Re: [Matplotlib-users] Colorbar interfering with figure
On Mon, Feb 13, 2012 at 10:38 AM, Bruce Ford br...@clearscienceinc.comwrote: I have a application that plots figures on demand. I'm running into an issue when plotting more than one parameter on a figure. Each parameter is run through libraries that I've written that make decisions and eventually plots the figure. However, for some figures (when two parameters are plotted), the colorbar plots atop the main figure (see the attached). I think the reason is that each time through the libraries, a separate basemap is created (although with the same values) but for the first parameter, a colorbar is plotted and for the second, there will never be a colorbar. So the final figure plots the colorbar on top. is there a way to test the gca() to see if a basemap has been created, or to detect whether the gcs() has a colorbar and leave the map/figure alone. (I'm not exactly sure if it's the re-creation of the basemap or the fact that the second parameter will not contain a colorbar that is the issue.) Anyone crossed this bridge? Bruce What is creating a colorbar? My usual coding style is such that any functions I make to do complicated plots do not do any more than is necessary. All axis limits, title setting and colorbar making are left for the caller of the plotting function. From your description, it is hard to tell if the bug is in your code, basemap, or some other third-party library. Could you please clarify? Cheers! Ben Root P.S. - Furthermore, I *really* like using the axes_grid1 toolkit because I can specify if I want space pre-allocated for colorbars. This way, when I create my colorbar, I can pass the pre-allocated axes object that was made just for the colorbar. -- Virtualization Cloud Management Using Capacity Planning Cloud computing makes use of virtualization - but cloud computing also focuses on allowing computing to be delivered as a service. http://www.accelacomm.com/jaw/sfnl/114/51521223/___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar on each subplot
Please post a complete (but simple) example that we can easily test. Doing the *subplot_adjust* will mess up the location of colorbars, but I believe that colorbars should be still there. If you're using v1.1 and later, see if using the use_gridspec parameter works. For example, colorbar(use_gridspec=True) Regards, -JJ On Sat, Jan 7, 2012 at 8:34 PM, davcra dcdavem...@gmail.com wrote: Hi, I need to add a colorbar to each plot in a subplot but cant seem to get it to work. My code is as follows, # Plot time series of slowness, baz, abs.power and rel.power labels = 'rel.power abs.power baz slow'.split() fig = plt.figure() for i, lab in enumerate(labels): ax = fig.add_subplot(4, 1, i + 1) ax.scatter(out[:, 0], out[:, i + 1], c=out[:, 1], alpha=0.6, edgecolors='none') ax.set_ylabel(lab) colorbar() fig.autofmt_xdate() fig.subplots_adjust(top=0.95, right=0.95, bottom=0.2, hspace=0.25) plt.show() Dont get any error but the colorbar is missing from the plot, anyone know how it is done -- View this message in context: http://old.nabble.com/Colorbar-on-each-subplot-tp33098035p33098035.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or vast IT resources to deliver seamless, secure access to virtual desktops. With this all-in-one solution, easily deploy virtual desktops for less than the cost of PCs and save 60% on VDI infrastructure costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or vast IT resources to deliver seamless, secure access to virtual desktops. With this all-in-one solution, easily deploy virtual desktops for less than the cost of PCs and save 60% on VDI infrastructure costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar on each subplot
On Saturday, January 7, 2012, Jae-Joon Lee lee.j.j...@gmail.com wrote: Please post a complete (but simple) example that we can easily test. Doing the *subplot_adjust* will mess up the location of colorbars, but I believe that colorbars should be still there. If you're using v1.1 and later, see if using the use_gridspec parameter works. For example, colorbar(use_gridspec=True) Regards, -JJ Personally, I just simply use the AxesGrid1 toolkit which automatically allocates space for colorbars if I tell it to. Very easy to use. Ben Root -- Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or vast IT resources to deliver seamless, secure access to virtual desktops. With this all-in-one solution, easily deploy virtual desktops for less than the cost of PCs and save 60% on VDI infrastructure costs. Try it free! http://p.sf.net/sfu/Citrix-VDIinabox___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labels never appear vertically
On 08/18/2011 09:53 PM, James McMurray wrote: Hi, I am having a problem where the colorbar labels will never appear vertically, even when their rotation is specified as vertical. As you can see in the screenshot here: http://minus.com/lbOJyOljH this creates problems when the labels are cut off and generally looks unprofessional. I am creating the colorbars with code like: cbar1.set_label(Lifetime [$\mu$s], rotation='vertical') I don't understand; even with no kwarg, the label on a vertical colorbar will be vertical. It has been that way for as long as I can remember. What mpl version are you using? Please provide a minimal standalone script showing the problem. Eric And yet the specified rotation has no effect. Any help would be much appreciated, James -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labels never appear vertically
I made this standalone script here: http://pastebin.com/AnKeCwiU and this does not suffer from the issue. For comparison here is the plotting function in my program: http://pastebin.com/7xxtPQYb The only major difference is the use of the interactive display in the script, against the use of Figure and the GTK canvas in my application. I am using matplotlib 1.0.1 On 19 August 2011 10:28, Eric Firing efir...@hawaii.edu wrote: On 08/18/2011 09:53 PM, James McMurray wrote: Hi, I am having a problem where the colorbar labels will never appear vertically, even when their rotation is specified as vertical. As you can see in the screenshot here: http://minus.com/lbOJyOljH this creates problems when the labels are cut off and generally looks unprofessional. I am creating the colorbars with code like: cbar1.set_label(Lifetime [$\mu$s], rotation='vertical') I don't understand; even with no kwarg, the label on a vertical colorbar will be vertical. It has been that way for as long as I can remember. What mpl version are you using? Please provide a minimal standalone script showing the problem. Eric And yet the specified rotation has no effect. Any help would be much appreciated, James -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labels never appear vertically
After some testing, it appears to be caused by the use of LaTeX in the labels which then prevents it from being rotated (but only inside the GTK application). I have no idea why this is only occurring when it is not in interactive mode, but I guess for the time being I can just try not to use LaTeX. On 19 August 2011 10:57, James McMurray jamesmc...@gmail.com wrote: I made this standalone script here: http://pastebin.com/AnKeCwiU and this does not suffer from the issue. For comparison here is the plotting function in my program: http://pastebin.com/7xxtPQYb The only major difference is the use of the interactive display in the script, against the use of Figure and the GTK canvas in my application. I am using matplotlib 1.0.1 On 19 August 2011 10:28, Eric Firing efir...@hawaii.edu wrote: On 08/18/2011 09:53 PM, James McMurray wrote: Hi, I am having a problem where the colorbar labels will never appear vertically, even when their rotation is specified as vertical. As you can see in the screenshot here: http://minus.com/lbOJyOljH this creates problems when the labels are cut off and generally looks unprofessional. I am creating the colorbars with code like: cbar1.set_label(Lifetime [$\mu$s], rotation='vertical') I don't understand; even with no kwarg, the label on a vertical colorbar will be vertical. It has been that way for as long as I can remember. What mpl version are you using? Please provide a minimal standalone script showing the problem. Eric And yet the specified rotation has no effect. Any help would be much appreciated, James -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labels never appear vertically
On 08/18/2011 10:57 PM, James McMurray wrote: I made this standalone script here: http://pastebin.com/AnKeCwiU and this does not suffer from the issue. For comparison here is the plotting function in my program: http://pastebin.com/7xxtPQYb The problem is that the Gtk backend does not support text rotation. If you use FigureCanvasGTKAgg instead of FigureCanvasGTK, I think the behavior will be back to normal. The Gtk backend is not fully functional or supported. Eric The only major difference is the use of the interactive display in the script, against the use of Figure and the GTK canvas in my application. I am using matplotlib 1.0.1 On 19 August 2011 10:28, Eric Firing efir...@hawaii.edu mailto:efir...@hawaii.edu wrote: On 08/18/2011 09:53 PM, James McMurray wrote: Hi, I am having a problem where the colorbar labels will never appear vertically, even when their rotation is specified as vertical. As you can see in the screenshot here: http://minus.com/lbOJyOljH this creates problems when the labels are cut off and generally looks unprofessional. I am creating the colorbars with code like: cbar1.set_label(Lifetime [$\mu$s], rotation='vertical') I don't understand; even with no kwarg, the label on a vertical colorbar will be vertical. It has been that way for as long as I can remember. What mpl version are you using? Please provide a minimal standalone script showing the problem. Eric And yet the specified rotation has no effect. Any help would be much appreciated, James -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net mailto:Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar() moves to wrong place on subplots_adjust call
On Tue, Jun 14, 2011 at 4:58 AM, Nicholas Devenish misnomer+matplot...@gmail.com wrote: Is there a way I can avoid or correct this behaviour? It certainly seems erroneous that using the figure GUI to adjust plot bounds doesn't work, and is an especially nice way of tweaking for final plots. Unfortunately no. This is a limitation of how colobar is currently implemented (v1.1 will have a workaround to this). I think the simple (but may not be good enough) workaround is to call colorbar after subplot adjusting is done. Alternatively, you may try the axes_grid1 toolkit. http://matplotlib.sourceforge.net/mpl_toolkits/axes_grid/users/overview.html#colorbar-whose-height-or-width-in-sync-with-the-master-axes Regards, -JJ -- EditLive Enterprise is the world's most technically advanced content authoring tool. Experience the power of Track Changes, Inline Image Editing and ensure content is compliant with Accessibility Checking. http://p.sf.net/sfu/ephox-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar and scilimits
Unfortunately, ticks in colorbar axes work differently. Use something like below instead. cb.formatter.set_scientific(True) cb.formatter.set_powerlimits((0,4)) cb.update_ticks() Regards, -JJ On Mon, Mar 21, 2011 at 11:26 PM, johanngoetz jgo...@ucla.edu wrote: Is there a way to set the style and scilimits to the colorbar axes? All my attempts failed. For example, run the following script, I get the error shown below: ### begin example script import numpy from matplotlib import pyplot n = 500 x = numpy.random.standard_normal(n) y = 2.0 + 3.0 * x + 4.0 * numpy.random.standard_normal(n) xmin = x.min() xmax = x.max() ymin = y.min() ymax = y.max() hist, edges = numpy.histogramdd([y,x], bins=[25,25], range=[[ymin,ymax], [xmin,xmax]]) extent = [xmin, xmax, ymin, ymax] fig = pyplot.figure() ax = fig.add_subplot(1,1,1) plt = ax.imshow(hist, extent = extent, origin = 'lower', interpolation = 'nearest', aspect = 'auto') cb = fig.colorbar(plt, ax=ax) # This causes an AttributeError exception cb.ax.ticklabel_format(style='sci', scilimits=(0,4)) pyplot.show() ### end example script python cb_scilim_test.py Traceback (most recent call last): File cb_scilim_test.py, line 25, in module cb.ax.ticklabel_format(style='sci', scilimits=(0,4)) File /usr/lib64/python2.7/site-packages/matplotlib/axes.py, line 2117, in ticklabel_format This method only works with the ScalarFormatter.) AttributeError: This method only works with the ScalarFormatter. -- View this message in context: http://old.nabble.com/colorbar-and-scilimits-tp31201133p31201133.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Colocation vs. Managed Hosting A question and answer guide to determining the best fit for your organization - today and in the future. http://p.sf.net/sfu/internap-sfd2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Enable your software for Intel(R) Active Management Technology to meet the growing manageability and security demands of your customers. Businesses are taking advantage of Intel(R) vPro (TM) technology - will your software be a part of the solution? Download the Intel(R) Manageability Checker today! http://p.sf.net/sfu/intel-dev2devmar ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar+log+latex
Hi All, Thanks a bunch for your help! Eric: your suggestion works brilliantly ( I didn't use the interpolation kwarg though because I like the 'smudged' look). Paul: thanks for your suggestions but I get errors when trying to execute * cbar.set_ticks(np.linspace(300,350,6))*. The c.bar.set_ticks option doesn't seem to exist.. All I now need to figure out is how to get the log scale ticklabels to show for a different imshow plot... cheers! Shrividya -- Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar+log+latex
Hi there,
I too want a log scale on the colorbar for an imshow plot. I have tried the
solution proposed by Jae-Joon but I cannot get the ticklabels to show. I
have tried to dynamically change the matplotlibrc settings in ipython using
mpl.rc('text',usetex=True) - where mpl = matplotlib. When I run the script I
get a whole series of errors (see in italics below) and the figure doesn't
show.
*
RuntimeError: Could not obtain dvipng version
Exception in Tkinter callback
*
Is there another way to get a colorbar with a log scale?
On the same topic of the colorbar, how can I readjust the colors such that
it only goes between user-specified values? For example, I have one imshow
plot where the values range between 0 and 350. However, I only want to look
at the values between 300 and 350.
Any help would be greatly appreciated!
Thanks a lot!
Shrividya
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Re: [Matplotlib-users] colorbar+log+latex
On 01/25/2011 06:58 PM, Shrividya Ravi wrote: [...] On the same topic of the colorbar, how can I readjust the colors such that it only goes between user-specified values? For example, I have one imshow plot where the values range between 0 and 350. However, I only want to look at the values between 300 and 350. z = np.arange(25) z.shape = 5,5 imshow(z, vmin=10, vmax=20, interpolation='nearest') colorbar(extend='both') Does that give the desired result? Eric Any help would be greatly appreciated! Thanks a lot! Shrividya -- Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar+log+latex
Eric Firing, on 2011-01-25 19:52, wrote: On 01/25/2011 06:58 PM, Shrividya Ravi wrote: [...] On the same topic of the colorbar, how can I readjust the colors such that it only goes between user-specified values? For example, I have one imshow plot where the values range between 0 and 350. However, I only want to look at the values between 300 and 350. z = np.arange(25) z.shape = 5,5 imshow(z, vmin=10, vmax=20, interpolation='nearest') colorbar(extend='both') Does that give the desired result? Hi Shrividya, Here's how I interpreted what was being asked, in case that helps. Also, Eric, is there a reason we make an outline instead of just cbar.ax.set_frame_on? - My manual adjustments screw up and confuse whatever data cbar.outline depends on x = np.random.rand(100) y = np.random.rand(100) z = np.random.rand(100) collection = plt.scatter(x, y, c=z*350, vmin=0, vmax=350) cbar = plt.colorbar() cbar.ax.set_ylim(cbar.norm((300,350))) cbar.ax.set_xlim(cbar.norm((300,350))) # maintain aspect ratio cbar.set_ticks(np.linspace(300,350,6)) # didn't see a quick way to fix the outline cbar.outline.set_visible(False) cbar.ax.set_frame_on(True) plt.draw() best, -- Paul Ivanov 314 address only used for lists, off-list direct email at: http://pirsquared.org | GPG/PGP key id: 0x0F3E28F7 signature.asc Description: Digital signature -- Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar+log+latex
On 01/25/2011 08:51 PM, Paul Ivanov wrote: Eric Firing, on 2011-01-25 19:52, wrote: On 01/25/2011 06:58 PM, Shrividya Ravi wrote: [...] On the same topic of the colorbar, how can I readjust the colors such that it only goes between user-specified values? For example, I have one imshow plot where the values range between 0 and 350. However, I only want to look at the values between 300 and 350. z = np.arange(25) z.shape = 5,5 imshow(z, vmin=10, vmax=20, interpolation='nearest') colorbar(extend='both') Does that give the desired result? Hi Shrividya, Here's how I interpreted what was being asked, in case that helps. (Your interpretation seems like a very strange thing to want to do, but maybe you are right. The OP can inform us.) Also, Eric, is there a reason we make an outline instead of just cbar.ax.set_frame_on? - My manual adjustments screw up and confuse whatever data cbar.outline depends on Yes, we need to make our own outline because a colorbar does not have to be a rectangle; it can be pointed at either end or both ends. Eric x = np.random.rand(100) y = np.random.rand(100) z = np.random.rand(100) collection = plt.scatter(x, y, c=z*350, vmin=0, vmax=350) cbar = plt.colorbar() cbar.ax.set_ylim(cbar.norm((300,350))) cbar.ax.set_xlim(cbar.norm((300,350))) # maintain aspect ratio cbar.set_ticks(np.linspace(300,350,6)) # didn't see a quick way to fix the outline cbar.outline.set_visible(False) cbar.ax.set_frame_on(True) plt.draw() best, -- Special Offer-- Download ArcSight Logger for FREE (a $49 USD value)! Finally, a world-class log management solution at an even better price-free! Download using promo code Free_Logger_4_Dev2Dev. Offer expires February 28th, so secure your free ArcSight Logger TODAY! http://p.sf.net/sfu/arcsight-sfd2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar with Axes3D for a set of collections?
Hi Eric, thanks for your feedback, it helped a lot! I have some questions left, see below. 2011/1/14 Eric Firing efir...@hawaii.edu: Quick thoughts with no testing or concrete examples: 1) Don't set the cmap or norm for the colorbar; let it inherit those properties from the mappable to which it is connected. Am I doing this correctly in the attached code? It seems there are several ways of doing this... Which is the suggested one? How can I label the colorbar? 2) Ensure that the cmap and norm are the same for all collections. You are already taking care of the cmap, so the problem is that you are autoscaling the collections separately, which is setting vmin and vmax to different values for the different collections. Use the data to figure out the range (vmin, vmax) that you want the colors to span, and then for each collection, instead of col.autoscale(), use col.norm.vmin = vmin col.norm.vmax = vmax That was what I needed, see code :) (You could also make a single norm instance for all the collections to use, just as with the cmap, so that you only have to set vmin and vmax once.) And this I don't understandm could you please elaborate? Thanks a very lot in advance best regards from Austria, Daniel 3D_colorbar.py Description: Binary data -- Protect Your Site and Customers from Malware Attacks Learn about various malware tactics and how to avoid them. Understand malware threats, the impact they can have on your business, and how you can protect your company and customers by using code signing. http://p.sf.net/sfu/oracle-sfdevnl___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar with Axes3D for a set of collections?
On 01/14/2011 02:02 AM, Daniel Mader wrote:
Hi Eric,
thanks for your feedback, it helped a lot! I have some questions left,
see below.
2011/1/14 Eric Firingefir...@hawaii.edu:
Quick thoughts with no testing or concrete examples:
1) Don't set the cmap or norm for the colorbar; let it inherit those
properties from the mappable to which it is connected.
Am I doing this correctly in the attached code? It seems there are
several ways of doing this... Which is the suggested one? How can I
label the colorbar?
The way you did it is fine. For the label, modify by keeping a reference
to the colorbar and then calling set_label:
cb = fig.colorbar(collist[-1], shrink=0.85,)#, aspect=5)
cb.set_label('whatever this is')
2) Ensure that the cmap and norm are the same for all collections. You
are already taking care of the cmap, so the problem is that you are
autoscaling the collections separately, which is setting vmin and vmax
to different values for the different collections. Use the data to
figure out the range (vmin, vmax) that you want the colors to span, and
then for each collection, instead of col.autoscale(), use
col.norm.vmin = vmin
col.norm.vmax = vmax
That was what I needed, see code :)
(You could also make a single norm instance for all the collections to
use, just as with the cmap, so that you only have to set vmin and vmax
once.)
And this I don't understandm could you please elaborate?
See attached modification.
Eric
Thanks a very lot in advance
best regards from Austria,
Daniel
import sys
import scipy,pylab
import matplotlib as mpl
from mpl_toolkits.mplot3d import Axes3D
##--
def closePolys(elements):
'''
close the open polygon elements by adding the first node of each poly again.
'''
closed = []
for nodes in elements:
i = nodes[0]
ii = list(nodes)
ii.append(i)
closed.append(ii)
return closed
elements = [ [ (0,0), (0,1), (1,1), (1,0) ],
[ (4,1), (2,3), (2,2), (3,1)],
[ (0,1), (2,3), (2,2), (1,1)],
[ (3,0), (3,1), (4,1), (4,0)]]
tmp = scipy.array([1,1.1,0.9,1])
data = [tmp, tmp*2, tmp*4]
## workaround for bug in mpl: close polys manually, no auto-closing!
polys = closePolys(elements)
##--
fig = pylab.figure()
ax = Axes3D(fig)
stacks = 3
zpos = scipy.arange(stacks)
vmin,vmax = scipy.amin(data), scipy.amax(data)
norm = mpl.colors.Normalize(vmin=vmin, vmax=vmax)
cmap = mpl.cm.cool
collist = []
for i in range(stacks):
col = mpl.collections.PolyCollection(polys, linewidths=0.05, closed=False,
norm=norm, cmap=cmap)
col.set_array(data[i])
collist.append(col)
for i,col in enumerate(collist):
## get number of elements per collection
elemno = len(col.get_paths())
## create *iterable* for the 3D collection slices [z,z,z,...,z]
zs = [zpos[i]]*elemno
## collection transparency (opaque == 1), needed for projection bug workaround
col.set_alpha(0.3)
ax.add_collection3d(col, zs=zs, zdir='y')
#pylab.draw()
## colorbar:
cb = fig.colorbar(collist[-1], shrink=0.85,)#, aspect=5)
cb.set_label('whatever this is')
## axis limit settings:
ax.set_xlim3d(0,4)
ax.set_zlim3d(0,3)
ax.set_ylim3d(-0.1,stacks-1+0.1)
## labels:
ax.set_title('Transparency workaround')
ax.set_xlabel('x')
ax.set_ylabel('slice')
ax.set_zlabel('y')
##--
pylab.show()
--
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Re: [Matplotlib-users] colorbar with Axes3D for a set of collections?
Thank you very much for your patience, your explanations helped me a very lot in getting beautiful plots for my thesis! Best regards, Daniel -- Protect Your Site and Customers from Malware Attacks Learn about various malware tactics and how to avoid them. Understand malware threats, the impact they can have on your business, and how you can protect your company and customers by using code signing. http://p.sf.net/sfu/oracle-sfdevnl ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar with Axes3D for a set of collections?
On 01/13/2011 01:40 PM, Daniel Mader wrote: Hi, I am trying to plot a set of simulation results of FEM simulations. With a lot of help from Ben I can plot the deformed shape quite nicely but I have trouble in applying a colorbar to the plot. In the attached file there are three results with different results. How can I apply a global colorbar so that all collections are nicely represented? Quick thoughts with no testing or concrete examples: 1) Don't set the cmap or norm for the colorbar; let it inherit those properties from the mappable to which it is connected. 2) Ensure that the cmap and norm are the same for all collections. You are already taking care of the cmap, so the problem is that you are autoscaling the collections separately, which is setting vmin and vmax to different values for the different collections. Use the data to figure out the range (vmin, vmax) that you want the colors to span, and then for each collection, instead of col.autoscale(), use col.norm.vmin = vmin col.norm.vmax = vmax (You could also make a single norm instance for all the collections to use, just as with the cmap, so that you only have to set vmin and vmax once.) Eric Thanks a lot in advance, Daniel -- Protect Your Site and Customers from Malware Attacks Learn about various malware tactics and how to avoid them. Understand malware threats, the impact they can have on your business, and how you can protect your company and customers by using code signing. http://p.sf.net/sfu/oracle-sfdevnl ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Protect Your Site and Customers from Malware Attacks Learn about various malware tactics and how to avoid them. Understand malware threats, the impact they can have on your business, and how you can protect your company and customers by using code signing. http://p.sf.net/sfu/oracle-sfdevnl ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar settings with a object oriented approach (or mixed pyplot)
On Thu, Nov 18, 2010 at 11:10 PM, John washa...@gmail.com wrote: 1) I only need one colorbar, how would I create a single colorbar on the right that spanned across all axes? (ie. same height as the stack) There are a few options you can try. I guess the easiest way is setting up the axes manually. dy = 0.8/3. ax1 = axes([0.1, 0.1, 0.8, dy]) ax2 = axes([0.1, 0.1+dy, 0.8, dy]) ax3 = axes([0.1, 0.1+2*dy, 0.8, dy]) sc = ax1.scatter([1,2],[3,4], c=[0,1], cmap=jet) cax = axes([0.9, 0.1, 0.03, 0.8]) plt.colorbar(sc, cax=cax) Also, you make take a look at the axes_grid1 toolkit. (see e.g, http://matplotlib.sourceforge.net/examples/axes_grid/demo_axes_grid.html) 2) is there a way to place the colorbar in the bottom middle of my panels (if I end up with more than one)? Use loc=8. 3) How can I customize the tick labels of the colorbar? You may use set_ticks and set_ticklabels method of the colorbar object. cb = plt.colorbar(a.collections[0],cax=ia,orientation='horizontal') cb.set_ticks([-100,0,100]) cb.set_ticklabels([-100, 0, +100]) Also, locators and formatter can be specified during colorbar creation (take a look at the doc). -JJ -- Beautiful is writing same markup. Internet Explorer 9 supports standards for HTML5, CSS3, SVG 1.1, ECMAScript5, and DOM L2 L3. Spend less time writing and rewriting code and more time creating great experiences on the web. Be a part of the beta today http://p.sf.net/sfu/msIE9-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar uncentered plots
On Tue, Sep 28, 2010 at 10:56 PM, Philip Vetter
pv+matplot...@math.duke.edupv%2bmatplot...@math.duke.edu
wrote:
Hello! see below for sample code.
(1) I find that the second subplot is shifted to the right.
This seems to happen generally with colorbar. How do I fix it?
(2) is there a way to clear/remove selected parts of the figure?
I am using ipython for interactive figure drawing
I find clf() will erase everything, cla() will empty the square plot,
but I can't see how to clear the first subfigure or the colorbar.
This would be useful as any changes to the colorbar create a new one.
(uncomment the second cbar line to see this)
(3) is it possible to modify the orientation of cbar once drawn?
cbar.orientation ='horizontal'
plt.draw()
plt.show()
leaves it unchanged.
Thank you for your help!
Here is my code: ==
#!/usr/bin/env python
import matplotlib.pyplot as plt
import numpy as np
from time import sleep
x = np.arange(0, 10, 0.2)
y = np.sin(x)
fig = plt.figure()
ax1 = fig.add_subplot(211)
cax1 = ax1.plot(x, y)
ax2 = fig.add_subplot(212)
A = np.random.random_integers(0, 10, 100).reshape(10, 10)
cax2 = ax2.imshow(A, interpolation=nearest,vmin=-1,vmax=11 )
cbar = fig.colorbar(cax2)
#cbar = fig.colorbar(cax2, ticks=[0, 5, 10])
plt.savefig('colorbartest.pdf')
==
--
Philip,
Typically, when creating a colorbar, matplotlib steals some space from a
particular axes. This is fine for single plots, but it looks atrocious when
doing subplots. Instead, what you want is axes_grid1
http://matplotlib.sourceforge.net/mpl_toolkits/axes_grid/
(note, if you have a version earlier than 1.0.0, then it is called
axes_grid and it is a little bit different)
With this, you can specify a bunch of layout options ahead of time and get
an object with all of the axes you need. In particular, I think you want to
look at
http://matplotlib.sourceforge.net/plot_directive/mpl_toolkits/axes_grid/examples/demo_axes_grid.py
A quick note to clear up typical confusion in that demo... You can still use
subplots and embed an AxesGrid within a subplot region (although, I find
this unnecessary). For this reason, the linked demo has three subplots in a
single figure, and each of those subplots have four subplots. Therefore,
when creating each AxesGrid, one needs to specify the subplot coordinates
such as 131, 132, 133, but you can simply use 111 if you want AxesGrid to
handle all of your subplotting.
To address one of your other questions, you can easily specify the
orientation of your colorbar to be horizontal or vertical.
I hope that helps!
Ben Root
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Re: [Matplotlib-users] colorbar questions ...
Hi Ben,
Thanks for your reply it sure helps.
My awkward work around until now was to put before the colorbar:
matplotlib.rc('axes',edgecolor='w')
and the return it to
matplotlib.rc('axes',edgecolor='k').
Does some one knows how to increase the distance between the color bar and
the X-axis ?
Now I noticed that the color bar hides the xlabel
Thanks again,
Oz
I agree, Colorbar isn't the most elegant of objects and is probably due for
some improvements. I am sure there is probably a better way to do what you
have done, but I am not familiar with it. Anyway, to get rid of the box
around the colorbar, the colorbar object has a member attribute called
outline which you can set_visible(False).
a = plt.colorbar()
a.outline.set_visible(False)
Should do the trick for that part.
I hope this helps!
Ben Root
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Re: [Matplotlib-users] colorbar questions ...
On Sat, Sep 11, 2010 at 2:10 PM, Oz Nahum nahu...@gmail.com wrote:
Hi Everyone again,
So, with the weekend comes some time to think and I found an answer to
another question of mine.
I know now how to remove xticks in colorbar, and I also know how to
customize the widths of the lines in the color bar.
import matplotlib
import numpy as np
import matplotlib.cm as cm
import matplotlib.mlab as mlab
import matplotlib.pyplot as plt
from pylab import *
matplotlib.rcParams['xtick.direction'] = 'out'
matplotlib.rcParams['ytick.direction'] = 'out'
delta = 0.025
x = np.arange(-3.0, 3.0, delta)
y = np.arange(-2.0, 2.0, delta)
X, Y = np.meshgrid(x, y)
Z1 = mlab.bivariate_normal(X, Y, 1.0, 1.0, 0.0, 0.0)
Z2 = mlab.bivariate_normal(X, Y, 1.5, 0.5, 1, 1)
# difference of Gaussians
Z = 10.0 * (Z2 - Z1)
# Create a simple contour plot with labels using default colors. The
# inline argument to clabel will control whether the labels are draw
# over the line segments of the contour, removing the lines beneath
# the label
plt.figure()
CS = plt.contour(X, Y, Z)
plt.clabel(CS, inline=1, fontsize=10,inlinespacing=50)
a=plt.colorbar()
ticks = a.ax.get_xticklines()
lines = a.ax.get_ygridlines()
children=a.ax.get_children()
children=a.ax.get_children()
children[4].set_linewidths([12,12,12,12,12,12])
for tick in ticks:
setp(tick, [])
plt.title('Customize colorbar')
I hope someone finds that useful. And someone is still following my
monologue, my question, how to remove the axes around the colorbar, or at
least changed the to be non-visible, still stands...
Thanks,
Oz
Oz,
I agree, Colorbar isn't the most elegant of objects and is probably due for
some improvements. I am sure there is probably a better way to do what you
have done, but I am not familiar with it. Anyway, to get rid of the box
around the colorbar, the colorbar object has a member attribute called
outline which you can set_visible(False).
a = plt.colorbar()
a.outline.set_visible(False)
Should do the trick for that part.
I hope this helps!
Ben Root
--
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Re: [Matplotlib-users] colorbar questions ...
On 9/11/2010 3:10 PM, Oz Nahum wrote: my question, how to remove the axes around the colorbar, or at least changed the to be non-visible, still stands... Did you resolve this? Alan Isaac -- Start uncovering the many advantages of virtual appliances and start using them to simplify application deployment and accelerate your shift to cloud computing http://p.sf.net/sfu/novell-sfdev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar questions ...
Hi Everyone again,
So, with the weekend comes some time to think and I found an answer to
another question of mine.
I know now how to remove xticks in colorbar, and I also know how to
customize the widths of the lines in the color bar.
import matplotlib
import numpy as np
import matplotlib.cm as cm
import matplotlib.mlab as mlab
import matplotlib.pyplot as plt
from pylab import *
matplotlib.rcParams['xtick.direction'] = 'out'
matplotlib.rcParams['ytick.direction'] = 'out'
delta = 0.025
x = np.arange(-3.0, 3.0, delta)
y = np.arange(-2.0, 2.0, delta)
X, Y = np.meshgrid(x, y)
Z1 = mlab.bivariate_normal(X, Y, 1.0, 1.0, 0.0, 0.0)
Z2 = mlab.bivariate_normal(X, Y, 1.5, 0.5, 1, 1)
# difference of Gaussians
Z = 10.0 * (Z2 - Z1)
# Create a simple contour plot with labels using default colors. The
# inline argument to clabel will control whether the labels are draw
# over the line segments of the contour, removing the lines beneath
# the label
plt.figure()
CS = plt.contour(X, Y, Z)
plt.clabel(CS, inline=1, fontsize=10,inlinespacing=50)
a=plt.colorbar()
ticks = a.ax.get_xticklines()
lines = a.ax.get_ygridlines()
children=a.ax.get_children()
children=a.ax.get_children()
children[4].set_linewidths([12,12,12,12,12,12])
for tick in ticks:
setp(tick, [])
plt.title('Customize colorbar')
I hope someone finds that useful. And someone is still following my
monologue, my question, how to remove the axes around the colorbar, or at
least changed the to be non-visible, still stands...
Thanks,
Oz
--
Oz Nahum
Graduate Student
Zentrum für Angewandte Geologie
Universität Tübingen
---
Imagine there's no countries
it isn't hard to do
Nothing to kill or die for
And no religion too
Imagine all the people
Living life in peace
--
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Re: [Matplotlib-users] Colorbar labeling
2010/8/20 Bruce Ford br...@clearscienceinc.com: I have a grid with values ranging from exactly 0.0 and 100.0. When I plot this with colorbar, the base of the colorbar is labeled -0.0. Is this a default for 0.0...to plot it with as a negative number? Any workarounds? How sure are you that the floating point number underneath has really not set the negative bit? Maybe try to .clip() the grid positions before on the numpy level to (0.0, \infty) where 0 arises from a fresh parse of '0.0' by the interpreter, i.e., a really really zero fp number. To clip, you may also use grid *= (grid 0) or similar things of that fashion. I'm not sure if the mistake is implied my your side of the code, but i just hope this helps maybe. The Locator stuff is not soo easy. Friedrich -- Sell apps to millions through the Intel(R) Atom(Tm) Developer Program Be part of this innovative community and reach millions of netbook users worldwide. Take advantage of special opportunities to increase revenue and speed time-to-market. Join now, and jumpstart your future. http://p.sf.net/sfu/intel-atom-d2d ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labeling
On 08/20/2010 05:29 AM, Bruce Ford wrote: I have a grid with values ranging from exactly 0.0 and 100.0. When I plot this with colorbar, the base of the colorbar is labeled -0.0. Is this a default for 0.0...to plot it with as a negative number? Any workarounds? Would you provide a minimal runnable example, please, and specify what mpl version you are using? It is certainly not intended or usual that 0 be displayed as -0. Eric Bruce --- Bruce W. Ford Clear Science, Inc. -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labeling
This effect is happening within an web app that displays gridded fields from multiple datasets (~4500 lines of code). So I it's tricky to create an example. Although if I use numpy.min(grid) the minimum is 0. So, I think colorbar or matplotlib is interpreting the 0 as -0. (Matplotlib version 0.99.0 RC0) The colorbar call that I'm using is: cbar = pyplot.colorbar(plot,shrink=0.7, format=%1.1f, spacing='proportional',orientation='vertical') cbar.ax.set_ylabel(cbar_label(param,unit)) The function cbar_label is: def cbar_label(param,unit): #Helper function for making colorbar label if param == sig: if unit==1: cbar_label = Feet else: cbar_label = Meters elif param == dir: cbar_label = Radial Direction elif param == per: cbar_label = Seconds elif param[-5:] == _wind: if unit == 3: cbar_label = Kts else: cbar_label = M/S elif param[-4:] == _hgt: if unit == 5: cbar_label = GPFt else: cbar_label = GPM elif param == slp: cbar_label = Millibars elif param == 1000_rh: cbar_label = % elif param == 1000_temp: if unit == 9: cbar_label = Degrees F else: cbar_label = Degrees C else: cbar_label = param return cbar_label If this doesn't offer anything, I'll try to generate a compartmentalized example of the issue. Bruce --- Bruce W. Ford Clear Science, Inc. br...@clearscienceinc.com http://www.ClearScienceInc.com http://www.facebook.com/clearscience http://www.twitter.com/ROVs_rule Phone: (904) 796-8101 Fax: (904) 379-9704 8241 Parkridge Circle N. Jacksonville, FL 32211 Skype: bruce.w.ford --- To schedule a meeting with Bruce, Go to: http://tungle.me/bruceford On Fri, Aug 20, 2010 at 2:06 PM, Eric Firing efir...@hawaii.edu wrote: On 08/20/2010 05:29 AM, Bruce Ford wrote: I have a grid with values ranging from exactly 0.0 and 100.0. When I plot this with colorbar, the base of the colorbar is labeled -0.0. Is this a default for 0.0...to plot it with as a negative number? Any workarounds? Would you provide a minimal runnable example, please, and specify what mpl version you are using? It is certainly not intended or usual that 0 be displayed as -0. Eric Bruce --- Bruce W. Ford Clear Science, Inc. -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labeling
On 08/20/2010 10:14 AM, Bruce Ford wrote: This effect is happening within an web app that displays gridded fields from multiple datasets (~4500 lines of code). So I it's tricky to create an example. Although if I use numpy.min(grid) the minimum is 0. So, I think colorbar or matplotlib is interpreting the 0 as -0. You are talking about the colorbar tick labels, correct? The lowest tick label is coming out as -0.0? (Matplotlib version 0.99.0 RC0) The colorbar call that I'm using is: cbar = pyplot.colorbar(plot,shrink=0.7, format=%1.1f, spacing='proportional',orientation='vertical') This means your colorbar tick values are simply being formatted by python, like this: In [1]: %1.1f % -0.001 Out[1]: '-0.0' In [2]: %1.1f % 0.001 Out[2]: '0.0' In [3]: %1.1f % 0.0 Out[3]: '0.0' In [4]: %1.1f % -0.0 Out[4]: '-0.0' In [5]: import numpy In [6]: numpy.min(-0.0) Out[6]: -0 In [7]: -0.0 == 0.0 Out[7]: True So I suspect the problem is that a small negative value, or a negative zero, is becoming the tick value. I don't know why. You may or may not want to investigate. I dimly recall a problem like this cropping up on the list before--but I don't remember anything else about it. Here is a workaround (untested, but should be close): from matplotlib.ticker import FormatStrFormatter class MyCBFormatter(FormatStrFormatter): def __call__(self, x, pos=None): xstr = self.fmt % x if float(xstr) == 0: return self.fmt % 0 return xstr cbar = pyplot.colorbar(plot,shrink=0.7, format=MyCBFormatter(%1.1f), spacing='proportional',orientation='vertical') Eric cbar.ax.set_ylabel(cbar_label(param,unit)) The function cbar_label is: def cbar_label(param,unit): #Helper function for making colorbar label if param == sig: if unit==1: cbar_label = Feet else: cbar_label = Meters elif param == dir: cbar_label = Radial Direction elif param == per: cbar_label = Seconds elif param[-5:] == _wind: if unit == 3: cbar_label = Kts else: cbar_label = M/S elif param[-4:] == _hgt: if unit == 5: cbar_label = GPFt else: cbar_label = GPM elif param == slp: cbar_label = Millibars elif param == 1000_rh: cbar_label = % elif param == 1000_temp: if unit == 9: cbar_label = Degrees F else: cbar_label = Degrees C else: cbar_label = param return cbar_label If this doesn't offer anything, I'll try to generate a compartmentalized example of the issue. Bruce -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labeling
Thanks I'll give this a try. numpy.min(grid) reports 0.0 (no negative) yet it labels as -0.0, BTW, but let me give this a try. Bruce --- Bruce W. Ford Clear Science, Inc. br...@clearscienceinc.com http://www.ClearScienceInc.com http://www.facebook.com/clearscience http://www.twitter.com/ROVs_rule Phone: (904) 796-8101 Fax: (904) 379-9704 8241 Parkridge Circle N. Jacksonville, FL 32211 Skype: bruce.w.ford --- To schedule a meeting with Bruce, Go to: http://tungle.me/bruceford On Fri, Aug 20, 2010 at 4:44 PM, Eric Firing efir...@hawaii.edu wrote: On 08/20/2010 10:14 AM, Bruce Ford wrote: This effect is happening within an web app that displays gridded fields from multiple datasets (~4500 lines of code). So I it's tricky to create an example. Although if I use numpy.min(grid) the minimum is 0. So, I think colorbar or matplotlib is interpreting the 0 as -0. You are talking about the colorbar tick labels, correct? The lowest tick label is coming out as -0.0? (Matplotlib version 0.99.0 RC0) The colorbar call that I'm using is: cbar = pyplot.colorbar(plot,shrink=0.7, format=%1.1f, spacing='proportional',orientation='vertical') This means your colorbar tick values are simply being formatted by python, like this: In [1]: %1.1f % -0.001 Out[1]: '-0.0' In [2]: %1.1f % 0.001 Out[2]: '0.0' In [3]: %1.1f % 0.0 Out[3]: '0.0' In [4]: %1.1f % -0.0 Out[4]: '-0.0' In [5]: import numpy In [6]: numpy.min(-0.0) Out[6]: -0 In [7]: -0.0 == 0.0 Out[7]: True So I suspect the problem is that a small negative value, or a negative zero, is becoming the tick value. I don't know why. You may or may not want to investigate. I dimly recall a problem like this cropping up on the list before--but I don't remember anything else about it. Here is a workaround (untested, but should be close): from matplotlib.ticker import FormatStrFormatter class MyCBFormatter(FormatStrFormatter): def __call__(self, x, pos=None): xstr = self.fmt % x if float(xstr) == 0: return self.fmt % 0 return xstr cbar = pyplot.colorbar(plot,shrink=0.7, format=MyCBFormatter(%1.1f), spacing='proportional',orientation='vertical') Eric cbar.ax.set_ylabel(cbar_label(param,unit)) The function cbar_label is: def cbar_label(param,unit): #Helper function for making colorbar label if param == sig: if unit==1: cbar_label = Feet else: cbar_label = Meters elif param == dir: cbar_label = Radial Direction elif param == per: cbar_label = Seconds elif param[-5:] == _wind: if unit == 3: cbar_label = Kts else: cbar_label = M/S elif param[-4:] == _hgt: if unit == 5: cbar_label = GPFt else: cbar_label = GPM elif param == slp: cbar_label = Millibars elif param == 1000_rh: cbar_label = % elif param == 1000_temp: if unit == 9: cbar_label = Degrees F else: cbar_label = Degrees C else: cbar_label = param return cbar_label If this doesn't offer anything, I'll try to generate a compartmentalized example of the issue. Bruce -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar labeling
On 08/20/2010 10:51 AM, Bruce Ford wrote: Thanks I'll give this a try. numpy.min(grid) reports 0.0 (no negative) yet it labels as -0.0, BTW, but let me give this a try. Bruce, What matters is not min(grid), but the value of the tick. Unless you are forcing them to be the same via a kwarg (which I don't see), they may differ, as seems to be the case. Unfortunately, this is hard to debug, because there is no way to get at the set of numbers that are being formatted to give the tick labels. Doing something like this: print cbar.cax.get_yticks() will be of no help, because the tick positions are on a 0-1 scale regardless of the values they represent. You can, however, specify the desired tick values as a sequence via the ticks kwarg to colorbar. Ticks in that sequence but outside the actual colorbar range (as set by the clim() function, for example) will not appear. Eric Bruce --- Bruce W. Ford Clear Science, Inc. br...@clearscienceinc.com http://www.ClearScienceInc.com http://www.facebook.com/clearscience http://www.twitter.com/ROVs_rule Phone: (904) 796-8101 Fax: (904) 379-9704 8241 Parkridge Circle N. Jacksonville, FL 32211 Skype: bruce.w.ford --- To schedule a meeting with Bruce, Go to: http://tungle.me/bruceford On Fri, Aug 20, 2010 at 4:44 PM, Eric Firingefir...@hawaii.edu wrote: On 08/20/2010 10:14 AM, Bruce Ford wrote: This effect is happening within an web app that displays gridded fields from multiple datasets (~4500 lines of code). So I it's tricky to create an example. Although if I use numpy.min(grid) the minimum is 0. So, I think colorbar or matplotlib is interpreting the 0 as -0. You are talking about the colorbar tick labels, correct? The lowest tick label is coming out as -0.0? (Matplotlib version 0.99.0 RC0) The colorbar call that I'm using is: cbar = pyplot.colorbar(plot,shrink=0.7, format=%1.1f, spacing='proportional',orientation='vertical') This means your colorbar tick values are simply being formatted by python, like this: In [1]: %1.1f % -0.001 Out[1]: '-0.0' In [2]: %1.1f % 0.001 Out[2]: '0.0' In [3]: %1.1f % 0.0 Out[3]: '0.0' In [4]: %1.1f % -0.0 Out[4]: '-0.0' In [5]: import numpy In [6]: numpy.min(-0.0) Out[6]: -0 In [7]: -0.0 == 0.0 Out[7]: True So I suspect the problem is that a small negative value, or a negative zero, is becoming the tick value. I don't know why. You may or may not want to investigate. I dimly recall a problem like this cropping up on the list before--but I don't remember anything else about it. Here is a workaround (untested, but should be close): from matplotlib.ticker import FormatStrFormatter class MyCBFormatter(FormatStrFormatter): def __call__(self, x, pos=None): xstr = self.fmt % x if float(xstr) == 0: return self.fmt % 0 return xstr cbar = pyplot.colorbar(plot,shrink=0.7, format=MyCBFormatter(%1.1f), spacing='proportional',orientation='vertical') Eric cbar.ax.set_ylabel(cbar_label(param,unit)) The function cbar_label is: def cbar_label(param,unit): #Helper function for making colorbar label if param == sig: if unit==1: cbar_label = Feet else: cbar_label = Meters elif param == dir: cbar_label = Radial Direction elif param == per: cbar_label = Seconds elif param[-5:] == _wind: if unit == 3: cbar_label = Kts else: cbar_label = M/S elif param[-4:] == _hgt: if unit == 5: cbar_label = GPFt else: cbar_label = GPM elif param == slp: cbar_label = Millibars elif param == 1000_rh: cbar_label = % elif param == 1000_temp: if unit == 9: cbar_label = Degrees F else: cbar_label = Degrees C else: cbar_label = param return cbar_label If this doesn't offer anything, I'll try to generate a compartmentalized example of the issue. Bruce -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by Make an app they can't live without Enter the BlackBerry Developer Challenge http://p.sf.net/sfu/RIM-dev2dev ___ Matplotlib-users mailing
Re: [Matplotlib-users] colorbar rescaling
Hi Friedrich, thanks a lot, that was exactly what I was looking for... Alex On Mon, Jun 28, 2010 at 23:00, Friedrich Romstedt friedrichromst...@gmail.com wrote: 2010/6/28 Alexander Dietz alexanderdie...@googlemail.com: I have a plot, to which I am drawing a colorbar. The standard colorbar ranges from the values -1 (blue) over 0 (green) to e.g. 1(red). So far so good. But now I want to change the colorbar that it shows only the colors between 0 and 1. What I mean is: the colorbar should start at value 0 (with green) and go to 1(red), and leave the original plot unchanged. Ah, it wasn't that easy (for me). Friedrich -- This SF.net email is sponsored by Sprint What will you do first with EVO, the first 4G phone? Visit sprint.com/first -- http://p.sf.net/sfu/sprint-com-first___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar rescaling
2010/6/28 Alexander Dietz alexanderdie...@googlemail.com: I have a plot, to which I am drawing a colorbar. The standard colorbar ranges from the values -1 (blue) over 0 (green) to e.g. 1(red). So far so good. But now I want to change the colorbar that it shows only the colors between 0 and 1. What I mean is: the colorbar should start at value 0 (with green) and go to 1(red), and leave the original plot unchanged. Ah, it wasn't that easy (for me). Friedrich help.py Description: Binary data -- This SF.net email is sponsored by Sprint What will you do first with EVO, the first 4G phone? Visit sprint.com/first -- http://p.sf.net/sfu/sprint-com-first___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar and logscale
Benoit,
Is there any particular reason why you can't do a log10() of the data that
is being pcolor()'d and then label the colorbar as having units of dB? That
would seem to be the most straight-forward approach to me.
Ben Root
2010/6/24 Benoit Donnet benoit.don...@uclouvain.be
Hi guys,
I'm struggling with colorbar since this morning. I'd like the colorbar
being logscale
I'm experimenting some strange behavior with the colorbar as some 'labels'
appear several times. For instance, 10^0 appears three times, 10^1 appears
also three times, and so on. I believe the exponent is the digit of the
float, while I'd like to see the exponent (of the scientific notation)
I attach a png of the plot
Here is my code:
k,m,fp = np.loadtxt(file, unpack=True)
ki = linspace(k.min(), k.max(), 37)
mi = linspace(m.min(), m.max(), 37)
Z = griddata(k, m, fp, ki, mi)
Z.shape
K, M = meshgrid(ki, mi)
pcolor(K, M, log10(Z))#, cmap=cm.gray)
cbar = colorbar(format=FormatStrFormatter('$10^{%d}$'))
semilogy()
axis([1,20,1,50], font2)
xlabel(r'\textrm{\# hash functions ($k$)}', font)
ylabel(r'\textrm{vector size ($m$)}', font)
cbar.ax.set_ylabel(r'$f_p$', font)
I obviously suspect my code is flawed somewhere but I can't figure out
where. i have tested several format for the colorbar, like
LogFormatterMathText, but it does not solve my problem.
I would appreciate any kind of help. Thanks in advance
Keep on Rockin'
Benoit
---
Dr. Benoit Donnet
Université catholique de Louvain (UCL)
Ecole Polytechnique de Louvain (EPL) - Département d'Ingénierie
Informatique (INGI)
Place Sainte Barbe, 2
B-1348 Louvain-la-Neuve
Phone: +32 10 47 87 18
Fax: +32 10 45 03 45
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Re: [Matplotlib-users] colorbar and logscale
Hello Benjamin,
Thanks for your reply.
Is there any particular reason why you can't do a log10() of the data that is
being pcolor()'d and then label the colorbar as having units of dB? That
would seem to be the most straight-forward approach to me.
That's what I first tested.
In that case, labels on the colorbar are the following (i don't attach the plot
to avoid spamming the entire mailing-list): 0.0, -0.4, -0.8, -1.2, -1.6, ...,
-3.6). It does not mean anything :s
Benoit
Ben Root
2010/6/24 Benoit Donnet benoit.don...@uclouvain.be
Hi guys,
I'm struggling with colorbar since this morning. I'd like the colorbar being
logscale
I'm experimenting some strange behavior with the colorbar as some 'labels'
appear several times. For instance, 10^0 appears three times, 10^1 appears
also three times, and so on. I believe the exponent is the digit of the
float, while I'd like to see the exponent (of the scientific notation)
I attach a png of the plot
Here is my code:
k,m,fp = np.loadtxt(file, unpack=True)
ki = linspace(k.min(), k.max(), 37)
mi = linspace(m.min(), m.max(), 37)
Z = griddata(k, m, fp, ki, mi)
Z.shape
K, M = meshgrid(ki, mi)
pcolor(K, M, log10(Z))#, cmap=cm.gray)
cbar = colorbar(format=FormatStrFormatter('$10^{%d}$'))
semilogy()
axis([1,20,1,50], font2)
xlabel(r'\textrm{\# hash functions ($k$)}', font)
ylabel(r'\textrm{vector size ($m$)}', font)
cbar.ax.set_ylabel(r'$f_p$', font)
I obviously suspect my code is flawed somewhere but I can't figure out where.
i have tested several format for the colorbar, like LogFormatterMathText,
but it does not solve my problem.
I would appreciate any kind of help. Thanks in advance
Keep on Rockin'
Benoit
---
Dr. Benoit Donnet
Université catholique de Louvain (UCL)
Ecole Polytechnique de Louvain (EPL) - Département d'Ingénierie Informatique
(INGI)
Place Sainte Barbe, 2
B-1348 Louvain-la-Neuve
Phone: +32 10 47 87 18
Fax: +32 10 45 03 45
--
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
___
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---
Dr. Benoit Donnet
Université catholique de Louvain (UCL)
Ecole Polytechnique de Louvain (EPL) - Département d'Ingénierie Informatique
(INGI)
Place Sainte Barbe, 2
B-1348 Louvain-la-Neuve
Phone: +32 10 47 87 18
Fax: +32 10 45 03 45
--
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
Matplotlib-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar and logscale
Ah, I just noticed that.
Actually, I think I just figured out what is happening. The colorbar
automatically chooses what values to display, and in your case, the values
are 0.0, -0.4, -0.8, -1.2, -1.6, ..., -3.6, which when turned into integers
are 0, 0, 0, -1, -1, ..., -3, which matches what your first plot had. All
we have to do is specify the values that the colorbar should list. I am not
very familiar with this aspect, but it has something to do with specifying
your colormap and/or the normalizer.
Does anybody know of a good tutorial on creating colormaps and normalizers?
Ben Root
On Thu, Jun 24, 2010 at 8:53 AM, Benoit Donnet
benoit.don...@uclouvain.bewrote:
Hello Benjamin,
Thanks for your reply.
Is there any particular reason why you can't do a log10() of the data that
is being pcolor()'d and then label the colorbar as having units of dB? That
would seem to be the most straight-forward approach to me.
That's what I first tested.
In that case, labels on the colorbar are the following (i don't attach the
plot to avoid spamming the entire mailing-list): 0.0, -0.4, -0.8, -1.2,
-1.6, ..., -3.6). It does not mean anything :s
Benoit
Ben Root
2010/6/24 Benoit Donnet benoit.don...@uclouvain.be
Hi guys,
I'm struggling with colorbar since this morning. I'd like the colorbar
being logscale
I'm experimenting some strange behavior with the colorbar as some 'labels'
appear several times. For instance, 10^0 appears three times, 10^1 appears
also three times, and so on. I believe the exponent is the digit of the
float, while I'd like to see the exponent (of the scientific notation)
I attach a png of the plot
Here is my code:
k,m,fp = np.loadtxt(file, unpack=True)
ki = linspace(k.min(), k.max(), 37)
mi = linspace(m.min(), m.max(), 37)
Z = griddata(k, m, fp, ki, mi)
Z.shape
K, M = meshgrid(ki, mi)
pcolor(K, M, log10(Z))#, cmap=cm.gray)
cbar = colorbar(format=FormatStrFormatter('$10^{%d}$'))
semilogy()
axis([1,20,1,50], font2)
xlabel(r'\textrm{\# hash functions ($k$)}', font)
ylabel(r'\textrm{vector size ($m$)}', font)
cbar.ax.set_ylabel(r'$f_p$', font)
I obviously suspect my code is flawed somewhere but I can't figure out
where. i have tested several format for the colorbar, like
LogFormatterMathText, but it does not solve my problem.
I would appreciate any kind of help. Thanks in advance
Keep on Rockin'
Benoit
---
Dr. Benoit Donnet
Université catholique de Louvain (UCL)
Ecole Polytechnique de Louvain (EPL) - Département d'Ingénierie
Informatique (INGI)
Place Sainte Barbe, 2
B-1348 Louvain-la-Neuve
Phone: +32 10 47 87 18
Fax: +32 10 45 03 45
--
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
Matplotlib-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/matplotlib-users
---
Dr. Benoit Donnet
Université catholique de Louvain (UCL)
Ecole Polytechnique de Louvain (EPL) - Département d'Ingénierie
Informatique (INGI)
Place Sainte Barbe, 2
B-1348 Louvain-la-Neuve
Phone: +32 10 47 87 18
Fax: +32 10 45 03 45
--
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
Matplotlib-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar and logscale
On 06/24/2010 04:03 AM, Benjamin Root wrote:
Ah, I just noticed that.
Actually, I think I just figured out what is happening. The colorbar
automatically chooses what values to display, and in your case, the
values are 0.0, -0.4, -0.8, -1.2, -1.6, ..., -3.6, which when turned
into integers are 0, 0, 0, -1, -1, ..., -3, which matches what your
Right, good eye!
first plot had. All we have to do is specify the values that the
colorbar should list. I am not very familiar with this aspect, but it
has something to do with specifying your colormap and/or the normalizer.
The tick locations can be specified via the ticks kwarg to colorbar.
From the docstring:
*ticks* [ None | list of ticks | Locator object ]
If None, ticks are determined automatically from the
input.
*format* [ None | format string | Formatter object ]
If None, the
:class:`~matplotlib.ticker.ScalarFormatter` is used.
If a format string is given, e.g. '%.3f', that is
used. An alternative
:class:`~matplotlib.ticker.Formatter` object may be
given instead.
The OP may also wish to specify the range of the colormap via the vmin
and vmax kwargs to pcolor (note that everything to do with the colormap
and the norm is specified in pcolor, not in the call to colorbar.
The OP probably does not need to specify both the formatter and the
ticker. If it is certain that the range of values will be substantially
geater than one, and integer tick values are desired, then try this:
int_ticker = MaxNLocator(nbins=6, integer=True)
cbar = colorbar(ticks=int_ticker)
nbins is the maximum number of intervals (one less than the max number
of ticks).
The default formatter will print integers as integers, so no custom
formatter is needed. Specifying a custom format or formatter is risky
because, as illustrated by your diagnosis of the OP's original problem,
it can easily lead to labels that are not accurate representations of
the tick values.
Does anybody know of a good tutorial on creating colormaps and normalizers?
Custom norms are rare, and I don't think there is much in the way of
documentation or examples. The code in ticker.py is probably the best
starting place for learning about customizing norms; it includes
subclasses of Normalize. Colormaps are illustrated fairly well in the
examples. See the second example in
http://matplotlib.sourceforge.net/examples/pylab_examples/contourf_demo.html
for ListedColormap, see
http://matplotlib.sourceforge.net/examples/pylab_examples/contourf_demo.html
for examples of how to use the somewhat complicated
LinearSegmentedColormap to generate a custom map, and
http://matplotlib.sourceforge.net/examples/pylab_examples/show_colormaps.html
for a view of built-in colormaps.
Eric
Ben Root
On Thu, Jun 24, 2010 at 8:53 AM, Benoit Donnet
benoit.don...@uclouvain.be mailto:benoit.don...@uclouvain.be wrote:
Hello Benjamin,
Thanks for your reply.
Is there any particular reason why you can't do a log10() of the
data that is being pcolor()'d and then label the colorbar as
having units of dB? That would seem to be the most
straight-forward approach to me.
That's what I first tested.
In that case, labels on the colorbar are the following (i don't
attach the plot to avoid spamming the entire mailing-list): 0.0,
-0.4, -0.8, -1.2, -1.6, ..., -3.6). It does not mean anything :s
Benoit
Ben Root
2010/6/24 Benoit Donnet benoit.don...@uclouvain.be
mailto:benoit.don...@uclouvain.be
Hi guys,
I'm struggling with colorbar since this morning. I'd like the
colorbar being logscale
I'm experimenting some strange behavior with the colorbar as
some 'labels' appear several times. For instance, 10^0
appears three times, 10^1 appears also three times, and so on.
I believe the exponent is the digit of the float, while I'd
like to see the exponent (of the scientific notation)
I attach a png of the plot
Here is my code:
k,m,fp = np.loadtxt(file, unpack=True)
ki = linspace(k.min(), k.max(), 37)
mi = linspace(m.min(), m.max(), 37)
Z = griddata(k, m, fp, ki, mi)
Z.shape
K, M = meshgrid(ki, mi)
pcolor(K, M, log10(Z))#, cmap=cm.gray)
cbar = colorbar(format=FormatStrFormatter('$10^{%d}$'))
semilogy()
axis([1,20,1,50], font2)
xlabel(r'\textrm{\# hash functions ($k$)}', font)
ylabel(r'\textrm{vector size ($m$)}', font)
cbar.ax.set_ylabel(r'$f_p$', font)
I obviously suspect my code is flawed somewhere but I can't
figure out where. i have tested several format for the
colorbar, like
Re: [Matplotlib-users] colorbar+log+latex
Ok, great, it works ! However, I do not understand why latex mode is disabled by default... Anyway, thanks a lot, yves Jae-Joon Lee wrote: I'm not sure if the default formatter needs to be changed. However, you may try import matplotlib.ticker as ticker formatter=ticker.LogFormatterMathtext() colorbar(format=formatter) which will render colorbar ticklabels with mathtext mode. Regards, -JJ On Fri, Apr 16, 2010 at 3:56 AM, Yves Revaz yves.re...@epfl.ch wrote: Dear list, I want to plot colored points using scatter, with the color of points corresponding to the log of the z value of the points. the corresponding scatter command is : scatter(x,y,c=z,norm=colors.LogNorm()) unfortunately, then I then draw a colorbar simply calling colorbar() the fonts used for the color bar is no longer in latex mode, as it was if I use a lin scale in scatter(), i.e., norm=None. Is it a bug ? Any solution ? Thanks, yves -- (o o) oOO--(_)--OOo--- Dr. Yves Revaz Laboratory of Astrophysics EPFL Observatoire de Sauverny Tel : ++ 41 22 379 24 28 51. Ch. des Maillettes Fax : ++ 41 22 379 22 05 1290 Sauverny e-mail : yves.re...@epfl.ch SWITZERLAND Web : http://www.lunix.ch/revaz/ -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- (o o) oOO--(_)--OOo--- Dr. Yves Revaz Laboratory of Astrophysics EPFL Observatoire de Sauverny Tel : ++ 41 22 379 24 28 51. Ch. des Maillettes Fax : ++ 41 22 379 22 05 1290 Sauverny e-mail : yves.re...@epfl.ch SWITZERLAND Web : http://www.lunix.ch/revaz/ -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar+log+latex
I'm not sure if the default formatter needs to be changed. However, you may try import matplotlib.ticker as ticker formatter=ticker.LogFormatterMathtext() colorbar(format=formatter) which will render colorbar ticklabels with mathtext mode. Regards, -JJ On Fri, Apr 16, 2010 at 3:56 AM, Yves Revaz yves.re...@epfl.ch wrote: Dear list, I want to plot colored points using scatter, with the color of points corresponding to the log of the z value of the points. the corresponding scatter command is : scatter(x,y,c=z,norm=colors.LogNorm()) unfortunately, then I then draw a colorbar simply calling colorbar() the fonts used for the color bar is no longer in latex mode, as it was if I use a lin scale in scatter(), i.e., norm=None. Is it a bug ? Any solution ? Thanks, yves -- (o o) oOO--(_)--OOo--- Dr. Yves Revaz Laboratory of Astrophysics EPFL Observatoire de Sauverny Tel : ++ 41 22 379 24 28 51. Ch. des Maillettes Fax : ++ 41 22 379 22 05 1290 Sauverny e-mail : yves.re...@epfl.ch SWITZERLAND Web : http://www.lunix.ch/revaz/ -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar() and plt.title()
Hi,
I've got two questions:
1) one is related to colorbar() on multiple subfigures (see code example
below): how do I add a scatterplot if I wanted multiple subfigures? Or, what am
I doing wrong in the second code example
2) in either of the examples, how can I increase the distance between the top
of the plot (imshow) and the bottom of the title?
# code example 1: this works
fig = plt.figure()
plt.title('Hello')
plt.imshow(interpolValsRas, cmap=cm.jet, interpolation='nearest', origin =
'lower', extent=[5,95,5,95]) # ,
plt.scatter(measurementLoc[:,0], measurementLoc[:,1], 10, messwerte,
cmap=cm.jet)
plt.colorbar();
# code example 2: this works generally, but only if the second last line is
commented out
# Q: how do I add a scatterplot if I wanted multiple subfigures?
fig = plt.figure()
ax = fig.add_subplot(111)
plt.title('Hello')
ax.imshow(interpolValsRas, cmap=cm.jet, interpolation='nearest', origin =
'lower', extent=[5,95,5,95]) # ,
ax.scatter(measurementLoc[:,0], measurementLoc[:,1], 10, messwerte, cmap=cm.jet)
# plt.colorbar();
plt.show()
Thanks for your help,
Claus
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Re: [Matplotlib-users] colorbar() and plt.title()
Try this:
from pylab import *
from numpy import *
Z = random.randn(100,100)
figure()
subplot(1,2,1)
imgHandle = imshow(Z, cmap=cm.gray)
scatter(random.rand(10)*100,random.rand(10)*100)
colorbar(imgHandle)
title('Hello')
show()
By the way, I find jet a bad colormap to represent scientific data: it
suggests bands in the data that aren't there and when reduced to
luminance (eg. students printing/copying in black/white or in the eyes
of all your colorblind colleagues) the two halves of the scale are
identical, rendering all graphs completely ambiguous. ;)
Claus wrote:
Hi,
I've got two questions:
1) one is related to colorbar() on multiple subfigures (see code example
below): how do I add a scatterplot if I wanted multiple subfigures? Or, what
am I doing wrong in the second code example
2) in either of the examples, how can I increase the distance between the top
of the plot (imshow) and the bottom of the title?
# code example 1: this works
fig = plt.figure()
plt.title('Hello')
plt.imshow(interpolValsRas, cmap=cm.jet, interpolation='nearest', origin =
'lower', extent=[5,95,5,95]) # ,
plt.scatter(measurementLoc[:,0], measurementLoc[:,1], 10, messwerte,
cmap=cm.jet)
plt.colorbar();
# code example 2: this works generally, but only if the second last line is
commented out
# Q: how do I add a scatterplot if I wanted multiple subfigures?
fig = plt.figure()
ax = fig.add_subplot(111)
plt.title('Hello')
ax.imshow(interpolValsRas, cmap=cm.jet, interpolation='nearest', origin =
'lower', extent=[5,95,5,95]) # ,
ax.scatter(measurementLoc[:,0], measurementLoc[:,1], 10, messwerte,
cmap=cm.jet)
# plt.colorbar();
plt.show()
Thanks for your help,
Claus
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Re: [Matplotlib-users] colorbar on LEFT side of figure ?
Jim Vickroy wrote: Hi, I have been unable to place a colorbar on the LEFT side of a figure. For example, in the Gaussian noise with vertical colorbar http://matplotlib.sourceforge.net/examples/pylab_examples/colorbar_tick_labelling_demo.html demo, how can the colorbar be positioned on the left side of the figure. Thanks, -- jv Create your own axes instance for the colorbar (as in http://matplotlib.sourceforge.net/examples/pylab_examples/multi_image.html). -Jeff -- Jeffrey S. Whitaker Phone : (303)497-6313 Meteorologist FAX: (303)497-6449 NOAA/OAR/PSD R/PSD1Email : jeffrey.s.whita...@noaa.gov 325 BroadwayOffice : Skaggs Research Cntr 1D-113 Boulder, CO, USA 80303-3328 Web: http://tinyurl.com/5telg -- Download Intel#174; Parallel Studio Eval Try the new software tools for yourself. Speed compiling, find bugs proactively, and fine-tune applications for parallel performance. See why Intel Parallel Studio got high marks during beta. http://p.sf.net/sfu/intel-sw-dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar with date-time formatting
Colorbar axes is a rather special and things need to be set during the
initialization.
Here is a slightly modified version of your script.
While it does not produces error, I'm not sure if the result is correct.
-JJ
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.dates import DateFormatter,DayLocator
from matplotlib import cm
data = np.arange(24.)+70.
x = np.random.rand(24)
y = np.random.rand(24)
fig = plt.figure()
ax = fig.add_subplot(111)
smap = ax.scatter(x,y,s=10,c=data,edgecolors='none',marker='o',cmap=cm.jet)
cb = fig.colorbar(smap,orientation='horizontal',shrink=0.7,
ticks=DayLocator(interval=5),
format=DateFormatter('%b %d'))
plt.show()
On Thu, Jan 14, 2010 at 3:04 PM, George Nurser gnur...@googlemail.com wrote:
Hi,
I've got data in terms of day numbers, and wish to plot it as a 2D
scatter plot, with the color denoting the day.
I'd like the colorbar to be annotated in Apr 7 type format...
I've tried the following code without success.
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.dates import DateFormatter,DayLocator
from matplotlib import cm
data = np.arange(24.)+70.
x = np.random.rand(24)
y = np.random.rand(24)
fig = plt.figure()
ax = fig.add_subplot(111)
smap = ax.scatter(x,y,s=10,c=data,edgecolors='none',marker='o',cmap=cm.jet)
cb = fig.colorbar(smap,orientation='horizontal',shrink=0.7)
cax=cb.ax
cax.xaxis_date()
cax.xaxis.set_major_locator(DayLocator())
cax.xaxis.set_major_formatter(DateFormatter('%b %d'))
plt.show()
Any ideas on how to do this would be appreciated.
George Nurser.
The code fails with the trace
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/backends/backend_wx.pyc
in _onPaint(self, evt)
1154 drawDC = wx.PaintDC(self)
1155 if not self._isDrawn:
- 1156 self.draw(drawDC=drawDC)
1157 else:
1158 self.gui_repaint(drawDC=drawDC)
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/backends/backend_wxagg.pyc
in draw(self, drawDC)
57
58 DEBUG_MSG(draw(), 1, self)
--- 59 FigureCanvasAgg.draw(self)
60
61 self.bitmap =
_convert_agg_to_wx_bitmap(self.get_renderer(), None)
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/backends/backend_agg.pyc
in draw(self)
386
387 self.renderer = self.get_renderer()
-- 388 self.figure.draw(self.renderer)
389
390 def get_renderer(self):
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/artist.pyc
in draw_wrapper(artist, renderer, *kl)
53 def draw_wrapper(artist, renderer, *kl):
54 before(artist, renderer)
--- 55 draw(artist, renderer, *kl)
56 after(artist, renderer)
57
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/figure.pyc
in draw(self, renderer)
770
771 # render the axes
-- 772 for a in self.axes: a.draw(renderer)
773
774 # render the figure text
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/artist.pyc
in draw_wrapper(artist, renderer, *kl)
53 def draw_wrapper(artist, renderer, *kl):
54 before(artist, renderer)
--- 55 draw(artist, renderer, *kl)
56 after(artist, renderer)
57
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/axes.pyc
in draw(self, renderer, inframe)
1759
1760 for zorder, i, a in dsu:
- 1761 a.draw(renderer)
1762
1763 renderer.close_group('axes')
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/artist.pyc
in draw_wrapper(artist, renderer, *kl)
53 def draw_wrapper(artist, renderer, *kl):
54 before(artist, renderer)
--- 55 draw(artist, renderer, *kl)
56 after(artist, renderer)
57
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/axis.pyc
in draw(self, renderer, *args, **kwargs)
747 renderer.open_group(__name__)
748 interval = self.get_view_interval()
-- 749 for tick, loc, label in self.iter_ticks():
750 if tick is None: continue
751 if not mtransforms.interval_contains(interval,
loc): continue
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/matplotlib/axis.pyc
in iter_ticks(self)
688 Iterate through all of the major and minor ticks.
689
-- 690 majorLocs = self.major.locator()
691 majorTicks = self.get_major_ticks(len(majorLocs))
692 self.major.formatter.set_locs(majorLocs)
Re: [Matplotlib-users] Colorbar embedding in qt4
Hi, thanks for having a look at this.
Problem is that a scatter plot doesn't seem to have the option to actually
update the data, or at least I couldn't find it.
Is there maybe a way?
On Thu, Jan 7, 2010 at 2:58 AM, Laurent Dufrechou
laurent.dufrec...@gmail.com wrote:
Hi alexander,
I tryed yesterday to play a little with your script.
I suspect that in fact each time you draw a figure, it is added to a pool
of figure to be rendered.
Thus it goes slower and slower.
What I do in my scritpt is either update the datas or if the drawing is a
completely new one (like a polar ionstaed of log previously) I delete the
figure.
To update data use:
1/self._plot, = axe.plot(x, y, 'b', animated=self._animated)
Later:
Loop:
2/self._plot.set_ydata(self._value)
If you need to delete your figure (that is not your case, but who knows for
the future):
axe = fig.add_axes(self.getPosition())
…
self._fig.delaxes(self._axe)
To go even faster(x10) you have the blitting method, but set_ydata should
be sufficent.
Laurent
*De :* Alexander Hupfer [mailto:son...@gmail.com]
*Envoyé :* jeudi 7 janvier 2010 03:36
*C**c :* matplotlib-users@lists.sourceforge.net
*Objet :* Re: [Matplotlib-users] Colorbar embedding in qt4
I isolated the problem a bit more. For some reason drawing gets slower and
slower with each plot drawn.
from os import sys
from time import time
from PyQt4 import QtGui, QtCore
import matplotlib
matplotlib.use('QT4Agg')
from matplotlib.backends.backend_qt4agg import FigureCanvasQTAgg as
FigureCanvas
from matplotlib.figure import Figure
class MyMplCanvas(FigureCanvas):
Ultimately, this is a QWidget (as well as a FigureCanvasAgg,
etc.).
def __init__(self, parent=None, width=5, height=4, dpi=100):
fig = Figure(figsize=(width, height), dpi=dpi)
self.axes = fig.add_subplot(111)
# We want the axes cleared every time plot() is called
self.axes.hold(False)
self.compute_initial_figure()
#
FigureCanvas.__init__(self, fig)
self.setParent(parent)
FigureCanvas.setSizePolicy(self,
QtGui.QSizePolicy.Expanding,
QtGui.QSizePolicy.Expanding)
FigureCanvas.updateGeometry(self)
def compute_initial_figure(self):
pass
class MyDynamicMplCanvas(MyMplCanvas):
A canvas that updates itself every second with a new plot.
def __init__(self, *args, **kwargs):
MyMplCanvas.__init__(self, *args, **kwargs)
timer = QtCore.QTimer(self)
QtCore.QObject.connect(timer, QtCore.SIGNAL(timeout()),
self.update_figure)
timer.start(0)
self.firstrun = True
self.colorbar = None
self.time = time()
self.p = None
def compute_initial_figure(self):
pass
def update_figure(self):
self.p = self.axes.scatter([1,2,3],[4,5,6], c = range(3),
animated=True)
self.axes.set_xlabel('psi')
self.axes.set_ylabel('delta')
if self.firstrun == True:
self.colorbar = self.axes.figure.colorbar(self.p)
self.firstrun = False
self.colorbar.set_clim(vmin=0,vmax=2)
self.colorbar.draw_all()
self.colorbar.set_label('time [abtr. ]')
self.draw()
newtime = time()
print newtime - self.time
self.time = newtime
class ApplicationWindow(QtGui.QMainWindow):
def __init__(self):
QtGui.QMainWindow.__init__(self)
self.setAttribute(QtCore.Qt.WA_DeleteOnClose)
self.main_widget = QtGui.QWidget(self)
l = QtGui.QVBoxLayout(self.main_widget)
dc = MyDynamicMplCanvas(self.main_widget, width=5, height=4,
dpi=100)
l.addWidget(dc)
self.main_widget.setFocus()
self.setCentralWidget(self.main_widget)
qApp = QtGui.QApplication(sys.argv)
aw = ApplicationWindow()
aw.setWindowTitle(%s % Slow!)
aw.setGeometry(100,100,800,600)
aw.show()
sys.exit(qApp.exec_())
On Mon, Jan 4, 2010 at 3:36 PM, Alexander Hupfer son...@gmail.com wrote:
Ok, here is the code as a whole. I think it's still short enough to
ilustrate the problem. Just start it with the datafile elips as an
argument
http://dl.dropbox.com/u/226980/elipsometry.tar.gz
The timer shows how long each render cycle takes. The time seems to grow
with number of cycles rendered even when no more points are added (the
points are calculated with a continous rate in a background thread and are
about 300 total).
On Sun, Jan 3, 2010 at 8:16 PM, John Hunter jdh2...@gmail.com wrote:
On Sun, Jan 3, 2010 at 7:02 PM, Alexander Hupfer son...@gmail.com wrote:
Thanks I got it fixed.
This leads to the follow up question:
What is the right way to keep an application responsive while the graph
is
drawn?
Drawing a scatter plot with 300 points seems to take a while. I guess I
need
Re: [Matplotlib-users] Colorbar embedding in qt4
Ok, here is the code as a whole. I think it's still short enough to ilustrate the problem. Just start it with the datafile elips as an argument http://dl.dropbox.com/u/226980/elipsometry.tar.gz The timer shows how long each render cycle takes. The time seems to grow with number of cycles rendered even when no more points are added (the points are calculated with a continous rate in a background thread and are about 300 total). On Sun, Jan 3, 2010 at 8:16 PM, John Hunter jdh2...@gmail.com wrote: On Sun, Jan 3, 2010 at 7:02 PM, Alexander Hupfer son...@gmail.com wrote: Thanks I got it fixed. This leads to the follow up question: What is the right way to keep an application responsive while the graph is drawn? Drawing a scatter plot with 300 points seems to take a while. I guess I need to launch the drawing in another thread but don't know exactly how to do this and only find examples of doing calculations in the background and not actual widget interaction. You posted some real code and a traceback, which helped move the ball forward. What we really need to see to help you though is a complete, free-standing example, that we can run on our machines, which exposes the problem. JDH -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar embedding in qt4
On Sun, Jan 3, 2010 at 11:34 AM, Alexander Hupfer son...@gmail.com wrote: Hi, I have a scatter plot embedded in qt4 according to http://matplotlib.sourceforge.net/examples/user_interfaces/embedding_in_qt4.html what works fine However if I try to add a colorbar to it by simply calling p = scatter() colorbar(p) I get an error that says that something is outside the drawable area. Please post example code which replicates the problem and a full traceback. From the snippet you posted, it looks like you may be using the pylab/pyplot interface which is not consistent with embedding mpl in qt or any other widget set. Rather, you need to be using the mpl API. JDH -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar embedding in qt4
Hello,
You are using the TK backend.
Add this at the top of your script:
import matplotlib
matplotlib.use('QT4Agg')
from matplotlib.backends.backend_qt4agg import FigureCanvasQTAgg as
FigureCanvas
from matplotlib.backends.backend_qt4agg import NavigationToolbar2QTAgg as
NavigationToolbar
Should work.
(Or at least will no more show errors related to TK backend...)
Laurent
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Re: [Matplotlib-users] Colorbar embedding in qt4
On Sun, Jan 3, 2010 at 5:26 PM, Alexander Hupfer son...@gmail.com wrote: Ok, that at least fixed the tkinter error, but I still don't get a colorbar attached to my plot. (which worked fine when I didn't embedd it in a Qt application) If you are importing from pylab or pyplot in your program, don't. These modules are not compatible with embedding. Darren -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar embedding in qt4
Thanks I got it fixed. This leads to the follow up question: What is the right way to keep an application responsive while the graph is drawn? Drawing a scatter plot with 300 points seems to take a while. I guess I need to launch the drawing in another thread but don't know exactly how to do this and only find examples of doing calculations in the background and not actual widget interaction. - Alex On Sun, Jan 3, 2010 at 3:37 PM, Darren Dale dsdal...@gmail.com wrote: On Sun, Jan 3, 2010 at 5:26 PM, Alexander Hupfer son...@gmail.com wrote: Ok, that at least fixed the tkinter error, but I still don't get a colorbar attached to my plot. (which worked fine when I didn't embedd it in a Qt application) If you are importing from pylab or pyplot in your program, don't. These modules are not compatible with embedding. Darren -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar embedding in qt4
Alexander Hupfer wrote: Thanks I got it fixed. This leads to the follow up question: What is the right way to keep an application responsive while the graph is drawn? Drawing a scatter plot with 300 points seems to take a while. I guess I That's strange--a scatter plot with 1000 points looks practically instantaneous to me. Are you using the Axes.scatter method? Eric need to launch the drawing in another thread but don't know exactly how to do this and only find examples of doing calculations in the background and not actual widget interaction. - Alex On Sun, Jan 3, 2010 at 3:37 PM, Darren Dale dsdal...@gmail.com mailto:dsdal...@gmail.com wrote: On Sun, Jan 3, 2010 at 5:26 PM, Alexander Hupfer son...@gmail.com mailto:son...@gmail.com wrote: Ok, that at least fixed the tkinter error, but I still don't get a colorbar attached to my plot. (which worked fine when I didn't embedd it in a Qt application) If you are importing from pylab or pyplot in your program, don't. These modules are not compatible with embedding. Darren -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar embedding in qt4
On Sun, Jan 3, 2010 at 7:02 PM, Alexander Hupfer son...@gmail.com wrote: Thanks I got it fixed. This leads to the follow up question: What is the right way to keep an application responsive while the graph is drawn? Drawing a scatter plot with 300 points seems to take a while. I guess I need to launch the drawing in another thread but don't know exactly how to do this and only find examples of doing calculations in the background and not actual widget interaction. You posted some real code and a traceback, which helped move the ball forward. What we really need to see to help you though is a complete, free-standing example, that we can run on our machines, which exposes the problem. JDH -- This SF.Net email is sponsored by the Verizon Developer Community Take advantage of Verizon's best-in-class app development support A streamlined, 14 day to market process makes app distribution fast and easy Join now and get one step closer to millions of Verizon customers http://p.sf.net/sfu/verizon-dev2dev ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar with labels on top
The api related to ticks and ticklabels is a bit confusing, at least
for me. So, often, it seems best to directly change the tick
properties.
for t in axcbar.xaxis.get_major_ticks():
t.tick1On = True
t.tick2On = True
t.label1On = False
t.label2On = True
-JJ
On Wed, Oct 21, 2009 at 11:24 AM, Thomas Robitaille
thomas.robitai...@gmail.com wrote:
Hi,
I'm trying to plot a horizontal colorbar with labels on top. I can use
axcbar = fig.add_axes([0.2, 0.85, 0.6, 0.03])
axcbar.xaxis.set_ticks_position('top')
cbar = fig.colorbar(s, cax=axcbar, orientation='horizontal')
but then I lose the ticks on the bottom of the colorbar. However,
setting
axcbar.xaxis.set_ticks_position('both')
causes the labels to be on the bottom. Is there a way to have labels
on the top while keeping ticks on both the top and bottom?
Thanks,
Thomas
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Re: [Matplotlib-users] colorbar tick label fontproperties
John,
The following code works for me (Python 2.5.4, Matplotlib 0.99):
# create and format the colorbar
cbar = pl.colorbar(G, ticks=range(g1,g2+1))
cbar.ax.set_ylabel('Gradient (%)', fontsize=10)
cl = pl.getp(cbar.ax, 'ymajorticklabels')
pl.setp(cl, fontsize=10)
-Paul M. Hobson
-Original Message-
From: John [H2O] [mailto:washa...@gmail.com]
Sent: Tuesday, September 22, 2009 8:03 AM
To: matplotlib-users@lists.sourceforge.net
Subject: [Matplotlib-users] colorbar tick label fontproperties
Could someone please explain how to change the font properties for a
colorbar
tick label, the following causes no error, but it does NOT work:
## CREATE COLORBAR
## make a copy of the image object
im2 = copy.copy(im)
im2.set_cmap(colmap)
## create new axis for colorbar.
cax = plt.axes([l+w+0.03, b, 0.025, h-0.035])
cb = plt.colorbar(im2, cax)#, format='%3.2g') # draw colorbar
## set colorbar label and ticks
p_cax = mpl.font_manager.FontProperties(size='6')
clabels = clevs[::10] ##clevs, by 10 steps
clabels.append(clevs[-1]) ## add the last label
cb.ax.set_yticks(np.linspace(0,1,len(clabels)))
cb.ax.set_yticklabels(['%3.2g' % cl for cl in clabels],
fontproperties=p_cax)
cax.set_title('sensitivity\n(%s)' % units,
fontproperties=p_cax)
NOTE: It does set the title properties correctly.
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Re: [Matplotlib-users] Colorbar not working with specgram
Thanks Eric for pointing out this. However i've found that psd and specgram plot 10*log10*(Pxx/max(Pxx)), so i'll have a range from 0 db down. Anyway, what do you mean by should not be axes method? Do you mean using the array output of specgram and psd and plotting that result by myself? Cheers Davide On Tue, 2009-07-21 at 09:12 -1000, Eric Firing wrote: davide lasagna wrote: Hello everybody, this is my first post in this list. I'm plotting a spectrogram with Pxx, freqs, bins, im = specgram(y, nfft=256, f_sampling=12000) and i want to add a colorbar with colorbar() The problem is that the color scale seems to be wrong with respect to the data in Pxx, i.e. Pxx is of the order of 1e-2 while in the colorbar i have tick values spanning from -20 to -180. What is the problem?? specgram and psd plot power in decibels: 10*log10(Pxx). Because they involve heavy computation and application-specific choices, like the decibel scale, they really should not be axes methods. You can make a function plot the spectrogram however you like by looking at the source code in the Axes.specgram method (the pyplot specgram function is just a thin wrapper for this method), which is using mlab.specgram to do the calculation and is then just scaling and plotting. Eric Thanks in advance! Davide -- Enter the BlackBerry Developer Challenge This is your chance to win up to $100,000 in prizes! For a limited time, vendors submitting new applications to BlackBerry App World(TM) will have the opportunity to enter the BlackBerry Developer Challenge. See full prize details at: http://p.sf.net/sfu/Challenge ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar not working with specgram
davide lasagna wrote: Thanks Eric for pointing out this. However i've found that psd and specgram plot 10*log10*(Pxx/max(Pxx)), so i'll have a range from 0 db down. Aha, I wasn't looking closely enough! Anyway, what do you mean by should not be axes method? That was a side remark about what the Axes class should do or not do. I would prefer that it stick to plotting. For example, at present it does not have a method for empirical orthogonal functions, or for wavelets--and that's good, it shouldn't. Numerical code (usually in numpy or scipy) should do the calculations, and then the result should be plotted using Axes methods or pyplot functions for line plotting, contouring, making images, etc. So getting back to the specgram, I would prefer that it be given as an example--a script combining the calculation with the plotting--rather than having calculation and plotting done in an Axes method. Do you mean using the array output of specgram and psd and plotting that result by myself? The calculations are being done by functions in the matplotlib.mlab module, so yes, I suggest using those functions directly (not the pyplot functions that wrap the Axes methods that call the mlab functions and then plot the result) and then doing your own scaling and plotting. The Axes specgram method might guide you in the latter (giving an example of how to use imshow, for example), but if you write your own function you can make it do exactly what you want instead of accepting the scaling choice imposed by the Axes method. Eric Cheers Davide On Tue, 2009-07-21 at 09:12 -1000, Eric Firing wrote: davide lasagna wrote: Hello everybody, this is my first post in this list. I'm plotting a spectrogram with Pxx, freqs, bins, im = specgram(y, nfft=256, f_sampling=12000) and i want to add a colorbar with colorbar() The problem is that the color scale seems to be wrong with respect to the data in Pxx, i.e. Pxx is of the order of 1e-2 while in the colorbar i have tick values spanning from -20 to -180. What is the problem?? specgram and psd plot power in decibels: 10*log10(Pxx). Because they involve heavy computation and application-specific choices, like the decibel scale, they really should not be axes methods. You can make a function plot the spectrogram however you like by looking at the source code in the Axes.specgram method (the pyplot specgram function is just a thin wrapper for this method), which is using mlab.specgram to do the calculation and is then just scaling and plotting. Eric Thanks in advance! Davide -- Enter the BlackBerry Developer Challenge This is your chance to win up to $100,000 in prizes! For a limited time, vendors submitting new applications to BlackBerry App World(TM) will have the opportunity to enter the BlackBerry Developer Challenge. See full prize details at: http://p.sf.net/sfu/Challenge ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar Ticks
I should perhaps mention, that if i try cbar=fig.colorbar(p1,orientation='horizontal',ticks=[0.0,2.0,4.0,6.0,8.0]) cbar.ax.set_xticklabels(['0', '2', '4','6','8']) the colorbar is drawn correctly, but I get the label 0 at position 2, the label 2 at position 4 and 4 at pos. 6, the labels at the end are not drawn... -- View this message in context: http://www.nabble.com/Colorbar-Ticks-tp23712716p23712944.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT is a gathering of tech-side developers brand creativity professionals. Meet the minds behind Google Creative Lab, Visual Complexity, Processing, iPhoneDevCamp asthey present alongside digital heavyweights like Barbarian Group, R/GA, Big Spaceship. http://www.creativitycat.com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar Ticks
marcusantonius wrote: Hello, I have the problem, that sometimes the first and last ticklabel of a colorbar is not drawn. E.g. if I create a colorbar through fig.colorbar(p3,orientation='horizontal',ticks=np.arange(0.0,8,2)) I only get ticklabels at 2,4,6, but I would like it to have 0,2,4,6,8 and I don't know how to control this behaviour. If I do cb=fig.colorbar(p3,orientation='horizontal',ticks=np.arange(0.0,8,2)) cb.ax.xaxis.set_ticks(np.arange(0,8,2)) the colorbar vanishes and instead I have 4 ticks with the labels 0.8,1.6,2.4,3.2 Thank you for your help, Markus Markus, The problem here is not the specification of the ticks, it is the actual range of the colorbar, which is taken from the norm object used in the color mapping. Try this (in ipython -pylab): imshow(rand(10,10)*8, vmin=0, vmax=8) colorbar(ticks=[0,2,4,6,8]) Alternatively, you can use the set_clim() method on any Mappable such as an image, or the pyplot clim() function, to set the limits. Note also that to get the sequence [0,2,4,6,8] you need arange(0,9,2), not arange(0,8,2). Or you can use linspace(0,8,5) if you prefer. Eric -- Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT is a gathering of tech-side developers brand creativity professionals. Meet the minds behind Google Creative Lab, Visual Complexity, Processing, iPhoneDevCamp asthey present alongside digital heavyweights like Barbarian Group, R/GA, Big Spaceship. http://www.creativitycat.com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar Ticks
marcusantonius wrote: I should perhaps mention, that if i try cbar=fig.colorbar(p1,orientation='horizontal',ticks=[0.0,2.0,4.0,6.0,8.0]) The ticks that it uses are taken from the list--they are the ones that are within the range of numbers mapped to colors. The list of ticks does not set that range. cbar.ax.set_xticklabels(['0', '2', '4','6','8']) Setting ticklabels is dangerous unless you do it based on first getting the actual ticks and using their values, or if you are otherwise sure of their values. But it should be very rare that you have to do this. the colorbar is drawn correctly, but I get the label 0 at position 2, the label 2 at position 4 and 4 at pos. 6, the labels at the end are not drawn... None of the labels correspond to their ticks in this case. Eric -- Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT is a gathering of tech-side developers brand creativity professionals. Meet the minds behind Google Creative Lab, Visual Complexity, Processing, iPhoneDevCamp asthey present alongside digital heavyweights like Barbarian Group, R/GA, Big Spaceship. http://www.creativitycat.com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar Ticks
Thank you very much for your email. Your example imshow(rand(10,10)*8, vmin=0, vmax=8) colorbar(ticks=[0,2,4,6,8]) works fine. Note also that to get the sequence [0,2,4,6,8] you need arange(0,9,2), not arange(0,8,2). Or you can use linspace(0,8,5) if you prefer. Thank you for making me aware of that (You see that I don't have a lot of experience in python and matplotlib). I now specified the color range via vmin and vmax, and this solved my problem. Thanks for the fast help -- View this message in context: http://www.nabble.com/Colorbar-Ticks-tp23712716p23713404.html Sent from the matplotlib - users mailing list archive at Nabble.com. -- Register Now for Creativity and Technology (CaT), June 3rd, NYC. CaT is a gathering of tech-side developers brand creativity professionals. Meet the minds behind Google Creative Lab, Visual Complexity, Processing, iPhoneDevCamp asthey present alongside digital heavyweights like Barbarian Group, R/GA, Big Spaceship. http://www.creativitycat.com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar for pcolor plot
On Wed, May 20, 2009 at 9:53 AM, Ryan May rma...@gmail.com wrote: Thanks for the full example, but if you carefully read the exception, it was telling you the problem. :) plot1 here is an axes object, which does not have a colorbar() method. Instead, you should change that to: plt.colorbar() Assuming everything else was working, you should be good to go with this change. It looks like Markus is trying to use the API, so rather than suggest the pyplot colorbar method, I suggest using the figure instance method. Markus the pyplot method plt.colorbar is a thin wrapper around the figure method fig.colorbar -- see also: http://matplotlib.sourceforge.net/faq/usage_faq.html#matplotlib-pylab-and-pyplot-how-are-they-related http://matplotlib.sourceforge.net/api/figure_api.html#matplotlib.figure.Figure.colorbar It may be a good idea and refer to the return value of fig.add_subplot as ax or something that, rather than plot1 because add_subplot returns an Axes instance and thus ax is a better mnemonic; see http://matplotlib.sourceforge.net/api/figure_api.html#matplotlib.figure.Figure.add_subplot So I suggest something like:: fig = plt.figure() ax1 = fig.add_subplot(231,aspect='equal') ax1.pcolor(xsr) ax1.axis([0, 127, 0, 127]) fig.colorbar() JDH -- Crystal Reports - New Free Runtime and 30 Day Trial Check out the new simplified licensing option that enables unlimited royalty-free distribution of the report engine for externally facing server and web deployment. http://p.sf.net/sfu/businessobjects ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] Colorbar for pcolor plot
On Wed, May 20, 2009 at 10:04 AM, John Hunter jdh2...@gmail.com wrote: On Wed, May 20, 2009 at 9:53 AM, Ryan May rma...@gmail.com wrote: Thanks for the full example, but if you carefully read the exception, it was telling you the problem. :) plot1 here is an axes object, which does not have a colorbar() method. Instead, you should change that to: plt.colorbar() Assuming everything else was working, you should be good to go with this change. It looks like Markus is trying to use the API, so rather than suggest the pyplot colorbar method, I suggest using the figure instance method. Markus the pyplot method plt.colorbar is a thin wrapper around the figure method fig.colorbar -- see also: http://matplotlib.sourceforge.net/faq/usage_faq.html#matplotlib-pylab-and-pyplot-how-are-they-related http://matplotlib.sourceforge.net/api/figure_api.html#matplotlib.figure.Figure.colorbar It may be a good idea and refer to the return value of fig.add_subplot as ax or something that, rather than plot1 because add_subplot returns an Axes instance and thus ax is a better mnemonic; see http://matplotlib.sourceforge.net/api/figure_api.html#matplotlib.figure.Figure.add_subplot So I suggest something like:: fig = plt.figure() ax1 = fig.add_subplot(231,aspect='equal') ax1.pcolor(xsr) ax1.axis([0, 127, 0, 127]) fig.colorbar() Except that it won't work like that. :) (I actually tried that the first time) You need to give Figure.colorbar() the mappable as the first argument. So this would then become: ax1 = fig.add_subplot(231,aspect='equal') pc = ax1.pcolor(xsr) ax1.axis([0, 127, 0, 127]) fig.colorbar(pc) Ryan -- Ryan May Graduate Research Assistant School of Meteorology University of Oklahoma Sent from Norman, Oklahoma, United States -- Crystal Reports - New Free Runtime and 30 Day Trial Check out the new simplified licensing option that enables unlimited royalty-free distribution of the report engine for externally facing server and web deployment. http://p.sf.net/sfu/businessobjects___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar with 2 different scales
P.Romero wrote: Is it possible to create a colorbar with different scales on each side? Example: a temperature colorbar with celcius values on the left side and farenheit values on the right side. If so, how could this be done? A colorbar is just an axes object with some customization of the ticks and labels, and with a pcolor plot inside. You could get your second scale using a technique similar to the twinx and twiny Axes methods; you can then use set_xlim or set_ylim so that the Fahrenheit range on the new axes matches the Celcius range on the old one. To get started, look at the source for the twinx/twiny methods. Eric Please help, Thanks, P.Romero -- This SF.net email is sponsored by: High Quality Requirements in a Collaborative Environment. Download a free trial of Rational Requirements Composer Now! http://p.sf.net/sfu/www-ibm-com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users -- This SF.net email is sponsored by: High Quality Requirements in a Collaborative Environment. Download a free trial of Rational Requirements Composer Now! http://p.sf.net/sfu/www-ibm-com ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar tick labeling
Michael Outhouse wrote: I was wondering if it is possible to change the colorbar tick labeling in matplotlib from numeric to text. Essentially, I want the colorbar to be a qualitative indicator; in the jet scheme, I'd like blue to be labeled as 'unstable', green as 'neutral', and red as 'stable'. I can change it so I just show the underlying values - colorbar(ticks = (-1, 0, 1)), but I cannot change the the tick labels to text. Is there any way to accomplish this? Thanks in advance for any help. Your message came more than a month ago, but it looks like no one answered, so here is an answer: with ipython -pylab: imshow(2*rand(10,10) - 1, vmin=-1, vmax=1) cbar = colorbar(ticks=[-1,0,1]) cbar.ax.set_yticklabels(['unstable', 'neutral', 'stable']) draw() - This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar tick labeling
2008/11/21 Eric Firing [EMAIL PROTECTED]: Michael Outhouse wrote: I was wondering if it is possible to change the colorbar tick labeling in matplotlib from numeric to text. Essentially, I want the colorbar to be a qualitative indicator; in the jet scheme, I'd like blue to be labeled as 'unstable', green as 'neutral', and red as 'stable'. I can change it so I just show the underlying values - colorbar(ticks = (-1, 0, 1)), but I cannot change the the tick labels to text. Is there any way to accomplish this? Thanks in advance for any help. Your message came more than a month ago, but it looks like no one answered, so here is an answer: with ipython -pylab: imshow(2*rand(10,10) - 1, vmin=-1, vmax=1) cbar = colorbar(ticks=[-1,0,1]) cbar.ax.set_yticklabels(['unstable', 'neutral', 'stable']) draw() Also see the example here http://matplotlib.sourceforge.net/examples/pylab_examples/colorbar_tick_labelling_demo.html. Cheers, Scott - This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar() fix limit on Heat map
stuartornum wrote: Hi All, You may remember from my previous post I was having problems plotting a heatmap, however Pete came through for me and made it work. Anyway, I have almost finished what I want to do. The only issue is fixing the colorbar() range limit. Sometimes the my values are 0.01 to 0.2 for example, and other times there 0.01 to 0.99. So what happens it the colorbar() automagically adjusts the gradient according to my values, however I do not want it to do that, I want the graph to be consistantly 0 - 1 (blue - red). I have tried things like colorbar(0,1), however no luck. If you could let me know how to fix the range, I would be very grateful. Regards Stuart: Use the vmin/vmax keyword arguments if your are using imshow or pcolor/pcolormesh. If you are using contourf, just specify the contour levels to span the range 0-1 (i.e. clevs=linspace(-1,1,15)). -Jeff -- Jeffrey S. Whitaker Phone : (303)497-6313 NOAA/OAR/CDC R/PSD1FAX : (303)497-6449 325 BroadwayBoulder, CO, USA 80305-3328 - This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar() fix limit on Heat map
stuartornum wrote: Jeff, That worked perfectly ! Thank you. One more question... how would I change the colour scheme of the colorbar()? Thanks again Stuart: Use the cmap argument to specify a color map. Have you checked out the pylab examples? For me, they are the best way to learn how to use matplotlib effectively. -Jeff -- Jeffrey S. Whitaker Phone : (303)497-6313 NOAA/OAR/CDC R/PSD1FAX : (303)497-6449 325 BroadwayBoulder, CO, USA 80305-3328 - This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100url=/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] ColorBar with axes
[EMAIL PROTECTED] wrote:
Hello,
I would like to show a colorbar for my plot (see attachment) but I can't
figure out how it works.
In the examples on the website I only found the call to pylab.colorbar(),
which doesn't work with my subplots. My code is as follows (with the bar
graph-part snipped, for brevity). I also tried the ColorBar class and
assigning cmap=cm.jet but it didn't work. Could anybody give me a hint
please? I searched the tutorial, cookbook, api reference and google, but I
can't really find anything.
Thanks,
Felix
fig = p.figure()
fig.text(0.5, 0.94, main_title, fontsize=x-large, ha=center)
(...bar graph part snipped...)
ax = fig.add_subplot(222)
ax.set_title('Euclidean Distance')
matrix = n.zeros([numof_dicts, numof_dicts])
for i1, d1 in enumerate(dictionaries):
for i2, d2 in enumerate(dictionaries):
for k in d1.keys():
if d2.has_key(k):
prob1 = (d1[k] / vectorlengths[i1])
prob2 = (d2[k] / vectorlengths[i2])
matrix[i1, i2] += prob1 * prob2
ax.imshow(matrix, interpolation=nearest, cmap=p.cm.jet)
im = ax.imshow(matrix, interpolation=nearest, cmap=p.cm.jet)
p.colorbar(im, ax=ax)
Try the above, possibly adding a shrink kwarg; if you don't like the
axes splitting that colorbar does by default, then you can make an axes
to taste, call it cax, and instead of specifying the image axes as
above, use p.colorbar(im, cax=cax).
Eric
if documentnames != None:
ax.set_yticklabels(documentnames, va=center, fontsize='x-small')
ax.set_yticks(range(numof_dicts))
#p.colorbar()
ax = fig.add_subplot(224)
ax.set_title('Kullback Leibler Distance')
ax.imshow(matrix, interpolation=nearest)
if documentnames != None:
ax.set_yticklabels(documentnames, va=center, fontsize='x-small')
ax.set_yticks(range(numof_dicts))
ax.set_xticklabels(documentnames, rotation=320, va=top, ha=left,
fontsize='xx-small')
ax.set_xticks(range(numof_dicts))
fig.subplots_adjust(left=0.10, right=0.90, top=0.90, bottom=0.24,
hspace=0.3,wspace=0.9)
fig.set_size_inches(13, 10.5)
fig.savefig(sys.argv[1] + _statistics.png)
#p.show()
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Re: [Matplotlib-users] colorbar()
Bryan Fodness wrote: Is there a way to get the colorbar to work with an axes instance. ax2 = axes([0.2, 0.1, 0.6, 0.8], axisbg='w') ax2.fill([x1,x2,x2,x1], [y1,y1,y2,y2], fc='None', ec='r') ax2.pcolormesh(X, Y, newa, shading='flat', cmap=cm.YlOrRd)#gray_r) ax2.axvline(x=0, color='gray', linestyle='--') ax2.axhline(y=0, color='gray', linestyle='--') ax2.plot([offaxisX], [offaxisY], 'r+', mew=1) ax2.colorbar() AttributeError: 'Axes' object has no attribute 'colorbar' Bryan, A colorbar is a plot in its own axes, so just as a figure has an add_subplot method to add a general-purpose axes, it has a colorbar method to add a special-purpose axes with a colorbar in it. One way to modify your example is something like this (untested): ax2 = axes([0.2, 0.1, 0.6, 0.8], axisbg='w') ax2.fill([x1,x2,x2,x1], [y1,y1,y2,y2], fc='None', ec='r') # Save the mappable returned by pcolormesh: pcm = ax2.pcolormesh(X, Y, newa, shading='flat', cmap=cm.YlOrRd)#gray_r) ax2.axvline(x=0, color='gray', linestyle='--') ax2.axhline(y=0, color='gray', linestyle='--') ax2.plot([offaxisX], [offaxisY], 'r+', mew=1) # Call the figure method, give it the mappable: ax2.get_figure().colorbar(pcm, ax=ax2) This will steal space from ax2 to make the colorbar axes. If you want to make the colorbar axes yourself, called ax_cbar, for example, then the last line would be ax2.get_figure().colorbar(pcm, cax=ax_cbar) Of course, if you make the figure at the start, and save the reference to it, then you can use that reference in place of ax2.get_figure() Eric colorbar() , line 499, in module colorbar() File C:\Python25\Lib\site-packages\matplotlib\pyplot.py, line 1129, in colorbar ret = gcf().colorbar(mappable, cax = cax, ax=ax, **kw) File C:\Python25\Lib\site-packages\matplotlib\figure.py, line 956, in colorbar cb = cbar.Colorbar(cax, mappable, **kw) File C:\Python25\Lib\site-packages\matplotlib\colorbar.py, line 558, in __init__ mappable.autoscale_None() # Ensure mappable.norm.vmin, vmax AttributeError: 'NoneType' object has no attribute 'autoscale_None' I am not sure how the mappable, ax, and cax options work. - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar
Ryan May wrote: Yves Revaz wrote: Hi all, When I use: colorbar(orientation='horizontal') the color bar is drawn on the bottom of the corresponding graph. Which option will draw the colorbar on the top of the graph ? I think (correct me if I'm wrong devs) you'll have to use the cax keyword argument to manually specifiy the position of the axes in which to draw the colorbar. You'll also need to adjust the position of the plot using figure.subplots_adjust. Like this maybe: import numpy as np import matplotlib.pyplot as plt data = np.random.randn(30,30) plt.pcolor(data) fig = plt.gcf() fig.subplots_adjust(top=0.85) ax = fig.add_axes([0.12, 0.9, 0.8, 0.05]) plt.colorbar(cax=ax, orientation='horizontal') Hope this helps, ok, it works fine for that case. Now, my problem is that my graph is a subplot: Taking your example it corresponds to : import numpy as np import matplotlib.pyplot as plt fig = plt.gcf() plt.subplot(2,2,2) data = np.random.randn(30,30) plt.pcolor(data) fig.subplots_adjust(top=0.85) ax = fig.add_axes([0.12, 0.9, 0.8, 0.05]) plt.colorbar(cax=ax, orientation='horizontal') plt.show() Obviously, the colorbar has now the length of the whole figure and not the one of the subplot ! :-( I should do a subplots_adjust to the subplot and not to the fig, but how can I do that ? Thanks, yves Ryan -- Ryan May Graduate Research Assistant School of Meteorology University of Oklahoma -- (o o) oOO--(_)--OOo--- Yves Revaz Laboratory of Astrophysics EPFL Observatoire de Sauverny Tel : ++ 41 22 379 24 28 51. Ch. des Maillettes Fax : ++ 41 22 379 22 05 1290 Sauverny e-mail : [EMAIL PROTECTED] SWITZERLAND Web : http://www.lunix.ch/revaz/ - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar
Yves Revaz wrote: Hi all, When I use: colorbar(orientation='horizontal') the color bar is drawn on the bottom of the corresponding graph. Which option will draw the colorbar on the top of the graph ? I think (correct me if I'm wrong devs) you'll have to use the cax keyword argument to manually specifiy the position of the axes in which to draw the colorbar. You'll also need to adjust the position of the plot using figure.subplots_adjust. Like this maybe: import numpy as np import matplotlib.pyplot as plt data = np.random.randn(30,30) plt.pcolor(data) fig = plt.gcf() fig.subplots_adjust(top=0.85) ax = fig.add_axes([0.12, 0.9, 0.8, 0.05]) plt.colorbar(cax=ax, orientation='horizontal') Hope this helps, Ryan -- Ryan May Graduate Research Assistant School of Meteorology University of Oklahoma - Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar problem
Le Sunday 09 March 2008 14:32:05 Eric Firing, vous avez écrit :
[EMAIL PROTECTED] wrote:
Hello,
I have some stupid questions about how to use colorbar.
1) I would like to be able to put the colorbar where I went: top, bottom,
left, right. For what I see I can do only a vertical left and horizontal
bottom ones (with a simple use of the function).
I know that it's possible to do a colorbar only but it's difficult to
place them a little bit automatically and that bring my second question.
This looks like a feature request: instead of specifying horizontal or
vertical, be able to specify top, bottom, left, or right.
This is fairly easy in principle, but there are some wrinkles such that
I am not sure it would be satisfactory in practice--some custom
adjustments might usually be needed depending on whether the main axes
have a title (in the case of top) or an xlabel (in the case of
left). You may be better off simply figuring out what main and
colorbar axes positions work best for your particular case and then
making those axes explicitly.
I agree it's more feature request. I'll look on how to implement your
suggestion.
2) I would like that the colorbar with exactly the same size than the
image I plot with pcolor. It's working when I'm not using the
aspect='equal' in the subplot but not with this option. Naturally I want
to not change the aspect of my image and so it's a big problem for me.
The only solution I found is to manipulate the colorbar with the shrink
valu but it's a little bit painfull especially the value change for each
pcolor image (they doesn't have always the same size).
This is a common request, and a reasonable one, but unfortunately it is
not straightforward to implement automatically given mpl's internal
structure. Again, however, you get the desired result quite easily by
creating your own axes explicitly.
This is what I was afraid... So I have a stupid question but how to do this,
create the axes at the same place than the pcolor image?
I can see how I can recuperate the axes coordinates but I don't know how to
use them:
im = pylab.pcolor(a)
ax = im.get_axes()
cs = pylab.colorbar()
but after I'm a little bit lost...
3) I would like to give a label to the colorbar (ie if the colorbar is at
the bottom a label under the colorbar etc). To tell people what means the
colors but I didn't find anyway to do it. xlabel work for the pcolor
object (as expected) and there are no colorbar.xlabel function.
Use the set_label() method.
...
cbar = fig1.colorbar(im,orientation='horizontal')
cbar.set_label('label')
...
Great thanks it's working perfectly.
Eric
Thank you for your help,
N.
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Re: [Matplotlib-users] colorbar problem
[EMAIL PROTECTED] wrote:
Hello,
I have some stupid questions about how to use colorbar.
1) I would like to be able to put the colorbar where I went: top, bottom,
left, right. For what I see I can do only a vertical left and horizontal
bottom ones (with a simple use of the function).
I know that it's possible to do a colorbar only but it's difficult to place
them a little bit automatically and that bring my second question.
This looks like a feature request: instead of specifying horizontal or
vertical, be able to specify top, bottom, left, or right.
This is fairly easy in principle, but there are some wrinkles such that
I am not sure it would be satisfactory in practice--some custom
adjustments might usually be needed depending on whether the main axes
have a title (in the case of top) or an xlabel (in the case of
left). You may be better off simply figuring out what main and
colorbar axes positions work best for your particular case and then
making those axes explicitly.
2) I would like that the colorbar with exactly the same size than the image I
plot with pcolor. It's working when I'm not using the aspect='equal' in the
subplot but not with this option. Naturally I want to not change the aspect
of my image and so it's a big problem for me. The only solution I found is to
manipulate the colorbar with the shrink valu but it's a little bit painfull
especially the value change for each pcolor image (they doesn't have always
the same size).
This is a common request, and a reasonable one, but unfortunately it is
not straightforward to implement automatically given mpl's internal
structure. Again, however, you get the desired result quite easily by
creating your own axes explicitly.
3) I would like to give a label to the colorbar (ie if the colorbar is at the
bottom a label under the colorbar etc). To tell people what means the colors
but I didn't find anyway to do it. xlabel work for the pcolor object (as
expected) and there are no colorbar.xlabel function.
Use the set_label() method.
...
cbar = fig1.colorbar(im,orientation='horizontal')
cbar.set_label('label')
...
Eric
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Re: [Matplotlib-users] Colorbar requires mappable?
Ryan, See examples/colorbar_only.py. I think it illustrates what you want. Eric Ryan May wrote: Hi, In working on creating updating pcolor plots, I noticed that I can't create colorbars (which should be static) without first displaying an image. I have a fixed Normalize object and colormap, so I would think that the colorbar wouldn't actually need any information from the image itself. Is there any to create a colorbar without first actually plotting an image? If not, is there any reason colorbar couldn't be modified to work using only a norm and a cmap? Thanks, Ryan - This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse012070mrt/direct/01/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar and set_under
Carol Leger wrote: Hi folks, I have encountered a problem using colorbar and set_under with a color map that has only 32 colors. The downward arrow is not filled with the correct color. If 64 colors are used, the arrow is filled correctly. I actually want 8 colors. The test code is essentially image_masked.py from the 0.90.0 examples. if I use: palette = cm.get_cmap(gray, 64) the plot is OK. if I use: palette = cm.get_cmap(gray, 32) it is not OK. In both cases, the upper arrow is the correct color. I am using matplotlib version 0.90.0. Carol, It works for me even with 8 colors, using the svn version of mpl. There have been a lot of changes between 0.90.0 and the present svn trunk (including a heart transplant by Mike D.), but I would not have expected any changes that would change the behavior you describe. I can't think of any way a bug would have made a break point in behavior between 32 and 64 colors. I'm baffled. Can you install and run the svn version? Or the latest release (which does not include the new heart)? I also tried the svn maintenance branch, which is virtually identical to the last release, and it works the same as the trunk. Eric - This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse012070mrt/direct/01/ ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar, setting limits
Sorry, I realise that my example in my original post doesn't quite make sense. My data range is 17 to 23. I set clim to be clim([15, 25]). I then want the colorbar limits to be the same as clim, 15 to 25. The questions remains the same, which is how to set the range for colorbar. Thanks, Evan - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar, setting limits
Evan, It is still not quite clear to me what you want versus what you are getting. With recent versions of mpl, the colorbar automatically uses the same color boundaries as contourf, if that is what the colorbar is tracking. What version of mpl are you using? (With the most recent mpl I see that there is a strange bug such that setting clim clobbers the axis tick labeling for the colorbar--yet another thing that needs to be figured out and fixed.) Eric Evan Mason wrote: Sorry, I realise that my example in my original post doesn't quite make sense. My data range is 17 to 23. I set clim to be clim([15, 25]). I then want the colorbar limits to be the same as clim, 15 to 25. The questions remains the same, which is how to set the range for colorbar. Thanks, Evan - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar, setting limits
Hi Eric I am using matplotlib-0.90.0. I am making 2 contourf subplots of temperature values which have similar but not equal ranges. In subplot1 the range is 15-25; in subplot2 it is 16 to 24. I use clim, giving it the max and min values obtained from a comparison of subplot1 and 2; i.e., I use clim([15, 25]) on both subplots. The two subplots display exactly as I want them to. Next, I want 2 colorbars to go with the two subplots. I want the range of each colorbar to be the same, set as the clim values (15 and 25). This happens for subplot1, but not for subplot2, which shows the range 16-24, following its input data range and not the clim values. So what I want to know is if it is possible to overide the colorbar limits, setting them to 15-25? I hope that's clearer now, thanks, Evan On 3/27/07, Eric Firing [EMAIL PROTECTED] wrote: Evan, It is still not quite clear to me what you want versus what you are getting. With recent versions of mpl, the colorbar automatically uses the same color boundaries as contourf, if that is what the colorbar is tracking. What version of mpl are you using? (With the most recent mpl I see that there is a strange bug such that setting clim clobbers the axis tick labeling for the colorbar--yet another thing that needs to be figured out and fixed.) - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
Re: [Matplotlib-users] colorbar, ax.get_position after figsize changed by ax.set_aspect
George Nurser wrote: I have been trying to i. plot a figure using pcolormesh ii. set the proportions of the figure using ax.set_aspect iii. draw colorbar Problem is, colorbar height uses whole of axes box, not just height of figure (whose proportions were set by call of ax.set_aspect(aspect=2.,adjustable='box')). I can't set the colorbar height manually either, as I don't know how to get out the bounding box of the figure -- ax.get_position() just gives the full axes box, which is unaffected by ax.set_aspect. Is there any way of recovering the actual bounding box of the figure? The docstring for the method ax.set_position says: There are two position variables: one which is ultimately used, but which may be modified by apply_aspect, and a second which is the starting point for apply_aspect. which = 'active' to change the first; 'original' to change the second; 'both' to change both which sounds relevant, but these variables don't seem to apply to ax.get_position() George, The problem with your attempt to use get_position() is that the aspect ratio does not affect the position until the apply_aspect method of the axes is called, which is normally when drawing occurs. You can either call it yourself, or you can insert a draw command. Here is an example of the first: In [6]:pcolor(z) Out[6]:matplotlib.collections.PolyCollection instance at 0xb3db690c In [7]:gca().get_position() Out[7]:[0.125, 0.099978, 0.77502, 0.80004] In [8]:gca().set_aspect(3) In [9]:gca().get_position() Out[9]:[0.125, 0.099978, 0.77502, 0.80004] In [10]:clf() In [11]:pcolor(z) Out[11]:matplotlib.collections.PolyCollection instance at 0xb3dc6a6c In [12]:gca().get_position() Out[12]:[0.125, 0.099978, 0.77502, 0.80004] In [13]:gca().set_aspect(3) In [14]:gca().apply_aspect() In [15]:gca().get_position() Out[15]: [0.31343312597200623, 0.099978, 0.39813374805598761, 0.80004] Eric - Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT business topics through brief surveys -- and earn cash http://www.techsay.com/default.php?page=join.phpp=sourceforgeCID=DEVDEV ___ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
