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From: Jorge S. <jor...@ya...> - 2010-06-08 08:15:47
|
Hi, I am working with collection of lines, and when trying to set the color of each individual lines I found that you can either use a 'color' or colors' (note the 's') argument to LineCollection() to accomplish the same, but that there's only a set_color() method you can call. Is this intended? Also, I found (and already used elsewhere) the set_array() method, which complains when passed rgba values but works when passed a vector. I haven't found much on its purpose, except for what appears under matplotlib.cm.ScalarMappable() and the various examples using it. I guessed I am a little confused. Jorges |
|
From: Todd V R. <rov...@gm...> - 2010-06-08 03:46:33
|
Ben,
That worked great, thanks!!! Just a few points. The documentation under
the image tutorial section does not specify that a user has to do
"plt.show()", should I submit a bug report or something? I changed my code
and listed it below it works as long as I comment out the plot c section.
In other words if I perform a normal 2d plot then close plot window the
image plot does not product a result. If I comment out the plot c section
then the image plot works great. Any ideas?
Even the stink bug example is working when I read a image from disk.
Thanks.
# -*- coding: utf-8 -*-
from numpy import *
import matplotlib.pyplot as plt
import matplotlib.image as mpimg
print "Numpy version: " + __version__
a = array([10,20,30,40])
print "result of a"
print a
b = arange(4)
print "result of b"
print b
c = linspace(-pi, pi, 30)
print "result of c"
print c
# this plot code works
print "plot c"
plt.plot(c)
plt.ylabel("-pi to + pi")
plt.xlabel("value of c")
plt.show()
# this image processing code does not work
print "doing image processing stuff"
img=mpimg.imread("/Users/rovitotv/Desktop/stinkbug.png") # this does not
work
##img = zeros((10, 10), dtype=uint8)
##for i in range(10):
## img[i,i] = 255;
plt.imshow(img)
plt.show()
print "data type of img:"
print img.dtype
print "size of img:" + str(img.size)
print img
On Mon, Jun 7, 2010 at 10:04 AM, Benjamin Root <ben...@ou...> wrote:
> Todd,
>
> I think you are missing a "plt.show()" at the end of your code.
> matplotlib, by default on most systems, does not show a plot until you tell
> it to using plt.show() command.
>
> See if that works,
> Ben Root
>
> On Mon, Jun 7, 2010 at 7:57 AM, Todd V Rovito <rov...@gm...>wrote:
>
>> Greetings,
>> I just installed Python 2.6 (python.org), Numpy 1.4.1, and Matplotlib
>> 0.99.1.2 all on Mac OS X 10.6 in an attempt to learn about scientific
>> programming in python. Go easy on me since I am a begginer. The Python and
>> Numpy seem to be working correctly. I can get matplotlib to make plots but
>> I can't get it to show images. I tried the stinkbug example in
>> the Matplotlib users guide documentation with no success. Errors are _NOT_
>> generated but neither are any results on the screen. The imread command
>> produces a float32 matrix that contains all 1. values so I tried creating my
>> own uint8 matrix with a diagnoal line. My code is below. Thanks for any
>> help you can provide.
>>
>>
>>
>> # -*- coding: utf-8 -*-
>> from numpy import *
>> import matplotlib.pyplot as plt
>> import matplotlib.image as mpimg
>>
>> print "Numpy version: " + __version__
>> a = array([10,20,30,40])
>> print "result of a"
>> print a
>>
>> b = arange(4)
>> print "result of b"
>> print b
>>
>> c = linspace(-pi, pi, 30)
>> print "result of c"
>> print c
>>
>> # this plot code works
>> print "plot c"
>> plt.plot(c)
>> plt.ylabel("-pi to + pi")
>> plt.xlabel("value of c")
>> plt.show()
>>
>> # this image processing code does not work
>> print "doing image processing stuff"
>> # img=mpimg.imread("/Users/rovitotv/Desktop/stinkbug.png") # this does not
>> work
>> img = zeros((10, 10), dtype=uint8)
>> for i in range(10):
>> img[i,i] = 255;
>>
>> plt.imshow(img)
>> print "data type of img:"
>> print img.dtype
>> print "size of img:" + str(img.size)
>> print img
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> ThinkGeek and WIRED's GeekDad team up for the Ultimate
>> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the
>> lucky parental unit. See the prize list and enter to win:
>> http://p.sf.net/sfu/thinkgeek-promo
>> _______________________________________________
>> Matplotlib-users mailing list
>> Mat...@li...
>> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>>
>>
>
>
> ------------------------------------------------------------------------------
> ThinkGeek and WIRED's GeekDad team up for the Ultimate
> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the
> lucky parental unit. See the prize list and enter to win:
> http://p.sf.net/sfu/thinkgeek-promo
> _______________________________________________
> Matplotlib-users mailing list
> Mat...@li...
> https://lists.sourceforge.net/lists/listinfo/matplotlib-users
>
>
|
|
From: Eric F. <ef...@ha...> - 2010-06-08 02:54:52
|
On 06/07/2010 04:31 PM, Benjamin Root wrote: > I would like to second this sentiment. I just encountered a situation > today where I needed to modify the fontsize of the ticklabels and I > could not find any obvious method for modifying the properties. Unless > I am mistaken and there are methods for this, shall I file a feature > request? I'm already working on it, and have the low level parts done. I just have to put in the higher-level API and commit it. Eric > > Ben Root > > On Mon, Jun 7, 2010 at 7:55 PM, Paul Ivanov <piv...@gm... > <mailto:piv...@gm...>> wrote: > > Hi all, > > I've really been enjoying matplotlib, but in getting my graphs to > look just the way I want, I find myself having to just through some > hoops to get there. > > my question is: is there a better way of changing spine, tick, and > ticklabels colors? > > Here's what I use right now: > > [s.set_color(color) for s in ax.spines.values()] > [s.set_color(color) for s in ax.yaxis.get_ticklines()] > [s.set_color(color) for s in ax.xaxis.get_ticklines()] > [(s.set_color(color),s.set_size(8)) for s in > ax.xaxis.get_ticklabels()] > [(s.set_color(color),s.set_size(8)) for s in > ax.yaxis.get_ticklabels()] > ax.yaxis.grid(which='major',linestyle='-',color=color,alpha=.3) > > I realize that I should probably set the rcParam equivalents before > creating ax. But once I have an axesSubplot ax, what's the best way > to fiddle with these parameters? > > you can see a full example here: > http://pirsquared.org/blog/2010/06/07/ca-prop/ > > best, > Paul Ivanov > > -- > I only use the 314 gmail account for mailinglists. Please send > off-list personal correspondence to my initials (two letters) at > berkeley dot edu. > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > <mailto:Mat...@li...> > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > > > > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
|
From: Eric F. <ef...@ha...> - 2010-06-08 02:53:30
|
On 06/07/2010 02:36 PM, Robert Sudwarts wrote: > Thanks for your quick response Eric -- I've just spotted the freetype & > libpng packages which will also need to be installed... > > ... and having downloaded freetype etc (and seen its rather interesting > installation instructions...) I'll have to figure out how to get this to > end up in the right place! I would (and do) just install these library dependencies and their -dev versions via the usual ubuntu package system, so it should be very simple. There is no need to install them from source. Eric > > Thanks for your help. > > Rob > > > > > > > > On 8 June 2010 00:15, Robert Sudwarts <rob...@gm... > <mailto:rob...@gm...>> wrote: > > Hi, > > Hoping someone can help with this... I'm trying to install in a > virtual environment created with "--no-site-packages" > I've followed all instructions re cleaning the existing .matplotlib > cache/directory and deleted .egg files etc > > (virtualenv) ... $ easy_install matplotlib -- gives me an error: > "command 'gcc' failed with exit status 1" > > The existing components (note: all from within the virtualenv): > > $ python --version --> 2.6.4 > > $ python -c 'import numpy; print numpy.__version__' --> 1.4.1 > > $ gcc --version --> 4.4.1 > > $ uname -a --> Linux HP-desktop 2.6.31-22-generic-pae > #60-Ubuntu SMP Thu May 27 01:40:15 UTC 2010 i686 GNU/Linux > > (I'm running this on Ubuntu Karmic Koala -- please note that > installing from the Synaptic Package Manager gives me a working > version which runs correctly and as expected, using ipython -pylab etc) > > This may be a question of downloading a version other than v0.99.3 > but in that case I'd not be sure which one to use(!) > I'd be really grateful for any assistance you can give.... > > > > (and finally the output/error from "easy_install matplotlib") > > Searching for matplotlib > Reading http://pypi.python.org/simple/matplotlib/ > Reading http://matplotlib.sourceforge.net > Reading > http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > <http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474> > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194 > <https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194> > Reading http://sourceforge.net/project/showfiles.php?group_id=80706 > Reading > https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/ > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > <https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474> > Best match: matplotlib 0.99.3 > Downloading > http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.3/matplotlib-0.99.3.tar.gz/download > Processing download > Running matplotlib-0.99.3/setup.py -q bdist_egg --dist-dir > /tmp/easy_install-7FYGk8/matplotlib-0.99.3/egg-dist-tmp-7gnrbR > ============================================================================ > BUILDING MATPLOTLIB > matplotlib: 0.99.3 > python: 2.6.4 (r264:75706, Dec 7 2009, 18:45:15) [GCC > 4.4.1] > platform: linux2 > > REQUIRED DEPENDENCIES > numpy: 1.4.1 > freetype2: found, but unknown version (no pkg-config) > * WARNING: Could not find 'freetype2' > headers in any > * of '/usr/local/include', '/usr/include', '.', > * '/usr/local/include/freetype2', > * '/usr/include/freetype2', './freetype2'. > > OPTIONAL BACKEND DEPENDENCIES > libpng: found, but unknown version (no pkg-config) > * Could not find 'libpng' headers in any of > * '/usr/local/include', '/usr/include', '.' > Tkinter: no > * Using default library and include > directories for > * Tcl and Tk because a Tk window failed to > open. > * You may need to define DISPLAY for Tk to > work so > * that setup can determine where your > libraries are > * located. Tkinter present, but header > files are not > * found. You may need to install development > * packages. > wxPython: no > * wxPython not found > Gtk+: no > * Building for Gtk+ requires pygtk; you > must be able > * to "import gtk" in your build/install > environment > Mac OS X native: no > Qt: no > Qt4: no > Cairo: no > > OPTIONAL DATE/TIMEZONE DEPENDENCIES > datetime: present, version unknown > dateutil: matplotlib will provide > pytz: matplotlib will provide > adding pytz > > OPTIONAL USETEX DEPENDENCIES > dvipng: no > ghostscript: 8.70 > latex: no > pdftops: 0.12.0 > > [Edit setup.cfg to suppress the above messages] > ============================================================================ > pymods ['pylab'] > packages ['matplotlib', 'matplotlib.backends', > 'matplotlib.projections', 'mpl_toolkits', 'mpl_toolkits.mplot3d', > 'mpl_toolkits.axes_grid', 'matplotlib.sphinxext', > 'matplotlib.numerix', 'matplotlib.numerix.mlab', > 'matplotlib.numerix.ma <http://matplotlib.numerix.ma>', > 'matplotlib.numerix.linear_algebra', > 'matplotlib.numerix.random_array', 'matplotlib.numerix.fft', > 'matplotlib.delaunay', 'pytz', 'dateutil', 'dateutil/zoneinfo'] > warning: no files found matching 'MANIFEST' > warning: no files found matching 'lib/mpl_toolkits' > cc1plus: warning: command line option "-Wstrict-prototypes" is valid > for Ada/C/ObjC but not for C++ > In file included from /usr/include/c++/4.4/ext/hash_map:59, > from ./CXX/Extensions.hxx:68, > from src/ft2font.h:4, > from src/ft2font.cpp:1: > /usr/include/c++/4.4/backward/backward_warning.h:28:2: warning: > #warning This file includes at least one deprecated or antiquated > header which may be removed without further notice at a future date. > Please use a non-deprecated interface with equivalent functionality > instead. For a listing of replacement headers and interfaces, > consult the file backward_warning.h. To disable this warning use > -Wno-deprecated. > In file included from src/ft2font.cpp:1: > src/ft2font.h:13:22: error: ft2build.h: No such file or directory > src/ft2font.h:14:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:15:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:16:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:17:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:18:10: error: #include expects "FILENAME" or <FILENAME> > In file included from src/ft2font.cpp:1: > src/ft2font.h:31: error: ‘FT_Bitmap’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:77: error: ISO C++ forbids declaration of ‘FT_Face’ > with no type > src/ft2font.h:77: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:83: error: ISO C++ forbids declaration of ‘FT_Face’ > with no type > src/ft2font.h:83: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:122: error: ‘FT_Face’ does not name a type > src/ft2font.h:123: error: ‘FT_Matrix’ does not name a type > src/ft2font.h:124: error: ‘FT_Vector’ does not name a type > src/ft2font.h:125: error: ‘FT_Error’ does not name a type > src/ft2font.h:126: error: ‘FT_Glyph’ was not declared in this scope > src/ft2font.h:126: error: template argument 1 is invalid > src/ft2font.h:126: error: template argument 2 is invalid > src/ft2font.h:127: error: ‘FT_Vector’ was not declared in this scope > src/ft2font.h:127: error: template argument 1 is invalid > src/ft2font.h:127: error: template argument 2 is invalid > src/ft2font.h:133: error: ‘FT_BBox’ does not name a type > src/ft2font.cpp:45: error: ‘FT_Library’ does not name a type > src/ft2font.cpp:96: error: variable or field ‘draw_bitmap’ declared void > src/ft2font.cpp:96: error: ‘FT_Bitmap’ was not declared in this scope > src/ft2font.cpp:96: error: ‘bitmap’ was not declared in this scope > src/ft2font.cpp:97: error: ‘FT_Int’ was not declared in this scope > src/ft2font.cpp:98: error: ‘FT_Int’ was not declared in this scope > /home/robertsudwarts/virtualenvs/sqa/lib/python2.6/site-packages/numpy/core/include/numpy/__multiarray_api.h:1187: > warning: ‘int _import_array()’ defined but not used > error: Setup script exited with error: command 'gcc' failed with > exit status 1 > > > > > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > > > > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
|
From: Benjamin R. <ben...@ou...> - 2010-06-08 02:31:39
|
I would like to second this sentiment. I just encountered a situation today where I needed to modify the fontsize of the ticklabels and I could not find any obvious method for modifying the properties. Unless I am mistaken and there are methods for this, shall I file a feature request? Ben Root On Mon, Jun 7, 2010 at 7:55 PM, Paul Ivanov <piv...@gm...> wrote: > Hi all, > > I've really been enjoying matplotlib, but in getting my graphs to look just > the way I want, I find myself having to just through some hoops to get > there. > > my question is: is there a better way of changing spine, tick, and > ticklabels colors? > > Here's what I use right now: > > [s.set_color(color) for s in ax.spines.values()] > [s.set_color(color) for s in ax.yaxis.get_ticklines()] > [s.set_color(color) for s in ax.xaxis.get_ticklines()] > [(s.set_color(color),s.set_size(8)) for s in ax.xaxis.get_ticklabels()] > [(s.set_color(color),s.set_size(8)) for s in ax.yaxis.get_ticklabels()] > ax.yaxis.grid(which='major',linestyle='-',color=color,alpha=.3) > > I realize that I should probably set the rcParam equivalents before > creating ax. But once I have an axesSubplot ax, what's the best way to > fiddle with these parameters? > > you can see a full example here: > http://pirsquared.org/blog/2010/06/07/ca-prop/ > > best, > Paul Ivanov > > -- > I only use the 314 gmail account for mailinglists. Please send off-list > personal correspondence to my initials (two letters) at berkeley dot edu. > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > |
|
From: Shareef D. <sh...@da...> - 2010-06-08 02:17:22
|
Hello All,
I have data that I need to apply log-based transformations to followed
by plotting. Ideally I would like the plot to display the nicely
formatted log-scale major/minor ticks as when setting xscale('log').
Of course, doing that applies the default log transformation to
already log-transformed data.
I played around with the matplotlib.ticker classes, but the LogLocator
only seems to work properly when applied to a plot with axes set to
log scale or plotted with something like semilog (as in
http://old.nabble.com/ticks---labels-td18931344.html).
An example:
import matplotlib.pyplot as plt
import matplotlib.ticker as mt
import numpy as np
x = [10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400, 500, 600,
700, 800, 900, 1000, 2000, 3000, 4000, 5000, 6000, 7000, 8000, 9000,
10000]
xlog = np.log10(x) #or some other more complex transform
y = [1 for i in x]
fig = plt.figure()
ax = fig.add_subplot(111)
ax.plot(xlog,y, '.', c='blue', ms=2)
ax.xaxis.set_major_locator(mt.LogLocator())
plt.show()
Resulting in: http://imgur.com/MtsLE.png
As opposed to what I would like: http://imgur.com/QELVD.png (plotting
x instead of xlog, and ax.set_xscale('log'))
I'm probably missing something simple, but I haven't been able to
figure it out as of yet.
Thanks in advance for any suggestions/help.
Shareef
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From: Paul I. <piv...@gm...> - 2010-06-08 00:56:04
|
Hi all,
I've really been enjoying matplotlib, but in getting my graphs to look just
the way I want, I find myself having to just through some hoops to get
there.
my question is: is there a better way of changing spine, tick, and
ticklabels colors?
Here's what I use right now:
[s.set_color(color) for s in ax.spines.values()]
[s.set_color(color) for s in ax.yaxis.get_ticklines()]
[s.set_color(color) for s in ax.xaxis.get_ticklines()]
[(s.set_color(color),s.set_size(8)) for s in ax.xaxis.get_ticklabels()]
[(s.set_color(color),s.set_size(8)) for s in ax.yaxis.get_ticklabels()]
ax.yaxis.grid(which='major',linestyle='-',color=color,alpha=.3)
I realize that I should probably set the rcParam equivalents before creating
ax. But once I have an axesSubplot ax, what's the best way to fiddle with
these parameters?
you can see a full example here:
http://pirsquared.org/blog/2010/06/07/ca-prop/
best,
Paul Ivanov
--
I only use the 314 gmail account for mailinglists. Please send off-list
personal correspondence to my initials (two letters) at berkeley dot edu.
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From: Robert S. <rob...@gm...> - 2010-06-08 00:36:07
|
Thanks for your quick response Eric -- I've just spotted the freetype & libpng packages which will also need to be installed... ... and having downloaded freetype etc (and seen its rather interesting installation instructions...) I'll have to figure out how to get this to end up in the right place! Thanks for your help. Rob On 8 June 2010 00:15, Robert Sudwarts <rob...@gm...> wrote: > Hi, > > Hoping someone can help with this... I'm trying to install in a virtual > environment created with "--no-site-packages" > I've followed all instructions re cleaning the existing .matplotlib > cache/directory and deleted .egg files etc > > (virtualenv) ... $ easy_install matplotlib -- gives me an error: "command > 'gcc' failed with exit status 1" > > The existing components (note: all from within the virtualenv): > > $ python --version --> 2.6.4 > > $ python -c 'import numpy; print numpy.__version__' --> 1.4.1 > > $ gcc --version --> 4.4.1 > > $ uname -a --> Linux HP-desktop 2.6.31-22-generic-pae #60-Ubuntu SMP > Thu May 27 01:40:15 UTC 2010 i686 GNU/Linux > > (I'm running this on Ubuntu Karmic Koala -- please note that installing > from the Synaptic Package Manager gives me a working version which runs > correctly and as expected, using ipython -pylab etc) > > This may be a question of downloading a version other than v0.99.3 but in > that case I'd not be sure which one to use(!) > I'd be really grateful for any assistance you can give.... > > > > (and finally the output/error from "easy_install matplotlib") > > Searching for matplotlib > Reading http://pypi.python.org/simple/matplotlib/ > Reading http://matplotlib.sourceforge.net > Reading > http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194 > Reading http://sourceforge.net/project/showfiles.php?group_id=80706 > Reading > https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/ > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > Best match: matplotlib 0.99.3 > Downloading > http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.3/matplotlib-0.99.3.tar.gz/download > Processing download > Running matplotlib-0.99.3/setup.py -q bdist_egg --dist-dir > /tmp/easy_install-7FYGk8/matplotlib-0.99.3/egg-dist-tmp-7gnrbR > > ============================================================================ > BUILDING MATPLOTLIB > matplotlib: 0.99.3 > python: 2.6.4 (r264:75706, Dec 7 2009, 18:45:15) [GCC > 4.4.1] > platform: linux2 > > REQUIRED DEPENDENCIES > numpy: 1.4.1 > freetype2: found, but unknown version (no pkg-config) > * WARNING: Could not find 'freetype2' headers in > any > * of '/usr/local/include', '/usr/include', '.', > * '/usr/local/include/freetype2', > * '/usr/include/freetype2', './freetype2'. > > OPTIONAL BACKEND DEPENDENCIES > libpng: found, but unknown version (no pkg-config) > * Could not find 'libpng' headers in any of > * '/usr/local/include', '/usr/include', '.' > Tkinter: no > * Using default library and include directories for > * Tcl and Tk because a Tk window failed to open. > * You may need to define DISPLAY for Tk to work so > * that setup can determine where your libraries are > * located. Tkinter present, but header files are > not > * found. You may need to install development > * packages. > wxPython: no > * wxPython not found > Gtk+: no > * Building for Gtk+ requires pygtk; you must be > able > * to "import gtk" in your build/install environment > Mac OS X native: no > Qt: no > Qt4: no > Cairo: no > > OPTIONAL DATE/TIMEZONE DEPENDENCIES > datetime: present, version unknown > dateutil: matplotlib will provide > pytz: matplotlib will provide > adding pytz > > OPTIONAL USETEX DEPENDENCIES > dvipng: no > ghostscript: 8.70 > latex: no > pdftops: 0.12.0 > > [Edit setup.cfg to suppress the above messages] > > ============================================================================ > pymods ['pylab'] > packages ['matplotlib', 'matplotlib.backends', 'matplotlib.projections', > 'mpl_toolkits', 'mpl_toolkits.mplot3d', 'mpl_toolkits.axes_grid', > 'matplotlib.sphinxext', 'matplotlib.numerix', 'matplotlib.numerix.mlab', ' > matplotlib.numerix.ma', 'matplotlib.numerix.linear_algebra', > 'matplotlib.numerix.random_array', 'matplotlib.numerix.fft', > 'matplotlib.delaunay', 'pytz', 'dateutil', 'dateutil/zoneinfo'] > warning: no files found matching 'MANIFEST' > warning: no files found matching 'lib/mpl_toolkits' > cc1plus: warning: command line option "-Wstrict-prototypes" is valid for > Ada/C/ObjC but not for C++ > In file included from /usr/include/c++/4.4/ext/hash_map:59, > from ./CXX/Extensions.hxx:68, > from src/ft2font.h:4, > from src/ft2font.cpp:1: > /usr/include/c++/4.4/backward/backward_warning.h:28:2: warning: #warning > This file includes at least one deprecated or antiquated header which may be > removed without further notice at a future date. Please use a non-deprecated > interface with equivalent functionality instead. For a listing of > replacement headers and interfaces, consult the file backward_warning.h. To > disable this warning use -Wno-deprecated. > In file included from src/ft2font.cpp:1: > src/ft2font.h:13:22: error: ft2build.h: No such file or directory > src/ft2font.h:14:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:15:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:16:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:17:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:18:10: error: #include expects "FILENAME" or <FILENAME> > In file included from src/ft2font.cpp:1: > src/ft2font.h:31: error: ‘FT_Bitmap’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:77: error: ISO C++ forbids declaration of ‘FT_Face’ with no > type > src/ft2font.h:77: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:83: error: ISO C++ forbids declaration of ‘FT_Face’ with no > type > src/ft2font.h:83: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:122: error: ‘FT_Face’ does not name a type > src/ft2font.h:123: error: ‘FT_Matrix’ does not name a type > src/ft2font.h:124: error: ‘FT_Vector’ does not name a type > src/ft2font.h:125: error: ‘FT_Error’ does not name a type > src/ft2font.h:126: error: ‘FT_Glyph’ was not declared in this scope > src/ft2font.h:126: error: template argument 1 is invalid > src/ft2font.h:126: error: template argument 2 is invalid > src/ft2font.h:127: error: ‘FT_Vector’ was not declared in this scope > src/ft2font.h:127: error: template argument 1 is invalid > src/ft2font.h:127: error: template argument 2 is invalid > src/ft2font.h:133: error: ‘FT_BBox’ does not name a type > src/ft2font.cpp:45: error: ‘FT_Library’ does not name a type > src/ft2font.cpp:96: error: variable or field ‘draw_bitmap’ declared void > src/ft2font.cpp:96: error: ‘FT_Bitmap’ was not declared in this scope > src/ft2font.cpp:96: error: ‘bitmap’ was not declared in this scope > src/ft2font.cpp:97: error: ‘FT_Int’ was not declared in this scope > src/ft2font.cpp:98: error: ‘FT_Int’ was not declared in this scope > /home/robertsudwarts/virtualenvs/sqa/lib/python2.6/site-packages/numpy/core/include/numpy/__multiarray_api.h:1187: > warning: ‘int _import_array()’ defined but not used > error: Setup script exited with error: command 'gcc' failed with exit > status 1 > > > > |
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From: Craig a. N. M. <cra...@mc...> - 2010-06-08 00:04:09
|
Hello, I'm trying to use the matplotlib Sphinx plot extension to add some diagrams to Sphinx documentation. However, I've come across a couple of issues. First, my Sphinx documentation uses the "separate directories for source and build" option. It seems that matplotlib doesn't work well with this option, because: 1) I think the "pyplot" directory should be under the "source" directory. But I had to put it one level up from the "source" directory otherwise it wouldn't be found. 2) When I try to build, I get error messages such as: /home/craig-nat/MySoftware/cobs-python/doc/source/index.rst:: WARNING: image file not readable: build/pyplots/cobsr_overhead.png It should be "../build/pyplots/cobsr_overhead.png" instead I think. Secondly, on Windows, it generates the plots and creates links to the images. However, the image filename gets any spaces stripped out of it, so Sphinx can't locate the images. On further investigation I'm pretty sure that the problem is with Sphinx itself, not the matplotlib extension--the problem happens even if I just add a ".. image::" in Sphinx. I thought I should at least mention it here in case anyone else is coming across the same issue. I'll plan to report it to the Sphinx developers. Regards, Craig McQueen |
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From: Eric F. <ef...@ha...> - 2010-06-07 23:45:47
|
On 06/07/2010 01:15 PM, Robert Sudwarts wrote: > Hi, > > Hoping someone can help with this... I'm trying to install in a virtual > environment created with "--no-site-packages" > I've followed all instructions re cleaning the existing .matplotlib > cache/directory and deleted .egg files etc > > (virtualenv) ... $ easy_install matplotlib -- gives me an error: > "command 'gcc' failed with exit status 1" > > The existing components (note: all from within the virtualenv): > > $ python --version --> 2.6.4 > > $ python -c 'import numpy; print numpy.__version__' --> 1.4.1 > > $ gcc --version --> 4.4.1 > > $ uname -a --> Linux HP-desktop 2.6.31-22-generic-pae #60-Ubuntu > SMP Thu May 27 01:40:15 UTC 2010 i686 GNU/Linux > > (I'm running this on Ubuntu Karmic Koala -- please note that installing > from the Synaptic Package Manager gives me a working version which runs > correctly and as expected, using ipython -pylab etc) > > This may be a question of downloading a version other than v0.99.3 but > in that case I'd not be sure which one to use(!) > I'd be really grateful for any assistance you can give.... It looks like the problem is that you are missing the -dev packages for various libraries. In your output below, wherever you see something about a missing header, it means you need to install a corresponding -dev package. Eric > > > > (and finally the output/error from "easy_install matplotlib") > > Searching for matplotlib > Reading http://pypi.python.org/simple/matplotlib/ > Reading http://matplotlib.sourceforge.net > Reading > http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > <http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474> > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194 > <https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194> > Reading http://sourceforge.net/project/showfiles.php?group_id=80706 > Reading > https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/ > Reading > https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 > <https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474> > Best match: matplotlib 0.99.3 > Downloading > http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.3/matplotlib-0.99.3.tar.gz/download > Processing download > Running matplotlib-0.99.3/setup.py -q bdist_egg --dist-dir > /tmp/easy_install-7FYGk8/matplotlib-0.99.3/egg-dist-tmp-7gnrbR > ============================================================================ > BUILDING MATPLOTLIB > matplotlib: 0.99.3 > python: 2.6.4 (r264:75706, Dec 7 2009, 18:45:15) [GCC > 4.4.1] > platform: linux2 > > REQUIRED DEPENDENCIES > numpy: 1.4.1 > freetype2: found, but unknown version (no pkg-config) > * WARNING: Could not find 'freetype2' headers > in any > * of '/usr/local/include', '/usr/include', '.', > * '/usr/local/include/freetype2', > * '/usr/include/freetype2', './freetype2'. > > OPTIONAL BACKEND DEPENDENCIES > libpng: found, but unknown version (no pkg-config) > * Could not find 'libpng' headers in any of > * '/usr/local/include', '/usr/include', '.' > Tkinter: no > * Using default library and include directories for > * Tcl and Tk because a Tk window failed to open. > * You may need to define DISPLAY for Tk to work so > * that setup can determine where your libraries are > * located. Tkinter present, but header files > are not > * found. You may need to install development > * packages. > wxPython: no > * wxPython not found > Gtk+: no > * Building for Gtk+ requires pygtk; you must be > able > * to "import gtk" in your build/install environment > Mac OS X native: no > Qt: no > Qt4: no > Cairo: no > > OPTIONAL DATE/TIMEZONE DEPENDENCIES > datetime: present, version unknown > dateutil: matplotlib will provide > pytz: matplotlib will provide > adding pytz > > OPTIONAL USETEX DEPENDENCIES > dvipng: no > ghostscript: 8.70 > latex: no > pdftops: 0.12.0 > > [Edit setup.cfg to suppress the above messages] > ============================================================================ > pymods ['pylab'] > packages ['matplotlib', 'matplotlib.backends', 'matplotlib.projections', > 'mpl_toolkits', 'mpl_toolkits.mplot3d', 'mpl_toolkits.axes_grid', > 'matplotlib.sphinxext', 'matplotlib.numerix', 'matplotlib.numerix.mlab', > 'matplotlib.numerix.ma <http://matplotlib.numerix.ma>', > 'matplotlib.numerix.linear_algebra', 'matplotlib.numerix.random_array', > 'matplotlib.numerix.fft', 'matplotlib.delaunay', 'pytz', 'dateutil', > 'dateutil/zoneinfo'] > warning: no files found matching 'MANIFEST' > warning: no files found matching 'lib/mpl_toolkits' > cc1plus: warning: command line option "-Wstrict-prototypes" is valid for > Ada/C/ObjC but not for C++ > In file included from /usr/include/c++/4.4/ext/hash_map:59, > from ./CXX/Extensions.hxx:68, > from src/ft2font.h:4, > from src/ft2font.cpp:1: > /usr/include/c++/4.4/backward/backward_warning.h:28:2: warning: #warning > This file includes at least one deprecated or antiquated header which > may be removed without further notice at a future date. Please use a > non-deprecated interface with equivalent functionality instead. For a > listing of replacement headers and interfaces, consult the file > backward_warning.h. To disable this warning use -Wno-deprecated. > In file included from src/ft2font.cpp:1: > src/ft2font.h:13:22: error: ft2build.h: No such file or directory > src/ft2font.h:14:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:15:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:16:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:17:10: error: #include expects "FILENAME" or <FILENAME> > src/ft2font.h:18:10: error: #include expects "FILENAME" or <FILENAME> > In file included from src/ft2font.cpp:1: > src/ft2font.h:31: error: ‘FT_Bitmap’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:31: error: ‘FT_Int’ has not been declared > src/ft2font.h:77: error: ISO C++ forbids declaration of ‘FT_Face’ with > no type > src/ft2font.h:77: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:83: error: ISO C++ forbids declaration of ‘FT_Face’ with > no type > src/ft2font.h:83: error: expected ‘,’ or ‘...’ before ‘&’ token > src/ft2font.h:122: error: ‘FT_Face’ does not name a type > src/ft2font.h:123: error: ‘FT_Matrix’ does not name a type > src/ft2font.h:124: error: ‘FT_Vector’ does not name a type > src/ft2font.h:125: error: ‘FT_Error’ does not name a type > src/ft2font.h:126: error: ‘FT_Glyph’ was not declared in this scope > src/ft2font.h:126: error: template argument 1 is invalid > src/ft2font.h:126: error: template argument 2 is invalid > src/ft2font.h:127: error: ‘FT_Vector’ was not declared in this scope > src/ft2font.h:127: error: template argument 1 is invalid > src/ft2font.h:127: error: template argument 2 is invalid > src/ft2font.h:133: error: ‘FT_BBox’ does not name a type > src/ft2font.cpp:45: error: ‘FT_Library’ does not name a type > src/ft2font.cpp:96: error: variable or field ‘draw_bitmap’ declared void > src/ft2font.cpp:96: error: ‘FT_Bitmap’ was not declared in this scope > src/ft2font.cpp:96: error: ‘bitmap’ was not declared in this scope > src/ft2font.cpp:97: error: ‘FT_Int’ was not declared in this scope > src/ft2font.cpp:98: error: ‘FT_Int’ was not declared in this scope > /home/robertsudwarts/virtualenvs/sqa/lib/python2.6/site-packages/numpy/core/include/numpy/__multiarray_api.h:1187: > warning: ‘int _import_array()’ defined but not used > error: Setup script exited with error: command 'gcc' failed with exit > status 1 > > > > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > > > > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
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From: Robert S. <rob...@gm...> - 2010-06-07 23:15:48
|
Hi, Hoping someone can help with this... I'm trying to install in a virtual environment created with "--no-site-packages" I've followed all instructions re cleaning the existing .matplotlib cache/directory and deleted .egg files etc (virtualenv) ... $ easy_install matplotlib -- gives me an error: "command 'gcc' failed with exit status 1" The existing components (note: all from within the virtualenv): $ python --version --> 2.6.4 $ python -c 'import numpy; print numpy.__version__' --> 1.4.1 $ gcc --version --> 4.4.1 $ uname -a --> Linux HP-desktop 2.6.31-22-generic-pae #60-Ubuntu SMP Thu May 27 01:40:15 UTC 2010 i686 GNU/Linux (I'm running this on Ubuntu Karmic Koala -- please note that installing from the Synaptic Package Manager gives me a working version which runs correctly and as expected, using ipython -pylab etc) This may be a question of downloading a version other than v0.99.3 but in that case I'd not be sure which one to use(!) I'd be really grateful for any assistance you can give.... (and finally the output/error from "easy_install matplotlib") Searching for matplotlib Reading http://pypi.python.org/simple/matplotlib/ Reading http://matplotlib.sourceforge.net Reading http://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 Reading https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=278194 Reading http://sourceforge.net/project/showfiles.php?group_id=80706 Reading https://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.1/ Reading https://sourceforge.net/project/showfiles.php?group_id=80706&package_id=82474 Best match: matplotlib 0.99.3 Downloading http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-0.99.3/matplotlib-0.99.3.tar.gz/download Processing download Running matplotlib-0.99.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-7FYGk8/matplotlib-0.99.3/egg-dist-tmp-7gnrbR ============================================================================ BUILDING MATPLOTLIB matplotlib: 0.99.3 python: 2.6.4 (r264:75706, Dec 7 2009, 18:45:15) [GCC 4.4.1] platform: linux2 REQUIRED DEPENDENCIES numpy: 1.4.1 freetype2: found, but unknown version (no pkg-config) * WARNING: Could not find 'freetype2' headers in any * of '/usr/local/include', '/usr/include', '.', * '/usr/local/include/freetype2', * '/usr/include/freetype2', './freetype2'. OPTIONAL BACKEND DEPENDENCIES libpng: found, but unknown version (no pkg-config) * Could not find 'libpng' headers in any of * '/usr/local/include', '/usr/include', '.' Tkinter: no * Using default library and include directories for * Tcl and Tk because a Tk window failed to open. * You may need to define DISPLAY for Tk to work so * that setup can determine where your libraries are * located. Tkinter present, but header files are not * found. You may need to install development * packages. wxPython: no * wxPython not found Gtk+: no * Building for Gtk+ requires pygtk; you must be able * to "import gtk" in your build/install environment Mac OS X native: no Qt: no Qt4: no Cairo: no OPTIONAL DATE/TIMEZONE DEPENDENCIES datetime: present, version unknown dateutil: matplotlib will provide pytz: matplotlib will provide adding pytz OPTIONAL USETEX DEPENDENCIES dvipng: no ghostscript: 8.70 latex: no pdftops: 0.12.0 [Edit setup.cfg to suppress the above messages] ============================================================================ pymods ['pylab'] packages ['matplotlib', 'matplotlib.backends', 'matplotlib.projections', 'mpl_toolkits', 'mpl_toolkits.mplot3d', 'mpl_toolkits.axes_grid', 'matplotlib.sphinxext', 'matplotlib.numerix', 'matplotlib.numerix.mlab', ' matplotlib.numerix.ma', 'matplotlib.numerix.linear_algebra', 'matplotlib.numerix.random_array', 'matplotlib.numerix.fft', 'matplotlib.delaunay', 'pytz', 'dateutil', 'dateutil/zoneinfo'] warning: no files found matching 'MANIFEST' warning: no files found matching 'lib/mpl_toolkits' cc1plus: warning: command line option "-Wstrict-prototypes" is valid for Ada/C/ObjC but not for C++ In file included from /usr/include/c++/4.4/ext/hash_map:59, from ./CXX/Extensions.hxx:68, from src/ft2font.h:4, from src/ft2font.cpp:1: /usr/include/c++/4.4/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated. In file included from src/ft2font.cpp:1: src/ft2font.h:13:22: error: ft2build.h: No such file or directory src/ft2font.h:14:10: error: #include expects "FILENAME" or <FILENAME> src/ft2font.h:15:10: error: #include expects "FILENAME" or <FILENAME> src/ft2font.h:16:10: error: #include expects "FILENAME" or <FILENAME> src/ft2font.h:17:10: error: #include expects "FILENAME" or <FILENAME> src/ft2font.h:18:10: error: #include expects "FILENAME" or <FILENAME> In file included from src/ft2font.cpp:1: src/ft2font.h:31: error: ‘FT_Bitmap’ has not been declared src/ft2font.h:31: error: ‘FT_Int’ has not been declared src/ft2font.h:31: error: ‘FT_Int’ has not been declared src/ft2font.h:77: error: ISO C++ forbids declaration of ‘FT_Face’ with no type src/ft2font.h:77: error: expected ‘,’ or ‘...’ before ‘&’ token src/ft2font.h:83: error: ISO C++ forbids declaration of ‘FT_Face’ with no type src/ft2font.h:83: error: expected ‘,’ or ‘...’ before ‘&’ token src/ft2font.h:122: error: ‘FT_Face’ does not name a type src/ft2font.h:123: error: ‘FT_Matrix’ does not name a type src/ft2font.h:124: error: ‘FT_Vector’ does not name a type src/ft2font.h:125: error: ‘FT_Error’ does not name a type src/ft2font.h:126: error: ‘FT_Glyph’ was not declared in this scope src/ft2font.h:126: error: template argument 1 is invalid src/ft2font.h:126: error: template argument 2 is invalid src/ft2font.h:127: error: ‘FT_Vector’ was not declared in this scope src/ft2font.h:127: error: template argument 1 is invalid src/ft2font.h:127: error: template argument 2 is invalid src/ft2font.h:133: error: ‘FT_BBox’ does not name a type src/ft2font.cpp:45: error: ‘FT_Library’ does not name a type src/ft2font.cpp:96: error: variable or field ‘draw_bitmap’ declared void src/ft2font.cpp:96: error: ‘FT_Bitmap’ was not declared in this scope src/ft2font.cpp:96: error: ‘bitmap’ was not declared in this scope src/ft2font.cpp:97: error: ‘FT_Int’ was not declared in this scope src/ft2font.cpp:98: error: ‘FT_Int’ was not declared in this scope /home/robertsudwarts/virtualenvs/sqa/lib/python2.6/site-packages/numpy/core/include/numpy/__multiarray_api.h:1187: warning: ‘int _import_array()’ defined but not used error: Setup script exited with error: command 'gcc' failed with exit status 1 |
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From: Dharhas P. <Dha...@tw...> - 2010-06-07 21:11:17
|
Ben, The matplotlib on the other working machine is using python 2.6.4. On this machine I am using python 2.6.5. The default python on both machines in python 2.4 but I set up python 2.6 as an alternate install in /opt/python26. - dharhas >>> Benjamin Root <ben...@ou...> 6/7/2010 3:56 PM >>> Dharhas, Is it possible to find out which version of python was installed for your other RHEL5 machine? I don't know if that makes a difference or not, but RHEL5 by default uses Python 2.4. Ben Root On Mon, Jun 7, 2010 at 1:48 PM, Dharhas Pothina < Dha...@tw...> wrote: > Hi, > > I have Python 2.6 installed on RHEL5 (and Numpy 1.4.1) and am trying to > install matplotlib. Installation occurs without any error messages although > I do get a bunch of warnings at the end. > > /usr/bin/ld: skipping incompatible /usr/lib/libtk8.4.so when searching for > -ltk8.4 > /usr/bin/ld: skipping incompatible /usr/lib/libtcl8.4.so when searching > for -ltcl8.4 > /usr/bin/ld: skipping incompatible /usr/lib/libfreetype.so when searching > for -lfreetype > /usr/bin/ld: skipping incompatible /usr/lib/libz.so when searching for -lz > /usr/bin/ld: skipping incompatible /usr/lib/libz.a when searching for -lz > /usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libpthread.so when searching > for -lpthread > /usr/bin/ld: skipping incompatible /usr/lib/libpthread.a when searching for > -lpthread > /usr/bin/ld: skipping incompatible /usr/lib/libc.so when searching for -lc > /usr/bin/ld: skipping incompatible /usr/lib/libc.a when searching for -lc > > When I try using matplotlib I get the following error: > > Python 2.6.5 (r265:79063, May 18 2010, 11:20:57) > [GCC 4.1.2 20080704 (Red Hat 4.1.2-48)] on linux2 > Type "help", "copyright", "credits" or "license" for more information. > >>> import matplotlib.pyplot as plt > >>> plt.plot([1,0],[2,3]) > Traceback (most recent call last): > File "<stdin>", line 1, in <module> > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/pyplot.py", > line 2141, in plot > ret = ax.plot(*args, **kwargs) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", > line 3437, in plot > self.autoscale_view(scalex=scalex, scaley=scaley) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", > line 1624, in autoscale_view > XL = self.xaxis.get_major_locator().view_limits(x0, x1) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/ticker.py", > line 1014, in view_limits > return np.take(self.bin_boundaries(dmin, dmax), [0,-1]) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/numpy/core/fromnumeric.py", > line 103, in take > return take(indices, axis, out, mode) > IndexError: index out of range for array > > > Any help would be appreciated. I've tried several versions of matplotlib. I > also was able to get it installed on a different RHEL5 machine a while back > and am not sure what is different about this machine. > > thanks > > - dharhas > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
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From: Benjamin R. <ben...@ou...> - 2010-06-07 20:56:33
|
Dharhas, Is it possible to find out which version of python was installed for your other RHEL5 machine? I don't know if that makes a difference or not, but RHEL5 by default uses Python 2.4. Ben Root On Mon, Jun 7, 2010 at 1:48 PM, Dharhas Pothina < Dha...@tw...> wrote: > Hi, > > I have Python 2.6 installed on RHEL5 (and Numpy 1.4.1) and am trying to > install matplotlib. Installation occurs without any error messages although > I do get a bunch of warnings at the end. > > /usr/bin/ld: skipping incompatible /usr/lib/libtk8.4.so when searching for > -ltk8.4 > /usr/bin/ld: skipping incompatible /usr/lib/libtcl8.4.so when searching > for -ltcl8.4 > /usr/bin/ld: skipping incompatible /usr/lib/libfreetype.so when searching > for -lfreetype > /usr/bin/ld: skipping incompatible /usr/lib/libz.so when searching for -lz > /usr/bin/ld: skipping incompatible /usr/lib/libz.a when searching for -lz > /usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm > /usr/bin/ld: skipping incompatible /usr/lib/libpthread.so when searching > for -lpthread > /usr/bin/ld: skipping incompatible /usr/lib/libpthread.a when searching for > -lpthread > /usr/bin/ld: skipping incompatible /usr/lib/libc.so when searching for -lc > /usr/bin/ld: skipping incompatible /usr/lib/libc.a when searching for -lc > > When I try using matplotlib I get the following error: > > Python 2.6.5 (r265:79063, May 18 2010, 11:20:57) > [GCC 4.1.2 20080704 (Red Hat 4.1.2-48)] on linux2 > Type "help", "copyright", "credits" or "license" for more information. > >>> import matplotlib.pyplot as plt > >>> plt.plot([1,0],[2,3]) > Traceback (most recent call last): > File "<stdin>", line 1, in <module> > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/pyplot.py", > line 2141, in plot > ret = ax.plot(*args, **kwargs) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", > line 3437, in plot > self.autoscale_view(scalex=scalex, scaley=scaley) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", > line 1624, in autoscale_view > XL = self.xaxis.get_major_locator().view_limits(x0, x1) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/ticker.py", > line 1014, in view_limits > return np.take(self.bin_boundaries(dmin, dmax), [0,-1]) > File > "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/numpy/core/fromnumeric.py", > line 103, in take > return take(indices, axis, out, mode) > IndexError: index out of range for array > > > Any help would be appreciated. I've tried several versions of matplotlib. I > also was able to get it installed on a different RHEL5 machine a while back > and am not sure what is different about this machine. > > thanks > > - dharhas > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
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From: Eric F. <ef...@ha...> - 2010-06-07 20:46:52
|
On 06/07/2010 10:41 AM, James Evans wrote: > I am having a problem when using masked arrays. The attached scripts > are identical except for the data. One will actually produce a plot, > whereas the other will not. I cannot figure out what I am doing wrong, > such that the second script fails. Am I doing something wrong with this, > or is this an actual bug? Maybe a bug that was fixed in mpl, or in a newer version of numpy than you are using. Using both mpl and numpy from svn, both scripts work for me. Eric > > Thanks, > > --James Evans > |
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From: Dharhas P. <Dha...@tw...> - 2010-06-07 18:49:23
|
Hi,
I have Python 2.6 installed on RHEL5 (and Numpy 1.4.1) and am trying to install matplotlib. Installation occurs without any error messages although I do get a bunch of warnings at the end.
/usr/bin/ld: skipping incompatible /usr/lib/libtk8.4.so when searching for -ltk8.4
/usr/bin/ld: skipping incompatible /usr/lib/libtcl8.4.so when searching for -ltcl8.4
/usr/bin/ld: skipping incompatible /usr/lib/libfreetype.so when searching for -lfreetype
/usr/bin/ld: skipping incompatible /usr/lib/libz.so when searching for -lz
/usr/bin/ld: skipping incompatible /usr/lib/libz.a when searching for -lz
/usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libm.so when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libm.a when searching for -lm
/usr/bin/ld: skipping incompatible /usr/lib/libpthread.so when searching for -lpthread
/usr/bin/ld: skipping incompatible /usr/lib/libpthread.a when searching for -lpthread
/usr/bin/ld: skipping incompatible /usr/lib/libc.so when searching for -lc
/usr/bin/ld: skipping incompatible /usr/lib/libc.a when searching for -lc
When I try using matplotlib I get the following error:
Python 2.6.5 (r265:79063, May 18 2010, 11:20:57)
[GCC 4.1.2 20080704 (Red Hat 4.1.2-48)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,0],[2,3])
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/pyplot.py", line 2141, in plot
ret = ax.plot(*args, **kwargs)
File "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", line 3437, in plot
self.autoscale_view(scalex=scalex, scaley=scaley)
File "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/axes.py", line 1624, in autoscale_view
XL = self.xaxis.get_major_locator().view_limits(x0, x1)
File "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/matplotlib/ticker.py", line 1014, in view_limits
return np.take(self.bin_boundaries(dmin, dmax), [0,-1])
File "/home/swdata/.virtualenvs/web/lib/python2.6/site-packages/numpy/core/fromnumeric.py", line 103, in take
return take(indices, axis, out, mode)
IndexError: index out of range for array
Any help would be appreciated. I've tried several versions of matplotlib. I also was able to get it installed on a different RHEL5 machine a while back and am not sure what is different about this machine.
thanks
- dharhas
|
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From: Nie, J. <jn...@bn...> - 2010-06-07 16:58:33
|
John,
Thank you very much for a prompt reply.
I am using Ipython with QT4 backend for the examples. I can have animated plot (dragable vertices) for the path_editor.py, but not for the line_editor.py. My python installation is pythonxy on windows 7. Could you please tell me your installation?
Yes, I do mean the matplotlib.widgets.Cursor, and I have version of 0.99.1. My version does not have the two lines as you mentioned.
--
Jinsuo
-----Original Message-----
From: John Hunter [mailto:jd...@gm...]
Sent: Monday, June 07, 2010 12:19 PM
To: Nie, Jinsuo
Cc: mat...@li...
Subject: Re: [Matplotlib-users] Animated Line2D
On Mon, Jun 7, 2010 at 10:14 AM, Nie, Jinsuo <jn...@bn...> wrote:
> I modified the path_editor.py example in order to make a line editor, as
> attached. However, the line is not animated even the line has been
> correctly updated. It seems canvas.blit is not functioning correctly in
> motion_notify_callback. Canvas.blit works in draw_callback because the
> initial line can be plotted.
Unfortunately, I cannot understand your problem. I have tried running
your attached example and it seems to run fine on my system (I can
drag the vertices and the line drawing is updated). Can you describe
the problem you are seeing? Could this be a version problem -- what
version of mpl are you running?
johnh@udesktop191:Downloads> python -c 'import matplotlib; print
matplotlib.__version__'
1.0.svn
> I read the Curse implement which uses lines. This implementation uses
> visible but not animated property to achieve the animation. Any reason for
> that?
Do you mean matplotlib.widgets.Cursor? It does use the animated
property -- at least in the svn version. See the line in the __init__
function:
if useblit:
lineprops['animated'] = True
JDH
|
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From: John H. <jd...@gm...> - 2010-06-07 16:19:20
|
On Mon, Jun 7, 2010 at 10:14 AM, Nie, Jinsuo <jn...@bn...> wrote:
> I modified the path_editor.py example in order to make a line editor, as
> attached. However, the line is not animated even the line has been
> correctly updated. It seems canvas.blit is not functioning correctly in
> motion_notify_callback. Canvas.blit works in draw_callback because the
> initial line can be plotted.
Unfortunately, I cannot understand your problem. I have tried running
your attached example and it seems to run fine on my system (I can
drag the vertices and the line drawing is updated). Can you describe
the problem you are seeing? Could this be a version problem -- what
version of mpl are you running?
johnh@udesktop191:Downloads> python -c 'import matplotlib; print
matplotlib.__version__'
1.0.svn
> I read the Curse implement which uses lines. This implementation uses
> visible but not animated property to achieve the animation. Any reason for
> that?
Do you mean matplotlib.widgets.Cursor? It does use the animated
property -- at least in the svn version. See the line in the __init__
function:
if useblit:
lineprops['animated'] = True
JDH
|
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From: Tony S Yu <ts...@gm...> - 2010-06-07 16:17:44
|
On Jun 7, 2010, at 11:16 AM, Ian Stokes-Rees wrote: > I'm generating a plot of NxN squares, where the size of the square > corresponds to the correlation between the (i,j) point. Every (i,i) > point equals 1.0. I'm using "scatter" to do this, but the sizing > appears to be in "points" from the graphic, rather than "units" of the > two axes. Is there some way to account for this, or is there some > better way to generate this image? > > # result = n x n matrix of correlations between points (i,j) > a = arange(n).repeat(n).reshape(n,n) > b = a.transpose() > scatter(a.flatten(), b.flatten(), s=result, marker='s') > > You can see an example here, where N=300: (note, this is a 2.5 MB image): > > http://abitibi.sbgrid.org/se/data/shared/biodb/scop-class/a/39/1/5/.meta/tmscore2.png > > Thanks, > > Ian What you're doing sounds very similar to a Hinton diagrom (or at least the resulting image looks similar). There's an example of plotting such a diagram in the scipy cookbook: http://www.scipy.org/Cookbook/Matplotlib/HintonDiagrams The implementation is pretty slow because it loops through the data and draws each square one by one. I wrote a faster alternative a while back (see attached). It uses a custom PolyCollection, which uses data units for the areas instead of figure units. Also, I just noticed there's another implementation of Hinton diagrams in the matplotlib examples folder (examples/api/hinton_demo.py). For some reason, this example doesn't appear on the website, otherwise I'd link to it. I believe the difference between your plot and a hinton diagram is that you have a different metric for calculating the size of the squares. -Tony |
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From: Michael D. <md...@st...> - 2010-06-07 16:05:02
|
Since this data is essentially a 2 dimensional image, you may want to experiment with imshow. Mike On 06/07/2010 11:16 AM, Ian Stokes-Rees wrote: > I'm generating a plot of NxN squares, where the size of the square > corresponds to the correlation between the (i,j) point. Every (i,i) > point equals 1.0. I'm using "scatter" to do this, but the sizing > appears to be in "points" from the graphic, rather than "units" of the > two axes. Is there some way to account for this, or is there some > better way to generate this image? > > # result = n x n matrix of correlations between points (i,j) > a = arange(n).repeat(n).reshape(n,n) > b = a.transpose() > scatter(a.flatten(), b.flatten(), s=result, marker='s') > > You can see an example here, where N=300: (note, this is a 2.5 MB image): > > http://abitibi.sbgrid.org/se/data/shared/biodb/scop-class/a/39/1/5/.meta/tmscore2.png > > Thanks, > > Ian > > -- Michael Droettboom Science Software Branch Space Telescope Science Institute Baltimore, Maryland, USA |
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From: Ian Stokes-R. <ijs...@hk...> - 2010-06-07 15:16:48
|
I'm generating a plot of NxN squares, where the size of the square corresponds to the correlation between the (i,j) point. Every (i,i) point equals 1.0. I'm using "scatter" to do this, but the sizing appears to be in "points" from the graphic, rather than "units" of the two axes. Is there some way to account for this, or is there some better way to generate this image? # result = n x n matrix of correlations between points (i,j) a = arange(n).repeat(n).reshape(n,n) b = a.transpose() scatter(a.flatten(), b.flatten(), s=result, marker='s') You can see an example here, where N=300: (note, this is a 2.5 MB image): http://abitibi.sbgrid.org/se/data/shared/biodb/scop-class/a/39/1/5/.meta/tmscore2.png Thanks, Ian -- Ian Stokes-Rees, PhD W: http://hkl.hms.harvard.edu ijs...@hk... T: +1 617 432-5608 x75 NEBioGrid, Harvard Medical School C: +1 617 331-5993 |
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From: Benjamin R. <ben...@ou...> - 2010-06-07 14:04:34
|
Todd, I think you are missing a "plt.show()" at the end of your code. matplotlib, by default on most systems, does not show a plot until you tell it to using plt.show() command. See if that works, Ben Root On Mon, Jun 7, 2010 at 7:57 AM, Todd V Rovito <rov...@gm...> wrote: > Greetings, > I just installed Python 2.6 (python.org), Numpy 1.4.1, and Matplotlib > 0.99.1.2 all on Mac OS X 10.6 in an attempt to learn about scientific > programming in python. Go easy on me since I am a begginer. The Python and > Numpy seem to be working correctly. I can get matplotlib to make plots but > I can't get it to show images. I tried the stinkbug example in > the Matplotlib users guide documentation with no success. Errors are _NOT_ > generated but neither are any results on the screen. The imread command > produces a float32 matrix that contains all 1. values so I tried creating my > own uint8 matrix with a diagnoal line. My code is below. Thanks for any > help you can provide. > > > > # -*- coding: utf-8 -*- > from numpy import * > import matplotlib.pyplot as plt > import matplotlib.image as mpimg > > print "Numpy version: " + __version__ > a = array([10,20,30,40]) > print "result of a" > print a > > b = arange(4) > print "result of b" > print b > > c = linspace(-pi, pi, 30) > print "result of c" > print c > > # this plot code works > print "plot c" > plt.plot(c) > plt.ylabel("-pi to + pi") > plt.xlabel("value of c") > plt.show() > > # this image processing code does not work > print "doing image processing stuff" > # img=mpimg.imread("/Users/rovitotv/Desktop/stinkbug.png") # this does not > work > img = zeros((10, 10), dtype=uint8) > for i in range(10): > img[i,i] = 255; > > plt.imshow(img) > print "data type of img:" > print img.dtype > print "size of img:" + str(img.size) > print img > > > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > |
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From: Jae-Joon L. <lee...@gm...> - 2010-06-07 13:39:44
|
I think this is a known bug (unfortunately, the bug fix does not seem to be reflected in the maintenance version), but without a full traceback, I'm not 100% sure. You may use the svn version which have fixed this bug, or you may try the workaround described in the link below (check the clabel_monkeypatching.py). http://sourceforge.net/tracker/index.php?func=detail&aid=2922835&group_id=80706&atid=560720 -JJ 2010/6/4 Thøger Emil Juul Thorsen <th...@fy...>: > Hello list; > > I'm new to python/matplotlib, migrating from IDL. I need to do some > interactive point selection with mouse, and the pyplot.ginput() routine > seemed to be just the right thing here. I do however need to be able to > make a not previously specified number of clicks, so ginput(n=0) is a > requirement. > > However, when I press enter on my laptop (with no middle mouse button), > I get the error message: > > TypeError: stop_event_loop() takes exactly 1 argument (2 given) > > I've tried two different pieces of example code from the matplotlib SF > page. > I'm using Matplotlib 0.99.1 on Ubuntu 10.04. > Is there any solution or workaround? If I cannot have this > functionality, it is, unfortunately, kind of a deal breaker for at least > some of my work, and I'd like to keep it purely Python. > > Best regards; > > Emil > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
|
From: Todd V R. <rov...@gm...> - 2010-06-07 13:04:09
|
Greetings,
I just installed Python 2.6 (python.org), Numpy 1.4.1, and Matplotlib
0.99.1.2 all on Mac OS X 10.6 in an attempt to learn about scientific
programming in python. Go easy on me since I am a begginer. The Python and
Numpy seem to be working correctly. I can get matplotlib to make plots but
I can't get it to show images. I tried the stinkbug example in
the Matplotlib users guide documentation with no success. Errors are _NOT_
generated but neither are any results on the screen. The imread command
produces a float32 matrix that contains all 1. values so I tried creating my
own uint8 matrix with a diagnoal line. My code is below. Thanks for any
help you can provide.
# -*- coding: utf-8 -*-
from numpy import *
import matplotlib.pyplot as plt
import matplotlib.image as mpimg
print "Numpy version: " + __version__
a = array([10,20,30,40])
print "result of a"
print a
b = arange(4)
print "result of b"
print b
c = linspace(-pi, pi, 30)
print "result of c"
print c
# this plot code works
print "plot c"
plt.plot(c)
plt.ylabel("-pi to + pi")
plt.xlabel("value of c")
plt.show()
# this image processing code does not work
print "doing image processing stuff"
# img=mpimg.imread("/Users/rovitotv/Desktop/stinkbug.png") # this does not
work
img = zeros((10, 10), dtype=uint8)
for i in range(10):
img[i,i] = 255;
plt.imshow(img)
print "data type of img:"
print img.dtype
print "size of img:" + str(img.size)
print img
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From: Marius 't H. <M.t...@ai...> - 2010-06-07 12:38:32
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Can't you do ginput(n=1) in a while loop? Ginput needs to end at some point, right? Initiating a never ending loop seems like the wrong solution for any real-life problem. On 06/07/2010 01:15 PM, Thøger Emil Juul Thorsen wrote: > Bump - no one knows a solution/workaround to this? > > > >> Hello list; >> >> I'm new to python/matplotlib, migrating from IDL. I need to do some >> interactive point selection with mouse, and the pyplot.ginput() routine >> seemed to be just the right thing here. I do however need to be able to >> make a not previously specified number of clicks, so ginput(n=0) is a >> requirement. >> >> However, when I press enter on my laptop (with no middle mouse button), >> I get the error message: >> >> TypeError: stop_event_loop() takes exactly 1 argument (2 given) >> >> I've tried two different pieces of example code from the matplotlib SF >> page. >> I'm using Matplotlib 0.99.1 on Ubuntu 10.04. >> Is there any solution or workaround? If I cannot have this >> functionality, it is, unfortunately, kind of a deal breaker for at least >> some of my work, and I'd like to keep it purely Python. >> >> Best regards; >> >> Emil >> >> >> ------------------------------------------------------------------------------ >> ThinkGeek and WIRED's GeekDad team up for the Ultimate >> GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the >> lucky parental unit. See the prize list and enter to win: >> http://p.sf.net/sfu/thinkgeek-promo >> _______________________________________________ >> Matplotlib-users mailing list >> Mat...@li... >> https://lists.sourceforge.net/lists/listinfo/matplotlib-users >> > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
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From: Thøger E. J. T. <th...@fy...> - 2010-06-07 11:16:06
|
Bump - no one knows a solution/workaround to this? > Hello list; > > I'm new to python/matplotlib, migrating from IDL. I need to do some > interactive point selection with mouse, and the pyplot.ginput() routine > seemed to be just the right thing here. I do however need to be able to > make a not previously specified number of clicks, so ginput(n=0) is a > requirement. > > However, when I press enter on my laptop (with no middle mouse button), > I get the error message: > > TypeError: stop_event_loop() takes exactly 1 argument (2 given) > > I've tried two different pieces of example code from the matplotlib SF > page. > I'm using Matplotlib 0.99.1 on Ubuntu 10.04. > Is there any solution or workaround? If I cannot have this > functionality, it is, unfortunately, kind of a deal breaker for at least > some of my work, and I'd like to keep it purely Python. > > Best regards; > > Emil > > > ------------------------------------------------------------------------------ > ThinkGeek and WIRED's GeekDad team up for the Ultimate > GeekDad Father's Day Giveaway. ONE MASSIVE PRIZE to the > lucky parental unit. See the prize list and enter to win: > http://p.sf.net/sfu/thinkgeek-promo > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users |
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