Jonathan Taylor
>> <jon...@ut...> wrote:
>>> Wow... changing to TkAgg backend makes raw_input() just work. I
>>> suppose this is because the Tk thread does not need the GIL to render?
>>> Is there a downside to using TkAgg? I am also noticing that it is
>>> much faster than GtkAgg.
>>
>> If you want different backends than tkagg (that plays nice with
>> interactive interpreters), you could try
>>
>> $ ipython -pylab
>>
>> that is able to identify the wanted backend and work correctly with it
>> while keeping the interactive prompt available.
>>
>> Cheers,
>> --
>> Sandro Tosi (aka morph, morpheus, matrixhasu)
>> My website: http://matrixhasu.altervista.org/
>> Me at Debian: http://wiki.debian.org/SandroTosi
>>
>
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John Hunter wrote:
>
>
> On Mon, Mar 9, 2009 at 3:41 PM, <jas...@cr... 
> <mailto:jas...@cr...>> wrote:
>
> Is matplotlib planning on applying to be a mentoring organization for
> Google Summer of Code? If so, may I suggest that an html5/canvas
> backend (with interactive features) would be a fantastic project that
> would benefit a wide range of people?
>
>
>
> We could probably supervise a student who was interested in this. We 
> haven't brought it up for 2009, though we did mentor a student several 
> years ago. Do you have someone in mind who would be interested in this?
>
> JDH
I don't have a particular student in mind, but the idea was brought up 
on the sage development list. There, it seems like there may be several 
people interested (thought I don't know if they are qualifying 
students). I'm CCing this to the sage-devel list as well. If you are a 
student who would like to contribute to matplotlib and get paid for it, 
speak up so that we know there is interest!
I bring this up since I believe that the deadline for a mentoring 
organization to apply is this Friday (13 Mar). See 
http://socghop.appspot.com/document/show/program/google/gsoc2009/faqs#org_apply
I wouldn't be qualified to mentor this (time-wise or 
experience-with-matplotlib-wise), but I am certainly cheering it on!
Thanks,
Jason

HI,
im running the latest version of matplotlib on osX. I write my script and execute it in iterm with python script.py and it works great. However matplotlib window doesn't close on a keyboard interrupt, only closing once the matplotlib window is selected again. A minor inconvenience, but one that adds precious seconds to each dev. cycle. Any suggestions on how to fix this? 
Craig Stewart
PhD Research Student
Negotiated Interaction
Department of Computing Science
University of Glasgow
Glasgow G128QQ
Scotland, UK

On Mon, Mar 9, 2009 at 3:41 PM, <jas...@cr...> wrote:
> Is matplotlib planning on applying to be a mentoring organization for
> Google Summer of Code? If so, may I suggest that an html5/canvas
> backend (with interactive features) would be a fantastic project that
> would benefit a wide range of people?
We could probably supervise a student who was interested in this. We
haven't brought it up for 2009, though we did mentor a student several years
ago. Do you have someone in mind who would be interested in this?
JDH

Is matplotlib planning on applying to be a mentoring organization for 
Google Summer of Code? If so, may I suggest that an html5/canvas 
backend (with interactive features) would be a fantastic project that 
would benefit a wide range of people?
Thanks,
Jason

Yes I already use this, but I think the problem is that the other
toolkits need the GIL to update but raw_input() also grabs the GIL so
you cannot examine your plot in a pause (i.e. raw_input()). I think
that TK is able to avoid this problem as a side effect of being in a
"C thread" instead of a python thread which is a side effect of being
part of the python distribution. I think.
Jon.
On Mon, Mar 9, 2009 at 4:13 PM, Sandro Tosi <mo...@de...> wrote:
> On Sun, Mar 8, 2009 at 21:03, Jonathan Taylor
> <jon...@ut...> wrote:
>> Wow... changing to TkAgg backend makes raw_input() just work. I
>> suppose this is because the Tk thread does not need the GIL to render?
>> Is there a downside to using TkAgg? I am also noticing that it is
>> much faster than GtkAgg.
>
> If you want different backends than tkagg (that plays nice with
> interactive interpreters), you could try
>
> $ ipython -pylab
>
> that is able to identify the wanted backend and work correctly with it
> while keeping the interactive prompt available.
>
> Cheers,
> --
> Sandro Tosi (aka morph, morpheus, matrixhasu)
> My website: http://matrixhasu.altervista.org/
> Me at Debian: http://wiki.debian.org/SandroTosi
>

On Sun, Mar 8, 2009 at 21:03, Jonathan Taylor
<jon...@ut...> wrote:
> Wow... changing to TkAgg backend makes raw_input() just work. I
> suppose this is because the Tk thread does not need the GIL to render?
> Is there a downside to using TkAgg? I am also noticing that it is
> much faster than GtkAgg.
If you want different backends than tkagg (that plays nice with
interactive interpreters), you could try
$ ipython -pylab
that is able to identify the wanted backend and work correctly with it
while keeping the interactive prompt available.
Cheers,
-- 
Sandro Tosi (aka morph, morpheus, matrixhasu)
My website: http://matrixhasu.altervista.org/
Me at Debian: http://wiki.debian.org/SandroTosi

On Mon, Mar 9, 2009 at 12:08 PM, John Hunter <jd...@gm...> wrote:
>
>
> On Mon, Mar 9, 2009 at 10:43 AM, Jeremy Conlin <jer...@gm...> wrote:
>
>> I am using Mac OS X 10.5.5 and have installed Enthought's latest Python
>> distribution which includes Matplotlib 0.98.3. I get a fatal python error
>> whenever I try to import matplotlib.pyplot. The exact message I get is:
>> Fatal Python error: Interpreter not initialized (version mismatch?)
>> Abort trap
>>
>> Has anyone else had a problem with this? Please help me because I can't
>> do any plotting until it's fixed!
>>
>
>
> So you haven't installed matplotlib or wxpython separately? This error can
> arise when the version of python that built the extension is not the same as
> the version of python you are running. I suggest making sure you have a
> clean install of enthought python (remove the install dir entirely),
> reinstall it, and if you still see the same problem report it on the
> enthought list because it looks like a build problem more than a matplotlib
> problem.
>
I did not install matplotlib seperately. A while back I did play with
wxpython and wxwidgets, but my Python script that uses those libraries still
work well. I did just reinstall my enthought python this morning when I was
having these problems. I didn't delete anything before installing, I just
assumed it would overwrite the old/bad stuff.
>
> Before you report, you may want to do some extra diagnostics. Eg create a
> script like
>
> import matplotlib
> matplotlib.use('Agg')
> import matplotlib.pyplot
>
>
> and try running this script, replacing 'Agg' with 'PS', 'PDF', 'TkAgg' and
> 'WXAgg' and noting whether all fail in the same way, or if only some do.
Now this was a good idea. Every backend worked except TkAgg which was my
default specified in my ~/.matplotlib/matplotlibrc file.
Jeremy

On Mon, Mar 9, 2009 at 12:50 PM, Jeff Whitaker <js...@fa...> wrote:
> Jeremy Conlin wrote:
>
>
>>
>> On Mon, Mar 9, 2009 at 12:19 PM, Jeff Whitaker <js...@fa...<mailto:
>> js...@fa...>> wrote:
>>
>> Jeremy Conlin wrote:
>>
>> I am using Mac OS X 10.5.5 and have installed Enthought's
>> latest Python distribution which includes Matplotlib 0.98.3.
>> I get a fatal python error whenever I try to import
>> matplotlib.pyplot. The exact message I get is:
>>
>> Fatal Python error: Interpreter not initialized (version
>> mismatch?)
>> Abort trap
>>
>> Has anyone else had a problem with this? Please help me
>> because I can't do any plotting until it's fixed!
>>
>> Thanks,
>> Jeremy
>>
>> Jeremy: That sometimes means you are importing a module into a
>> different version of python than it was built against. Are you
>> sure you are running Enthough python when you import matplotlib?
>>
>>
>> I'm pretty sure it's the Enthought python.
>> $ python --version
>> Python 2.5.2 |EPD Py25 4.1.30101|
>>
>> Jeremy
>>
> Jeremy: Then unless you have DYLD_LIBRARY_PATH or PYTHONPATH set so that
> the wrong python libs or extensions are being picked up, it must be an EPD
> problem. I'd ask on the EPD list.
Oops. A long time ago I set PYTHONPATH in my bash_profile. The value for
that is now wrong. Now that I've fixed it, everything seems to work fine.
Thanks for the help.
Jeremy

Hey folks,
I'm trying to get an idea of how many folks from the numpy/scipy/mpl 
community will be at PyCon this year. If enough of us, maybe a sprint is 
in order, but in any case, it might be nice to get together.
Please send me a note off-list (to keep the clutter down) if you are 
going. I may compile a list and post that, so let me know if it's OK to 
post your name.
-Chris
-- 
Christopher Barker, Ph.D.
Oceanographer
Emergency Response Division
NOAA/NOS/OR&R (206) 526-6959 voice
7600 Sand Point Way NE (206) 526-6329 fax
Seattle, WA 98115 (206) 526-6317 main reception
Chr...@no...

Jeremy Conlin wrote:
>
>
> On Mon, Mar 9, 2009 at 12:19 PM, Jeff Whitaker <js...@fa... 
> <mailto:js...@fa...>> wrote:
>
> Jeremy Conlin wrote:
>
> I am using Mac OS X 10.5.5 and have installed Enthought's
> latest Python distribution which includes Matplotlib 0.98.3.
> I get a fatal python error whenever I try to import
> matplotlib.pyplot. The exact message I get is:
>
> Fatal Python error: Interpreter not initialized (version
> mismatch?)
> Abort trap
>
> Has anyone else had a problem with this? Please help me
> because I can't do any plotting until it's fixed!
>
> Thanks,
> Jeremy
>
> Jeremy: That sometimes means you are importing a module into a
> different version of python than it was built against. Are you
> sure you are running Enthough python when you import matplotlib?
>
>
> I'm pretty sure it's the Enthought python. 
>
> $ python --version
> Python 2.5.2 |EPD Py25 4.1.30101|
>
> Jeremy
Jeremy: Then unless you have DYLD_LIBRARY_PATH or PYTHONPATH set so 
that the wrong python libs or extensions are being picked up, it must be 
an EPD problem. I'd ask on the EPD list.
-Jeff
-- 
Jeffrey S. Whitaker Phone : (303)497-6313
Meteorologist FAX : (303)497-6449
NOAA/OAR/PSD R/PSD1 Email : Jef...@no...
325 Broadway Office : Skaggs Research Cntr 1D-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

Jeremy Conlin wrote:
> I am using Mac OS X 10.5.5 and have installed Enthought's latest 
> Python distribution which includes Matplotlib 0.98.3. I get a fatal 
> python error whenever I try to import matplotlib.pyplot. The exact 
> message I get is:
>
> Fatal Python error: Interpreter not initialized (version mismatch?)
> Abort trap
>
> Has anyone else had a problem with this? Please help me because I 
> can't do any plotting until it's fixed!
>
> Thanks,
> Jeremy
Jeremy: That sometimes means you are importing a module into a 
different version of python than it was built against. Are you sure you 
are running Enthough python when you import matplotlib?
-Jeff
-- 
Jeffrey S. Whitaker Phone : (303)497-6313
Meteorologist FAX : (303)497-6449
NOAA/OAR/PSD R/PSD1 Email : Jef...@no...
325 Broadway Office : Skaggs Research Cntr 1D-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

Hello,
I have six subplots in my canvas, and wondering how to place a common ylabel
into the canvas in matplotlib? (Let say instead of having six same text on
the y-axes just to replace them with one bigger text encompassing all six
y-axes.)
Is this available in ml or am I too blind to see this feature?
Thanks,
Gökhan

Jeremy Conlin wrote:
> I am using Mac OS X 10.5.5 and have installed Enthought's latest 
> Python distribution which includes Matplotlib 0.98.3. I get a fatal 
> python error whenever I try to import matplotlib.pyplot. The exact 
> message I get is:
>
> Fatal Python error: Interpreter not initialized (version mismatch?)
> Abort trap
>
> Has anyone else had a problem with this? Please help me because I 
> can't do any plotting until it's fixed!
>
> Thanks,
> Jeremy
Jeremy: That usually means you are importing a module into a different 
version of python than it was built against. Are you sure you are 
running Enthough python when you import matplotlib?
-Jeff
-- 
Jeffrey S. Whitaker Phone : (303)497-6313
Meteorologist FAX : (303)497-6449
NOAA/OAR/PSD R/PSD1 Email : Jef...@no...
325 Broadway Office : Skaggs Research Cntr 1D-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

On Mon, Mar 9, 2009 at 10:43 AM, Jeremy Conlin <jer...@gm...> wrote:
> I am using Mac OS X 10.5.5 and have installed Enthought's latest Python
> distribution which includes Matplotlib 0.98.3. I get a fatal python error
> whenever I try to import matplotlib.pyplot. The exact message I get is:
> Fatal Python error: Interpreter not initialized (version mismatch?)
> Abort trap
>
> Has anyone else had a problem with this? Please help me because I can't do
> any plotting until it's fixed!
>
So you haven't installed matplotlib or wxpython separately? This error can
arise when the version of python that built the extension is not the same as
the version of python you are running. I suggest making sure you have a
clean install of enthought python (remove the install dir entirely),
reinstall it, and if you still see the same problem report it on the
enthought list because it looks like a build problem more than a matplotlib
problem.
Before you report, you may want to do some extra diagnostics. Eg create a
script like
 import matplotlib
 matplotlib.use('Agg')
 import matplotlib.pyplot
and try running this script, replacing 'Agg' with 'PS', 'PDF', 'TkAgg' and
'WXAgg' and noting whether all fail in the same way, or if only some do.

I am using Mac OS X 10.5.5 and have installed Enthought's latest Python
distribution which includes Matplotlib 0.98.3. I get a fatal python error
whenever I try to import matplotlib.pyplot. The exact message I get is:
Fatal Python error: Interpreter not initialized (version mismatch?)
Abort trap
Has anyone else had a problem with this? Please help me because I can't do
any plotting until it's fixed!
Thanks,
Jeremy

Marjolaine Rouault wrote:
> Hi,
>
> I am trying to extract a a line (or transect) of data across a 2 dimensional array. I want to know what the best way of finding data points within my 2D dataset closest to each point on my line. Is there a matplotlib pre-defined function to find the closest point within a radius or must I create my own?
>
> Thanks a lot, Marjolaine.
> 
Marjolaine: Sounds like what you want is nearest neighbor interpolation. The Basemap toolkit has an interp function that can do bilinear or nearest neighbor interpolation. It's typically used for regridding, but I think it will work for your use case too.
Here's some pseudo-code:
from mpl_toolkits.basemap import interp
# here datarr is 2d data array on a regular grid with x,y coordinates
# defined by 1-d arrays x,y. The arrays xout, yout describe the points
# on the transect. order=0 means nearest neighbor interp, order=1 means bilinear.
# dataout is the data interpolated to the transect.
dataout = interp(datarr,x,y,xout,yout,order=0)
-Jeff
-- 
Jeffrey S. Whitaker Phone : (303)497-6313
Meteorologist FAX : (303)497-6449
NOAA/OAR/PSD R/PSD1 Email : Jef...@no...
325 Broadway Office : Skaggs Research Cntr 1D-113
Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg

Hi,
I am trying to extract a a line (or transect) of data across a 2 dimensional array. I want to know what the best way of finding data points within my 2D dataset closest to each point on my line. Is there a matplotlib pre-defined function to find the closest point within a radius or must I create my own?
Thanks a lot, Marjolaine.
Marjolaine Rouault
CSIR - NRE
Research Group : Earth Observation
15 Lower Hope street, Rosebank
7700
South Africa
Tel.: +27 (0) 21 658-2755
Fax: +27 (0) 21 658-2744
mro...@cs... 
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