Re: [Matplotlib-users] XKCD style graphs?
Le 4 oct. 2012 à 23:09, Juergen Hasch a écrit : Here is my take on it as an IPython notebook, based on Damon's code: http://nbviewer.ipython.org/3835181/ I took the engineering approach and filtered the random function instead of doing some fft/ifft magic. Also, X and Y of the functions are affected now, giving them a more natural look in the slopes. Juergen If anyone have time to make some examples and a right side thumbnail I can make it as featured notebook in the front page of nbviewer. You can even make a direct PR agains nbviewer and I would then just have to merge and deploy. To be fair, notebook should also give some explanation of the code, link to this discussion, maybe show one original xkcd graph. Please take your time, and if there is several submission, we'll sort out how to choose the best(s). -- Matthias Am 04.10.2012 18:09, schrieb Pierre Haessig: Le 04/10/2012 16:35, Pierre Haessig a écrit : So I think this code indeed resamples the rastered plot image on a shaken coordinate grid. I kind of understand that the noise on coordinates is spatially smoothed by a 10px Gaussian Point Spread Function (if I understand correctly...) I've implemented this processing in a tiny image_shake script. https://gist.github.com/3834536 A nice occasion to learn how to use some scipy image processing functions... I've attached the before/after images because I didn't manage to put them in the Gist (it's not a plot image but gives the idea of line shaking). Now, I think it's unfortunately outside the frame of Fernando's challenge, because this script uses zero matplotlib methods!! Best, Pierre -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] XKCD style graphs?
On Fri, Oct 5, 2012 at 10:13 AM, Matthias BUSSONNIER bussonniermatth...@gmail.com wrote: Le 4 oct. 2012 à 23:09, Juergen Hasch a écrit : Here is my take on it as an IPython notebook, based on Damon's code: http://nbviewer.ipython.org/3835181/ I took the engineering approach and filtered the random function instead of doing some fft/ifft magic. Also, X and Y of the functions are affected now, giving them a more natural look in the slopes. Juergen If anyone have time to make some examples and a right side thumbnail I can make it as featured notebook in the front page of nbviewer. You can even make a direct PR agains nbviewer and I would then just have to merge and deploy. To be fair, notebook should also give some explanation of the code, link to this discussion, maybe show one original xkcd graph. Please take your time, and if there is several submission, we'll sort out how to choose the best(s). -- Matthias Am 04.10.2012 18:09, schrieb Pierre Haessig: Le 04/10/2012 16:35, Pierre Haessig a écrit : So I think this code indeed resamples the rastered plot image on a shaken coordinate grid. I kind of understand that the noise on coordinates is spatially smoothed by a 10px Gaussian Point Spread Function (if I understand correctly...) I've implemented this processing in a tiny image_shake script. https://gist.github.com/3834536 A nice occasion to learn how to use some scipy image processing functions... I've attached the before/after images because I didn't manage to put them in the Gist (it's not a plot image but gives the idea of line shaking). Now, I think it's unfortunately outside the frame of Fernando's challenge, because this script uses zero matplotlib methods!! Best, Pierre This thread has made my week. -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] EMF output: too many values to unpack error
Benjamin Root-2 wrote
On Thu, Jun 9, 2011 at 12:40 PM, Klonuo Umom lt;
klonuo@
gt; wrote:
I set up pull requests to fix this problem, so the v1.0.x-maint branch and
the master branch should soon have the fixes commited to them. You can
get
the latest bugfixed branch for v1.0.1 at
https://github.com/matplotlib/matplotlib/tree/v1.0.x-maint, although that
would mean having to build from source. You could also just edit your
copy
of the file C:\Python26\lib\site-
packages\matplotlib\backends\backend_emf.py so that [:3] is added to the
end
of lines 69 and 105. This page should show you what changes you need:
https://github.com/WeatherGod/matplotlib/commit/bf8d9d6f7cea1546c736d3897387698e6ae5e5b3
I hope that helps!
Ben Root
Hi,
I am having the same problem when trying to save a figure to a .emf file via
pylab.savefig().
I have tried updating backend_emf.py as suggested but this does not fix the
problem, it still has a problem with the updated code(see below).
The only difference I can see with the original poster is that I am using
backend_qt4agg.py rather than backend_wxagg.py in the original posters code.
This shouldn't change the fix, should it ?
pylab.savefig('nrg.emf')
Traceback (most recent call last):
File stdin, line 1, in module
File C:\Python26\lib\site-packages\matplotlib\pyplot.py, line 363, in
savefig
return fig.savefig(*args, **kwargs)
File C:\Python26\lib\site-packages\matplotlib\figure.py, line 1084, in
savefig
self.canvas.print_figure(*args, **kwargs)
File
C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4agg.py, line
144, in print_figure
FigureCanvasAgg.print_figure(self, *args, **kwargs)
File C:\Python26\lib\site-packages\matplotlib\backend_bases.py, line
1923, in print_figure
**kwargs)
File C:\Python26\lib\site-packages\matplotlib\backend_bases.py, line
1723, in print_emf
return emf.print_emf(*args, **kwargs)
File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py,
line 717, in print_emf
self.figure.draw(renderer)
File C:\Python26\lib\site-packages\matplotlib\artist.py, line 55, in
draw_wrapper
draw(artist, renderer, *args, **kwargs)
File C:\Python26\lib\site-packages\matplotlib\figure.py, line 738, in
draw
if self.frameon: self.patch.draw(renderer)
File C:\Python26\lib\site-packages\matplotlib\artist.py, line 55, in
draw_wrapper
draw(artist, renderer, *args, **kwargs)
File C:\Python26\lib\site-packages\matplotlib\patches.py, line 411, in
draw
renderer.draw_path(gc, tpath, affine, rgbFace)
File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py,
line 258, in draw_path
self.select_brush(rgbFace)
File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py,
line 565, in select_brush
brush=EMFBrush(self.emf,rgb)
File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py,
line 105, in __init__
r,g,b=rgb[:3]
ValueError: too many values to unpack
--
View this message in context:
http://matplotlib.1069221.n5.nabble.com/EMF-output-too-many-values-to-unpack-error-tp11466p39267.html
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Re: [Matplotlib-users] EMF output: too many values to unpack error
On Fri, Oct 5, 2012 at 6:38 AM, Usjes oisin...@yahoo.co.uk wrote: Benjamin Root-2 wrote On Thu, Jun 9, 2011 at 12:40 PM, Klonuo Umom klonuo@ wrote: I set up pull requests to fix this problem, so the v1.0.x-maint branch and the master branch should soon have the fixes commited to them. You can get the latest bugfixed branch for v1.0.1 at https://github.com/matplotlib/matplotlib/tree/v1.0.x-maint, although that would mean having to build from source. You could also just edit your copy of the file C:\Python26\lib\site- packages\matplotlib\backends\backend_emf.py so that [:3] is added to the end of lines 69 and 105. This page should show you what changes you need: https://github.com/WeatherGod/matplotlib/commit/bf8d9d6f7cea1546c736d3897387698e6ae5e5b3 I hope that helps! Ben Root Hi, I am having the same problem when trying to save a figure to a .emf file via pylab.savefig(). I have tried updating backend_emf.py as suggested but this does not fix the problem, it still has a problem with the updated code(see below). The only difference I can see with the original poster is that I am using backend_qt4agg.py rather than backend_wxagg.py in the original posters code. This shouldn't change the fix, should it ? Does it fail for the example I originally gave? from pylab import * plot([1, 2, 3]) savefig(foobar.emf) Ben Root -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
I think that is a great idea. I think it is worthwhile to put a highlighted spot, or whatever, that shows matplotlib plots in academic publications. Additionally, it is good for enlarging the matplotlib user base to ask people to acknowledge matplotlib in their papers if they use matplotlib to make plots, and share links of their publications. Of course, matplotlib.orgshould provide some sort of platform for people to share that kind of information, such as a public email address. Such acknowledgement is not a hard thing to do, and I think most people, if not all, that benefit from matplotlib would be more than happy to do so. :-) Jianbao Message: 4 Date: Thu, 4 Oct 2012 22:31:34 -0600 From: G?khan Sever gokhanse...@gmail.com Subject: [Matplotlib-users] Matplotlib produced plots in academic journal articles To: matplotlib-users@lists.sourceforge.net Message-ID: CAE5kuyh17jsDcaejwx= xekryyys9kf5zw9q7yigziaketio...@mail.gmail.com Content-Type: text/plain; charset=utf-8 Hello, Is there any collection of articles that shows academic articles using matplotlib produced plots? I have come across a few recent articles in my field with plots produced by matplotlib. Though, the mpl page shows some nice examples of publication quality plots, it would be nice to have a discipline specific collection of academic paper citations/links (hopefully mostly open-access titles) to raise awareness of mpl usage in academia by attracting other language users. What do you think? -- G?khan -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
This is a great idea. Anything to raise the level of perceived legitimacy in the academic community would be great. We can definitely add content like this to the documentation and/or website. Mike On 10/05/2012 09:43 AM, Jianbao Tao wrote: I think that is a great idea. I think it is worthwhile to put a highlighted spot, or whatever, that shows matplotlib plots in academic publications. Additionally, it is good for enlarging the matplotlib user base to ask people to acknowledge matplotlib in their papers if they use matplotlib to make plots, and share links of their publications. Of course, matplotlib.org http://matplotlib.org should provide some sort of platform for people to share that kind of information, such as a public email address. Such acknowledgement is not a hard thing to do, and I think most people, if not all, that benefit from matplotlib would be more than happy to do so. :-) Jianbao Message: 4 Date: Thu, 4 Oct 2012 22:31:34 -0600 From: G?khan Sever gokhanse...@gmail.com mailto:gokhanse...@gmail.com Subject: [Matplotlib-users] Matplotlib produced plots in academic journal articles To: matplotlib-users@lists.sourceforge.net mailto:matplotlib-users@lists.sourceforge.net Message-ID: CAE5kuyh17jsDcaejwx=xekryyys9kf5zw9q7yigziaketio...@mail.gmail.com mailto:xekryyys9kf5zw9q7yigziaketio...@mail.gmail.com Content-Type: text/plain; charset=utf-8 Hello, Is there any collection of articles that shows academic articles using matplotlib produced plots? I have come across a few recent articles in my field with plots produced by matplotlib. Though, the mpl page shows some nice examples of publication quality plots, it would be nice to have a discipline specific collection of academic paper citations/links (hopefully mostly open-access titles) to raise awareness of mpl usage in academia by attracting other language users. What do you think? -- G?khan -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] EMF output: too many values to unpack error
Benjamin Root-2 wrote On Fri, Oct 5, 2012 at 6:38 AM, Usjes lt; oisin_nz@.co gt; wrote: Does it fail for the example I originally gave? from pylab import * plot([1, 2, 3]) savefig(foobar.emf) Ben Root Yes, it fails even with the simple plot suggested; see log below. I am new to Python but I did also try inserting the command: print rgb preceding the offending line, to get an idea of what the dimensions of 'rgb' are but the print statement also fails due to 'too many values to unpack' savefig(foobar.emf) Traceback (most recent call last): File stdin, line 1, in module File C:\Python26\lib\site-packages\matplotlib\pyplot.py, line 363, in savefig return fig.savefig(*args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\figure.py, line 1084, in savefig self.canvas.print_figure(*args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\backends\backend_qt4agg.py, line 144, in print_figure FigureCanvasAgg.print_figure(self, *args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\backend_bases.py, line 1923, in print_figure **kwargs) File C:\Python26\lib\site-packages\matplotlib\backend_bases.py, line 1723, in print_emf return emf.print_emf(*args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py, line 717, in print_emf self.figure.draw(renderer) File C:\Python26\lib\site-packages\matplotlib\artist.py, line 55, in draw_wrapper draw(artist, renderer, *args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\figure.py, line 738, in draw if self.frameon: self.patch.draw(renderer) File C:\Python26\lib\site-packages\matplotlib\artist.py, line 55, in draw_wrapper draw(artist, renderer, *args, **kwargs) File C:\Python26\lib\site-packages\matplotlib\patches.py, line 411, in draw renderer.draw_path(gc, tpath, affine, rgbFace) File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py, line 258, in draw_path self.select_brush(rgbFace) File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py, line 565, in select_brush brush=EMFBrush(self.emf,rgb) File C:\Python26\lib\site-packages\matplotlib\backends\backend_emf.py, line 105, in __init__ r,g,b=rgb[:3] ValueError: too many values to unpack -- View this message in context: http://matplotlib.1069221.n5.nabble.com/EMF-output-too-many-values-to-unpack-error-tp11466p39275.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 6:52 AM, Michael Droettboom md...@stsci.edu wrote:
This is a great idea. Anything to raise the level of perceived legitimacy
in the academic community would be great. We can definitely add content like
this to the documentation and/or website.
Our strategy:
- Prominent display on the main page of a citation request, along with
links on our top nav-bar:
http://ipython.org/#citing-ipython
- A copy/paste ready citation entry: http://ipython.org/citing.html
Matplotlib has a 'canonical' paper back in the same CISE issue that
can be used, here's the bibtex entry for it (should probably be
trimmed only to the main fields):
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package used for Python
for application development, interactive scripting, and
publication-quality image generation across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014, LOS ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
Cheers,
f
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[Matplotlib-users] Problem with shared axis
Hi, I am working on a time-series data browser based on matplotlib. In general, it shows a N_row x 1_col stack of axes, which share the x axis, the time axis. It is nice that matplotlib offers the sharex option so that the data can be zoomed simultaneously in time. However, one problem with the sharex option is that it not only shares the axis range (or limits, if you will), but also the axis appearance, which is not always desirable. In my case, I want the tick labels to be shown only on the bottom subplot. However, that doesn't seem to be achievable with sharex. The follow snippet demonstrates my example: #- code import matplotlib.pyplot as plt fig = plt.figure() ax1 = fig.add_subplot(211) ax2 = fig.add_subplot(212, sharex=ax1) ax1.get_xaxis().set_ticklabels([]) # This also suppresses x tick labels of ax2. fig.canvas.draw() #-- end of code Is there a workaround, hopefully simple and straightforward, to share range (or limits) only among axes? Better yet, can this feature be added, like a keyword sharexrange, in the future, if it is not already there? Of course, the situation should be similar for y axis, too. Thank you very much. Jianbao -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Problem with shared axis
On Fri, Oct 5, 2012 at 5:44 PM, Jianbao Tao jianbao@gmail.com wrote: Hi, I am working on a time-series data browser based on matplotlib. In general, it shows a N_row x 1_col stack of axes, which share the x axis, the time axis. It is nice that matplotlib offers the sharex option so that the data can be zoomed simultaneously in time. However, one problem with the sharex option is that it not only shares the axis range (or limits, if you will), but also the axis appearance, which is not always desirable. In my case, I want the tick labels to be shown only on the bottom subplot. However, that doesn't seem to be achievable with sharex. The follow snippet demonstrates my example: #- code import matplotlib.pyplot as plt fig = plt.figure() ax1 = fig.add_subplot(211) ax2 = fig.add_subplot(212, sharex=ax1) ax1.get_xaxis().set_ticklabels([]) # This also suppresses x tick labels of ax2. fig.canvas.draw() #-- end of code Is there a workaround, hopefully simple and straightforward, to share range (or limits) only among axes? Better yet, can this feature be added, like a keyword sharexrange, in the future, if it is not already there? Of course, the situation should be similar for y axis, too. Thank you very much. Jianbao This was the first hit in a google search: http://stackoverflow.com/questions/4209467/matplotlib-share-x-axis-but-dont-show-x-axis-tick-labels-for-both-just-one -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 10:26 AM, Fernando Perez fperez@gmail.comwrote:
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package used for Python
for application development, interactive scripting, and
publication-quality image generation across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014, LOS ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{
http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019
},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
That wos link is useful, however I see only a paper listed following the
Time Cited link in the atmospheric science field. A few papers I have
seen mentions mpl in acknowledgement section, but some not, though the
plots in them are obviously produced by mpl.
Should we list some articles here, as a base for a section that would go to
mpl website?
--
Gökhan
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Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
That citation should be *much* more prominent on the matplotlib homepage. I
regret to say that I was unaware of that paper I should have cited in my
last paper which made heavy use of matplotlib generated plots with lots of
customizations. Next time I'll be sure to include the proper citation!
I think including a gallery of published examples would be great, however,
there will be some serious challenges with regards to copyright. It would
be great to show MPL being used in high impact journals (which it is), but
getting permission from them to show the plots on the MPL website may
require some paperwork. So, a list of citations might be a good place to
start. Here's mine: http://jeb.biologists.org/content/215/11/1783.full
- Floris
On Fri, Oct 5, 2012 at 10:12 AM, Damon McDougall
damon.mcdoug...@gmail.comwrote:
On Fri, Oct 5, 2012 at 5:55 PM, Gökhan Sever gokhanse...@gmail.com
wrote:
On Fri, Oct 5, 2012 at 10:26 AM, Fernando Perez fperez@gmail.com
wrote:
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package used for Python
for application development, interactive scripting,
and
publication-quality image generation across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014, LOS
ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{
http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019
},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
That wos link is useful, however I see only a paper listed following the
Time Cited link in the atmospheric science field. A few papers I have
seen
mentions mpl in acknowledgement section, but some not, though the plots
in
them are obviously produced by mpl.
Should we list some articles here, as a base for a section that would go
to
mpl website?
--
Gökhan
Short version:
I think this is a good idea.
Long version:
I think a 'Who uses matplotlib?' section in the website would provide
good solid academic backing, too. I know the Met Office
(PHIL) and some of the guys in the PECOS group at ICES
use it.
Actual papers is great, but probably rather drab? I think if we want
to show it off, we should include sample images from citations, rather
than just citations. After all, how many people are going to chase a
citation to see sample output when we have a gallery section? Better
still would be to have an 'academic gallery' section. Perhaps this
could be part of the gallery re-work someone was going to do (was it
Tony? I forget).
I don't know. I think the idea is good, but I think there needs to be
some thought and consensus regarding the *best* way to get people to
*visually* judge matplotlib's capabilities in the academic realm.
This is just my two.
--
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom
--
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___
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https://lists.sourceforge.net/lists/listinfo/matplotlib-users
--
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PhD Candidate at Caltech
Control and Dynamical Systems
(925) 963 8280
Wildlife and Landscape Photographer
Galleries: http://www.ArtInNaturePhotography.com/
Blog: http://www.ArtInNaturePhotography.com/wordpress/
--
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Deploy New Relic app performance management and know exactly
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Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
I think including a gallery of published examples would be great, however,
there will be some serious challenges with regards to copyright. It would
be great to show MPL being used in high impact journals (which it is), but
getting permission from them to show the plots on the MPL website may
require some paperwork. So, a list of citations might be a good place to
start. Here's mine: http://jeb.biologists.org/content/215/11/1783.full
I just came back from a bioinformatics workshop: I was suprised by the
amound of people using matplotlib to display results.
I think it wouldn't be too hard to gather images and published them on
matplotlib's website if the authors are OK with it. Also, in cancer
research, publications and/or plots are often available publicly.
I don't think citations would be as efficient: I personnally wouldn't
bother looking at those.
Here is an example on circos' website of how they advertise the use of
their plotting library in research: http://circos.ca/intro/published_images/
Cheers,
N
- Floris
On Fri, Oct 5, 2012 at 10:12 AM, Damon McDougall
damon.mcdoug...@gmail.com wrote:
On Fri, Oct 5, 2012 at 5:55 PM, Gökhan Sever gokhanse...@gmail.com
wrote:
On Fri, Oct 5, 2012 at 10:26 AM, Fernando Perez fperez@gmail.com
wrote:
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package used for Python
for application development, interactive scripting,
and
publication-quality image generation across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014, LOS
ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{
http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019
},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
That wos link is useful, however I see only a paper listed following the
Time Cited link in the atmospheric science field. A few papers I have
seen
mentions mpl in acknowledgement section, but some not, though the plots
in
them are obviously produced by mpl.
Should we list some articles here, as a base for a section that would
go to
mpl website?
--
Gökhan
Short version:
I think this is a good idea.
Long version:
I think a 'Who uses matplotlib?' section in the website would provide
good solid academic backing, too. I know the Met Office
(PHIL) and some of the guys in the PECOS group at ICES
use it.
Actual papers is great, but probably rather drab? I think if we want
to show it off, we should include sample images from citations, rather
than just citations. After all, how many people are going to chase a
citation to see sample output when we have a gallery section? Better
still would be to have an 'academic gallery' section. Perhaps this
could be part of the gallery re-work someone was going to do (was it
Tony? I forget).
I don't know. I think the idea is good, but I think there needs to be
some thought and consensus regarding the *best* way to get people to
*visually* judge matplotlib's capabilities in the academic realm.
This is just my two.
--
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom
--
Don't let slow site performance ruin your business. Deploy New Relic APM
Deploy New Relic app performance management and know exactly
what is happening inside your Ruby, Python, PHP, Java, and .NET app
Try New Relic at no cost today and get our sweet Data Nerd shirt too!
http://p.sf.net/sfu/newrelic-dev2dev
___
Matplotlib-users mailing list
Matplotlib-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/matplotlib-users
--
Floris van Breugel
PhD Candidate at Caltech
Control and Dynamical Systems
(925) 963 8280
Wildlife and Landscape Photographer
Galleries: http://www.ArtInNaturePhotography.com/
Blog: http://www.ArtInNaturePhotography.com/wordpress/
--
Don't let slow site performance ruin your business. Deploy New Relic APM
Deploy New Relic app performance management and know exactly
what is happening inside your Ruby, Python,
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
The idea of pulling key (and sexy) figures from papers is an awesome
idea. I know when I am trying to make figures, I often search around
looking at the different styles that people use to present similar
data. There is also something different about publication level plots
than the simple examples that MPL has on the gallery page now. Sure
some of them are neat, but more importantly, they show you how to do
something. Pulling figures from papers show you how to convey
information and look good doing it.
I'll certainly cite MPL and ipython as I have used those a lot to both
develop and present my results. Sadly, most of us in astronomy are
still using IDL for all of the figure making.
Steven
On Fri 05 Oct 2012 12:45:30 PM CDT, Nelle Varoquaux wrote:
I think including a gallery of published examples would be great,
however, there will be some serious challenges with regards to
copyright. It would be great to show MPL being used in high impact
journals (which it is), but getting permission from them to show
the plots on the MPL website may require some paperwork. So, a
list of citations might be a good place to start. Here's mine:
http://jeb.biologists.org/content/215/11/1783.full
I just came back from a bioinformatics workshop: I was suprised by the
amound of people using matplotlib to display results.
I think it wouldn't be too hard to gather images and published them on
matplotlib's website if the authors are OK with it. Also, in cancer
research, publications and/or plots are often available publicly.
I don't think citations would be as efficient: I personnally wouldn't
bother looking at those.
Here is an example on circos' website of how they advertise the use of
their plotting library in research:
http://circos.ca/intro/published_images/
Cheers,
N
- Floris
On Fri, Oct 5, 2012 at 10:12 AM, Damon McDougall
damon.mcdoug...@gmail.com mailto:damon.mcdoug...@gmail.com wrote:
On Fri, Oct 5, 2012 at 5:55 PM, Gökhan Sever
gokhanse...@gmail.com mailto:gokhanse...@gmail.com wrote:
On Fri, Oct 5, 2012 at 10:26 AM, Fernando Perez
fperez@gmail.com mailto:fperez@gmail.com
wrote:
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package
used for Python
for application development, interactive
scripting, and
publication-quality image generation
across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014
tel:3014, LOS ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
That wos link is useful, however I see only a paper listed
following the
Time Cited link in the atmospheric science field. A few
papers I have seen
mentions mpl in acknowledgement section, but some not,
though the plots in
them are obviously produced by mpl.
Should we list some articles here, as a base for a section
that would go to
mpl website?
--
Gökhan
Short version:
I think this is a good idea.
Long version:
I think a 'Who uses matplotlib?' section in the website would
provide
good solid academic backing, too. I know the Met Office
(PHIL) and some of the guys in the PECOS group
at ICES
use it.
Actual papers is great, but probably rather drab? I think if
we want
to show it off, we should include sample images from
citations, rather
than just citations. After all, how many people are going to
chase a
citation to see sample output when we have a gallery section?
Better
still would be to have an 'academic gallery' section. Perhaps this
could be part of the gallery re-work someone was
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
The problem is with many journals the content (including figures) is
copyright by the journal, not the author. But I imagine most journals would
grant permission, it's just an additional step that should be taken where
required.
The circos layout looks nice!
- Floris
On Fri, Oct 5, 2012 at 10:45 AM, Nelle Varoquaux
nelle.varoqu...@gmail.comwrote:
I think including a gallery of published examples would be great,
however, there will be some serious challenges with regards to copyright.
It would be great to show MPL being used in high impact journals (which it
is), but getting permission from them to show the plots on the MPL website
may require some paperwork. So, a list of citations might be a good place
to start. Here's mine: http://jeb.biologists.org/content/215/11/1783.full
I just came back from a bioinformatics workshop: I was suprised by the
amound of people using matplotlib to display results.
I think it wouldn't be too hard to gather images and published them on
matplotlib's website if the authors are OK with it. Also, in cancer
research, publications and/or plots are often available publicly.
I don't think citations would be as efficient: I personnally wouldn't
bother looking at those.
Here is an example on circos' website of how they advertise the use of
their plotting library in research:
http://circos.ca/intro/published_images/
Cheers,
N
- Floris
On Fri, Oct 5, 2012 at 10:12 AM, Damon McDougall
damon.mcdoug...@gmail.com wrote:
On Fri, Oct 5, 2012 at 5:55 PM, Gökhan Sever gokhanse...@gmail.com
wrote:
On Fri, Oct 5, 2012 at 10:26 AM, Fernando Perez fperez@gmail.com
wrote:
@Article{Hunter:2007,
Author = {Hunter, J. D.},
Title = {Matplotlib: A 2D graphics environment},
Journal= {Computing In Science \ Engineering},
Volume = {9},
Number = {3},
Pages = {90--95},
abstract = {Matplotlib is a 2D graphics package used for
Python
for application development, interactive
scripting, and
publication-quality image generation across user
interfaces and operating systems.},
address= {10662 LOS VAQUEROS CIRCLE, PO BOX 3014, LOS
ALAMITOS,
CA 90720-1314 USA},
bdsk-url-1 =
{
http://gateway.isiknowledge.com/gateway/Gateway.cgi?GWVersion=2SrcAuth=AlertingSrcApp=AlertingDestApp=WOSDestLinkType=FullRecord;KeyUT=000245668100019
},
date-added = {2010-09-23 12:22:10 -0700},
date-modified = {2010-09-23 12:22:10 -0700},
isi= {000245668100019},
isi-recid = {155389429},
month = may # / # jun,
publisher = {IEEE COMPUTER SOC},
year = 2007
}
That wos link is useful, however I see only a paper listed following
the
Time Cited link in the atmospheric science field. A few papers I
have seen
mentions mpl in acknowledgement section, but some not, though the
plots in
them are obviously produced by mpl.
Should we list some articles here, as a base for a section that would
go to
mpl website?
--
Gökhan
Short version:
I think this is a good idea.
Long version:
I think a 'Who uses matplotlib?' section in the website would provide
good solid academic backing, too. I know the Met Office
(PHIL) and some of the guys in the PECOS group at ICES
use it.
Actual papers is great, but probably rather drab? I think if we want
to show it off, we should include sample images from citations, rather
than just citations. After all, how many people are going to chase a
citation to see sample output when we have a gallery section? Better
still would be to have an 'academic gallery' section. Perhaps this
could be part of the gallery re-work someone was going to do (was it
Tony? I forget).
I don't know. I think the idea is good, but I think there needs to be
some thought and consensus regarding the *best* way to get people to
*visually* judge matplotlib's capabilities in the academic realm.
This is just my two.
--
Damon McDougall
http://www.damon-is-a-geek.com
B2.39
Mathematics Institute
University of Warwick
Coventry
West Midlands
CV4 7AL
United Kingdom
--
Don't let slow site performance ruin your business. Deploy New Relic APM
Deploy New Relic app performance management and know exactly
what is happening inside your Ruby, Python, PHP, Java, and .NET app
Try New Relic at no cost today and get our sweet Data Nerd shirt too!
http://p.sf.net/sfu/newrelic-dev2dev
___
Matplotlib-users mailing list
Matplotlib-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/matplotlib-users
--
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PhD Candidate at Caltech
Control and Dynamical Systems
(925) 963 8280
Wildlife and Landscape Photographer
Re: [Matplotlib-users] Saving animations
On Fri, Oct 5, 2012 at 12:43 PM, Andreas Mueller amuel...@ais.uni-bonn.de wrote: Thanks for the tip. I didn't know about ``--verbose-debug``. It told me Unknown encoder 'libx264'. I found out I need to install libavcodec-extra-53 for it to work. Not everything is going smoothly. It would be great if the docs could be updated with how to specify a codec btw. I only found out by chance. Thanks for your help, andy Glad to hear it. It would be nice if there were good docs, period. But that requires a lazy dev (me) to finish his Ph.D. first. :) Ryan -- Ryan May Graduate Research Assistant School of Meteorology University of Oklahoma -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 10:45 AM, Nelle Varoquaux nelle.varoqu...@gmail.com wrote: Here is an example on circos' website of how they advertise the use of their plotting library in research: http://circos.ca/intro/published_images/ Wow, that is one hell of a visually spiffy site. Can't find any links to development repositories, but in terms of targeting end users, the author (because it looks like a single-person job, given the many I references) has done a solid job. Sites like this remind me that we really should put a bit more effort into the 'marketing' aspect of our sites. From what I can tell, circos is very nice but has nowhere the technical depth, complexity and flexibility of matplotlib. It's a fairly narrowly targeted tool. But a site like that makes it really appealing to people. Thanks for that link, Nelle! Cheers, f -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 11:45 AM, Nelle Varoquaux nelle.varoqu...@gmail.comwrote: I think including a gallery of published examples would be great, however, there will be some serious challenges with regards to copyright. It would be great to show MPL being used in high impact journals (which it is), but getting permission from them to show the plots on the MPL website may require some paperwork. So, a list of citations might be a good place to start. Here's mine: http://jeb.biologists.org/content/215/11/1783.full I just came back from a bioinformatics workshop: I was suprised by the amound of people using matplotlib to display results. I think it wouldn't be too hard to gather images and published them on matplotlib's website if the authors are OK with it. Also, in cancer research, publications and/or plots are often available publicly. I don't think citations would be as efficient: I personnally wouldn't bother looking at those. Here is an example on circos' website of how they advertise the use of their plotting library in research: http://circos.ca/intro/published_images/ Cheers, N I think citation based discipline specific listing would make a good simple start. For instance: Atmospheric Science: Article 1 citation [link1] Article 2 citation [link2] Bioinformatics: Article 1 citation [link1] Article 2 citation [link2] etc... Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Later, we can work on a more specific academic gallery page, once citation gallery grows to a critical limit. -- Gökhan -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 7:42 PM, Fernando Perez fperez@gmail.com wrote: On Fri, Oct 5, 2012 at 10:45 AM, Nelle Varoquaux nelle.varoqu...@gmail.com wrote: Here is an example on circos' website of how they advertise the use of their plotting library in research: http://circos.ca/intro/published_images/ Wow, that is one hell of a visually spiffy site. Can't find any links to development repositories, but in terms of targeting end users, the author (because it looks like a single-person job, given the many I references) has done a solid job. Sites like this remind me that we really should put a bit more effort into the 'marketing' aspect of our sites. From what I can tell, circos is very nice but has nowhere the technical depth, complexity and flexibility of matplotlib. It's a fairly narrowly targeted tool. But a site like that makes it really appealing to people. Thanks for that link, Nelle! Yes, that site was *full* of eye-candy. It's maybe a bit over the top, but it's certainly a good reference. -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 12:17 PM, Damon McDougall damon.mcdoug...@gmail.com wrote: It's maybe a bit over the top, but it's certainly a good reference. I agree, a bit too rich for my taste too. But our sites tend to be the opposite extreme, so it's a good data point to keep in mind. Cheers, f -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. Am I wrong in thinking that journals copyright the final product? Thus, it would be up to the author(s) to decide whether or not to 'donate' a figure for a gallery. provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 12:23 PM, Damon McDougall damon.mcdoug...@gmail.comwrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. Yes.. this is indeed a problem.. perhaps there could be a list of citations specifically to open journal articles (many journals make papers public after some period of time), in addition to ones that are only available with a subscription. After all, many of those looking to use matplotlib in a scientific publication are usually at an institution with access. That way people who don't have access don't have to waste time finding links that work for them. Am I wrong in thinking that journals copyright the final product? Thus, it would be up to the author(s) to decide whether or not to 'donate' a figure for a gallery. Many journals copyright the final product, so an author could only 'donate' a figure to the gallery if they had written permission from the journal that published their paper. Lame, I know. Similarly, if someone wishes to reproduce a figure for news coverage or a review article, they need permission from the journal, not the author. - Floris provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Floris van Breugel PhD Candidate at Caltech Control and Dynamical Systems (925) 963 8280 Wildlife and Landscape Photographer Galleries: http://www.ArtInNaturePhotography.com/ Blog: http://www.ArtInNaturePhotography.com/wordpress/ -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On 5 October 2012 21:23, Damon McDougall damon.mcdoug...@gmail.com wrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. Am I wrong in thinking that journals copyright the final product? Thus, it would be up to the author(s) to decide whether or not to 'donate' a figure for a gallery. I think it depends on the journal, and on the agreement. I think in most journals you/your institute can pay to have your paper publicly available. I wouldn't be shocked if a requirement to be in the gallery would be to donate a figure. provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. I was just showing an example of a gallery of published figures. It is much easier to go through a gallery, to quickly see what a library is capable of, than clicking on links to articles, that may often be of closed access. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
For example, in astronomy, a lot of people will 'publish' their paper to Arxiv before it is accepted into a journal. Arxiv is accessible by the general public and a little digging around will reveal that you can download the actual Latex source for the paper. This includes all of the figures. I have never heard of anyone getting sued by a journal for posting their stuff on the arxiv. Steven On Fri 05 Oct 2012 02:42:06 PM CDT, Nelle Varoquaux wrote: On 5 October 2012 21:23, Damon McDougall damon.mcdoug...@gmail.com mailto:damon.mcdoug...@gmail.com wrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com mailto:gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. Am I wrong in thinking that journals copyright the final product? Thus, it would be up to the author(s) to decide whether or not to 'donate' a figure for a gallery. I think it depends on the journal, and on the agreement. I think in most journals you/your institute can pay to have your paper publicly available. I wouldn't be shocked if a requirement to be in the gallery would be to donate a figure. provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. I was just showing an example of a gallery of published figures. It is much easier to go through a gallery, to quickly see what a library is capable of, than clicking on links to articles, that may often be of closed access. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Steven Boada Dept. Physics and Astronomy Texas AM University bo...@physics.tamu.edu -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 1:23 PM, Damon McDougall damon.mcdoug...@gmail.comwrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. I was only thinking open-access journals, which open-source users (i.e. users of python tools) tend to publish their articles in open-journals. Of course, there are subscription required articles but those are secondary concerns. Sometimes authors make their articles publicly available even the article is on a paid journal. provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? Citation listing is easier for me, we can go both ways, a page listing only citations, another one a more experimental figure/citation if copyright issues can be resolved easily. In anyways, we will have to gather citations. Let's start doing that? -- Gökhan -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
2012/10/5 Gökhan Sever gokhanse...@gmail.com On Fri, Oct 5, 2012 at 1:23 PM, Damon McDougall damon.mcdoug...@gmail.com wrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. I was only thinking open-access journals, which open-source users (i.e. users of python tools) tend to publish their articles in open-journals. Of course, there are subscription required articles but those are secondary concerns. Sometimes authors make their articles publicly available even the article is on a paid journal. provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? Citation listing is easier for me, we can go both ways, a page listing only citations, another one a more experimental figure/citation if copyright issues can be resolved easily. In anyways, we will have to gather citations. Let's start doing that? I think that an official acknowledgment that people can copy and paste (and adapt) in their paper would be a great idea. Francesco -- Gökhan -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 2:02 PM, Francesco Montesano franz.berges...@gmail.com wrote: I think that an official acknowledgment that people can copy and paste (and adapt) in their paper would be a great idea. Francesco Some open-access journals permit this: See for instance (also an example of a title that has all mpl produced figures): Dawe, J. T. and Austin, P. H.: Statistical analysis of an LES shallow cumulus cloud ensemble using a cloud tracking algorithm, Atmos. Chem. Phys., 12, 1101-1119, doi:10.5194/acp-12-1101-2012, 2012, http://www.atmos-chem-phys.net/12/1101/2012/acp-12-1101-2012.html -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 8:58 PM, Gökhan Sever gokhanse...@gmail.com wrote: On Fri, Oct 5, 2012 at 1:23 PM, Damon McDougall damon.mcdoug...@gmail.com wrote: On Fri, Oct 5, 2012 at 8:11 PM, Gökhan Sever gokhanse...@gmail.com wrote: Seeing mpl produced plots would be only 1 or 2 clicks away, plus this would This is not true. A lot of articles are unavailable to certain institutions due to a lack of subscription. A major sticking point. I was only thinking open-access journals, which open-source users (i.e. users of python tools) tend to publish their articles in open-journals. Of course, there are subscription required articles but those are secondary concerns. Sometimes authors make their articles publicly available even the article is on a paid journal. That's a good idea. Steven Boada's comment re: the arxiv is also a good one. This looks workable :) provide context to the use of plots rather that extracting figures and putting them separately (dealing with copyright issues and such) on an alternative gallery page. The figures you linked look shinny but not much practical use in my field. Point taken on the context argument. I'll take that. To resolve it, make the figure/html image link to the underlying publication? Citation listing is easier for me, we can go both ways, a page listing only citations, another one a more experimental figure/citation if copyright issues can be resolved easily. In anyways, we will have to gather citations. Let's start doing that? Sounds good to me. Thanks for all the input. -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Eclipse with PyDev on Ubuntu - updating matplotlib version in eclipse ide
On Wed, Oct 3, 2012 at 6:25 AM, Harshad Surdi harshadsu...@gmail.com wrote: Hi, I am using Eclipse IDE for Java Developers with PyDev on Ubuntu 12.04 and I am quite new to Ubuntu and Eclipse. Can you guide me as to hos to update matplotlib in PyDev in Eclipse? -- Best Regards, Harshad Surdi Harshad, To the best of my knowledge, you just need to update matplotlib in Ubuntu. If you're looking to upgrade to a development version, the use the instructions here: http://matplotlib.org/faq/installing_faq.html#install-from-git -paul -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
[Matplotlib-users] automating-xkcd-diagrams-transforming-serious-to-funny
http://blog.wolfram.com/2012/10/05/automating-xkcd-diagrams-transforming- serious-to-funny/ I wonder if mpl has anything along these lines? -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] automating-xkcd-diagrams-transforming-serious-to-funny
On Fri, Oct 5, 2012 at 11:18 PM, Neal Becker ndbeck...@gmail.com wrote: http://blog.wolfram.com/2012/10/05/automating-xkcd-diagrams-transforming- serious-to-funny/ I wonder if mpl has anything along these lines? https://github.com/matplotlib/matplotlib/pull/1329 -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Matplotlib produced plots in academic journal articles
On Fri, Oct 5, 2012 at 2:47 PM, Phil Austin mkpaus...@gmail.com wrote: Nice to see our matplotlib acknowledgement generating ripples. We've also got some mayavi animations and links to other matplotlib-plotted papers and posters at http://cafc.ubc.ca best, Phil Nice visuals Phil. Thanks for making your articles easily accessible from your page. In addition to your papers here are a couple more atmospheric science related open-access articles that uses matplotlib for figures: Mallet, V., Quélo, D., Sportisse, B., Ahmed de Biasi, M., Debry, É., Korsakissok, I., Wu, L., Roustan, Y., Sartelet, K., Tombette, M., and Foudhil, H.: Technical Note: The air quality modeling system Polyphemus, Atmos. Chem. Phys., 7, 5479-5487, doi:10.5194/acp-7-5479-2007, 2007. http://www.atmos-chem-phys.net/7/5479/2007/acp-7-5479-2007.html Batenburg, A. M., Walter, S., Pieterse, G., Levin, I., Schmidt, M., Jordan, A., Hammer, S., Yver, C., and Röckmann, T.: Temporal and spatial variability of the stable isotopic composition of atmospheric molecular hydrogen: observations at six EUROHYDROS stations, Atmos. Chem. Phys., 11, 6985-6999, doi:10.5194/acp-11-6985-2011, 2011. http://www.atmos-chem-phys.net/11/6985/2011/acp-11-6985-2011.html Jones, C. R., Bretherton, C. S., and Leon, D.: Coupled vs. decoupled boundary layers in VOCALS-REx, Atmos. Chem. Phys., 11, 7143-7153, doi:10.5194/acp-11-7143-2011, 2011. http://www.atmos-chem-phys.net/11/7143/2011/acp-11-7143-2011.html (All except the first plot is produced by matplotlib) Ungermann, J., Kalicinsky, C., Olschewski, F., Knieling, P., Hoffmann, L., Blank, J., Woiwode, W., Oelhaf, H., Hösen, E., Volk, C. M., Ulanovsky, A., Ravegnani, F., Weigel, K., Stroh, F., and Riese, M.: CRISTA-NF measurements with unprecedented vertical resolution during the RECONCILE aircraft campaign, Atmos. Meas. Tech., 5, 1173-1191, doi:10.5194/amt-5-1173-2012, 2012. http://www.atmos-meas-tech.net/5/1173/2012/amt-5-1173-2012.html Rautenhaus, M., Bauer, G., and Dörnbrack, A.: A web service based tool to plan atmospheric research flights, Geosci. Model Dev., 5, 55-71, doi:10.5194/gmd-5-55-2012, 2012. http://www.geosci-model-dev.net/5/55/2012/gmd-5-55-2012.html -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] XKCD style graphs?
On 10/4/12 2:16 AM, Fernando Perez wrote: This would make for an awesome couple of examples for the gallery, the mathematica solutions look really pretty cool: http://mathematica.stackexchange.com/questions/11350/xkcd-style-graphs The matlab and R version not quite so much, still for reference: http://stackoverflow.com/questions/12701841/xkcd-style-graphs-in-matlab http://stackoverflow.com/questions/12675147/xkcd-style-graphs-in-r Just FYI, wolfram now has a blog post up about it: http://blog.wolfram.com/2012/10/05/automating-xkcd-diagrams-transforming-serious-to-funny/ Thanks, Jason -- Don't let slow site performance ruin your business. Deploy New Relic APM Deploy New Relic app performance management and know exactly what is happening inside your Ruby, Python, PHP, Java, and .NET app Try New Relic at no cost today and get our sweet Data Nerd shirt too! http://p.sf.net/sfu/newrelic-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
