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From: Mic <mic...@gm...> - 2012-10-02 05:29:01
|
Hi,
I have got the following error with the following code:
*$ python mpl.py*
*Traceback (most recent call last):*
* File
"/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtk.py",
line 398, in expose_event*
* self._render_figure(self._pixmap, w, h)*
* File
"/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtkagg.py",
line 75, in _render_figure*
* FigureCanvasAgg.draw(self)*
* File
"/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py",
line 416, in draw*
* self.renderer = self.get_renderer()*
* File
"/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py",
line 435, in get_renderer*
* self.renderer = RendererAgg(w, h, self.figure.dpi)*
* File
"/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py",
line 72, in __init__*
* self._renderer = _RendererAgg(int(width), int(height), dpi,
debug=False)*
*ValueError: width and height must each be below 32768*
*The program 'mpl.py' received an X Window System error.*
*This probably reflects a bug in the program.*
*The error was 'BadAlloc (insufficient resources for operation)'.*
* (Details: serial 486 error_code 11 request_code 53 minor_code 0)*
* (Note to programmers: normally, X errors are reported asynchronously;*
* that is, you will receive the error a while after causing it.*
* To debug your program, run it with the --sync command line*
* option to change this behavior. You can then get a meaningful*
* backtrace from your debugger if you break on the gdk_x_error()
function.)*
With the following code:
*import random
*
*import matplotlib.pyplot as plt
*
*
*
*coverages = [random.randint(1,10)*2] * 4605
*
*contig_names = ['AAB0008r'] * len(coverages)
*
*# Set the figure size
*
*#fig = plt.figure(1, [20, 2])
*
*fig = plt.figure(figsize=(int(len(coverages)*0.1), 4))
*
*
*
*ax = fig.add_subplot(111)
*
*
*
*# Set the x-axis limit
*
*#ax.set_xlim(-1,100)
*
*ax.set_xlim(0,len(coverages))
*
*#ax.set_ylim(0,3)
*
*ax.yaxis.grid(True, linestyle='-', which='major', color='grey', alpha=0.5)
*
*
*
*ind = range(len(coverages))
*
*rects = ax.bar(ind, coverages, width=0.1, align='center', color='thistle')
*
*ax.set_xticks(ind)
*
*#ax.set_xticklabels(contig_names)*
*#ax.tick_params(axis='both', which='major', labelsize=10)*
*#ax.tick_params(axis='both', which='minor', labelsize=8)*
*
*
*
*
*#function to auto-rotate the x axis labels*
*fig.autofmt_xdate()*
*plt.setp(ax.get_xticklabels(), fontsize=8, rotation='vertical')*
*plt.show()*
How is it possible to get big charts?
Thank you in advance.
|
|
From: Eric F. <ef...@ha...> - 2012-10-02 06:05:11
|
On 2012/10/01 7:28 PM, Mic wrote: > Hi, > > I have got the following error with the following code: > /$ python mpl.py/ > /Traceback (most recent call last):/ > / File > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtk.py", > line 398, in expose_event/ > / self._render_figure(self._pixmap, w, h)/ > / File > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtkagg.py", > line 75, in _render_figure/ > / FigureCanvasAgg.draw(self)/ > / File > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > line 416, in draw/ > / self.renderer = self.get_renderer()/ > / File > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > line 435, in get_renderer/ > / self.renderer = RendererAgg(w, h, self.figure.dpi)/ > / File > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > line 72, in __init__/ > / self._renderer = _RendererAgg(int(width), int(height), dpi, > debug=False)/ > /ValueError: width and height must each be below 32768/ > /The program 'mpl.py' received an X Window System error./ > /This probably reflects a bug in the program./ > /The error was 'BadAlloc (insufficient resources for operation)'./ > / (Details: serial 486 error_code 11 request_code 53 minor_code 0)/ > / (Note to programmers: normally, X errors are reported asynchronously;/ > / that is, you will receive the error a while after causing it./ > / To debug your program, run it with the --sync command line/ > / option to change this behavior. You can then get a meaningful/ > / backtrace from your debugger if you break on the gdk_x_error() > function.)/ > > With the following code: > /import random / > /import matplotlib.pyplot as plt / > // > /coverages = [random.randint(1,10)*2] * 4605 / > /contig_names = ['AAB0008r'] * len(coverages) / > /# Set the figure size / > /#fig = plt.figure(1, [20, 2]) / > /fig = plt.figure(figsize=(int(len(coverages)*0.1), 4)) / > // > /ax = fig.add_subplot(111) / > // > /# Set the x-axis limit / > /#ax.set_xlim(-1,100) / > /ax.set_xlim(0,len(coverages)) / > /#ax.set_ylim(0,3) / > /ax.yaxis.grid(True, linestyle='-', which='major', color='grey', > alpha=0.5) / > // > /ind = range(len(coverages)) / > /rects = ax.bar(ind, coverages, width=0.1, align='center', > color='thistle') / > /ax.set_xticks(ind) / > /#ax.set_xticklabels(contig_names)/ > /#ax.tick_params(axis='both', which='major', labelsize=10)/ > /#ax.tick_params(axis='both', which='minor', labelsize=8)/ > / > / > / > / > /#function to auto-rotate the x axis labels/ > /fig.autofmt_xdate()/ > /plt.setp(ax.get_xticklabels(), fontsize=8, rotation='vertical')/ > /plt.show()/ > > How is it possible to get big charts? It looks like you are trying to make a figure that is 460 inches by 4 inches. How do you expect to display or print it? I think displaying it is out of the question, so you would need to use a non-interactive backend. I don't know whether ps or pdf can handle those sorts of dimensions. Eric > > Thank you in advance. > > > > ------------------------------------------------------------------------------ > Don't let slow site performance ruin your business. Deploy New Relic APM > Deploy New Relic app performance management and know exactly > what is happening inside your Ruby, Python, PHP, Java, and .NET app > Try New Relic at no cost today and get our sweet Data Nerd shirt too! > http://p.sf.net/sfu/newrelic-dev2dev > > > > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
|
From: Mic <mic...@gm...> - 2012-10-02 14:12:52
|
Hi Eric, I have a dataset which contains about 4600 values. Is it possible to display 4600 values with a bar char and labels? Thank you in advance. On Tue, Oct 2, 2012 at 4:04 PM, Eric Firing <ef...@ha...> wrote: > On 2012/10/01 7:28 PM, Mic wrote: > > Hi, > > > > I have got the following error with the following code: > > /$ python mpl.py/ > > /Traceback (most recent call last):/ > > / File > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtk.py", > > line 398, in expose_event/ > > / self._render_figure(self._pixmap, w, h)/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtkagg.py", > > line 75, in _render_figure/ > > / FigureCanvasAgg.draw(self)/ > > / File > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 416, in draw/ > > / self.renderer = self.get_renderer()/ > > / File > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 435, in get_renderer/ > > / self.renderer = RendererAgg(w, h, self.figure.dpi)/ > > / File > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 72, in __init__/ > > / self._renderer = _RendererAgg(int(width), int(height), dpi, > > debug=False)/ > > /ValueError: width and height must each be below 32768/ > > /The program 'mpl.py' received an X Window System error./ > > /This probably reflects a bug in the program./ > > /The error was 'BadAlloc (insufficient resources for operation)'./ > > / (Details: serial 486 error_code 11 request_code 53 minor_code 0)/ > > / (Note to programmers: normally, X errors are reported asynchronously;/ > > / that is, you will receive the error a while after causing it./ > > / To debug your program, run it with the --sync command line/ > > / option to change this behavior. You can then get a meaningful/ > > / backtrace from your debugger if you break on the gdk_x_error() > > function.)/ > > > > With the following code: > > /import random / > > /import matplotlib.pyplot as plt / > > // > > /coverages = [random.randint(1,10)*2] * 4605 / > > /contig_names = ['AAB0008r'] * len(coverages) / > > /# Set the figure size / > > /#fig = plt.figure(1, [20, 2]) / > > /fig = plt.figure(figsize=(int(len(coverages)*0.1), 4)) / > > // > > /ax = fig.add_subplot(111) / > > // > > /# Set the x-axis limit / > > /#ax.set_xlim(-1,100) / > > /ax.set_xlim(0,len(coverages)) / > > /#ax.set_ylim(0,3) / > > /ax.yaxis.grid(True, linestyle='-', which='major', color='grey', > > alpha=0.5) / > > // > > /ind = range(len(coverages)) / > > /rects = ax.bar(ind, coverages, width=0.1, align='center', > > color='thistle') / > > /ax.set_xticks(ind) / > > /#ax.set_xticklabels(contig_names)/ > > /#ax.tick_params(axis='both', which='major', labelsize=10)/ > > /#ax.tick_params(axis='both', which='minor', labelsize=8)/ > > / > > / > > / > > / > > /#function to auto-rotate the x axis labels/ > > /fig.autofmt_xdate()/ > > /plt.setp(ax.get_xticklabels(), fontsize=8, rotation='vertical')/ > > /plt.show()/ > > > > How is it possible to get big charts? > > It looks like you are trying to make a figure that is 460 inches by 4 > inches. How do you expect to display or print it? I think displaying > it is out of the question, so you would need to use a non-interactive > backend. I don't know whether ps or pdf can handle those sorts of > dimensions. > > Eric > > > > > Thank you in advance. > > > > > > > > > ------------------------------------------------------------------------------ > > Don't let slow site performance ruin your business. Deploy New Relic APM > > Deploy New Relic app performance management and know exactly > > what is happening inside your Ruby, Python, PHP, Java, and .NET app > > Try New Relic at no cost today and get our sweet Data Nerd shirt too! > > http://p.sf.net/sfu/newrelic-dev2dev > > > > > > > > _______________________________________________ > > Matplotlib-users mailing list > > Mat...@li... > > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > > > > > ------------------------------------------------------------------------------ > Don't let slow site performance ruin your business. Deploy New Relic APM > Deploy New Relic app performance management and know exactly > what is happening inside your Ruby, Python, PHP, Java, and .NET app > Try New Relic at no cost today and get our sweet Data Nerd shirt too! > http://p.sf.net/sfu/newrelic-dev2dev > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > |
|
From: Eric F. <ef...@ha...> - 2012-10-02 17:07:56
|
On 2012/10/02 4:12 AM, Mic wrote: > Hi Eric, > I have a dataset which contains about 4600 values. > > Is it possible to display 4600 values with a bar char and labels? > > Thank you in advance. Mic, I don't think so, as a practical matter. A screen doesn't even have that many pixels of width. Eric > > > > On Tue, Oct 2, 2012 at 4:04 PM, Eric Firing <ef...@ha... > <mailto:ef...@ha...>> wrote: > > On 2012/10/01 7:28 PM, Mic wrote: > > Hi, > > > > I have got the following error with the following code: > > /$ python mpl.py/ <http://mpl.py/> > > /Traceback (most recent call last):/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtk.py", > > line 398, in expose_event/ > > / self._render_figure(self._pixmap, w, h)/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtkagg.py", > > line 75, in _render_figure/ > > / FigureCanvasAgg.draw(self)/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 416, in draw/ > > / self.renderer = self.get_renderer()/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 435, in get_renderer/ > > / self.renderer = RendererAgg(w, h, self.figure.dpi)/ > > / File > > > "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", > > line 72, in __init__/ > > / self._renderer = _RendererAgg(int(width), int(height), dpi, > > debug=False)/ > > /ValueError: width and height must each be below 32768/ > > /The program 'mpl.py' received an X Window System error./ > > /This probably reflects a bug in the program./ > > /The error was 'BadAlloc (insufficient resources for operation)'./ > > / (Details: serial 486 error_code 11 request_code 53 minor_code 0)/ > > / (Note to programmers: normally, X errors are reported > asynchronously;/ > > / that is, you will receive the error a while after causing it./ > > / To debug your program, run it with the --sync command line/ > > / option to change this behavior. You can then get a meaningful/ > > / backtrace from your debugger if you break on the gdk_x_error() > > function.)/ > > > > With the following code: > > /import random / > > /import matplotlib.pyplot as plt / > > // > > /coverages = [random.randint(1,10)*2] * 4605 / > > /contig_names = ['AAB0008r'] * len(coverages) / > > /# Set the figure size / > > /#fig = plt.figure(1, [20, 2]) / > > /fig = plt.figure(figsize=(int(len(coverages)*0.1), 4)) / > > // > > /ax = fig.add_subplot(111) / > > // > > /# Set the x-axis limit / > > /#ax.set_xlim(-1,100) / > > /ax.set_xlim(0,len(coverages)) / > > /#ax.set_ylim(0,3) / > > /ax.yaxis.grid(True, linestyle='-', which='major', color='grey', > > alpha=0.5) / > > // > > /ind = range(len(coverages)) / > > /rects = ax.bar(ind, coverages, width=0.1, align='center', > > color='thistle') / > > /ax.set_xticks(ind) / > > /#ax.set_xticklabels(contig_names)/ > > /#ax.tick_params(axis='both', which='major', labelsize=10)/ > > /#ax.tick_params(axis='both', which='minor', labelsize=8)/ > > / > > / > > / > > / > > /#function to auto-rotate the x axis labels/ > > /fig.autofmt_xdate()/ > > /plt.setp(ax.get_xticklabels(), fontsize=8, rotation='vertical')/ > > /plt.show()/ > > > > How is it possible to get big charts? > > It looks like you are trying to make a figure that is 460 inches by 4 > inches. How do you expect to display or print it? I think displaying > it is out of the question, so you would need to use a non-interactive > backend. I don't know whether ps or pdf can handle those sorts of > dimensions. > > Eric > > > > > Thank you in advance. > > > > > > > > > ------------------------------------------------------------------------------ > > Don't let slow site performance ruin your business. Deploy New > Relic APM > > Deploy New Relic app performance management and know exactly > > what is happening inside your Ruby, Python, PHP, Java, and .NET app > > Try New Relic at no cost today and get our sweet Data Nerd shirt too! > > http://p.sf.net/sfu/newrelic-dev2dev > > > > > > > > _______________________________________________ > > Matplotlib-users mailing list > > Mat...@li... > <mailto:Mat...@li...> > > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > > > > ------------------------------------------------------------------------------ > Don't let slow site performance ruin your business. Deploy New Relic APM > Deploy New Relic app performance management and know exactly > what is happening inside your Ruby, Python, PHP, Java, and .NET app > Try New Relic at no cost today and get our sweet Data Nerd shirt too! > http://p.sf.net/sfu/newrelic-dev2dev > _______________________________________________ > Matplotlib-users mailing list > Mat...@li... > <mailto:Mat...@li...> > https://lists.sourceforge.net/lists/listinfo/matplotlib-users > > |
|
From: Damon M. <dam...@gm...> - 2012-10-02 18:14:35
|
On Tue, Oct 2, 2012 at 6:07 PM, Eric Firing <ef...@ha...> wrote: > On 2012/10/02 4:12 AM, Mic wrote: >> Hi Eric, >> I have a dataset which contains about 4600 values. >> >> Is it possible to display 4600 values with a bar char and labels? >> >> Thank you in advance. > > Mic, > > I don't think so, as a practical matter. A screen doesn't even have > that many pixels of width. > > Eric > >> >> >> >> On Tue, Oct 2, 2012 at 4:04 PM, Eric Firing <ef...@ha... >> <mailto:ef...@ha...>> wrote: >> >> On 2012/10/01 7:28 PM, Mic wrote: >> > Hi, >> > >> > I have got the following error with the following code: >> > /$ python mpl.py/ <http://mpl.py/> >> > /Traceback (most recent call last):/ >> > / File >> > >> "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtk.py", >> > line 398, in expose_event/ >> > / self._render_figure(self._pixmap, w, h)/ >> > / File >> > >> "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_gtkagg.py", >> > line 75, in _render_figure/ >> > / FigureCanvasAgg.draw(self)/ >> > / File >> > >> "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", >> > line 416, in draw/ >> > / self.renderer = self.get_renderer()/ >> > / File >> > >> "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", >> > line 435, in get_renderer/ >> > / self.renderer = RendererAgg(w, h, self.figure.dpi)/ >> > / File >> > >> "/usr/lib64/python2.7/site-packages/matplotlib/backends/backend_agg.py", >> > line 72, in __init__/ >> > / self._renderer = _RendererAgg(int(width), int(height), dpi, >> > debug=False)/ >> > /ValueError: width and height must each be below 32768/ >> > /The program 'mpl.py' received an X Window System error./ >> > /This probably reflects a bug in the program./ >> > /The error was 'BadAlloc (insufficient resources for operation)'./ >> > / (Details: serial 486 error_code 11 request_code 53 minor_code 0)/ >> > / (Note to programmers: normally, X errors are reported >> asynchronously;/ >> > / that is, you will receive the error a while after causing it./ >> > / To debug your program, run it with the --sync command line/ >> > / option to change this behavior. You can then get a meaningful/ >> > / backtrace from your debugger if you break on the gdk_x_error() >> > function.)/ >> > >> > With the following code: >> > /import random / >> > /import matplotlib.pyplot as plt / >> > // >> > /coverages = [random.randint(1,10)*2] * 4605 / >> > /contig_names = ['AAB0008r'] * len(coverages) / >> > /# Set the figure size / >> > /#fig = plt.figure(1, [20, 2]) / >> > /fig = plt.figure(figsize=(int(len(coverages)*0.1), 4)) / >> > // >> > /ax = fig.add_subplot(111) / >> > // >> > /# Set the x-axis limit / >> > /#ax.set_xlim(-1,100) / >> > /ax.set_xlim(0,len(coverages)) / >> > /#ax.set_ylim(0,3) / >> > /ax.yaxis.grid(True, linestyle='-', which='major', color='grey', >> > alpha=0.5) / >> > // >> > /ind = range(len(coverages)) / >> > /rects = ax.bar(ind, coverages, width=0.1, align='center', >> > color='thistle') / >> > /ax.set_xticks(ind) / >> > /#ax.set_xticklabels(contig_names)/ >> > /#ax.tick_params(axis='both', which='major', labelsize=10)/ >> > /#ax.tick_params(axis='both', which='minor', labelsize=8)/ >> > / >> > / >> > / >> > / >> > /#function to auto-rotate the x axis labels/ >> > /fig.autofmt_xdate()/ >> > /plt.setp(ax.get_xticklabels(), fontsize=8, rotation='vertical')/ >> > /plt.show()/ >> > >> > How is it possible to get big charts? >> >> It looks like you are trying to make a figure that is 460 inches by 4 >> inches. How do you expect to display or print it? I think displaying >> it is out of the question, so you would need to use a non-interactive >> backend. I don't know whether ps or pdf can handle those sorts of >> dimensions. >> >> Eric >> >> > >> > Thank you in advance. If you have that much data, a bar chart is probably not the way to go. Maybe try taking the height of what would be each bar and using that as a y-coordinate array then call plt.plot(y)? You'll get a line plot, and the x axis may not make a huge amount of sense, but at least you'll see all your data. Or, perhaps even a histogram? It's hard to advise without knowing your application, but that should help at least a little. Good luck! Best wishes, Damon -- Damon McDougall http://www.damon-is-a-geek.com B2.39 Mathematics Institute University of Warwick Coventry West Midlands CV4 7AL United Kingdom |
